5MKN | pdb_00005mkn

Crystal structure of SmAP (LSm) protein from Methanococcus vannielii

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
Y [auth Z]	d5mknz_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
X [auth Y]	d5mkny_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
W [auth X]	d5mknx_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
V [auth W]	d5mknw_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
U [auth V]	d5mknv_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
T [auth U]	d5mknu_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
S [auth T]	d5mknt_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
R	d5mknr_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
Q	d5mknq_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
P	d5mknp_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
O	d5mkno_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
N	d5mknn_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
M	d5mknm_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
L	d5mknl_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
K	d5mknk_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
J	d5mknj_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
I	d5mkni_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
H	d5mknh_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
G	d5mkng_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
F	d5mknf_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
E	d5mkne_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
D	d5mknd_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
C	d5mknc_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
B	d5mknb_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)
A	d5mkna_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	(Methanococcus vannielii ) [TaxId: 2187 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
Z [auth a]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
Y [auth Z]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
X [auth Y]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
W [auth X]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
V [auth W]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
U [auth V]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
T [auth U]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
S [auth T]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
BA [auth d]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
AA [auth b]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063440	3000419	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)
Z [auth a]	UQ_con	e5mkna1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
Y [auth Z]	UQ_con	e5mknZ1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
X [auth Y]	UQ_con	e5mknY1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
W [auth X]	UQ_con	e5mknX1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
V [auth W]	UQ_con	e5mknW1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
U [auth V]	UQ_con	e5mknV1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
T [auth U]	UQ_con	e5mknU1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
S [auth T]	UQ_con	e5mknT1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
R	UQ_con	e5mknR1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
Q	UQ_con	e5mknQ1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
P	UQ_con	e5mknP1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
O	UQ_con	e5mknO1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
N	UQ_con	e5mknN1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
M	UQ_con	e5mknM1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
L	UQ_con	e5mknL1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
K	UQ_con	e5mknK1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
J	UQ_con	e5mknJ1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
I	UQ_con	e5mknI1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
H	UQ_con	e5mknH1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
G	UQ_con	e5mknG1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
F	UQ_con	e5mknF1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
E	UQ_con	e5mknE1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
D	UQ_con	e5mknD1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
C	UQ_con	e5mknC1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
BA [auth d]	Peptidase_C14	e5mknd1	A: alpha bundles	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Undecaprenyl diphosphate synthase	F: Peptidase_C14	ECOD (develop294)
B	UQ_con	e5mknB1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
AA [auth b]	UQ_con	e5mknb1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)
A	UQ_con	e5mknA1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Provenance Source (Version)
Z [auth a]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
Y [auth Z]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
X [auth Y]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
W [auth X]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
V [auth W]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
U [auth V]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
T [auth U]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
S [auth T]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
R	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
Q	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
P	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
O	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
N	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
M	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
L	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
K	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
J	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
I	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
H	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
G	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
F	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
E	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
D	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
C	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
BA [auth d]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
B	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
AA [auth b]	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)
A	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, AA [auth b], B, BA [auth d], C, A, AA [auth b], B, BA [auth d], C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S [auth T], T [auth U], U [auth V], V [auth W], W [auth X], X [auth Y], Y [auth Z], Z [auth a]	Like-Sm ribonucleoprotein core	RNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	-	protein-containing complex ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, AA [auth b], B, BA [auth d], C, A, AA [auth b], B, BA [auth d], C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S [auth T], T [auth U], U [auth V], V [auth W], W [auth X], X [auth Y], Y [auth Z], Z [auth a]	IPR001163	Sm domain, eukaryotic/archaea-type	Domain
A, AA [auth b], B, BA [auth d], C, A, AA [auth b], B, BA [auth d], C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S [auth T], T [auth U], U [auth V], V [auth W], W [auth X], X [auth Y], Y [auth Z], Z [auth a]	IPR010920	LSM domain superfamily	Homologous Superfamily
A, AA [auth b], B, BA [auth d], C, A, AA [auth b], B, BA [auth d], C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S [auth T], T [auth U], U [auth V], V [auth W], W [auth X], X [auth Y], Y [auth Z], Z [auth a]	IPR047575	Sm domain	Domain
A, AA [auth b], B, BA [auth d], C, A, AA [auth b], B, BA [auth d], C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S [auth T], T [auth U], U [auth V], V [auth W], W [auth X], X [auth Y], Y [auth Z], Z [auth a]	IPR022901	snRNP Sm-like, putative, archaea	Family