4CMN | pdb_00004cmn

Crystal structure of OCRL in complex with a phosphate ion

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
Membrane Protein Annotation: OPM

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Inositol polyphosphate 5-phosphatase (IPP5)	8064917	4003655	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DNase I-like	8064918	3000957	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)
A	Exo_endo_phos	e4cmnA1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: DNase I-like (From Topology)	T: DNase I-like	F: Exo_endo_phos	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03372	Endonuclease/Exonuclease/phosphatase family (Exo_endo_phos)	Endonuclease/Exonuclease/phosphatase family	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3. ...	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3.1.21.1 e.g. Swiss:P24855, Synaptojanin an inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56 Swiss:O43426, Sphingomyelinase EC:3.1.4.12 Swiss:P11889 and Nocturnin Swiss:O35710.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	INOSITOL POLYPHOSPHATE 5-PHOSPHATASE OCRL-1	small GTPase binding protein binding binding enzyme binding GTPase binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity phosphatidylinositol phosphate phosphatase activity catalytic activity phosphatidylinositol phosphate 4-phosphatase activity GTPase regulator activity enzyme regulator activity small GTPase binding protein binding binding enzyme binding GTPase binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity phosphatidylinositol phosphate phosphatase activity catalytic activity phosphatidylinositol phosphate 4-phosphatase activity GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity inositol trisphosphate phosphatase activity inositol-polyphosphate 5-phosphatase activity inositol phosphate phosphatase activity inositol-1,4,5-trisphosphate 5-phosphatase activity phosphatidylinositol trisphosphate phosphatase activity phosphatidylinositol phosphate 5-phosphatase activity phosphatidylinositol-3,4,5-trisphosphate 5-phosphatase activity phosphatidylinositol bisphosphate phosphatase activity phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity phosphatidylinositol-3,5-bisphosphate phosphatase activity phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity phosphatidylinositol-4,5-bisphosphate phosphatase activity inositol tetrakisphosphate phosphatase activity inositol-1,3,4,5-tetrakisphosphate 5-phosphatase activity	phosphatidylinositol metabolic process dephosphorylation glycerophospholipid metabolic process lipid modification primary metabolic process phospholipid metabolic process organophosphate metabolic process phosphatidylinositol dephosphorylation phospholipid dephosphorylation phosphate-containing compound metabolic process metabolic process cellular process glycerolipid metabolic process phosphorus metabolic process phosphatidylinositol metabolic process dephosphorylation glycerophospholipid metabolic process lipid modification primary metabolic process phospholipid metabolic process organophosphate metabolic process phosphatidylinositol dephosphorylation phospholipid dephosphorylation phosphate-containing compound metabolic process metabolic process cellular process glycerolipid metabolic process phosphorus metabolic process lipid metabolic process polyol metabolic process alcohol metabolic process small molecule metabolic process inositol phosphate metabolic process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation signal transduction cell communication 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 component organization or biogenesis cilium organization cell projection assembly developmental process multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development in utero embryonic development glycerophospholipid biosynthetic process lipid biosynthetic process phospholipid biosynthetic process phosphatidylinositol biosynthetic process biosynthetic process glycerolipid biosynthetic process organophosphate biosynthetic process membrane organization	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle Golgi stack membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle Golgi stack cytoplasm clathrin-coated pit membrane intracellular vesicle cytoplasmic vesicle clathrin-coated vesicle coated vesicle vesicle Golgi-associated vesicle intracellular membraneless organelle centrosome microtubule organizing center cytoskeleton centriolar satellite membraneless organelle microtubule cytoskeleton cytosol cell periphery plasma membrane lytic vacuole vacuole lysosome non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor outer segment photoreceptor cell cilium early endosome endosome phagocytic vesicle phagocytic vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane endocytic vesicle membrane organelle membrane endocytic vesicle trans-Golgi network endosome membrane early endosome membrane ciliary basal body nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR037793	OCRL1/INPP5B, INPP5c domain	Domain
A	IPR037787	OCRL1, PH domain	Domain
A	IPR031995	Inositol polyphosphate 5-phosphatase, clathrin binding domain	Domain
A	IPR048869	OCRL-1/2, ASH domain	Domain
A	IPR008936	Rho GTPase activation protein	Homologous Superfamily
A	IPR000198	Rho GTPase-activating protein domain	Domain
A	IPR000300	Inositol polyphosphate-related phosphatase	Domain
A	IPR047078	Inositol polyphosphate 5-phosphatase OCRL, RhoGAP	Domain
A	IPR046985	Inositol 5-phosphatase	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q01968	oculocerebrorenal syndrome Dent disease type 2 Dent disease cataract Dent disease type 1 leukodystrophy congenital anomaly of kidney and urinary tract lung cancer osteosarcoma intellectual disability lung carcinoma Phosphatidylinositol 4,5-Bisphosphate 5-Phosphatase Deficiency

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Monotopic/peripheral	Alpha + Beta monotopic/peripheral	DNase I-like	Endonuclease/exonuclease/phosphatase family

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.