4EMH

Crystal structure of SpLsm4

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d4emhb_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
H	d4emhh_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
J	d4emhj_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
K	d4emhk_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
L	d4emhl_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
P	d4emhp_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
R	d4emhr_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
T [auth U]	d4emhu_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
A	d4emha_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
C	d4emhc_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
D	d4emhd_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
E	d4emhe_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
F	d4emhf_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
G	d4emhg_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
I	d4emhi_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
M	d4emhm_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
N	d4emhn_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
O	d4emho_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
Q	d4emhq_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
S [auth T]	d4emht_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
U [auth V]	d4emhv_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
V [auth W]	d4emhw_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
W [auth X]	d4emhx_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)
X [auth Y]	d4emhy_	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	automated matches	automated matches	Fission yeast (Schizosaccharomyces pombe 972h- ) [TaxId: 284812 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	LSM	e4emhB3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
H	LSM	e4emhH3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
J	LSM	e4emhJ3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
K	LSM	e4emhK3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
L	LSM	e4emhL3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
P	LSM	e4emhP3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
R	LSM	e4emhR3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
T [auth U]	LSM	e4emhU3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
A	LSM	e4emhA2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
C	LSM	e4emhC3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
D	LSM	e4emhD3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
E	LSM	e4emhE3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
F	LSM	e4emhF3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
G	LSM	e4emhG3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
I	LSM	e4emhI3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
M	LSM	e4emhM3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
N	LSM	e4emhN3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
O	LSM	e4emhO3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
Q	LSM	e4emhQ3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
S [auth T]	LSM	e4emhT3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
U [auth V]	LSM	e4emhV2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
V [auth W]	LSM	e4emhW3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
W [auth X]	LSM	e4emhX3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
X [auth Y]	LSM	e4emhY3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Provenance Source (Version)
B	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)
J	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)
L	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)
R	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)
A	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)
D	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)
F	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)
I	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)
N	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)
Q	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)
U [auth V]	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)
W [auth X]	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E, A, B, 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]	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, B, C, D, E, A, B, 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]	Probable U6 snRNA-associated Sm-like protein LSm4	RNA binding U6 snRNA binding snRNA binding binding organic cyclic compound binding nucleic acid binding U2 snRNA binding	regulation of cellular process catabolic process cellular biosynthetic process negative regulation of biological process RNA metabolic process negative regulation of cellular metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of cellular process catabolic process cellular biosynthetic process negative regulation of biological process RNA metabolic process negative regulation of cellular metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process nuclear-transcribed mRNA catabolic process regulation of biological process cellular metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process negative regulation of cellular biosynthetic process nucleic acid metabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process regulation of cellular biosynthetic process regulation of gene expression organic cyclic compound metabolic process negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process organic substance catabolic process ribonucleoprotein complex biogenesis telomerase holoenzyme complex assembly protein-containing complex organization protein-RNA complex assembly cellular component organization cellular component biogenesis protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis organelle organization organelle assembly P-body assembly non-membrane-bounded organelle assembly mRNA processing RNA processing RNA splicing spliceosomal snRNP assembly RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile RNA folding	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle spliceosomal snRNP complex protein-containing complex U6 snRNP nuclear protein-containing complex Sm-like protein family complex small nuclear ribonucleoprotein complex ribonucleoprotein complex catalytic complex telomerase holoenzyme complex U2 snRNP cytoplasm cytosol Lsm1-7-Pat1 complex U4/U6 x U5 tri-snRNP complex spliceosomal tri-snRNP complex Lsm2-8 complex spliceosomal complex U5 snRNP cytoplasmic ribonucleoprotein granule ribonucleoprotein granule supramolecular complex P-body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E, A, B, 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]	IPR027141	Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3	Family
A, B, C, D, E, A, B, 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]	IPR034101	Sm-like protein Lsm4	Domain
A, B, C, D, E, A, B, 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]	IPR001163	Sm domain, eukaryotic/archaea-type	Domain
A, B, C, D, E, A, B, 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]	IPR047575	Sm domain	Domain
A, B, C, D, E, A, B, 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]	IPR010920	LSM domain superfamily	Homologous Superfamily