Annotations: 5L5N

Plexin A4 full extracellular region, domains 1 to 7 modeled, data to 8.5 angstrom, spacegroup P4(3)22

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	p450	e5l5nA1	A: beta barrels	X: omega toxin-like	H: omega toxin-related	T: omega toxin-related	F: p450	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF24479	Plexin A/B, PSI domain (PSI_PlexinA-B)	Plexin A/B, PSI domain	This entry represents a PSI domain found in Plexin A, B and related proteins. These are neuronal receptors for the axon guidance regulators Semaphorins. Semaphorin-plexin interactions play central roles in regulating processes such as neuronal axon g ...	This entry represents a PSI domain found in Plexin A, B and related proteins. These are neuronal receptors for the axon guidance regulators Semaphorins. Semaphorin-plexin interactions play central roles in regulating processes such as neuronal axon guidance, angiogenesis and immune responses [1,2].	Domain
A	PF01833	IPT/TIG domain (TIG)	IPT/TIG domain	This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. CAUTION: This family d ...	This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. CAUTION: This family does not currently recognise a significant number of members.	Domain
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	PF18020	TIG domain found in plexin (TIG_2)	TIG domain found in plexin	This entry represents a TIG domain found in plexin proteins. TIG domains have an Ig-like fold.	Domain
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
A	Plexin-A4	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity semaphorin receptor activity	chemotaxis negative chemotaxis regulation of biological process response to stimulus regulation of response to external stimulus biological regulation response to external stimulus regulation of negative chemotaxis regulation of chemotaxis taxis regulation of response to stimulus response to chemical regulation of locomotion locomotion chemotaxis negative chemotaxis regulation of biological process response to stimulus regulation of response to external stimulus biological regulation response to external stimulus regulation of negative chemotaxis regulation of chemotaxis taxis regulation of response to stimulus response to chemical regulation of locomotion locomotion developmental process multicellular organismal process cranial nerve morphogenesis parasympathetic nervous system development nervous system development anatomical structure morphogenesis multicellular organism development cranial nerve structural organization nerve development cranial nerve development central nervous system development preganglionic parasympathetic fiber development anatomical structure development anatomical structure arrangement facial nerve morphogenesis autonomic nervous system development facial nerve structural organization system development facial nerve development axonogenesis cellular developmental process cell projection organization motor neuron axon guidance plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation cellular component organization or biogenesis plasma membrane bounded cell projection organization axon guidance axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron projection guidance neuron development cellular process heart development epithelium development tube development animal organ development embryo development tissue development embryonic heart tube development circulatory system development embryonic organ development sympathetic nervous system development sympathetic neuron axon guidance maintenance of synapse structure cell junction maintenance cell junction organization cellular component maintenance synapse organization regulation of cell motility regulation of cellular process regulation of cell migration cell migration cell motility branchiomotor neuron axon guidance peripheral nervous system development postganglionic parasympathetic fiber development trigeminal nerve development trigeminal nerve structural organization trigeminal nerve morphogenesis vagus nerve development vagus nerve morphogenesis axon extension regulation of growth regulation of cellular component size developmental growth regulation of biological quality developmental growth involved in morphogenesis regulation of cellular component organization regulation of developmental process cell growth regulation of axon extension regulation of axon extension involved in axon guidance regulation of extent of cell growth axon extension involved in axon guidance regulation of cell size neuron projection extension regulation of developmental growth developmental cell growth growth regulation of cell growth regulation of anatomical structure size forebrain development central nervous system neuron development central nervous system neuron differentiation head development central nervous system projection neuron axonogenesis central nervous system neuron axonogenesis brain development anterior commissure morphogenesis telencephalon development cellular response to stimulus cell surface receptor signaling pathway semaphorin-plexin signaling pathway signaling cell communication signal transduction chemorepulsion of branchiomotor axon chemorepulsion of axon cellular response to chemical stimulus cellular component biogenesis cellular component assembly cell junction assembly synapse assembly glossopharyngeal nerve morphogenesis glossopharyngeal nerve development	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex semaphorin receptor complex signaling receptor complex cerebellar climbing fiber to Purkinje cell synapse neuron to neuron synapse synapse cell junction asymmetric synapse glutamatergic synapse excitatory synapse cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex semaphorin receptor complex signaling receptor complex cerebellar climbing fiber to Purkinje cell synapse neuron to neuron synapse synapse cell junction asymmetric synapse glutamatergic synapse excitatory synapse asymmetric, glutamatergic, excitatory synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002909	IPT 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

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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.

5L5N | pdb_00005l5n

Plexin A4 full extracellular region, domains 1 to 7 modeled, data to 8.5 angstrom, spacegroup P4(3)22

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage