3V53 | pdb_00003v53

Crystal structure of human RBM25

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	PWI domain	8087271	3000964	SCOP2B (2022-06-29)
D	SCOP2 Family	PWI domain	8087270	4000671	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	PWI domain	8087271	3000964	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	PWI domain	8087271	3000964	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PWI domain	8087271	3000964	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PWI domain	8087271	3000964	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)
E	Acetyltransf_1	e3v53E2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Acetyltransf_1	ECOD (v294.1)
D	Acetyltransf_1	e3v53D2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Acetyltransf_1	ECOD (v294.1)
C	Acetyltransf_1	e3v53C2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Acetyltransf_1	ECOD (v294.1)
B		e3v53B1	A: a/b three-layered sandwiches	X: Globin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F:	ECOD (v294.1)
A	Acetyltransf_1	e3v53A2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Acetyltransf_1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	1.20.1390.10	Mainly Alpha	Up-down Bundle	PWI domain	PWI domain	CATH (4.3.0)
D	1.20.1390.10	Mainly Alpha	Up-down Bundle	PWI domain	PWI domain	CATH (4.3.0)
C	1.20.1390.10	Mainly Alpha	Up-down Bundle	PWI domain	PWI domain	CATH (4.3.0)
B	1.20.1390.10	Mainly Alpha	Up-down Bundle	PWI domain	PWI domain	CATH (4.3.0)
A	1.20.1390.10	Mainly Alpha	Up-down Bundle	PWI domain	PWI domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF01480	PWI domain (PWI)	PWI domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	RNA-binding protein 25	RNA binding binding nucleic acid binding mRNA binding	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA processing RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA processing macromolecule metabolic process regulation of cellular process alternative mRNA splicing, via spliceosome regulation of mRNA splicing, via spliceosome mRNA processing regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biosynthetic process regulation of mRNA processing regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of RNA splicing mRNA metabolic process regulation of gene expression RNA splicing, via transesterification reactions regulation of alternative mRNA splicing, via spliceosome mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of macromolecule biosynthetic process regulation of mRNA metabolic process regulation of metabolic process regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR000504	RNA recognition motif domain	Domain
A, B, C, D, E	IPR002483	PWI domain	Domain
A, B, C, D, E	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR052768	RNA-binding protein 25	Family
A, B, C, D, E	IPR036483	PWI domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR034268	RBM25, RNA recognition motif	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E	Pharos: P49756	primitive neuroectodermal tumor acute myeloid leukemia breast cancer glioblastoma lymphoplasmacytic lymphoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia progressive supranuclear palsy Alzheimer disease dermatomyositis juvenile dermatomyositis malignant ependymoma myopathy pancreatic ductal adenocarcinoma primitive neuroectodermal tumor acute myeloid leukemia breast cancer glioblastoma lymphoplasmacytic lymphoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia progressive supranuclear palsy Alzheimer disease dermatomyositis juvenile dermatomyositis malignant ependymoma myopathy pancreatic ductal adenocarcinoma Pick disease rheumatoid arthritis astrocytic tumor exocrine pancreatic carcinoma lung adenocarcinoma malignant pancreatic neoplasm oligodendroglioma pancreatic intraductal papillary-mucinous 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.