5MKL | pdb_00005mkl

Crystal structure of SmAP (LSm) protein from Sulfolobus acidocaldarius

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
Z [auth E4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
Y [auth D4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
X [auth C4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
W [auth B4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
V [auth A4]	SCOP2 Family	Sm motif of small nuclear ribonucleoproteins, SNRNP	8063449	4001809	SCOP2 (2022-06-29)
V [auth A4]	SCOP2 Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2 (2022-06-29)
U [auth G3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
T [auth F3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
S [auth E3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
R [auth D3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
Q [auth C3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
P [auth B3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
O [auth A3]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
N [auth G2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
M [auth F2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
L [auth E2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
K [auth D2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
J [auth C2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
I [auth B2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
H [auth A2]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
G [auth G1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
F [auth F1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
E [auth E1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
D [auth D1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
C [auth C1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
BA [auth G4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
B [auth B1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
AA [auth F4]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	3000419	SCOP2B (2022-06-29)
A [auth A1]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8063450	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 E4]	LSM	e5mklE41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
Y [auth D4]	LSM	e5mklD41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
X [auth C4]	LSM	e5mklC41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
W [auth B4]	LSM	e5mklB41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
V [auth A4]	LSM	e5mklA41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
U [auth G3]	LSM	e5mklG31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
T [auth F3]	LSM	e5mklF31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
S [auth E3]	LSM	e5mklE31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
R [auth D3]	LSM	e5mklD31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
Q [auth C3]	LSM	e5mklC31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
P [auth B3]	LSM	e5mklB31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
O [auth A3]	LSM	e5mklA31	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
N [auth G2]	LSM	e5mklG21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
M [auth F2]	LSM	e5mklF21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
L [auth E2]	LSM	e5mklE21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
K [auth D2]	LSM	e5mklD21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
J [auth C2]	LSM	e5mklC21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
I [auth B2]	LSM	e5mklB21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
H [auth A2]	LSM	e5mklA21	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
G [auth G1]	LSM	e5mklG11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
F [auth F1]	LSM	e5mklF11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
E [auth E1]	LSM	e5mklE11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
D [auth D1]	LSM	e5mklD11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
C [auth C1]	LSM	e5mklC11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
BA [auth G4]	LSM	e5mklG41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
B [auth B1]	LSM	e5mklB11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
AA [auth F4]	LSM	e5mklF41	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
A [auth A1]	LSM	e5mklA11	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	PF01423	LSM domain (LSM)	LSM domain	The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...	The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	Sm ribonucleo	RNA binding binding nucleic acid binding	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome metabolic process cellular process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process RNA processing	protein-containing complex ribonucleoprotein complex Sm-like protein family complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	IPR001163	Sm domain, eukaryotic/archaea-type	Domain
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	IPR016487	Sm-like protein Lsm6/SmF	Family
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	IPR010920	LSM domain superfamily	Homologous Superfamily
A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], A [auth A1], AA [auth F4], B [auth B1], BA [auth G4], C [auth C1], D [auth D1], E [auth E1], F [auth F1], G [auth G1], H [auth A2], I [auth B2], J [auth C2], K [auth D2], L [auth E2], M [auth F2], N [auth G2], O [auth A3], P [auth B3], Q [auth C3], R [auth D3], S [auth E3], T [auth F3], U [auth G3], V [auth A4], W [auth B4], X [auth C4], Y [auth D4], Z [auth E4]	IPR047575	Sm domain	Domain

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.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 5MKL | pdb_00005mkl

Crystal structure of SmAP (LSm) protein from Sulfolobus acidocaldarius

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

5MKL | pdb_00005mkl