4QAM | pdb_00004qam

Crystal Structure of the RPGR RCC1-like domain in complex with the RPGR-interacting domain of RPGRIP1

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	ACT_7	e4qamB1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Hairpin loop containing domain-like	T: ACT-like	F: ACT_7	ECOD (develop294)
A	Acetyltransf_1	e4qamA1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Ribosomal protein L14-related	T: Ribosomal protein L14-related	F: Acetyltransf_1	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
A	2.130.10.30	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF18111	Retinitis pigmentosa G-protein regulator interacting C-terminal (RPGR1_C)	Retinitis pigmentosa G-protein regulator interacting C-terminal	This is the C-terminal domain of retinitis pigmentosa G-protein regulator (RPGR) interacting protein-1 present in Homo sapiens. A mutation in RPGR interacting protein-1 can be observed in the eye disease Leber congenital amaurosis. The domain is comm ...	This is the C-terminal domain of retinitis pigmentosa G-protein regulator (RPGR) interacting protein-1 present in Homo sapiens. A mutation in RPGR interacting protein-1 can be observed in the eye disease Leber congenital amaurosis. The domain is commonly known as the RPGR-interacting domain (RID) and is thought to have a C2-like fold [1].	Domain
A	PF25390	RCC1-like domain (WD40_RLD)	RCC1-like domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	X-linked retinitis pigmentosa GTPase regulator-interacting protein 1	-	organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component organization organelle organization cellular component assembly cilium assembly cellular process cellular component organization or biogenesis non-motile cilium assembly cilium organization cell projection assembly organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component organization organelle organization cellular component assembly cilium assembly cellular process cellular component organization or biogenesis non-motile cilium assembly cilium organization cell projection assembly multicellular organismal process cellular developmental process sensory organ development photoreceptor cell differentiation visual system development retina development in camera-type eye cell development neural retina development eye morphogenesis multicellular organism development neurogenesis neuron differentiation cell differentiation retinal rod cell development eye photoreceptor cell differentiation anatomical structure development animal organ morphogenesis sensory system development system development photoreceptor cell development developmental process camera-type eye morphogenesis eye development eye photoreceptor cell development animal organ development nervous system development camera-type eye photoreceptor cell differentiation generation of neurons retina morphogenesis in camera-type eye anatomical structure morphogenesis sensory organ morphogenesis neuron development camera-type eye development retinal rod cell differentiation cell population proliferation neural precursor cell proliferation sensory perception of light stimulus system process sensory perception nervous system process visual perception	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intercellular bridge intracellular anatomical structure axoneme ciliary plasm intracellular membraneless organelle intracellular organelle cytoskeleton membraneless organelle membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intercellular bridge intracellular anatomical structure axoneme ciliary plasm intracellular membraneless organelle intracellular organelle cytoskeleton membraneless organelle cytoplasm ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium photoreceptor connecting cilium cytosol ciliary tip photoreceptor distal connecting cilium microtubule cytoskeleton
A	X-linked retinitis pigmentosa GTPase regulator	GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity RNA binding binding nucleic acid binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity RNA binding binding nucleic acid binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular localization establishment of protein localization transport catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport plasma membrane bounded cell projection organization cell projection organization cellular component organization organelle organization microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process cellular component organization or biogenesis cilium organization intraciliary transport multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception protein localization to cilium protein localization to organelle protein localization to non-motile cilium protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal cellular developmental process sensory organ development photoreceptor cell differentiation visual system development cell development eye morphogenesis multicellular organism development neurogenesis neuron differentiation cell differentiation eye photoreceptor cell differentiation anatomical structure development animal organ morphogenesis sensory system development system development photoreceptor cell development developmental process eye photoreceptor cell development eye development animal organ development nervous system development generation of neurons anatomical structure morphogenesis sensory organ morphogenesis neuron development positive regulation of autophagy regulation of biological process regulation of cellular process autophagy biological regulation positive regulation of biological process regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process process utilizing autophagic mechanism regulation of metabolic process positive regulation of cellular process organelle assembly plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly cilium assembly cell projection assembly	membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cellular anatomical structure cytoskeleton organelle membraneless organelle cytoplasm membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cellular anatomical structure cytoskeleton organelle membraneless organelle cytoplasm Golgi apparatus intracellular membrane-bounded organelle endomembrane system ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium photoreceptor connecting cilium centrosome microtubule organizing center microtubule cytoskeleton 9+2 motile cilium sperm flagellum motile cilium ciliary basal body photoreceptor outer segment

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR041091	RPGRIP1, C-terminal	Domain
B	IPR021656	RPGR-interacting protein 1, first C2 domain	Domain
B	IPR000008	C2 domain	Domain
B	IPR035892	C2 domain superfamily	Homologous Superfamily
B	IPR031139	RPGRIP1 family	Family
A	IPR000408	Regulator of chromosome condensation, RCC1	Repeat
A	IPR009091	Regulator of chromosome condensation 1/beta-lactamase-inhibitor protein II	Homologous Superfamily
A	IPR051625	Diverse Signaling and Regulatory Domain-Containing Protein	Family
A	IPR058923	RCC1-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q96KN7	Leber congenital amaurosis cone-rod dystrophy cone-rod dystrophy 13 retinitis pigmentosa inherited retinal dystrophy Leber congenital amaurosis 6 spontaneous ocular nystagmus pathologic nystagmus dissociated nystagmus Meckel syndrome Pendular Nystagmus medulloblastoma osteosarcoma retinal degeneration glaucoma
A	Pharos: Q92834	retinitis pigmentosa retinal degeneration primary ciliary dyskinesia-retinitis pigmentosa syndrome cone-rod dystrophy inherited retinal dystrophy macular degeneration, X-linked atrophic X-linked cone-rod dystrophy 1 retinitis pigmentosa 3 achromatopsia primary ciliary dyskinesia age-related macular degeneration hearing loss disorder non-small cell lung carcinoma Polynesian Bronchiectasis psoriasis retinitis pigmentosa retinal degeneration primary ciliary dyskinesia-retinitis pigmentosa syndrome cone-rod dystrophy inherited retinal dystrophy macular degeneration, X-linked atrophic X-linked cone-rod dystrophy 1 retinitis pigmentosa 3 achromatopsia primary ciliary dyskinesia age-related macular degeneration hearing loss disorder non-small cell lung carcinoma Polynesian Bronchiectasis psoriasis tuberculosis breast cancer cone dystrophy lung cancer malignant ependymoma osteosarcoma choroideremia Leber congenital amaurosis macular degeneration night blindness pituitary cancer respiratory tract infectious disease Usher syndrome blindness (disorder) ciliopathy lung adenocarcinoma

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.