7QJK | pdb_00007qjk

Crystal structure of PDE6D in complex with Compound-2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth DDD]	SCOP2B Superfamily	E set domains	8055021	3000070	SCOP2B (2022-06-29)
C [auth CCC]	SCOP2B Superfamily	E set domains	8055021	3000070	SCOP2B (2022-06-29)
B [auth AAA]	SCOP2B Superfamily	E set domains	8055021	3000070	SCOP2B (2022-06-29)
A [auth BBB]	SCOP2B Superfamily	E set domains	8055021	3000070	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth DDD]	Sybindin	e7qjkDDD1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Sybindin	ECOD (develop294)
C [auth CCC]	Sybindin	e7qjkCCC1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Sybindin	ECOD (develop294)
B [auth AAA]	Sybindin	e7qjkAAA1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Sybindin	ECOD (develop294)
A [auth BBB]	Peptidase_M4,Peptidase_M4_C	e7qjkBBB1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Peptidase_M4,Peptidase_M4_C	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	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 [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta	GTPase regulator activity enzyme regulator activity GTPase inhibitor activity molecular function inhibitor activity nucleoside-triphosphatase regulator activity molecular function regulator activity enzyme inhibitor activity small GTPase binding protein binding binding enzyme binding GTPase binding	multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane cytosol cell projection cilium plasma membrane bounded cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	IPR017287	Retinal rod rhodopsin-sensitive cGMP 3', 5'-cyclic phosphodiesterase, delta subunit	Family
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	IPR008015	GMP phosphodiesterase, delta subunit	Domain
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	IPR037036	GMP phosphodiesterase, delta subunit superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth BBB], B [auth AAA], C [auth CCC], D [auth DDD]	Pharos: O43924	orofaciodigital syndrome type 6 Joubert syndrome 22 atrial fibrillation Ciliopathies ovarian cancer breast cancer coloboma Sjogren syndrome Joubert syndrome polydactyly

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.