6LQP
Cryo-EM structure of 90S small subunit preribosomes in transition states (State A)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
D [auth SC] | SCOP2B Superfamily | Ribosomal S3Ae-like | 8053211 | 3002166 | SCOP2B (2022-06-29) |
E [auth SF] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052760 | 3000334 | SCOP2B (2022-06-29) |
E [auth SF] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052758 | 3001473 | SCOP2B (2022-06-29) |
E [auth SF] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052759 | 3000135 | SCOP2B (2022-06-29) |
F [auth SG] | SCOP2B Superfamily | Ribosomal protein S7 | 8065993 | 3000799 | SCOP2B (2022-06-29) |
G [auth SH] | SCOP2B Superfamily | GS N-terminal domain-like | 8053173 | 3000408 | SCOP2B (2022-06-29) |
K [auth SM] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052738 | 3000135 | SCOP2B (2022-06-29) |
L [auth SN] | SCOP2B Superfamily | L30e-like | 8096946 | 3001739 | SCOP2B (2022-06-29) |
M [auth SO] | SCOP2B Superfamily | Homeodomain-like | 8052973 | 3000001 | SCOP2B (2022-06-29) |
M [auth SO] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052974 | 3001284 | SCOP2B (2022-06-29) |
N [auth SP] | SCOP2B Superfamily | Translational machinery components | 8095805 | 3000571 | SCOP2B (2022-06-29) |
O [auth SR] | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8103366 | 3000100 | SCOP2B (2022-06-29) |
P [auth ST] | SCOP2B Superfamily | S13-like H2TH domain | 8098450 | 3000053 | SCOP2B (2022-06-29) |
U [auth Sd] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8063430 | 3000135 | SCOP2B (2022-06-29) |
V [auth 3B] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
W [auth 3C] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
AA [auth 3G] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
BA [auth 3H] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
LA [auth B3] | SCOP2B Superfamily | UTPB complex component-like | 8061270 | 3002330 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053729 | 3001147 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053727 | 3000941 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053728 | 3000941 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053730 | 3001147 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053726 | 3000129 | SCOP2B (2022-06-29) |
CB [auth RE] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053725 | 3000129 | SCOP2B (2022-06-29) |
DB [auth RF] | SCOP2B Superfamily | RNA-binding domain, RBD | 8053724 | 3000110 | SCOP2B (2022-06-29) |
DB [auth RF] | SCOP2B Superfamily | RRP7 C-terminal domain-like | 8053722 | 3002219 | SCOP2B (2022-06-29) |
EB [auth RG] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
FB [auth RH] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
D [auth SC] | Ribosomal_S3Ae_N | e6lqpSC2 | A: beta barrels | X: Ribosomal protein L25-like | H: 40S ribosomal protein S3A N-terminal domain (From Topology) | T: 40S ribosomal protein S3A N-terminal domain | F: Ribosomal_S3Ae_N | ECOD (1.6) |
D [auth SC] | Ribosomal_S3Ae_C | e6lqpSC1 | A: a+b two layers | X: T-fold | H: 40S ribosomal protein S3A C-terminal domain (From Topology) | T: 40S ribosomal protein S3A C-terminal domain | F: Ribosomal_S3Ae_C | ECOD (1.6) |
E [auth SF] | Ribosomal_S4e | e6lqpSF3 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosomal_S4e | ECOD (1.6) |
E [auth SF] | 40S_S4_C | e6lqpSF1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: 40S_S4_C | ECOD (1.6) |
E [auth SF] | RS4NT | e6lqpSF2 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: RS4NT | ECOD (1.6) |
F [auth SG] | Ribosomal_S7_1 | e6lqpSG1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: Ribosomal_S7_1 | ECOD (1.6) |
G [auth SH] | Ribosomal_S6e | e6lqpSH1 | A: beta barrels | X: Ribosomal protein L25-like | H: Ribosomal protein L25-like (From Topology) | T: Ribosomal protein L25-like | F: Ribosomal_S6e | ECOD (1.6) |
H [auth SI] | Ribosomal_S7e_N | e6lqpSI2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: 40S ribosomal protein S7-A (From Topology) | T: 40S ribosomal protein S7-A | F: Ribosomal_S7e_N | ECOD (1.6) |
H [auth SI] | Ribosomal_S7e_C_2 | e6lqpSI1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: 40S ribosomal protein S7-A (From Topology) | T: 40S ribosomal protein S7-A | F: Ribosomal_S7e_C_2 | ECOD (1.6) |
I [auth SJ] | Ribosomal_S8e | e6lqpSJ1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: Ribosomal_S8e | ECOD (1.6) |
J [auth SK] | S4 | e6lqpSK1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: S4 | ECOD (1.6) |
K [auth SM] | Ribosomal_S17_1 | e6lqpSM1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosomal_S17_1 | ECOD (1.6) |
L [auth SN] | Ribosomal_L7Ae | e6lqpSN1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae | ECOD (1.6) |
M [auth SO] | Ribosomal_S13_N | e6lqpSO2 | A: alpha arrays | X: HTH | H: 40S ribosomal protein S13 N-terminal domain (From Topology) | T: 40S ribosomal protein S13 N-terminal domain | F: Ribosomal_S13_N | ECOD (1.6) |
M [auth SO] | Ribosomal_S15_2 | e6lqpSO1 | A: alpha arrays | X: S15/NS1 RNA-binding domain (From Topology) | H: S15/NS1 RNA-binding domain (From Topology) | T: S15/NS1 RNA-binding domain | F: Ribosomal_S15_2 | ECOD (1.6) |
N [auth SP] | Ribosomal_S11 | e6lqpSP1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: Ribosomal_S11 | ECOD (1.6) |
O [auth SR] | Ribosomal_S9 | e6lqpSR1 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: Ribosomal_S9 | ECOD (1.6) |
P [auth ST] | Ribosomal_S13 | e6lqpST1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: Ribosomal_S13 | ECOD (1.6) |
Q [auth SX] | Ribosomal_S8_N_1 | e6lqpSX1 | A: a+b two layers | X: R3H domain-like | H: Ribosomal protein S8, N-terminal domain (From Topology) | T: Ribosomal protein S8, N-terminal domain | F: Ribosomal_S8_N_1 | ECOD (1.6) |
Q [auth SX] | Ribosomal_S8_C_1 | e6lqpSX2 | A: a+b two layers | X: Ribosomal protein S8, C-terminal domain (From Topology) | H: Ribosomal protein S8, C-terminal domain (From Topology) | T: Ribosomal protein S8, C-terminal domain | F: Ribosomal_S8_C_1 | ECOD (1.6) |
R [auth SY] | Ribosom_S12_S23 | e6lqpSY1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosom_S12_S23 | ECOD (1.6) |
S [auth SZ] | Ribosomal_S24e | e6lqpSZ1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal proteins S24e, L23 and L15e (From Topology) | T: Ribosomal proteins S24e, L23 and L15e | F: Ribosomal_S24e | ECOD (1.6) |
T [auth Sc] | Ribosomal_S27e | e6lqpSc1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_S27e | ECOD (1.6) |
U [auth Sd] | Ribosomal_S28e | e6lqpSd1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosomal_S28e | ECOD (1.6) |
V [auth 3B] | Fibrillarin | e6lqp3B1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: Fibrillarin | ECOD (1.6) |
W [auth 3C] | Fibrillarin | e6lqp3C1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: Fibrillarin | ECOD (1.6) |
X [auth 3D] | Nop_C | e6lqp3D2 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: Nop C-terminal domain | F: Nop_C | ECOD (1.6) |
X [auth 3D] | Nop_N | e6lqp3D1 | A: alpha complex topology | X: Nop N-terminal domain (From Topology) | H: Nop N-terminal domain (From Topology) | T: Nop N-terminal domain | F: Nop_N | ECOD (1.6) |
X [auth 3D] | NOP5NT | e6lqp3D3 | A: mixed a+b and a/b | X: Nop N-terminal domain (From Topology) | H: Nop N-terminal domain (From Topology) | T: Nop N-terminal domain | F: NOP5NT | ECOD (1.6) |
Z [auth 3F] | ANAPC4_WD40_8 | e6lqp3F1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_8 | ECOD (1.6) |
AA [auth 3G] | Ribosomal_L7Ae_1 | e6lqp3G1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae_1 | ECOD (1.6) |
BA [auth 3H] | Ribosomal_L7Ae_1 | e6lqp3H1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae_1 | ECOD (1.6) |
CA [auth A4] | ANAPC4_WD40_2 | e6lqpA42 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_2 | ECOD (1.6) |
CA [auth A4] | ANAPC4_WD40_6 | e6lqpA41 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_6 | ECOD (1.6) |
FA [auth A9] | F_UNCLASSIFIED | e6lqpA91 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: F_UNCLASSIFIED | ECOD (1.6) |
HA [auth AF] | ANAPC4_WD40_7 | e6lqpAF1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: ANAPC4_WD40_7 | ECOD (1.6) |
HA [auth AF] | F_UNCLASSIFIED | e6lqpAF2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: F_UNCLASSIFIED | ECOD (1.6) |
JA [auth B1] | ANAPC4_WD40_1 | e6lqpB11 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_1 | ECOD (1.6) |
JA [auth B1] | ANAPC4_WD40_8 | e6lqpB13 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_8 | ECOD (1.6) |
JA [auth B1] | Utp12 | e6lqpB12 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: Utp12 | ECOD (1.6) |
KA [auth B2] | ANAPC4_WD40_10 | e6lqpB23 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_10 | ECOD (1.6) |
KA [auth B2] | ANAPC4_WD40_13 | e6lqpB21 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_13 | ECOD (1.6) |
KA [auth B2] | Utp12 | e6lqpB22 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: Utp12 | ECOD (1.6) |
LA [auth B3] | ANAPC4_WD40_9 | e6lqpB31 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_9 | ECOD (1.6) |
LA [auth B3] | ANAPC4_WD40_6 | e6lqpB32 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_6 | ECOD (1.6) |
LA [auth B3] | Utp13 | e6lqpB33 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: Utp13 | ECOD (1.6) |
TA [auth 5F] | S4 | e6lqp5F1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: S4 | ECOD (1.6) |
ZA [auth RA] | ANAPC4_WD40_9 | e6lqpRA1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: ANAPC4_WD40_9 | ECOD (1.6) |
CB [auth RE] | Nrap_D2 | e6lqpRE5 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: Nrap_D2 | ECOD (1.6) |
CB [auth RE] | Nrap_D5 | e6lqpRE4 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: Nrap_D5 | ECOD (1.6) |
CB [auth RE] | Nrap_D3 | e6lqpRE1 | A: a+b two layers | X: Alpha-beta plaits | H: PAP/Archaeal CCA-adding enzyme, C-terminal domain (From Topology) | T: PAP/Archaeal CCA-adding enzyme, C-terminal domain | F: Nrap_D3 | ECOD (1.6) |
CB [auth RE] | Nrap_D6 | e6lqpRE2 | A: a+b two layers | X: Alpha-beta plaits | H: PAP/Archaeal CCA-adding enzyme, C-terminal domain (From Topology) | T: PAP/Archaeal CCA-adding enzyme, C-terminal domain | F: Nrap_D6 | ECOD (1.6) |
CB [auth RE] | Nrap | e6lqpRE6 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: Nrap | ECOD (1.6) |
CB [auth RE] | Nrap_D4 | e6lqpRE3 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: Nrap_D4 | ECOD (1.6) |
DB [auth RF] | KOG4008 | e6lqpRF1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: KOG4008 | ECOD (1.6) |
EB [auth RG] | EMG1 | e6lqpRG1 | A: a/b three-layered sandwiches | X: alpha/beta knot (From Topology) | H: alpha/beta knot (From Topology) | T: alpha/beta knot | F: EMG1 | ECOD (1.6) |
FB [auth RH] | EMG1 | e6lqpRH1 | A: a/b three-layered sandwiches | X: alpha/beta knot (From Topology) | H: alpha/beta knot (From Topology) | T: alpha/beta knot | F: EMG1 | ECOD (1.6) |
GB [auth RI] | Ribosomal_L1_2nd | e6lqpRI2 | A: a+b two layers | X: a+b domain in Ribosomal protein L1 (From Topology) | H: a+b domain in Ribosomal protein L1 (From Topology) | T: a+b domain in Ribosomal protein L1 | F: Ribosomal_L1_2nd | ECOD (1.6) |
GB [auth RI] | Ribosomal_L1_1st_1 | e6lqpRI1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Rossmann-like domain in Ribosomal protein L1 (From Topology) | T: Rossmann-like domain in Ribosomal protein L1 | F: Ribosomal_L1_1st_1 | ECOD (1.6) |
IB [auth RK] | RTC | e6lqpRK2 | A: a+b two layers | X: IF3-like | H: EPT/RTPC-like (From Topology) | T: EPT/RTPC-like | F: RTC | ECOD (1.6) |
IB [auth RK] | RTC_insert | e6lqpRK1 | A: a+b three layers | X: Thioredoxin-like | H: RNA 3'-terminal phosphate cyclase, RPTC, insert domain (From Topology) | T: RNA 3'-terminal phosphate cyclase, RPTC, insert domain | F: RTC_insert | ECOD (1.6) |
JB [auth RL] | tRNA_bind_2 | e6lqpRL4 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: tRNA_bind_2 | ECOD (1.6) |
JB [auth RL] | GNAT_acetyltr_2 | e6lqpRL1 | A: a+b three layers | X: Nat/Ivy | H: Acyl-CoA N-acyltransferases (Nat) (From Topology) | T: Acyl-CoA N-acyltransferases (Nat) | F: GNAT_acetyltr_2 | ECOD (1.6) |
JB [auth RL] | DUF1726 | e6lqpRL3 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: DUF1726 | ECOD (1.6) |
JB [auth RL] | Helicase_RecD | e6lqpRL2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: Helicase_RecD | ECOD (1.6) |
KB [auth RM] | tRNA_bind_2 | e6lqpRM4 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: tRNA_bind_2 | ECOD (1.6) |
KB [auth RM] | GNAT_acetyltr_2 | e6lqpRM1 | A: a+b three layers | X: Nat/Ivy | H: Acyl-CoA N-acyltransferases (Nat) (From Topology) | T: Acyl-CoA N-acyltransferases (Nat) | F: GNAT_acetyltr_2 | ECOD (1.6) |
KB [auth RM] | DUF1726 | e6lqpRM3 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: DUF1726 | ECOD (1.6) |
KB [auth RM] | Helicase_RecD | e6lqpRM2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: Helicase_RecD | ECOD (1.6) |
PB [auth RS] | Bystin | e6lqpRS1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: Bystin | ECOD (1.6) |
QB [auth RT] | KH_1 | e6lqpRT1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: KH_1 | ECOD (1.6) |
QB [auth RT] | KOG3273 | e6lqpRT2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: KOG3273 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
D [auth SC] | PF01667 | Ribosomal protein S27 (Ribosomal_S27e) | Ribosomal protein S27 | - | Family |
D [auth SC] | PF01015 | Ribosomal S3Ae family (Ribosomal_S3Ae) | Ribosomal S3Ae family | - | Family |
E [auth SF] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
E [auth SF] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
E [auth SF] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
E [auth SF] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
F [auth SG] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
G [auth SH] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
I [auth SJ] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
J [auth SK] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
K [auth SM] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | Domain | |
K [auth SM] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
L [auth SN] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 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 MyD11 ... | Domain |
M [auth SO] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | Domain | |
N [auth SP] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
O [auth SR] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
P [auth ST] | PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family |
Q [auth SX] | PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | Domain | |
S [auth SZ] | PF01282 | Ribosomal protein S24e (Ribosomal_S24e) | Ribosomal protein S24e | - | Family |
V [auth 3B], W [auth 3C] | PF01269 | Fibrillarin (Fibrillarin) | Fibrillarin | Domain | |
X [auth 3D] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
X [auth 3D] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
Y [auth 3E] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
Y [auth 3E] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
Z [auth 3F] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
AA [auth 3G], BA [auth 3H] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 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 MyD11 ... | Domain |
CA [auth A4] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
DA [auth A5] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
EA [auth A8] | PF22542 | Utp8, C-terminal (Utp8_C) | Utp8, C-terminal | 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 ... | Domain |
GA [auth AE] | PF08146 | BP28CT (NUC211) domain (BP28CT) | BP28CT (NUC211) domain | This C terminal domain is found in BAP28-like nucleolar proteins [1]. | Domain |
GA [auth AE] | PF12397 | U3 small nucleolar RNA-associated protein 10 (U3snoRNP10) | U3 small nucleolar RNA-associated protein 10 | - | Family |
HA [auth AF] | PF09384 | UTP15 C terminal (UTP15_C) | UTP15 C terminal | - | Family |
HA [auth AF] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
IA [auth AG] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
JA [auth B1] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
JA [auth B1] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
KA [auth B2] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
KA [auth B2] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
LA [auth B3] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
LA [auth B3] | PF08625 | Utp13 specific WD40 associated domain (Utp13) | Utp13 specific WD40 associated domain | 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 o ... | Domain |
MA [auth B8] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
NA [auth BE] | PF04192 | Utp21 specific WD40 associated putative domain (Utp21) | Utp21 specific WD40 associated putative domain | Utp21 is a subunit of U3 snoRNP, which is essential for synthesis of 18S rRNA. | Domain |
NA [auth BE] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
OA [auth B6] | PF08640 | U3 small nucleolar RNA-associated protein 6 (U3_assoc_6) | U3 small nucleolar RNA-associated protein 6 | - | Repeat |
OA [auth B6] | PF05843 | Suppressor of forked protein (Suf) (Suf) | Suppressor of forked protein (Suf) | - | Repeat |
QA [auth 5C] | PF08149 | BING4CT (NUC141) domain (BING4CT) | BING4CT (NUC141) domain | - | Repeat |
QA [auth 5C] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
RA [auth 5D] | PF03998 | Utp11 protein (Utp11) | Utp11 protein | - | Family |
TA [auth 5F] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
TA [auth 5F] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
UA [auth 5G] | PF04427 | Brix domain (Brix) | Brix domain | Domain | |
VA [auth 5H] | PF09368 | Sas10 C-terminal domain (Sas10) | Sas10 C-terminal domain | Sas10 is an Essential subunit of U3-containing Small Subunit (SSU) processome complex involved in the production of the 18S rRNA and assembly of the small ribosomal subunit. | Domain |
WA [auth 5I] | PF04158 | Sof1-like domain (Sof1) | Sof1-like domain | - | Family |
WA [auth 5I] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
YA [auth 5K] | PF04900 | Fcf1 (Fcf1) | Fcf1 | - | Family |
BB [auth RC] | PF17903 | Krr1 KH1 domain (KH_KRR1_1st) | Krr1 KH1 domain | This entry represents the first KH domain in the KRR1 protein [1]. Krr1 is a ribosomal assembly factor. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif and is involved in binding another assembly factor, Kri1 [1]. | Domain |
BB [auth RC] | PF21800 | KRR1 small subunit processome component, second KH domain (KH_KRR1_2nd) | KRR1 small subunit processome component, second KH domain | This is the second K homology domain (KH2) found in KRR1 small subunit processome component from the fungus Chaetomium thermophilum and similar eukaryotic sequences. | Domain |
CB [auth RE] | PF03813 | Nrap protein domain 1 (Nrap) | Nrap protein domain 1 | 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 ... | Domain |
CB [auth RE] | PF17403 | Nrap protein PAP/OAS-like domain (Nrap_D2) | Nrap protein PAP/OAS-like domain | 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 ... | Domain |
CB [auth RE] | PF17406 | Nrap protein PAP/OAS1-like domain 5 (Nrap_D5) | Nrap protein PAP/OAS1-like domain 5 | 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 ... | Domain |
CB [auth RE] | PF17407 | Nrap protein domain 6 (Nrap_D6) | Nrap protein domain 6 | 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 ... | Domain |
CB [auth RE] | PF17404 | Nrap protein domain 3 (Nrap_D3) | Nrap protein domain 3 | 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 ... | Domain |
CB [auth RE] | PF17405 | Nrap protein nucleotidyltransferase domain 4 (Nrap_D4) | Nrap protein nucleotidyltransferase domain 4 | 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 ... | Domain |
DB [auth RF] | PF17799 | Rrp7 RRM-like N-terminal domain (RRM_Rrp7) | Rrp7 RRM-like N-terminal domain | This 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 |
DB [auth RF] | PF12923 | Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain (RRP7) | Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain | RRP7 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 |
EB [auth RG], FB [auth RH] | PF03587 | EMG1/NEP1 methyltransferase (EMG1) | EMG1/NEP1 methyltransferase | - | Family |
GB [auth RI] | PF00687 | Ribosomal protein L1p/L10e family (Ribosomal_L1) | Ribosomal protein L1p/L10e family | This family includes prokaryotic L1 and eukaryotic L10. | Domain |
HB [auth RJ] | PF08142 | AARP2CN (NUC121) domain (AARP2CN) | AARP2CN (NUC121) domain | This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU [1]. | Domain |
HB [auth RJ] | PF00004 | ATPase 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 |
IB [auth RK] | PF05189 | RNA 3'-terminal phosphate cyclase (RTC), insert domain (RTC_insert) | RNA 3'-terminal phosphate cyclase (RTC), insert domain | 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 o ... | Domain |
IB [auth RK] | PF01137 | RNA 3'-terminal phosphate cyclase (RTC) | RNA 3'-terminal phosphate cyclase | 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 o ... | Domain |
JB [auth RL], KB [auth RM] | PF13725 | Possible tRNA binding domain (tRNA_bind_2) | Possible tRNA binding domain | - | Family |
JB [auth RL], KB [auth RM] | PF08351 | tRNA(Met) cytidine acetyltransferase TmcA, N-terminal (TmcA_N) | tRNA(Met) cytidine acetyltransferase TmcA, N-terminal | - | Family |
JB [auth RL], KB [auth RM] | PF13718 | GNAT acetyltransferase 2 (GNAT_acetyltr_2) | GNAT acetyltransferase 2 | - | Family |
JB [auth RL], KB [auth RM] | PF05127 | Helicase (Helicase_RecD) | Helicase | This domain contains a P-loop (Walker A) motif, suggesting that it has ATPase activity, and a Walker B motif. In tRNA(Met) cytidine acetyltransferase (TmcA) it may function as an RNA helicase motor (driven by ATP hydrolysis) which delivers the wobble ... | Domain |
LB [auth RN] | PF04147 | Nop14-like family (Nop14) | Nop14-like family | - | Family |
MB [auth RO] | PF03914 | CBF/Mak21 family (CBF) | CBF/Mak21 family | - | Repeat |
NB [auth RP] | PF07539 | U3 small nucleolar RNA-associated protein 20, N-terminal (UTP20_N) | U3 small nucleolar RNA-associated protein 20, N-terminal | - | Repeat |