4EMH | pdb_00004emh

Crystal structure of SpLsm4

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
A	N-glycanase_C	e4emhA2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
B	N-glycanase_C	e4emhB3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
C	N-glycanase_C	e4emhC3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
D	N-glycanase_C	e4emhD3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
E	N-glycanase_C	e4emhE3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
F	N-glycanase_C	e4emhF3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
G	N-glycanase_C	e4emhG3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
H	N-glycanase_C	e4emhH3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
I	N-glycanase_C	e4emhI3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
J	N-glycanase_C	e4emhJ3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
K	N-glycanase_C	e4emhK3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
L	N-glycanase_C	e4emhL3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
M	N-glycanase_C	e4emhM3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
N	N-glycanase_C	e4emhN3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
O	N-glycanase_C	e4emhO3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
P	N-glycanase_C	e4emhP3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
Q	N-glycanase_C	e4emhQ3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
R	N-glycanase_C	e4emhR3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
S [auth T]	N-glycanase_C	e4emhT3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
T [auth U]	N-glycanase_C	e4emhU3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
U [auth V]	Piwi	e4emhV2	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: HTH	T: winged helix domain	F: Piwi	ECOD (v294.1)
V [auth W]	N-glycanase_C	e4emhW3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
W [auth X]	N-glycanase_C	e4emhX3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)
X [auth Y]	N-glycanase_C	e4emhY3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: N-glycanase_C	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Provenance Source (Version)
A	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)
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)
H	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)
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)
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)
P	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)
R	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)
T [auth U]	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)

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 nucleic acid binding U2 snRNA binding	regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic 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 negative regulation of metabolic process regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic 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 negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of gene expression 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 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 membraneless organelle assembly mRNA processing RNA biosynthetic process nucleic acid biosynthetic process RNA processing RNA splicing spliceosomal snRNP assembly nucleobase-containing compound biosynthetic process 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 membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen 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