2F5K | pdb_00002f5k

Crystal structure of the chromo domain of human MRG15

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d2f5kf_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d2f5ke_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2f5kd_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2f5kc_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2f5kb_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2f5ka1	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo barrel domain	Mortality factor 4-like protein 1, MRG15	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Chromo barrel domain	8028261	4003139	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Chromo domain-like	8040640	3000161	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Tudor-knot_1	e2f5kF1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)
E	Tudor-knot_1	e2f5kE1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)
D	Tudor-knot_1	e2f5kD1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)
C	Tudor-knot_1	e2f5kC1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)
B	Tudor-knot_1	e2f5kB1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)
A	Tudor-knot_1	e2f5kA1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Tudor-knot_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
E	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
D	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
C	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
B	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
A	2.30.30.140	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	PF11717	RNA binding activity-knot of a chromodomain (Tudor-knot)	RNA binding activity-knot of a chromodomain	-	Family
A, B, C, D, E A, B, C, D, E, F	PF22732	MSL3 chromodomain-like (MSL3_chromo-like)	MSL3 chromodomain-like	This domain is found in Male-specific lethal-3 (MSL3) and other related proteins such as MRG15 transcription factor. MSL3 resides in the MSL (male-specific lethal) complex, which upregulates transcription by spreading the histone H4 Lys16 acetyl mark ...	This domain is found in Male-specific lethal-3 (MSL3) and other related proteins such as MRG15 transcription factor. MSL3 resides in the MSL (male-specific lethal) complex, which upregulates transcription by spreading the histone H4 Lys16 acetyl mark. The MSL3 chromo domain implicated in chromatin targeting and its deletion leads to the disruption of MSL targeting. The MRG15 chromo domain is involved in chromatin remodelling and transcription regulation. This domain consists of a SH3-like beta-barrel and a long alpha-helix.	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	Mortality factor 4-like protein 1	chromatin binding binding	cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus regulation of double-strand break repair regulation of cellular response to stress positive regulation of biological process positive regulation of double-strand break repair via homologous recombination regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair cellular response to stress response to stress cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus regulation of double-strand break repair regulation of cellular response to stress positive regulation of biological process positive regulation of double-strand break repair via homologous recombination regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair cellular response to stress response to stress regulation of response to stress recombinational repair positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process double-strand break repair via homologous recombination positive regulation of cellular process DNA repair positive regulation of DNA recombination double-strand break repair regulation of biological process DNA recombination biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process positive regulation of double-strand break repair regulation of DNA repair regulation of double-strand break repair via homologous recombination positive regulation of DNA metabolic process DNA damage response regulation of response to stimulus metabolic process cellular process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process fibroblast proliferation cell population proliferation positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process regulation of RNA biosynthetic process regulation of biosynthetic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death cell cycle regulation of cell cycle cellular component organization chromatin organization cellular component organization or biogenesis	protein-containing complex intracellular anatomical structure catalytic complex NuA4 histone acetyltransferase complex intracellular membraneless organelle chromatin chromosome transferase complex H4/H2A histone acetyltransferase complex histone acetyltransferase complex acetyltransferase complex H4 histone acetyltransferase complex intracellular organelle cellular anatomical structure protein-containing complex intracellular anatomical structure catalytic complex NuA4 histone acetyltransferase complex intracellular membraneless organelle chromatin chromosome transferase complex H4/H2A histone acetyltransferase complex histone acetyltransferase complex acetyltransferase complex H4 histone acetyltransferase complex intracellular organelle cellular anatomical structure organelle membraneless organelle protein acetyltransferase complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule nuclear body nucleoplasm organelle lumen supramolecular complex nuclear ribonucleoprotein granule nuclear lumen Sin3-type complex nuclear protein-containing complex nuclear chromosome histone deacetylase complex protein-DNA complex nucleosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR016197	Chromo-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR025995	RNA binding activity-knot of a chromodomain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR008676	MRG	Family
A, B, C, D, E A, B, C, D, E, F	IPR026541	MRG domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR038217	MRG, C-terminal domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q9UBU8	adenoid cystic carcinoma salivary gland adenoid cystic carcinoma lung carcinoma skin basal cell carcinoma heart disease myocardial infarction small cell lung carcinoma lung adenocarcinoma squamous cell lung carcinoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.