4BSJ | pdb_00004bsj

Crystal structure of VEGFR-3 extracellular domains D4-5

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	I-set_13	e4bsjA4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_13	ECOD (1.6)
A	I-set_13,I-set	e4bsjA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_13,I-set	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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
A	PF22971	VEGFR-1-like, immunoglobulin-like domain (Ig_VEGFR-1-like_5th)	VEGFR-1-like, immunoglobulin-like domain	This is the fifth immunoglobulin-like domain of human Vascular endothelial growth factor receptor 1 (VEGFR-1) and similar sequences mainly found in animals. VEGFR-1 is a tyrosine-protein kinase that plays an essential role in the development of embry ...	This is the fifth immunoglobulin-like domain of human Vascular endothelial growth factor receptor 1 (VEGFR-1) and similar sequences mainly found in animals. VEGFR-1 is a tyrosine-protein kinase that plays an essential role in the development of embryonic vasculature, the regulation of angiogenesis, cell survival, cell migration, macrophage function, chemotaxis, and cancer cell invasion.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 3	molecular transducer activity catalytic activity, acting on a protein kinase activity protein kinase activity signaling receptor activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein tyrosine kinase activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity catalytic activity protein phosphatase binding molecular transducer activity catalytic activity, acting on a protein kinase activity protein kinase activity signaling receptor activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein tyrosine kinase activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity catalytic activity protein phosphatase binding phosphatase binding protein binding binding enzyme binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding growth factor binding identical protein binding protein homodimerization activity protein dimerization activity vascular endothelial growth factor receptor activity	cellular response to stimulus regulation of biological process regulation of cellular process cellular response to growth factor stimulus cell surface receptor signaling pathway response to stimulus signaling response to endogenous stimulus biological regulation cell surface receptor protein tyrosine kinase signaling pathway cell communication vascular endothelial growth factor signaling pathway cellular response to endogenous stimulus cellular process cellular response to stimulus regulation of biological process regulation of cellular process cellular response to growth factor stimulus cell surface receptor signaling pathway response to stimulus signaling response to endogenous stimulus biological regulation cell surface receptor protein tyrosine kinase signaling pathway cell communication vascular endothelial growth factor signaling pathway cellular response to endogenous stimulus cellular process cellular response to vascular endothelial growth factor stimulus signal transduction response to growth factor enzyme-linked receptor protein signaling pathway developmental process multicellular organismal process regulation of developmental process regulation of tissue remodeling regulation of blood vessel remodeling anatomical structure morphogenesis blood vessel remodeling tissue remodeling anatomical structure development regulation of multicellular organismal process regulation of anatomical structure morphogenesis blood vessel morphogenesis tube development angiogenesis sprouting angiogenesis vasculature development circulatory system development multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development system development cell migration cell motility protein phosphorylation protein autophosphorylation phosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus positive regulation of JNK cascade regulation of intracellular signal transduction JNK cascade intracellular signaling cassette positive regulation of cellular process regulation of signaling positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication positive regulation of signaling positive regulation of locomotion regulation of cell motility endothelial cell migration positive regulation of cell migration regulation of locomotion positive regulation of endothelial cell migration positive regulation of cell motility regulation of cell migration regulation of endothelial cell migration locomotion positive regulation of ERK1 and ERK2 cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process regulation of cytokine production cytokine production positive regulation of macromolecule metabolic process regulation of vascular endothelial growth factor production regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression vascular endothelial growth factor production biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of vascular endothelial growth factor production regulation of macromolecule biosynthetic process positive regulation of cytokine production regulation of metabolic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death lymphangiogenesis lymph vessel morphogenesis lymph vessel development cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation peptidyl-tyrosine modification peptidyl-amino acid modification peptidyl-tyrosine phosphorylation system process respiratory system process respiratory gaseous exchange by respiratory system positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of protein modification process positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process regulation of protein metabolic process regulation of phosphorus metabolic process regulation of phosphorylation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of endothelial cell proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation vascular endothelial growth factor receptor signaling pathway animal organ development respiratory tube development lung development respiratory system development lung alveolus development	cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex receptor complex cell periphery plasma membrane membrane extracellular region membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001824	Tyrosine-protein kinase, receptor class III, conserved site	Conserved Site
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR008266	Tyrosine-protein kinase, active site	Active Site
A	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
A	IPR000719	Protein kinase domain	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR055229	VEGFR1-3, fifth immunoglobulin-like domain	Domain
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR003598	Immunoglobulin subtype 2	Domain
A	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A	IPR013098	Immunoglobulin I-set	Domain
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR041348	VEGFR-2, transmembrane domain	Domain
A	IPR050122	Receptor Tyrosine Kinase	Family
A	IPR055238	VEGFR1-3, N-terminal Ig-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P35916	lymphedema capillary infantile hemangioma polycystic ovary syndrome lymphedema, hereditary, 1A tetralogy of fallot Clear-cell metastatic renal cell carcinoma sarcoma atypical teratoid rhabdoid tumor thyroid gland papillary carcinoma glioblastoma intellectual disability lymphatic system disease malignant mesothelioma non-small cell lung carcinoma thymic carcinoma lymphedema capillary infantile hemangioma polycystic ovary syndrome lymphedema, hereditary, 1A tetralogy of fallot Clear-cell metastatic renal cell carcinoma sarcoma atypical teratoid rhabdoid tumor thyroid gland papillary carcinoma glioblastoma intellectual disability lymphatic system disease malignant mesothelioma non-small cell lung carcinoma thymic carcinoma cancer cerebrovascular disorder endometrial carcinoma hepatocellular carcinoma hydrops fetalis metastatic melanoma osteosarcoma renal cell carcinoma thyroid gland follicular carcinoma gastrointestinal stromal tumor hereditary lymphedema idiopathic pulmonary fibrosis interstitial lung disease

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.