5MF9 | pdb_00005mf9

Solution structure of the RBM5 OCRE domain in complex with polyproline SmN peptide.

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Ribosomal_L29	e5mf9A1	A: a/b three-layered sandwiches	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p)	T: Ribosomal protein L29 (L29p)	F: Ribosomal_L29	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF17780	OCRE domain (OCRE)	OCRE domain	The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with 12 tyrosine residues in the spliceosome trans-regulatory elements RBM5 and RBM10 (RBM [RNA-binding motif]), which are known to regulate alternative splicing of Fas and B ...	The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with 12 tyrosine residues in the spliceosome trans-regulatory elements RBM5 and RBM10 (RBM [RNA-binding motif]), which are known to regulate alternative splicing of Fas and Bcl-x pre-mRNA transcripts [1]. The structure of the domain consists of an anti-parallel arrangement of six beta strands.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Survival motor neuron protein	RNA binding binding nucleic acid binding identical protein binding protein binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process ribonucleoprotein complex biogenesis mRNA processing 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 RNA processing RNA splicing protein-containing complex organization spliceosomal snRNP assembly mRNA metabolic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile spliceosomal complex assembly developmental process multicellular organism development multicellular organismal process anatomical structure development nervous system development system development	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body intracellular anatomical structure intracellular membraneless organelle Z disc sarcomere intracellular organelle I band organelle membraneless organelle contractile muscle fiber somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body intracellular anatomical structure intracellular membraneless organelle Z disc sarcomere intracellular organelle I band organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen nuclear lumen Gemini of Cajal bodies cell projection neuron projection plasma membrane bounded cell projection SMN-Sm protein complex protein-containing complex Sm-like protein family complex cytoplasmic ribonucleoprotein granule ribonucleoprotein granule Cajal body nuclear ribonucleoprotein granule SMN complex axon
A	RNA-binding protein 5	RNA binding binding nucleic acid binding DNA binding mRNA binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of cellular process alternative mRNA splicing, via spliceosome RNA metabolic process regulation of mRNA splicing, via spliceosome mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process RNA processing regulation of nucleobase-containing compound metabolic process regulation of biosynthetic process regulation of mRNA processing regulation of cellular process alternative mRNA splicing, via spliceosome RNA metabolic process regulation of mRNA splicing, via spliceosome mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process RNA processing regulation of nucleobase-containing compound metabolic process regulation of biosynthetic process regulation of mRNA processing RNA splicing regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of RNA splicing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process RNA splicing, via transesterification reactions regulation of alternative mRNA splicing, via spliceosome mRNA splicing, via spliceosome metabolic process cellular process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of mRNA metabolic process regulation of metabolic process apoptotic process cell death programmed cell death positive regulation of programmed cell death regulation of apoptotic process positive regulation of biological process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cellular process ribonucleoprotein complex biogenesis protein-RNA complex assembly cellular component organization cellular component biogenesis spliceosomal complex assembly protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation negative regulation of cellular process negative regulation of biological process	sperm end piece membrane-bounded organelle cell projection cellular anatomical structure organelle cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection intracellular organelle microtubule organizing center intracellular anatomical structure cytoskeleton sperm end piece membrane-bounded organelle cell projection cellular anatomical structure organelle cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection intracellular organelle microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle centriole intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol sperm principal piece perinuclear theca perinuclear region of cytoplasm sperm midpiece nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex nuclear protein-containing complex spliceosomal complex ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR002999	Tudor domain	Domain
B	IPR047313	Survival motor neuron protein, C-terminal oligomerization domain	Domain
B	IPR049481	Survival Motor Neuron, Gemin2-binding domain	Domain
B	IPR010304	Survival motor neuron, Tudor domain	Domain
B	IPR047298	Survival motor neuron protein, Tudor domain, eumetazoa	Domain
B	IPR040424	SMN complex subunit Smn1	Family
A	IPR013087	Zinc finger C2H2-type	Domain
A	IPR034993	RNA-binding protein 5, RNA recognition motif 2	Domain
A	IPR000467	G-patch domain	Domain
A	IPR036443	Zinc finger, RanBP2-type superfamily	Homologous Superfamily
A	IPR000504	RNA recognition motif domain	Domain
A	IPR041591	OCRE domain	Domain
A	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A	IPR001876	Zinc finger, RanBP2-type	Domain
A	IPR034991	RNA-binding protein 5, RNA recognition motif 1	Domain
A	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q16637	spinal muscular atrophy, type III spinal muscular atrophy amyotrophic lateral sclerosis Spinal muscular atrophy 4 spinal muscular atrophy, type 1 spinal muscular atrophy, type IV neurodegenerative disease progressive muscular atrophy spinal muscular atrophy, type II muscular atrophy peripheral neuropathy Charcot-Marie-Tooth disease
A	Pharos: P52756	astrocytic tumor Gaucher disease metabolic syndrome X ovarian cancer Pick disease attention deficit hyperactivity disorder, inattentive type interstitial lung disease oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma progressive supranuclear palsy breast cancer malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis

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.