6PDL | pdb_00006pdl

Crystal Structure of Hendra Virus Attachment G Glycoprotein in Complex with Receptor Ephrin-B2

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
H	d6pdlh_	All beta proteins	Cupredoxin-like	Cupredoxins	Ephrin ectodomain	Ephrin-b2 ectodomain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d6pdlf_	All beta proteins	Cupredoxin-like	Cupredoxins	Ephrin ectodomain	Ephrin-b2 ectodomain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d6pdld_	All beta proteins	Cupredoxin-like	Cupredoxins	Ephrin ectodomain	Ephrin-b2 ectodomain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d6pdlb_	All beta proteins	Cupredoxin-like	Cupredoxins	Ephrin ectodomain	Ephrin-b2 ectodomain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Cupredoxins	8061909	3000886	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Cupredoxins	8061909	3000886	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cupredoxins	8061909	3000886	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cupredoxins	8061909	3000886	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Sialidases	8086580	3001607	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Sialidases	8086580	3001607	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Sialidases	8086580	3001607	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sialidases	8086580	3001607	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)
H	Ephrin	e6pdlH1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Ephrin	ECOD (1.6)
F	Ephrin	e6pdlF1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Ephrin	ECOD (1.6)
D	Ephrin	e6pdlD1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Ephrin	ECOD (1.6)
B	Ephrin	e6pdlB1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Ephrin	ECOD (1.6)
G	HN	e6pdlG1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: HN	ECOD (1.6)
E	HN	e6pdlE1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: HN	ECOD (1.6)
C	HN	e6pdlC1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: HN	ECOD (1.6)
A	HN	e6pdlA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: HN	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
F	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
D	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
B	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
G	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (utative)
E	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (utative)
C	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (utative)
A	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H	PF00812	Ephrin (Ephrin)	Ephrin		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	Ephrin-B2	protein binding binding virus receptor activity exogenous protein binding signaling receptor binding ephrin receptor binding	adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization developmental process multicellular organismal process venous blood vessel development blood vessel morphogenesis tube development venous blood vessel morphogenesis vasculature development circulatory system development adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization developmental process multicellular organismal process venous blood vessel development blood vessel morphogenesis tube development venous blood vessel morphogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development blood vessel development system development regulation of postsynaptic membrane neurotransmitter receptor levels biological regulation regulation of biological quality chemotaxis regulation of biological process response to stimulus regulation of response to external stimulus response to external stimulus regulation of chemotaxis taxis regulation of response to stimulus response to chemical regulation of locomotion locomotion animal organ development animal organ morphogenesis cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway signaling cell surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction enzyme-linked receptor protein signaling pathway ephrin receptor signaling pathway cell population proliferation epithelial cell proliferation keratinocyte proliferation cell-cell signaling biological process involved in interspecies interaction between organisms response to lipid response to other organism cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound response to biotic stimulus cellular response to biotic stimulus cellular response to chemical stimulus response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin cell migration involved in sprouting angiogenesis endothelial cell migration angiogenesis sprouting angiogenesis anatomical structure formation involved in morphogenesis blood vessel endothelial cell migration cell migration cell motility regulation of neuron projection development regulation of cellular component organization cellular developmental process cell projection organization negative regulation of biological process cell development neuron projection development neurogenesis neuron differentiation cell differentiation negative regulation of cellular process negative regulation of cell projection organization plasma membrane bounded cell projection organization negative regulation of cellular component organization regulation of cell projection organization nervous system development negative regulation of neuron projection development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of biological process positive regulation of cellular process regulation of developmental process regulation of cell differentiation regulation of striated muscle cell differentiation regulation of cardiac muscle cell differentiation muscle cell differentiation striated muscle tissue development muscle structure development positive regulation of developmental process positive regulation of cell differentiation positive regulation of cardiocyte differentiation positive regulation of striated muscle cell differentiation regulation of multicellular organismal process muscle tissue development positive regulation of cardiac muscle cell differentiation heart development cardiac muscle tissue development cardiac muscle cell differentiation tissue development positive regulation of muscle cell differentiation cardiocyte differentiation regulation of muscle cell differentiation regulation of cardiocyte differentiation positive regulation of multicellular organismal process striated muscle cell differentiation axonogenesis plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis neuron projection morphogenesis axon guidance axon development cell morphogenesis involved in neuron differentiation neuron projection guidance cell adhesion negative regulation of cell population proliferation regulation of keratinocyte proliferation negative regulation of keratinocyte proliferation regulation of epithelial cell proliferation negative regulation of epithelial cell proliferation artery development regulation of aorta morphogenesis regulation of artery morphogenesis regulation of anatomical structure morphogenesis aorta morphogenesis positive regulation of artery morphogenesis positive regulation of aorta morphogenesis aorta development artery morphogenesis regulation of leukocyte activation regulation of cell activation positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte cell-cell adhesion leukocyte activation positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation cell-cell adhesion T cell activation positive regulation of leukocyte activation regulation of immune system process regulation of cell-cell adhesion positive regulation of immune system process positive regulation of T cell activation positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation immune system process lymphocyte costimulation regulation of leukocyte cell-cell adhesion T cell costimulation regulation of lymphocyte activation lymph vessel development epithelium development kidney epithelium development nephric duct morphogenesis morphogenesis of an epithelium renal system development tissue morphogenesis nephric duct development epithelial tube morphogenesis kidney development presynapse organization cellular component biogenesis cellular component assembly cell junction assembly synapse organization synapse assembly presynapse assembly import into cell regulation of localization cellular localization receptor internalization transport postsynaptic neurotransmitter receptor internalization regulation of receptor internalization vesicle-mediated transport vesicle-mediated transport in synapse localization establishment of localization in cell regulation of postsynaptic neurotransmitter receptor internalization regulation of endocytosis regulation of transport regulation of receptor-mediated endocytosis regulation of vesicle-mediated transport establishment of localization neurotransmitter receptor internalization postsynaptic endocytosis endocytosis receptor-mediated endocytosis	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region anchoring junction focal adhesion cell-substrate junction presynapse presynaptic membrane somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection glutamatergic synapse cell-cell junction adherens junction Schaffer collateral - CA1 synapse
A, C, E, G	Attachment glycoprotein	hydrolase activity, acting on glycosyl bonds alpha-sialidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity exo-alpha-sialidase activity catalytic activity host cell surface binding binding host cell surface receptor binding	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	virion component viral membrane viral envelope cellular anatomical structure membrane host cell plasma membrane host cellular component host cell part host cell membrane other organism part virion membrane host cell surface

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR019765	Ephrin, conserved site	Conserved Site
B, D, F, H	IPR034255	Ephrin-B ectodomain	Domain
B, D, F, H	IPR008972	Cupredoxin	Homologous Superfamily
B, D, F, H	IPR031328	Ephrin	Family
B, D, F, H	IPR001799	Ephrin receptor-binding domain	Domain
A, C, E, G	IPR016285	Haemagglutinin-neuraminidase	Family
A, C, E, G	IPR036278	Sialidase superfamily	Homologous Superfamily
A, C, E, G	IPR000665	Haemagglutinin/haemagglutinin-neuraminidase, paramyxovirus	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D, F, H	Pharos: P52799	liver cancer medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma Pick disease psoriasis adenoma spina bifida breast cancer cystic fibrosis lung benign neoplasm Lung Neoplasms malignant pancreatic neoplasm nephrosclerosis ovarian cancer liver cancer medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma Pick disease psoriasis adenoma spina bifida breast cancer cystic fibrosis lung benign neoplasm Lung Neoplasms malignant pancreatic neoplasm nephrosclerosis ovarian cancer pancreatic intraductal papillary-mucinous neoplasm precancerous condition astrocytic tumor breast carcinoma esophageal adenocarcinoma liver neoplasm lung cancer malignant mesothelioma MALT lymphoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia schizophrenia Barrett esophagus ischemia reperfusion injury lung adenocarcinoma lung carcinoma

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.