Annotations: 3OKY

Plexin A2 in complex with Semaphorin 6A

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	Sema domain-like	8098143	4000934	SCOP2 (2022-06-29)
B	SCOP2 Family	Plexin repeat-like	8101119	4001807	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Sema domain-like	8098144	3000180	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Plexin repeat-like	8101120	3000415	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)
B	Cbl_N3	e3okyB1	A: beta barrels	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Cbl_N3	ECOD (v294.2)
A	GtfB_M	e3okyA1	A: beta barrels	X: CXXC domain-like	H: CXXC domain	T: CXXC domain	F: GtfB_M	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
B	3.30.1680.10	Alpha Beta	2-Layer Sandwich	ligand-binding face of the semaphorins, domain 2	ligand-binding face of the semaphorins, domain 2	CATH (4.3.0)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF01437	Plexin repeat (PSI)	Plexin repeat	A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin (Swiss:P70206) [1]. Two copies of the repeat are found in mahogany protein. A related C. el ...	A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin (Swiss:P70206) [1]. Two copies of the repeat are found in mahogany protein. A related C. elegans protein (Swiss:Q19981) contains four copies of the repeat. The Met receptor contains a single copy of the repeat. The Pfam alignment shows 6 conserved cysteine residues that may form three conserved disulphide bridges, whereas [1] shows 8 conserved cysteines. The pattern of conservation suggests that cysteines 5 and 7 (that are not absolutely conserved) form a disulphide bridge (Personal observation. A Bateman).	Domain
B	PF01403	Sema domain (Sema)	Sema domain	-	Repeat
A	PF01437	Plexin repeat (PSI)	Plexin repeat	A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin (Swiss:P70206) [1]. Two copies of the repeat are found in mahogany protein. A related C. el ...	A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin (Swiss:P70206) [1]. Two copies of the repeat are found in mahogany protein. A related C. elegans protein (Swiss:Q19981) contains four copies of the repeat. The Met receptor contains a single copy of the repeat. The Pfam alignment shows 6 conserved cysteine residues that may form three conserved disulphide bridges, whereas [1] shows 8 conserved cysteines. The pattern of conservation suggests that cysteines 5 and 7 (that are not absolutely conserved) form a disulphide bridge (Personal observation. A Bateman).	Domain
A	PF01403	Sema domain (Sema)	Sema domain	-	Repeat
A	PF17960	TIG domain (TIG_plexin)	TIG domain	This entry represents an TIG or IPT domain (Ig domain shared by Plexins and Transcription factors) found in plexins [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Putative uncharacterized protein	protein binding binding semaphorin receptor binding signaling receptor binding molecular function activator activity molecular function regulator activity signaling receptor regulator activity chemorepellent activity receptor ligand activity signaling receptor activator activity identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity	localization centrosome localization microtubule organizing center localization cellular process multicellular organismal process regulation of sprouting angiogenesis regulation of developmental process negative regulation of biological process angiogenesis regulation of vasculature development multicellular organism development tube morphogenesis anatomical structure development regulation of multicellular organismal process localization centrosome localization microtubule organizing center localization cellular process multicellular organismal process regulation of sprouting angiogenesis regulation of developmental process negative regulation of biological process angiogenesis regulation of vasculature development multicellular organism development tube morphogenesis anatomical structure development regulation of multicellular organismal process regulation of anatomical structure morphogenesis blood vessel development system development developmental process regulation of multicellular organismal development regulation of biological process blood vessel morphogenesis tube development negative regulation of blood vessel morphogenesis negative regulation of developmental process biological regulation negative regulation of angiogenesis sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis negative regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis negative regulation of multicellular organismal process negative regulation of sprouting angiogenesis apoptotic process cell death programmed cell death positive regulation of locomotion regulation of cell motility regulation of cellular process cellular developmental process positive regulation of biological process regulation of neuron migration positive regulation of cell migration neurogenesis cell differentiation positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of cellular process neuron migration nervous system development generation of neurons regulation of locomotion positive regulation of neuron migration cellular response to stimulus response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process signal transduction regulation of signaling negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade stem cell development neural crest cell differentiation animal organ development neural crest cell development cell development mesenchyme development tissue development mesenchymal cell migration stem cell differentiation ameboidal-type cell migration mesenchymal cell differentiation neural crest cell migration cell adhesion involved in sprouting angiogenesis negative regulation of cell adhesion cell adhesion angiogenic sprout fusion regulation of cell adhesion negative regulation of cell adhesion involved in sprouting angiogenesis cell surface receptor signaling pathway semaphorin-plexin signaling pathway axonogenesis cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cellular component organization cell projection morphogenesis neuron differentiation neuron projection morphogenesis cellular component organization or biogenesis plasma membrane bounded cell projection organization axon guidance axon development cell morphogenesis involved in neuron differentiation neuron projection guidance neuron development cellular response to growth factor stimulus negative regulation of vascular endothelial growth factor signaling pathway negative regulation of cellular response to growth factor stimulus cell surface receptor protein tyrosine kinase signaling pathway cellular response to endogenous stimulus regulation of vascular endothelial growth factor signaling pathway enzyme-linked receptor protein signaling pathway regulation of cellular response to vascular endothelial growth factor stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus vascular endothelial growth factor signaling pathway cellular response to vascular endothelial growth factor stimulus response to growth factor negative regulation of cellular response to vascular endothelial growth factor stimulus	cellular anatomical structure membrane cell periphery plasma membrane axon cell projection neuron projection plasma membrane bounded cell projection
A	Plexin-A2	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity semaphorin receptor activity identical protein binding protein binding binding	developmental process multicellular organismal process limb development appendage development limb bud formation anatomical structure morphogenesis multicellular organism development appendage morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development limb morphogenesis localization centrosome localization microtubule organizing center localization developmental process multicellular organismal process limb development appendage development limb bud formation anatomical structure morphogenesis multicellular organism development appendage morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development limb morphogenesis localization centrosome localization microtubule organizing center localization cellular process somitogenesis epithelium development chordate embryonic development segmentation anterior/posterior pattern specification pattern specification process embryo development tissue development regionalization embryo development ending in birth or egg hatching somite development regulation of biological process regulation of cell motility regulation of cellular process regulation of locomotion regulation of cell migration biological regulation cell migration cell motility locomotion head development animal organ development brain development nervous system development central nervous system development cerebellar granule cell precursor tangential migration hindbrain development hindbrain tangential cell migration cell migration in hindbrain system development pharyngeal system development cellular response to stimulus cell surface receptor signaling pathway response to stimulus signaling signal transduction cell communication semaphorin-plexin signaling pathway neural tube development tube development cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly synapse organization cellular component organization or biogenesis synapse assembly	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex semaphorin receptor complex signaling receptor complex extracellular matrix external encapsulating structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR027231	Semaphorin	Family
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR002165	Plexin repeat	Repeat
B	IPR036352	Sema domain superfamily	Homologous Superfamily
B	IPR001627	Sema domain	Domain
A	IPR002909	IPT domain	Domain
A	IPR042826	Plexin-A2, sema domain	Domain
A	IPR041362	Plexin, TIG domain 2	Domain
A	IPR016201	PSI domain	Domain
A	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A	IPR008936	Rho GTPase activation protein	Homologous Superfamily
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR002165	Plexin repeat	Repeat
A	IPR041019	Plexin, TIG domain 1	Domain
A	IPR031148	Plexin family	Family
A	IPR046800	Plexin, cytoplasmic RhoGTPase-binding domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR013548	Plexin, cytoplasmic RasGAP domain	Domain
A	IPR036352	Sema domain superfamily	Homologous Superfamily
A	IPR001627	Sema domain	Domain