5MDM | pdb_00005mdm

Structural intermediates in the fusion associated transition of vesiculovirus glycoprotein

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth C]	d5mdmc_	Multi-domain proteins (alpha and beta)	Viral glycoprotein ectodomain-like	Viral glycoprotein ectodomain-like	automated matches	automated matches	(Chandipura virus ) [TaxId: 11272 ],	SCOPe (2.08)
C [auth A]	d5mdma_	Multi-domain proteins (alpha and beta)	Viral glycoprotein ectodomain-like	Viral glycoprotein ectodomain-like	automated matches	automated matches	(Chandipura virus ) [TaxId: 11272 ],	SCOPe (2.08)
B [auth F]	d5mdmf_	Multi-domain proteins (alpha and beta)	Viral glycoprotein ectodomain-like	Viral glycoprotein ectodomain-like	automated matches	automated matches	(Chandipura virus ) [TaxId: 11272 ],	SCOPe (2.08)
A [auth E]	d5mdme_	Multi-domain proteins (alpha and beta)	Viral glycoprotein ectodomain-like	Viral glycoprotein ectodomain-like	automated matches	automated matches	(Chandipura virus ) [TaxId: 11272 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth C]	SCOP2B Superfamily	Viral glycoprotein ectodomain-like	8054361	3001498	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Viral glycoprotein ectodomain-like	8054361	3001498	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	Viral glycoprotein ectodomain-like	8054361	3001498	SCOP2B (2022-06-29)
A [auth E]	SCOP2B Superfamily	Viral glycoprotein ectodomain-like	8054361	3001498	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 C]	CagX	e5mdmC1	A: a/b three-layered sandwiches	X: SMI1/KNR4-like	H: SMI1/KNR4-like	T: SMI1/KNR4-like	F: CagX	ECOD (v294.1)
C [auth A]	CagX	e5mdmA1	A: a/b three-layered sandwiches	X: SMI1/KNR4-like	H: SMI1/KNR4-like	T: SMI1/KNR4-like	F: CagX	ECOD (v294.1)
B [auth F]	CagX	e5mdmF1	A: a/b three-layered sandwiches	X: SMI1/KNR4-like	H: SMI1/KNR4-like	T: SMI1/KNR4-like	F: CagX	ECOD (v294.1)
A [auth E]	CagX	e5mdmE1	A: a/b three-layered sandwiches	X: SMI1/KNR4-like	H: SMI1/KNR4-like	T: SMI1/KNR4-like	F: CagX	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth C]	2.30.29.130	Mainly Beta	Roll	PH-domain like		CATH (utative)
C [auth A]	2.30.29.130	Mainly Beta	Roll	PH-domain like		CATH (utative)
B [auth F]	2.30.29.130	Mainly Beta	Roll	PH-domain like		CATH (utative)
A [auth E]	2.30.29.130	Mainly Beta	Roll	PH-domain like		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth E], B [auth F], C [auth A], D [auth C]	PF00974	Rhabdovirus spike glycoprotein fusion domain (Rhabdo_glycop_FD)	Rhabdovirus spike glycoprotein fusion domain	This entry includes the glycoprotein G from Rhabdoviruses, such as rabies virus (RABV), Mokola virus (MOKV) and European bat lyssavirus 1 (EBLV) [1-5], which attaches the virus to host cellular receptor, and induces endocytosis of the virion. It form ...	This entry includes the glycoprotein G from Rhabdoviruses, such as rabies virus (RABV), Mokola virus (MOKV) and European bat lyssavirus 1 (EBLV) [1-5], which attaches the virus to host cellular receptor, and induces endocytosis of the virion. It forms the glycoprotein spike that is made up of a trimer of G proteins. Each protomer of the trimer is composed of three domains: a membrane-distal pleckstrin homology domain (PH), a membrane-proximal fusion domain (FD) and a laterally positioned central domain (CD) [2-5]. This entry represents the elongated FD (also known as domain IV).	Domain
A [auth E], B [auth F], C [auth A], D [auth C]	PF24833	Rhabdovirus spike glycoprotein G central domain (Rhabdo_glycop_CD)	Rhabdovirus spike glycoprotein G central domain	This entry includes the glycoprotein G from Rhabdoviruses, such as rabies virus (RABV), Mokola virus (MOKV) and European bat lyssavirus 1 (EBLV) [1-5], which attaches the virus to host cellular receptor, and induces endocytosis of the virion. It form ...	This entry includes the glycoprotein G from Rhabdoviruses, such as rabies virus (RABV), Mokola virus (MOKV) and European bat lyssavirus 1 (EBLV) [1-5], which attaches the virus to host cellular receptor, and induces endocytosis of the virion. It forms the glycoprotein spike that is made up of a trimer of G proteins. Each protomer of the trimer is composed of three domains: a membrane-distal pleckstrin homology domain (PH), a membrane-proximal fusion domain (FD) and a laterally positioned central domain (CD) [2-5]. This entry represents the CD (which consists of domains I (beta-sheet rich) and II (alpha-helical) from [2]).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E], B [auth F], C [auth A], D [auth C]	Glycoprotein	-	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host	host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion component viral membrane viral envelope virion membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth E], B [auth F], C [auth A], D [auth C]	IPR055447	Spike glycoprotein G, central domain, rhabdovirus	Domain
A [auth E], B [auth F], C [auth A], D [auth C]	IPR001903	Spike glycoprotein fusion domain, Rhabdovirus	Domain

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.