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)
A	RCC1	e4qamA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: RCC1	ECOD (1.6)
B	RID_RPGRIP1	e4qamB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: C2 domain (From Topology)	T: C2 domain	F: RID_RPGRIP1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00415	Regulator of chromosome condensation (RCC1) repeat (RCC1)	Regulator of chromosome condensation (RCC1) repeat	-	Repeat
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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 proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process cellular process macromolecule metabolic process protein metabolic process cellular localization catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process cellular process macromolecule metabolic process protein metabolic process cellular localization establishment of protein localization nitrogen compound transport 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 organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system ciliary transition zone non-motile cilium 9+0 non-motile cilium cilium neuron projection membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system ciliary transition zone non-motile cilium 9+0 non-motile cilium cilium neuron projection plasma membrane bounded cell projection cell projection photoreceptor cell cilium photoreceptor connecting cilium centrosome microtubule organizing center cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton 9+2 motile cilium sperm flagellum motile cilium ciliary basal body photoreceptor outer segment
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 cell population proliferation neural precursor cell proliferation developmental process multicellular organismal process sensory organ development eye development animal organ development retina development in camera-type eye visual system development multicellular organism development camera-type eye development anatomical structure development sensory system development system development sensory perception of light stimulus system process sensory perception nervous system process visual perception cellular developmental process photoreceptor cell differentiation cell development eye morphogenesis neurogenesis neuron differentiation cell differentiation eye photoreceptor cell differentiation animal organ morphogenesis photoreceptor cell development eye photoreceptor cell development nervous system development generation of neurons anatomical structure morphogenesis sensory organ morphogenesis neuron development	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 cytoplasmic region plasma membrane bounded cell projection cytoplasm intracellular 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 cytoplasmic region plasma membrane bounded cell projection cytoplasm 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 photoreceptor distal connecting cilium intracellular membrane-bounded organelle microtubule cytoskeleton

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
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 blindness (disorder) Usher syndrome ciliopathy lung adenocarcinoma
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

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.