6LQS | pdb_00006lqs

Cryo-EM structure of 90S small subunit preribosomes in transition states (State D)

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
D [auth SC]SCOP2B SuperfamilyRibosomal S3Ae-like 8053211 3002166 SCOP2B (2022-06-29)
E [auth SF]SCOP2B SuperfamilyNucleic acid-binding proteins 8052759 3000135 SCOP2B (2022-06-29)
E [auth SF]SCOP2B SuperfamilyAlpha-L RNA-binding motif 8052758 3001473 SCOP2B (2022-06-29)
E [auth SF]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8052760 3000334 SCOP2B (2022-06-29)
F [auth SG]SCOP2B SuperfamilyRibosomal protein S7 8065993 3000799 SCOP2B (2022-06-29)
K [auth SM]SCOP2B SuperfamilyNucleic acid-binding proteins 8052738 3000135 SCOP2B (2022-06-29)
K [auth SM]SCOP2B SuperfamilyRibosomal S17 N-terminal domain-like 8052736 3002138 SCOP2B (2022-06-29)
L [auth SO]SCOP2B SuperfamilyHomeodomain-like 8052973 3000001 SCOP2B (2022-06-29)
L [auth SO]SCOP2B SuperfamilyS15/NS1 RNA-binding domain 8052974 3001284 SCOP2B (2022-06-29)
M [auth SP]SCOP2B SuperfamilyTranslational machinery components 8095805 3000571 SCOP2B (2022-06-29)
N [auth SR]SCOP2B SuperfamilyRibosomal protein S5 domain 2-like 8103366 3000100 SCOP2B (2022-06-29)
S [auth Sd]SCOP2B SuperfamilyNucleic acid-binding proteins 8063430 3000135 SCOP2B (2022-06-29)
U [auth 3C]SCOP2B SuperfamilyS-adenosyl-L-methionine-dependent methyltransferases 8063662 3000118 SCOP2B (2022-06-29)
T [auth 3B]SCOP2B SuperfamilyS-adenosyl-L-methionine-dependent methyltransferases 8063662 3000118 SCOP2B (2022-06-29)
Z [auth 3H]SCOP2B SuperfamilyL30e-like 8033484 3001739 SCOP2B (2022-06-29)
Y [auth 3G]SCOP2B SuperfamilyL30e-like 8033484 3001739 SCOP2B (2022-06-29)
JA [auth B3]SCOP2B SuperfamilyUTPB complex component-like 8061270 3002330 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyPAP/OAS1 substrate-binding domain-like 8053727 3000941 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyPAP/Archaeal CCA-adding enzyme C-terminal domain-like 8053730 3001147 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyPAP/Archaeal CCA-adding enzyme C-terminal domain-like 8053729 3001147 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyNucleotidyltransferase-like 8053726 3000129 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyPAP/OAS1 substrate-binding domain-like 8053728 3000941 SCOP2B (2022-06-29)
YA [auth RE]SCOP2B SuperfamilyNucleotidyltransferase-like 8053725 3000129 SCOP2B (2022-06-29)
ZA [auth RF]SCOP2B SuperfamilyRRP7 C-terminal domain-like 8053722 3002219 SCOP2B (2022-06-29)
ZA [auth RF]SCOP2B SuperfamilyRNA-binding domain, RBD 8053724 3000110 SCOP2B (2022-06-29)
BB [auth RH]SCOP2B Superfamilyalpha/beta knot 8037153 3001122 SCOP2B (2022-06-29)
AB [auth RG]SCOP2B Superfamilyalpha/beta knot 8037153 3001122 SCOP2B (2022-06-29)
TB [auth R0]SCOP2B SuperfamilyEukaryotic type KH-domain (KH-domain type I) 8034657 3001023 SCOP2B (2022-06-29)
TB [auth R0]SCOP2B SuperfamilyNucleic acid-binding proteins 8034656 3000135 SCOP2B (2022-06-29)
WB [auth R4]SCOP2B SuperfamilyNucleic acid-binding proteins 8037616 3000135 SCOP2B (2022-06-29)
WB [auth R4]SCOP2B SuperfamilyNucleic acid-binding proteins 8037618 3000135 SCOP2B (2022-06-29)
WB [auth R4]SCOP2B SuperfamilyNucleic acid-binding proteins 8037614 3000135 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
D [auth SC]Rrp44_S1e6lqsSC1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
E [auth SF]Rrp44_S1e6lqsSF1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
F [auth SG]Rrp44_S1e6lqsSG1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
G [auth SH]Rrp44_S1e6lqsSH1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
H [auth SI]Rrp44_S1e6lqsSI1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
I [auth SJ]Rrp44_S1e6lqsSJ1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
J [auth SK]Rrp44_S1e6lqsSK1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
K [auth SM]Rrp44_S1e6lqsSM1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
L [auth SO]Rrp44_S1e6lqsSO1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
M [auth SP]Rrp44_S1e6lqsSP1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
N [auth SR]Rrp44_S1e6lqsSR1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
O [auth SX]Rrp44_S1e6lqsSX1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
P [auth SY]Rrp44_S1e6lqsSY1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
Q [auth SZ]Rrp44_S1e6lqsSZ1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
R [auth Sc]Rrp44_S1e6lqsSc1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
S [auth Sd]Rrp44_S1e6lqsSd1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
U [auth 3C]Rrp44_S1e6lqs3C1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
T [auth 3B]Rrp44_S1e6lqs3B1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
V [auth 3D]Rrp44_S1e6lqs3D1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
X [auth 3F]Rrp44_S1e6lqs3F1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
Z [auth 3H]Rrp44_S1e6lqs3H1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
Y [auth 3G]Rrp44_S1e6lqs3G1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
AA [auth A4]Rrp44_S1e6lqsA41 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
DA [auth A9]FAD_binding_3, Pyr_redox_3e6lqsA91 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: RIFT-relatedT: FMN-binding split barrel 2F: FAD_binding_3, Pyr_redox_3ECOD (develop294)
FA [auth AF]FAD_binding_3, Pyr_redox_3e6lqsAF1 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: RIFT-relatedT: FMN-binding split barrel 2F: FAD_binding_3, Pyr_redox_3ECOD (develop294)
HA [auth B1]Rrp44_S1e6lqsB11 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
IA [auth B2]Rrp44_S1e6lqsB21 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
JA [auth B3]Rrp44_S1e6lqsB31 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
LA [auth BE]Rrp44_S1e6lqsBE1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
OA [auth 5C]AAAe6lqs5C1 A: alpha bundlesX: RNase A-likeH: Cytochrome P450T: Cytochrome P450F: AAAECOD (develop294)
RA [auth 5F]FAD_binding_3, Pyr_redox_3e6lqs5F1 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: RIFT-relatedT: FMN-binding split barrel 2F: FAD_binding_3, Pyr_redox_3ECOD (develop294)
SA [auth 5G]Rrp44_S1e6lqs5G1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
XA [auth RD]FAD_binding_3, Pyr_redox_3e6lqsRD1 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: RIFT-relatedT: FMN-binding split barrel 2F: FAD_binding_3, Pyr_redox_3ECOD (develop294)
YA [auth RE]Rrp44_S1e6lqsRE1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
ZA [auth RF]RNA_pol_Rpc34e6lqsRF1 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: BromodomainT: BromodomainF: RNA_pol_Rpc34ECOD (develop294)
BB [auth RH]Rrp44_S1e6lqsRH1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
AB [auth RG]Rrp44_S1e6lqsRG1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
DB [auth RK]Rrp44_S1e6lqsRK1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
IB [auth RS]Rrp44_S1e6lqsRS1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
JB [auth RT]Rrp44_S1e6lqsRT1 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
NB [auth R5]Rrp44_S1e6lqsR51 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
OB [auth R1]Rrp44_S1e6lqsR11 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
PB [auth R3]Rrp44_S1e6lqsR31 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
QB [auth R6]Rrp44_S1e6lqsR61 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
RB [auth R2]Rrp44_S1e6lqsR21 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
SB [auth M3]Rrp44_S1e6lqsM31 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
TB [auth R0]Rrp44_S1e6lqsR01 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
UB [auth r4]Rrp44_S1e6lqsr41 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
VB [auth C4]Rrp44_S1e6lqsC41 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
WB [auth R4]Rrp44_S1e6lqsR41 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Rrp44_S1ECOD (develop294)
YB [auth R7]e6lqsR71 A: alpha bundlesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF:ECOD (develop294)
ZB [auth M4]FAD_binding_3, Pyr_redox_3e6lqsM41 A: alpha bundlesX: CNF1/YfiH-like putative cysteine hydrolasesH: RIFT-relatedT: FMN-binding split barrel 2F: FAD_binding_3, Pyr_redox_3ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth SC]PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
D [auth SC]PF01015Ribosomal S3Ae family (Ribosomal_S3Ae)Ribosomal S3Ae family- Family
E [auth SF]PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
E [auth SF]PF1612140S ribosomal protein S4 C-terminus (40S_S4_C)40S ribosomal protein S4 C-terminus- Family
E [auth SF]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
E [auth SF]PF00467KOW motif (KOW)KOW motif- Family
F [auth SG]PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. Domain
G [auth SH]PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
J [auth SK]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
K [auth SM]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17Domain
K [auth SM]PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
L [auth SO]PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15Domain
M [auth SP]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
N [auth SR]PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
O [auth SX]PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8Domain
Q [auth SZ]PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
T [auth 3B],
U [auth 3C]		PF01269Fibrillarin (Fibrillarin)FibrillarinDomain
V [auth 3D]PF08156NOP5NT (NUC127) domain (NOP5NT)NOP5NT (NUC127) domainThis N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. Domain
V [auth 3D]PF01798snoRNA binding domain, fibrillarin (Nop)snoRNA binding domain, fibrillarin- Family
W [auth 3E]PF08156NOP5NT (NUC127) domain (NOP5NT)NOP5NT (NUC127) domainThis N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. Domain
W [auth 3E]PF01798snoRNA binding domain, fibrillarin (Nop)snoRNA binding domain, fibrillarin- Family
X [auth 3F]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
Y [auth 3G],
Z [auth 3H]		PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
AA [auth A4]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
BA [auth A5]PF04003Dip2/Utp12 Family (Utp12)Dip2/Utp12 Family- Family
CA [auth A8]PF22542Utp8, C-terminal (Utp8_C)Utp8, C-terminalThis domain is found at the C-terminal end of U3 small nucleolar RNA-associated protein 8 from Saccharomyces cerevisiae (Utp8) and similar proteins from fungi. Utp8 is an essential component of the nuclear tRNA export machinery in S.cerevisiae. It is ...This domain is found at the C-terminal end of U3 small nucleolar RNA-associated protein 8 from Saccharomyces cerevisiae (Utp8) and similar proteins from fungi. Utp8 is an essential component of the nuclear tRNA export machinery in S.cerevisiae. It is a tRNA binding protein that act at a step between tRNA maturation /aminoacylation, and translocation of the tRNA across the nuclear pore complex [1]. This domain shows an all-alpha structure.
Domain
EA [auth AE]PF08146BP28CT (NUC211) domain (BP28CT)BP28CT (NUC211) domainThis C terminal domain is found in BAP28-like nucleolar proteins [1]. Domain
EA [auth AE]PF23243HEATR1-like, HEAT repeats (HEAT_HEATR1)HEATR1-like, HEAT repeats- Repeat
EA [auth AE]PF12397U3 small nucleolar RNA-associated protein 10 (U3snoRNP10)U3 small nucleolar RNA-associated protein 10- Family
FA [auth AF]PF09384UTP15 C terminal (UTP15_C)UTP15 C terminal- Family
FA [auth AF]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
GA [auth AG]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
HA [auth B1]PF04003Dip2/Utp12 Family (Utp12)Dip2/Utp12 Family- Family
HA [auth B1]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
IA [auth B2]PF04003Dip2/Utp12 Family (Utp12)Dip2/Utp12 Family- Family
IA [auth B2]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
JA [auth B3]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
JA [auth B3]PF08625Utp13 specific WD40 associated domain (Utp13)Utp13 specific WD40 associated domainUtp13 is a component of the five protein Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome [1]. Pwp2 is capable o ...Utp13 is a component of the five protein Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome [1]. Pwp2 is capable of interacting directly with the 35 S pre-rRNA 5' end [1].
Domain
KA [auth B8]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
LA [auth BE]PF04192Utp21 specific WD40 associated putative domain (Utp21)Utp21 specific WD40 associated putative domainUtp21 is a subunit of U3 snoRNP, which is essential for synthesis of 18S rRNA. Domain
LA [auth BE]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
MA [auth B6]PF08640U3 small nucleolar RNA-associated protein 6 (U3_assoc_6)U3 small nucleolar RNA-associated protein 6- Repeat
MA [auth B6]PF23240PRP39 N-terminal HAT repeat (HAT_PRP39_N)PRP39 N-terminal HAT repeat- Repeat
OA [auth 5C]PF08149BING4CT (NUC141) domain (BING4CT)BING4CT (NUC141) domain- Repeat
OA [auth 5C]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PA [auth 5D]PF03998Utp11 protein (Utp11)Utp11 protein- Family
RA [auth 5F]PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
RA [auth 5F]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
SA [auth 5G]PF04427Brix domain (Brix)Brix domainDomain
UA [auth 5I]PF04158Sof1-like domain (Sof1)Sof1-like domain- Family
UA [auth 5I]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
WA [auth 5K]PF04900Fcf1 (Fcf1)Fcf1Fcf1 is a nucleolar protein involved in pre-rRNA processing [1]. Depletion of yeast Fcf1 and Fcf2 leads to a decrease in synthesis of the 18S rRNA and results in a deficit in 40S ribosomal subunits [1]. Domain
XA [auth RD]PF23240PRP39 N-terminal HAT repeat (HAT_PRP39_N)PRP39 N-terminal HAT repeat- Repeat
XA [auth RD]PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure. Domain
YA [auth RE]PF03813Nrap protein domain 1 (Nrap)Nrap protein domain 1Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1]. This domain has a nucleotidyltransferase structure.
Domain
YA [auth RE]PF17403Nrap protein PAP/OAS-like domain (Nrap_D2)Nrap protein PAP/OAS-like domainMembers of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1].
Domain
YA [auth RE]PF17406Nrap protein PAP/OAS1-like domain 5 (Nrap_D5)Nrap protein PAP/OAS1-like domain 5Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1].
Domain
YA [auth RE]PF17407Nrap protein domain 6 (Nrap_D6)Nrap protein domain 6Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1].
Domain
YA [auth RE]PF17404Nrap protein domain 3 (Nrap_D3)Nrap protein domain 3Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1].
Domain
YA [auth RE]PF17405Nrap protein nucleotidyltransferase domain 4 (Nrap_D4)Nrap protein nucleotidyltransferase domain 4Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ...Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [1].
Domain
ZA [auth RF]PF17799Rrp7 RRM-like N-terminal domain (RRM_Rrp7)Rrp7 RRM-like N-terminal domainThis domain corresponds to the N-terminal RNA-binding domain found in the Rrp7 protein. It has an RRM-like fold with a circular permutation [1]. Domain
ZA [auth RF]PF12923Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain (RRP7)Ribosomal RNA-processing protein 7 (RRP7) C-terminal domainRRP7 is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly [1]. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle [1-2]. Domain
AB [auth RG],
BB [auth RH]		PF03587EMG1/NEP1 methyltransferase (EMG1)EMG1/NEP1 methyltransferase- Family
CB [auth RJ]PF08142AARP2CN (NUC121) domain (AARP2CN)AARP2CN (NUC121) domainThis domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU [1]. Domain
CB [auth RJ]PF00004ATPase family associated with various cellular activities (AAA) (AAA)ATPase family associated with various cellular activities (AAA)AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2]. Domain
DB [auth RK]PF05189RNA 3'-terminal phosphate cyclase (RTC), insert domain (RTC_insert)RNA 3'-terminal phosphate cyclase (RTC), insert domainRNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ...RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate [1]. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids [1].
Domain
DB [auth RK]PF01137RNA 3'-terminal phosphate cyclase (RTC)RNA 3'-terminal phosphate cyclaseRNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ...RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate [1]. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids [1].
Domain
FB [auth RO]PF03914CBF/Mak21 family (CBF)CBF/Mak21 family- Repeat
GB [auth RP]PF23099Small subunit processome component 20 homolog, C-terminal (UTP20_C)Small subunit processome component 20 homolog, C-terminal- Repeat
GB [auth RP]PF07539U3 small nucleolar RNA-associated protein 20, N-terminal (UTP20_N)U3 small nucleolar RNA-associated protein 20, N-terminal- Repeat
KB [auth RW]PF17075Regular of rDNA transcription protein 14 (RRT14)Regular of rDNA transcription protein 14- Family
NB [auth R5]PF037253' exoribonuclease family, domain 2 (RNase_PH_C)3' exoribonuclease family, domain 2This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
NB [auth R5]PF011383' exoribonuclease family, domain 1 (RNase_PH)3' exoribonuclease family, domain 1This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
OB [auth R1]PF037253' exoribonuclease family, domain 2 (RNase_PH_C)3' exoribonuclease family, domain 2This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
OB [auth R1]PF011383' exoribonuclease family, domain 1 (RNase_PH)3' exoribonuclease family, domain 1This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
PB [auth R3]PF011383' exoribonuclease family, domain 1 (RNase_PH)3' exoribonuclease family, domain 1This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
QB [auth R6]PF037253' exoribonuclease family, domain 2 (RNase_PH_C)3' exoribonuclease family, domain 2This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
QB [auth R6]PF011383' exoribonuclease family, domain 1 (RNase_PH)3' exoribonuclease family, domain 1This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
SB [auth M3]PF011383' exoribonuclease family, domain 1 (RNase_PH)3' exoribonuclease family, domain 1This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of ...This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Domain
TB [auth R0]PF21262Exosome complex component RRP40, S1 domain (RRP40_S1)Exosome complex component RRP40, S1 domainRRP40 is a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. It consists of a N-terminal beta-sandwich hybrid domain (Pfam:P ...RRP40 is a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. It consists of a N-terminal beta-sandwich hybrid domain (Pfam:PF21261), a central S1 domain and a C-terminal KH domain (Pfam:PF15985). This entry represents the S1 RNA binding domain, which has an OB fold [1-3].
Domain
TB [auth R0]PF18311Exosome complex exonuclease Rrp40 N-terminal domain (Rrp40_N)Exosome complex exonuclease Rrp40 N-terminal domainThis is the N-terminal domain of Rrp40 of the exosome complex present in Saccharomyces cerevisiae. The RNA exosome complex is responsible for degrading RNA molecules in the 3' to 5' direction. Rrp40 is a 'cap' protein and binds the RNase PH barrel on ...This is the N-terminal domain of Rrp40 of the exosome complex present in Saccharomyces cerevisiae. The RNA exosome complex is responsible for degrading RNA molecules in the 3' to 5' direction. Rrp40 is a 'cap' protein and binds the RNase PH barrel on the opposite side from the S1/KH ring. The N-terminal domain of Rrp44 forms a long beta-hairpin that is wedged in between Rrp41-Rrp42 and approaches the N terminus of the cap protein Rrp4 [1]. This domain adopts a beta- sandwich hybrid structure.
Domain
TB [auth R0]PF15985KH domain (KH_6)KH domainKH motifs bind RNA in vitro. Auto-antibodies to Nova, a KH domain protein, cause para-neoplastic opsoclonus ataxia. Domain
VB [auth C4]PF21551Exosome complex component CSL4, N-terminal domain (CSL4_N)Exosome complex component CSL4, N-terminal domainThis domain is found at the N-terminal end of Exosome complex component CSL4 from Saccharomyces cerevisiae, a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA ...This domain is found at the N-terminal end of Exosome complex component CSL4 from Saccharomyces cerevisiae, a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events [1-4].
Domain
VB [auth C4]PF10447Exosome component EXOSC1/CSL4 (EXOSC1)Exosome component EXOSC1/CSL4This family of proteins are components of the exosome 3'->5' exoribonuclease complex. The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions [1]. Domain
WB [auth R4]PF21266RRP4, S1 domain (S1_RRP4)RRP4, S1 domainExosome complex component RRP4 is a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. It consists of a N-terminal beta-sandw ...Exosome complex component RRP4 is a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. It consists of a N-terminal beta-sandwich hybrid domain (Pfam:PF14382), a central S1 domain and a C-terminal KH domain (Pfam:PF15985). This entry represents the S1 RNA binding domain, which has an OB fold [1,2].
Domain
WB [auth R4]PF13638PIN domain (PIN_4)PIN domainMembers of this family of bacterial domains are predicted to be RNases (from similarities to 5'-exonucleases). Domain
WB [auth R4]PF17849Dis3-like cold-shock domain 2 (CSD2) (OB_Dis3)Dis3-like cold-shock domain 2 (CSD2)This domain has an OB fold and is found in the Dis3l2 protein [1]. This domain along with CSD1 binds to RNA. Domain
WB [auth R4]PF14382Exosome complex exonuclease RRP4 N-terminal region (ECR1_N)Exosome complex exonuclease RRP4 N-terminal regionECR1_N is an N-terminal region of the exosome complex exonuclease RRP proteins. It is a G-rich domain which structurally is a rudimentary single hybrid fold with a permuted topology. Domain
WB [auth R4]PF17215S1 domain (Rrp44_S1)S1 domainThis domain corresponds to the S1 domain found at the C-terminus of ribonucleases such as yeast Rrp44 [1]. Domain
WB [auth R4]PF17216Rrp44-like cold shock domain (Rrp44_CSD1)Rrp44-like cold shock domainDomain
WB [auth R4]PF00773RNB domain (RNB)RNB domainThis domain is the catalytic domain of ribonuclease II [1]. Domain
WB [auth R4]PF15985KH domain (KH_6)KH domainKH motifs bind RNA in vitro. Auto-antibodies to Nova, a KH domain protein, cause para-neoplastic opsoclonus ataxia. Domain
ZB [auth M4]PF08148DSHCT (NUC185) domain (DSHCT)DSHCT (NUC185) domainThis C terminal domain is found in DOB1/SK12/helY-like DEAD box helicases [1]. Domain
ZB [auth M4]PF00270DEAD/DEAH box helicase (DEAD)DEAD/DEAH box helicaseMembers of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Domain
ZB [auth M4]PF00271Helicase conserved C-terminal domain (Helicase_C)Helicase conserved C-terminal domainThe Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Domain
ZB [auth M4]PF21408Exosome RNA helicase MTR4-like, stalk (MTR4-like_stalk)Exosome RNA helicase MTR4-like, stalkExosome RNA helicase MTR4 is a conserved RNA helicase that functions together with the nuclear exosome and it is involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involv ...Exosome RNA helicase MTR4 is a conserved RNA helicase that functions together with the nuclear exosome and it is involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involving the so-called TRAMP complex [1,2]. It contains an arch domain, required for proper 5.8S rRNA processing, and appears to function independently of canonical helicase activity [3]. The arch domain comprises an helical stalk/elbow that flanks a KOW module which adopts a beta-barrel fold. This entry represents the helical stalk found at the N-terminal of KOW beta-barrel from MTR4 [1-3]. This entry also includes Ski2-like helicases which have an overall similar structure to MTR4 proteins. However, Ski2 from yeast does not have the KOW motif and the beta-barrel is tightly packed against the helical stalk [3].
Domain
ZB [auth M4]PF13234Mtr4-like, beta-barrel domain (MTR4_beta-barrel)Mtr4-like, beta-barrel domainExosome RNA helicase Mtr4 is a essential RNA helicase, and is an exosome-activating cofactor. It functions together with the nuclear exosome being involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclea ...Exosome RNA helicase Mtr4 is a essential RNA helicase, and is an exosome-activating cofactor. It functions together with the nuclear exosome being involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involving the so-called TRAMP complex [1,2,3]. It contains an arch domain, required for proper 5.8S rRNA processing, and appears to function independently of canonical helicase activity [3]. The arch domain comprises an helical stalk/elbow that flanks a KOW module which adopts a beta-barrel fold. This entry represents the beta-barrel of MTR4 and related Ski2-like helicases. Ski2 from yeast has an overall similar structure to MTR4 proteins. However, it does not have the KOW motif [4] and it is not included in this entry.
Domain
AC [auth M6]PF10175M-phase phosphoprotein 6 (MPP6)M-phase phosphoprotein 6- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 3A]U3 snoRNA---
B [auth 5A]5' ETS---
C [auth SA]18S pre-rRNA---
D [auth SC]40S ribosomal protein S1-A
E [auth SF]40S ribosomal protein S4-A
F [auth SG]40S ribosomal protein S5
G [auth SH]40S ribosomal protein S6-A
H [auth SI]40S ribosomal protein S7-A
I [auth SJ]40S ribosomal protein S8-A
J [auth SK]40S ribosomal protein S9-A
K [auth SM]40S ribosomal protein S11-A
L [auth SO]40S ribosomal protein S13
M [auth SP]40S ribosomal protein S14-A
N [auth SR]40S ribosomal protein S16-A
O [auth SX]40S ribosomal protein S22-B
P [auth SY]40S ribosomal protein S23-A
Q [auth SZ]40S ribosomal protein S24-A
R [auth Sc]40S ribosomal protein S27-A
S [auth Sd]40S ribosomal protein S28-A
T [auth 3B],
U [auth 3C]		rRNA 2'-O-methyltransferase fibrillarin
V [auth 3D]Nucleolar protein 56
W [auth 3E]Nucleolar protein 58
X [auth 3F]Ribosomal RNA-processing protein 9
Y [auth 3G],
Z [auth 3H]		13 kDa ribonucleoprotein-associated protein
AA [auth A4]U3 small nucleolar RNA-associated protein 4-
BA [auth A5]U3 small nucleolar RNA-associated protein 5-
CA [auth A8]U3 small nucleolar RNA-associated protein 8
DA [auth A9]U3 small nucleolar RNA-associated protein 9
EA [auth AE]U3 small nucleolar RNA-associated protein 10
FA [auth AF]U3 small nucleolar RNA-associated protein 15
GA [auth AG]NET1-associated nuclear protein 1
HA [auth B1]Periodic tryptophan protein 2
IA [auth B2]U3 small nucleolar RNA-associated protein 12
JA [auth B3]U3 small nucleolar RNA-associated protein 13
KA [auth B8]U3 small nucleolar RNA-associated protein 18-
LA [auth BE]U3 small nucleolar RNA-associated protein 21-
MA [auth B6]U3 small nucleolar RNA-associated protein 6
NA [auth 5B]Bud site selection protein 21
OA [auth 5C]U3 small nucleolar RNA-associated protein 7-
PA [auth 5D]U3 small nucleolar RNA-associated protein 11-
QA [auth 5E]U3 small nucleolar RNA-associated protein MPP10
RA [auth 5F]U3 small nucleolar ribonucleoprotein protein IMP3
SA [auth 5G]U3 small nucleolar ribonucleoprotein protein IMP4
TA [auth 5H]Something about silencing protein 10
UA [auth 5I]Protein SOF1
VA [auth 5J]rRNA-processing protein FCF2-
WA [auth 5K]rRNA-processing protein FCF1
XA [auth RD]rRNA biogenesis protein RRP5
YA [auth RE]U3 small nucleolar RNA-associated protein 22
ZA [auth RF]Ribosomal RNA-processing protein 7
AB [auth RG],
BB [auth RH]		Ribosomal RNA small subunit methyltransferase NEP1
CB [auth RJ]Ribosome biogenesis protein BMS1
DB [auth RK]RNA 3'-terminal phosphate cyclase-like protein
EB [auth RN]Nucleolar complex protein 14
FB [auth RO]Nucleolar complex protein 4-
GB [auth RP]U3 small nucleolar RNA-associated protein 20
HB [auth RQ]U3 small nucleolar RNA-associated protein 14
IB [auth RS]Essential nuclear protein 1
JB [auth RT]Pno1---
KB [auth RW]Regulator of rDNA transcription protein 14- -
LB [auth X1]Unassigned helices 1---
MB [auth X2]Unassigned helices 2---
NB [auth R5]Exosome complex component RRP45
OB [auth R1]Exosome complex component SKI6
PB [auth R3]Exosome complex component RRP43
QB [auth R6]Exosome complex component RRP46
RB [auth R2]Exosome complex component RRP42
SB [auth M3]Exosome complex component MTR3
TB [auth R0]Exosome complex component RRP40
UB [auth r4]Exosome complex component RRP4
VB [auth C4]Exosome complex component CSL4
WB [auth R4]Exosome complex exonuclease DIS3
XB [auth r6]Exosome complex exonuclease RRP6
YB [auth R7]Exosome complex protein LRP1
ZB [auth M4]ATP-dependent RNA helicase DOB1
AC [auth M6]M-phase phosphoprotein 6 homolog

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
D [auth SC]IPR001593Small ribosomal subunit protein eS1Family
D [auth SC]IPR018281Small ribosomal subunit protein eS1, conserved siteConserved Site
D [auth SC]IPR027500Small ribosomal subunit protein eS1, eukaryotaFamily
E [auth SF]IPR018199Small ribosomal subunit protein eS4, N-terminal, conserved siteConserved Site
E [auth SF]IPR013843Small ribosomal subunit protein eS4, N-terminalDomain
E [auth SF]IPR032277Small ribosomal subunit protein eS4, C-terminal domainDomain
E [auth SF]IPR002942RNA-binding S4 domainDomain
E [auth SF]IPR013845Small ribosomal subunit protein eS4, central regionDomain
E [auth SF]IPR000876Small ribosomal subunit protein eS4Family
E [auth SF]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
E [auth SF]IPR038237Small ribosomal subunit protein eS4, central domain superfamilyHomologous Superfamily
E [auth SF]IPR041982Small ribosomal subunit protein eS4, KOW domainDomain
E [auth SF]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
E [auth SF]IPR005824KOWDomain
F [auth SG]IPR020606Small ribosomal subunit protein uS7, conserved siteConserved Site
F [auth SG]IPR036823Small ribosomal subunit protein uS7 domain superfamilyHomologous Superfamily
F [auth SG]IPR000235Small ribosomal subunit protein uS7Family
F [auth SG]IPR023798Small ribosomal subunit protein uS7 domainDomain
F [auth SG]IPR005716Ribosomal protein uS7, eukaryotic/archaealFamily
G [auth SH]IPR014401Small ribosomal subunit protein eS6-likeFamily
G [auth SH]IPR001377Small ribosomal subunit protein eS6Family
G [auth SH]IPR018282Small ribosomal subunit protein eS6, conserved siteConserved Site
H [auth SI]IPR000554Small ribosomal subunit protein eS7Family
H [auth SI]IPR047861Small ribosomal subunit protein eS7, conserved siteConserved Site
I [auth SJ]IPR001047Small ribosomal subunit protein eS8Family
I [auth SJ]IPR042563Small ribosomal subunit protein eS8 subdomain, eukaryotaHomologous Superfamily
I [auth SJ]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
I [auth SJ]IPR018283Small ribosomal subunit protein eS8, conserved siteConserved Site
J [auth SK]IPR002942RNA-binding S4 domainDomain
J [auth SK]IPR022801Small ribosomal subunit protein uS4Family
J [auth SK]IPR005710Small ribosomal subunit protein uS4, eukaryota/archaeaFamily
J [auth SK]IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
J [auth SK]IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
J [auth SK]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
K [auth SM]IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
K [auth SM]IPR032440Small ribosomal subunit protein uS17, N-terminalDomain
K [auth SM]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
K [auth SM]IPR000266Small ribosomal subunit protein uS17Family
K [auth SM]IPR028333Small ribosomal subunit protein uS17, archaeal/eukaryoticFamily
L [auth SO]IPR012606Small ribosomal subunit protein uS15, N-terminalDomain
L [auth SO]IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
L [auth SO]IPR000589Small ribosomal subunit protein uS15Family
L [auth SO]IPR023029Small ribosomal subunit protein uS15, archaea/eukaryotaFamily
M [auth SP]IPR001971Small ribosomal subunit protein uS11Family
M [auth SP]IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
M [auth SP]IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
N [auth SR]IPR020574Small ribosomal subunit protein uS9, conserved siteConserved Site
N [auth SR]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
N [auth SR]IPR000754Small ribosomal subunit protein uS9Family
N [auth SR]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
O [auth SX]IPR000630Small ribosomal subunit protein uS8Family
O [auth SX]IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
O [auth SX]IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
P [auth SY]IPR006032Small ribosomal subunit protein uS12Family
P [auth SY]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
P [auth SY]IPR005680Small ribosomal subunit protein uS12, eukaryota/archaeaFamily
Q [auth SZ]IPR053709Eukaryotic Ribosomal Protein eS24Homologous Superfamily
Q [auth SZ]IPR001976Small ribosomal subunit protein eS24Family
Q [auth SZ]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
Q [auth SZ]IPR018098Small ribosomal subunit protein eS24 conserved siteConserved Site
R [auth Sc]IPR023407Small ribosomal subunit protein eS27, zinc-binding domain superfamilyHomologous Superfamily
R [auth Sc]IPR000592Small ribosomal subunit protein eS27Family
R [auth Sc]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
S [auth Sd]IPR028626Ribosomal protein eS28 conserved siteConserved Site
S [auth Sd]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
S [auth Sd]IPR000289Small ribosomal subunit protein eS28Family
T [auth 3B],
U [auth 3C]		IPR000692rRNA 2'-O-methyltransferase fibrillarin-likeFamily
T [auth 3B],
U [auth 3C]		IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
T [auth 3B],
U [auth 3C]		IPR020813Fibrillarin, conserved siteConserved Site
V [auth 3D]IPR042239Nop, C-terminal domainHomologous Superfamily
V [auth 3D]IPR012974Nucleolar protein 58/56, N-terminalDomain
V [auth 3D]IPR002687Nop domainDomain
V [auth 3D]IPR012976NOSICDomain
V [auth 3D]IPR036070Nop domain superfamilyHomologous Superfamily
V [auth 3D]IPR045056Nucleolar protein Nop56/Nop58Family
W [auth 3E]IPR042239Nop, C-terminal domainHomologous Superfamily
W [auth 3E]IPR012974Nucleolar protein 58/56, N-terminalDomain
W [auth 3E]IPR002687Nop domainDomain
W [auth 3E]IPR012976NOSICDomain
W [auth 3E]IPR036070Nop domain superfamilyHomologous Superfamily
W [auth 3E]IPR045056Nucleolar protein Nop56/Nop58Family
X [auth 3F]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
X [auth 3F]IPR039241Ribosomal RNA-processing protein Rrp9-likeFamily
X [auth 3F]IPR001680WD40 repeatRepeat
X [auth 3F]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
Y [auth 3G],
Z [auth 3H]		IPR002415H/ACA ribonucleoprotein complex, subunit Nhp2-likeFamily
Y [auth 3G],
Z [auth 3H]		IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
Y [auth 3G],
Z [auth 3H]		IPR018492Ribosomal protein eL8/Nhp2 familyFamily
Y [auth 3G],
Z [auth 3H]		IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
Y [auth 3G],
Z [auth 3H]		IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
Y [auth 3G],
Z [auth 3H]		IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
AA [auth A4]IPR046351U3 small nucleolar RNA-associated protein 4Family
AA [auth A4]IPR001680WD40 repeatRepeat
AA [auth A4]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
AA [auth A4]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
BA [auth A5]IPR052414U3 small nucleolar RNA-associated WD repeat-containing proteinFamily
BA [auth A5]IPR007148Small-subunit processome, Utp12Domain
BA [auth A5]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
BA [auth A5]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
CA [auth A8]IPR053881Utp8, C-terminalDomain
CA [auth A8]IPR018843Utp8, beta-propellerDomain
DA [auth A9]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
EA [auth AE]IPR016024Armadillo-type foldHomologous Superfamily
EA [auth AE]IPR040191U3 small nucleolar RNA-associated protein 10Family
EA [auth AE]IPR021133HEAT, type 2Repeat
EA [auth AE]IPR056473Utp10/HEAT1, HEAT-repeats domainDomain
EA [auth AE]IPR011989Armadillo-like helicalHomologous Superfamily
EA [auth AE]IPR022125U3 small nucleolar RNA-associated protein 10, N-terminalDomain
EA [auth AE]IPR012954BP28, C-terminal domainDomain
FA [auth AF]IPR019775WD40 repeat, conserved siteConserved Site
FA [auth AF]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
FA [auth AF]IPR001680WD40 repeatRepeat
FA [auth AF]IPR018983U3 small nucleolar RNA-associated protein 15, C-terminalDomain
FA [auth AF]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
GA [auth AG]IPR053826WD repeat-containing protein 75Family
GA [auth AG]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
GA [auth AG]IPR001680WD40 repeatRepeat
GA [auth AG]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
HA [auth B1]IPR024977Anaphase-promoting complex subunit 4-like, WD40 domainDomain
HA [auth B1]IPR019775WD40 repeat, conserved siteConserved Site
HA [auth B1]IPR007148Small-subunit processome, Utp12Domain
HA [auth B1]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
HA [auth B1]IPR011047Quinoprotein alcohol dehydrogenase-like superfamilyHomologous Superfamily
HA [auth B1]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
HA [auth B1]IPR001680WD40 repeatRepeat
HA [auth B1]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
HA [auth B1]IPR027145Periodic tryptophan protein 2Family
IA [auth B2]IPR019775WD40 repeat, conserved siteConserved Site
IA [auth B2]IPR007148Small-subunit processome, Utp12Domain
IA [auth B2]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IA [auth B2]IPR051570TBC1 domain family involved in cilium biogenesisFamily
IA [auth B2]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
IA [auth B2]IPR001680WD40 repeatRepeat
IA [auth B2]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
JA [auth B3]IPR019775WD40 repeat, conserved siteConserved Site
JA [auth B3]IPR013934U3 small nucleolar RNA-associated protein 13, C-terminalDomain
JA [auth B3]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
JA [auth B3]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
JA [auth B3]IPR001680WD40 repeatRepeat
JA [auth B3]IPR057644WD repeat-containing protein 75, second beta-propellerDomain
JA [auth B3]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
KA [auth B8]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
KA [auth B8]IPR001680WD40 repeatRepeat
KA [auth B8]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
KA [auth B8]IPR045161U3 small nucleolar RNA-associated protein 18Family
LA [auth BE]IPR019775WD40 repeat, conserved siteConserved Site
LA [auth BE]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
LA [auth BE]IPR011047Quinoprotein alcohol dehydrogenase-like superfamilyHomologous Superfamily
LA [auth BE]IPR001680WD40 repeatRepeat
LA [auth BE]IPR007319WDR36/Utp21, C-terminal domainDomain
LA [auth BE]IPR059157WDR36/Utp21, N-terminal domainDomain
LA [auth BE]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
MA [auth B6]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
MA [auth B6]IPR055347U3 small nucleolar RNA-associated protein 6, N-terminalDomain
MA [auth B6]IPR003107HAT (Half-A-TPR) repeatRepeat
MA [auth B6]IPR013949U3 small nucleolar RNA-associated protein 6Family
NA [auth 5B]IPR013268U3 small nucleolar RNA-associated protein 16Family
OA [auth 5C]IPR019775WD40 repeat, conserved siteConserved Site
OA [auth 5C]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
OA [auth 5C]IPR012952BING4, C-terminal domainDomain
OA [auth 5C]IPR001680WD40 repeatRepeat
OA [auth 5C]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
OA [auth 5C]IPR040315WD repeat-containing protein WDR46/Utp7Family
PA [auth 5D]IPR007144Small-subunit processome, Utp11Family
QA [auth 5E]IPR012173U3 small nucleolar ribonucleoprotein complex, subunit Mpp10Family
RA [auth 5F]IPR002942RNA-binding S4 domainDomain
RA [auth 5F]IPR022801Small ribosomal subunit protein uS4Family
RA [auth 5F]IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
RA [auth 5F]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
SA [auth 5G]IPR044281U3 snoRNP protein/Ribosome production factor 1Family
SA [auth 5G]IPR007109Brix domainDomain
TA [auth 5H]IPR018972Sas10 C-terminal domainDomain
TA [auth 5H]IPR007146Sas10/Utp3/C1DFamily
UA [auth 5I]IPR051733WD repeat-containing DCAF13/WDSOF1Family
UA [auth 5I]IPR007287Sof1-like proteinDomain
UA [auth 5I]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
UA [auth 5I]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
UA [auth 5I]IPR001680WD40 repeatRepeat
UA [auth 5I]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
VA [auth 5J]IPR039883Fcf2/DNTTIP2Family
VA [auth 5J]IPR014810Fcf2 pre-rRNA processing, C-terminalDomain
WA [auth 5K]IPR002716PIN domainDomain
WA [auth 5K]IPR006984Fcf1/UTP23Family
WA [auth 5K]IPR029060PIN-like domain superfamilyHomologous Superfamily
WA [auth 5K]IPR037503rRNA-processing protein Fcf1, PIN domainDomain
XA [auth RD]IPR048059rRNA biogenesis protein RRP5, S1 domain, first repeatDomain
XA [auth RD]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
XA [auth RD]IPR003029S1 domainDomain
XA [auth RD]IPR048058rRNA biogenesis protein RRP5, S1 domain, eleventh repeatDomain
XA [auth RD]IPR003107HAT (Half-A-TPR) repeatRepeat
XA [auth RD]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
XA [auth RD]IPR045209rRNA biogenesis protein Rrp5Family
YA [auth RE]IPR035367Nrap protein, domain 2Domain
YA [auth RE]IPR035368Nrap protein, domain 3Domain
YA [auth RE]IPR035370Nrap protein, domain 5Domain
YA [auth RE]IPR005554NOL6/Upt22Family
YA [auth RE]IPR035369Nrap protein, domain 4Domain
YA [auth RE]IPR035082Nrap protein domain 1Domain
YA [auth RE]IPR035371Nrap protein, domain 6Domain
ZA [auth RF]IPR040446Ribosomal RNA-processing protein 7Family
ZA [auth RF]IPR040447Rrp7, RRM-like N-terminal domainDomain
ZA [auth RF]IPR024326Ribosomal RNA-processing protein 7, C-terminal domainDomain
AB [auth RG],
BB [auth RH]		IPR029026tRNA (guanine-N1-)-methyltransferase, N-terminalHomologous Superfamily
AB [auth RG],
BB [auth RH]		IPR005304Ribosomal biogenesis, methyltransferase, EMG1/NEP1Family
AB [auth RG],
BB [auth RH]		IPR029028Alpha/beta knot methyltransferasesHomologous Superfamily
CB [auth RJ]IPR007034Ribosome biogenesis protein BMS1/TSR1, C-terminalDomain
CB [auth RJ]IPR039761Ribosome biogenesis protein Bms1/Tsr1Family
CB [auth RJ]IPR003959ATPase, AAA-type, coreDomain
CB [auth RJ]IPR012948AARP2CNDomain
CB [auth RJ]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
CB [auth RJ]IPR030387Bms1/Tsr1-type G domainDomain
CB [auth RJ]IPR037875Ribosome biogenesis protein Bms1, N-terminalDomain
DB [auth RK]IPR013792RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/betaHomologous Superfamily
DB [auth RK]IPR023797RNA 3'-terminal phosphate cyclase domainDomain
DB [auth RK]IPR000228RNA 3'-terminal phosphate cyclaseFamily
DB [auth RK]IPR020719RNA 3'-terminal phosphate cyclase-like, conserved siteConserved Site
DB [auth RK]IPR037136RNA 3'-terminal phosphate cyclase domain superfamilyHomologous Superfamily
DB [auth RK]IPR016443RNA 3'-terminal phosphate cyclase type 2Family
DB [auth RK]IPR013791RNA 3'-terminal phosphate cyclase, insert domainDomain
DB [auth RK]IPR036553RNA 3'-terminal phosphate cyclase, insert domain superfamilyHomologous Superfamily
EB [auth RN]IPR007276Nucleolar protein 14Family
FB [auth RO]IPR005612CCAAT-binding factorDomain
FB [auth RO]IPR027193Nucleolar complex protein 4-likeFamily
GB [auth RP]IPR046523U3 small nucleolar RNA-associated protein 20 domainDomain
GB [auth RP]IPR016024Armadillo-type foldHomologous Superfamily
GB [auth RP]IPR011430U3 small nucleolar RNA-associated protein 20, N-terminalDomain
GB [auth RP]IPR011989Armadillo-like helicalHomologous Superfamily
GB [auth RP]IPR057525U3 small nucleolar RNA-associated protein 20, C-terminalDomain
GB [auth RP]IPR052575Small subunit processome component 20Family
HB [auth RQ]IPR006709Small-subunit processome, Utp14Family
IB [auth RS]IPR007955BystinFamily
KB [auth RW]IPR031404Regulator of rDNA transcription 14Family
NB [auth R5]IPR033100Exosome complex component RRP45Family
NB [auth R5]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
NB [auth R5]IPR001247Exoribonuclease, phosphorolytic domain 1Domain
NB [auth R5]IPR050590Exosome complex component Rrp42 subfamilyFamily
NB [auth R5]IPR036345Exoribonuclease, PH domain 2 superfamilyHomologous Superfamily
NB [auth R5]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
NB [auth R5]IPR015847Exoribonuclease, phosphorolytic domain 2Domain
OB [auth R1]IPR050080Ribonuclease PHFamily
OB [auth R1]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
OB [auth R1]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
OB [auth R1]IPR015847Exoribonuclease, phosphorolytic domain 2Domain
OB [auth R1]IPR001247Exoribonuclease, phosphorolytic domain 1Domain
OB [auth R1]IPR036345Exoribonuclease, PH domain 2 superfamilyHomologous Superfamily
PB [auth R3]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
PB [auth R3]IPR050590Exosome complex component Rrp42 subfamilyFamily
PB [auth R3]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
PB [auth R3]IPR001247Exoribonuclease, phosphorolytic domain 1Domain
QB [auth R6]IPR050080Ribonuclease PHFamily
QB [auth R6]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
QB [auth R6]IPR001247Exoribonuclease, phosphorolytic domain 1Domain
QB [auth R6]IPR036345Exoribonuclease, PH domain 2 superfamilyHomologous Superfamily
QB [auth R6]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
QB [auth R6]IPR015847Exoribonuclease, phosphorolytic domain 2Domain
RB [auth R2]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
RB [auth R2]IPR050590Exosome complex component Rrp42 subfamilyFamily
RB [auth R2]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
SB [auth M3]IPR050080Ribonuclease PHFamily
SB [auth M3]IPR027408PNPase/RNase PH domain superfamilyHomologous Superfamily
SB [auth M3]IPR001247Exoribonuclease, phosphorolytic domain 1Domain
SB [auth M3]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
TB [auth R0]IPR041054Exosome complex exonuclease Rrp40, N-terminal domain, eukaryotesDomain
TB [auth R0]IPR049469Exosome complex component RRP40, type I KH domainDomain
TB [auth R0]IPR037319Rrp40, S1 domainDomain
TB [auth R0]IPR036612K Homology domain, type 1 superfamilyHomologous Superfamily
TB [auth R0]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
TB [auth R0]IPR026699Exosome complex RNA-binding protein 1/RRP40/RRP4Family
TB [auth R0]IPR004088K Homology domain, type 1Domain
UB [auth r4]IPR048565RRP4, S1 domainDomain
UB [auth r4]IPR036612K Homology domain, type 1 superfamilyHomologous Superfamily
UB [auth r4]IPR025721Exosome complex component, N-terminal domainDomain
UB [auth r4]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
UB [auth r4]IPR026699Exosome complex RNA-binding protein 1/RRP40/RRP4Family
UB [auth r4]IPR004088K Homology domain, type 1Domain
VB [auth C4]IPR019495Exosome complex component CSL4, C-terminalDomain
VB [auth C4]IPR039771Exosome complex component Csl4Family
VB [auth C4]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
VB [auth C4]IPR048626Exosome complex component CSL4, N-terminal domainDomain
WB [auth R4]IPR050180RNR RibonucleaseFamily
WB [auth R4]IPR041505Dis3-like cold-shock domain 2Domain
WB [auth R4]IPR003029S1 domainDomain
WB [auth R4]IPR022966Ribonuclease II/R, conserved siteConserved Site
WB [auth R4]IPR033770Exosome complex exonuclease RRP44, S1 domainDomain
WB [auth R4]IPR033771Rrp44-like cold shock domainDomain
WB [auth R4]IPR002716PIN domainDomain
WB [auth R4]IPR001900Ribonuclease II/RDomain
WB [auth R4]IPR029060PIN-like domain superfamilyHomologous Superfamily
WB [auth R4]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
XB [auth r6]IPR036397Ribonuclease H superfamilyHomologous Superfamily
XB [auth r6]IPR002121HRDC domainDomain
XB [auth r6]IPR012588Exosome-associated factor Rrp6, N-terminalDomain
XB [auth r6]IPR012337Ribonuclease H-like superfamilyHomologous Superfamily
XB [auth r6]IPR045092Exosome complex exonuclease Rrp6-likeFamily
XB [auth r6]IPR0025623'-5' exonuclease domainDomain
XB [auth r6]IPR049559Rrp6-like, 3'-5' exonuclease domainDomain
XB [auth r6]IPR010997HRDC-like superfamilyHomologous Superfamily
XB [auth r6]IPR044876HRDC domain superfamilyHomologous Superfamily
YB [auth R7]IPR011082Exosome-associated factor Rrp47/DNA strand repair C1DFamily
YB [auth R7]IPR007146Sas10/Utp3/C1DFamily
ZB [auth M4]IPR048392Exosome RNA helicase MTR4-like, stalkDomain
ZB [auth M4]IPR012961ATP-dependent RNA helicase Ski2/MTR4, C-terminalDomain
ZB [auth M4]IPR025696Exosome RNA helicase MTR4-like, beta-barrel domainDomain
ZB [auth M4]IPR016438Circadian oscillator component FRH-likeFamily
ZB [auth M4]IPR011545DEAD/DEAH-box helicase domainDomain
ZB [auth M4]IPR011254Prismane-like superfamilyHomologous Superfamily
ZB [auth M4]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
ZB [auth M4]IPR001650Helicase, C-terminal domain-likeDomain
ZB [auth M4]IPR050699ATP-dependent RNA helicase SUPV3-likeFamily
ZB [auth M4]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain