3BXJ | pdb_00003bxj

Crystal Structure of the C2-GAP Fragment of synGAP

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	p120 RasGAP domain-like	8018886	4001262	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	GTPase activation domain, GAP	8057928	3001163	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	GTPase activation domain, GAP	8057928	3001163	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)
B	Me-amine-dh_H	e3bxjB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
A	4HBT_2	e3bxjA1	A: a/b three-layered sandwiches	X: Profilin-like	H: sensor domains	T: sensor domains	F: 4HBT_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.20.170.10	Mainly Beta	Single Sheet	GTPase activation domain, GAP fold	p120GAP domain-like	CATH (4.3.0)
B	1.10.506.20	Mainly Alpha	Orthogonal Bundle	GTPase Activation - p120GAP	domain 1	CATH (4.3.0)
B	1.10.506.10	Mainly Alpha	Orthogonal Bundle	GTPase Activation - p120GAP	domain 1	CATH (4.3.0)
A	2.20.170.10	Mainly Beta	Single Sheet	GTPase activation domain, GAP fold	p120GAP domain-like	CATH (4.3.0)
A	1.10.506.20	Mainly Alpha	Orthogonal Bundle	GTPase Activation - p120GAP	domain 1	CATH (4.3.0)
A	1.10.506.10	Mainly Alpha	Orthogonal Bundle	GTPase Activation - p120GAP	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00616	GTPase-activator protein for Ras-like GTPase (RasGAP)	GTPase-activator protein for Ras-like GTPase	-	Family
A, B	PF00168	C2 domain (C2)	C2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Ras GTPase-activating protein SynGAP	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity SH3 domain binding protein binding binding protein domain specific binding kinase binding enzyme binding protein kinase binding	biological regulation regulation of synapse structure or activity regulation of biological quality developmental process multicellular organism development multicellular organismal process anatomical structure development pattern specification process cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process response to stimulus signaling biological regulation regulation of synapse structure or activity regulation of biological quality developmental process multicellular organism development multicellular organismal process anatomical structure development pattern specification process cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process response to stimulus signaling regulation of signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication cellular process signal transduction regulation of MAPK cascade intracellular signaling cassette MAPK cascade small GTPase-mediated signal transduction negative regulation of signaling regulation of small GTPase mediated signal transduction negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of cell communication regulation of Ras protein signal transduction negative regulation of cellular process negative regulation of response to stimulus Ras protein signal transduction negative regulation of small GTPase mediated signal transduction negative regulation of signal transduction negative regulation of Ras protein signal transduction response to light stimulus system process learning learning or memory nervous system process visual learning visual behavior cognition associative learning behavior response to radiation response to abiotic stimulus neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death regulation of neuron apoptotic process regulation of neuronal synaptic plasticity regulation of synaptic plasticity trans-synaptic signaling regulation of long-term neuronal synaptic plasticity modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development cellular component organization generation of neurons neurogenesis neuron differentiation dendrite development cell differentiation neuron development cellular component organization or biogenesis system development axonogenesis regulation of cell differentiation regulation of neurogenesis regulation of cell development cell projection morphogenesis neuron projection morphogenesis negative regulation of cellular component organization regulation of cell projection organization negative regulation of axonogenesis negative regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization regulation of developmental process plasma membrane bounded cell projection morphogenesis cell morphogenesis regulation of nervous system development negative regulation of neurogenesis regulation of axonogenesis negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation negative regulation of cell projection organization regulation of anatomical structure morphogenesis regulation of multicellular organismal development negative regulation of developmental process axon development negative regulation of neuron projection development cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis negative regulation of cell development regulation of plasma membrane bounded cell projection organization localization cellular localization receptor clustering macromolecule localization intracellular protein localization localization within membrane protein localization to membrane maintenance of synapse structure postsynapse organization cellular component maintenance cell junction maintenance organelle organization cell junction organization maintenance of postsynaptic specialization structure postsynaptic density organization synapse organization postsynaptic specialization organization	cellular anatomical structure membrane cell periphery plasma membrane synapse cell junction glutamatergic synapse somatodendritic compartment cell projection dendrite dendritic tree neuron projection dendritic shaft plasma membrane bounded cell projection cellular anatomical structure membrane cell periphery plasma membrane synapse cell junction glutamatergic synapse somatodendritic compartment cell projection dendrite dendritic tree neuron projection dendritic shaft plasma membrane bounded cell projection postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization organelle asymmetric synapse postsynaptic density, intracellular component intracellular anatomical structure intracellular membraneless organelle postsynaptic specialization, intracellular component intracellular organelle membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001849	Pleckstrin homology domain	Domain
A, B	IPR021887	Disabled homolog 2-interacting protein, C-terminal domain	Domain
A, B	IPR000008	C2 domain	Domain
A, B	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B	IPR039360	Ras GTPase-activating protein	Family
A, B	IPR008936	Rho GTPase activation protein	Homologous Superfamily
A, B	IPR001936	Ras GTPase-activating domain	Domain
A, B	IPR057606	Ras/Rap GTPase-activating protein SynGAP-like, PH domain	Domain
A, B	IPR023152	Ras GTPase-activating protein, conserved site	Conserved Site
A, B	IPR037779	SynGAP, PH domain	Domain
A, B	IPR035892	C2 domain superfamily	Homologous Superfamily

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.