3GQQ | pdb_00003gqq

Crystal structure of the human retinal protein 4 (unc-119 homolog A). Northeast Structural Genomics Consortium target HR3066a

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	GMP_PDE_delta	e3gqqA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)
B	GMP_PDE_delta	e3gqqB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)
C	GMP_PDE_delta	e3gqqC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)
E	GMP_PDE_delta	e3gqqE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)
F	GMP_PDE_delta	e3gqqF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)
D	GMP_PDE_delta	e3gqqD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GMP_PDE_delta	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)
B	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)
C	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)
E	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)
F	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)
D	2.70.50.40	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF05351	GMP-PDE, delta subunit (GMP_PDE_delta)	GMP-PDE, delta subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Protein unc-119 homolog A	binding lipid binding	localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization lipoprotein transport intracellular protein localization lipoprotein localization establishment of localization mitotic cell cycle process cytoskeleton-dependent cytokinesis mitotic cytokinesis cellular process localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization lipoprotein transport intracellular protein localization lipoprotein localization establishment of localization mitotic cell cycle process cytoskeleton-dependent cytokinesis mitotic cytokinesis cellular process cytokinesis cell division cell cycle mitotic cell cycle cell cycle process regulation of localization import into cell regulation of cellular process regulation of cellular component organization negative regulation of biological process negative regulation of transport negative regulation of endocytosis caveolin-mediated endocytosis vesicle-mediated transport cellular component organization negative regulation of cellular process cellular component organization or biogenesis regulation of endocytosis regulation of biological process negative regulation of caveolin-mediated endocytosis negative regulation of cellular component organization regulation of transport biological regulation regulation of vesicle-mediated transport regulation of caveolin-mediated endocytosis endocytosis developmental process multicellular organism development multicellular organismal process anatomical structure development nervous system development system development trans-synaptic signaling synaptic signaling signaling anterograde trans-synaptic signaling cell-cell signaling chemical synaptic transmission cell communication sensory perception of light stimulus system process sensory perception nervous system process visual perception phototransduction cellular response to stimulus detection of light stimulus response to light stimulus detection of external stimulus response to stimulus response to external stimulus detection of abiotic stimulus detection of stimulus response to abiotic stimulus response to radiation signal transduction positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification positive regulation of macromolecule metabolic process phosphorus metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process regulation of molecular function positive regulation of kinase activity regulation of protein tyrosine kinase activity regulation of kinase activity macromolecule modification regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of biological process peptidyl-tyrosine modification positive regulation of molecular function positive regulation of protein modification process positive regulation of peptidyl-tyrosine phosphorylation protein metabolic process positive regulation of protein kinase activity positive regulation of cellular process positive regulation of protein tyrosine kinase activity regulation of peptidyl-tyrosine phosphorylation positive regulation of catalytic activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of phosphorylation peptidyl-tyrosine phosphorylation negative regulation of clathrin-dependent endocytosis clathrin-dependent endocytosis negative regulation of receptor-mediated endocytosis regulation of receptor-mediated endocytosis receptor-mediated endocytosis regulation of clathrin-dependent endocytosis	intercellular bridge cellular anatomical structure intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton spindle midzone centrosome microtubule organizing center intercellular bridge cellular anatomical structure intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton spindle midzone centrosome microtubule organizing center synapse cell junction cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR008015	GMP phosphodiesterase, delta subunit	Domain
A, B, C, D, E A, B, C, D, E, F	IPR051519	PDE6D/unc-119 myristoyl-binding	Family
A, B, C, D, E A, B, C, D, E, F	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037036	GMP phosphodiesterase, delta subunit superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q13432	cone-rod dystrophy retinitis pigmentosa idiopathic CD4 lymphocytopenia idiopathic CD4-positive T-lymphocytopenia medulloblastoma psoriasis retinal degeneration

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.