Annotations: 6WVZ

Crystal structure of anti-MET Fab arm of amivantamab in complex with human MET

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
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)
B [auth L]	d6wvzl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth L]	d6wvzl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth M]	d6wvzm1	All beta proteins	7-bladed beta-propeller	Sema domain	Sema domain	Hepatocyte growth factor receptor	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth M]	d6wvzm2	Small proteins	Trefoil/Plexin domain-like	Plexin repeat	Plexin repeat	Hepatocyte growth factor receptor	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth M]	d6wvzm3	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A [auth H]	d6wvzh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(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)
C [auth M]	SCOP2B Superfamily	Sema domain-like	8039465	3000180	SCOP2B (2022-06-29)
C [auth M]	SCOP2B Superfamily	Plexin repeat-like	8039466	3000415	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)
B [auth L]	HSP20	e6wvzL1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: HSP20	ECOD (v294.2)
C [auth M]	HSP20	e6wvzM1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: HSP20	ECOD (v294.2)
A [auth H]	HSP20	e6wvzH1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: HSP20	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L]	Light Chain	IGKV1	Kappa	hepatocyte growth factor receptor	SAbDab (2026-06-12)
A [auth H]	Heavy Chain	IGHV1	-	hepatocyte growth factor receptor	SAbDab (2026-06-12)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth M]	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
C [auth M]	PF01403	Sema domain (Sema)	Sema domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth L]	Light Chain of anti-MET Fab of amivantamab	-	-	-
C [auth M]	Hepatocyte growth factor receptor	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity semaphorin receptor activity protein phosphatase binding phosphatase binding protein binding binding enzyme binding protein tyrosine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity semaphorin receptor activity protein phosphatase binding phosphatase binding protein binding binding enzyme binding protein tyrosine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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 molecular function activator activity molecular function regulator activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity hepatocyte growth factor receptor activity identical protein binding	developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development epithelium development endothelial cell differentiation cellular developmental process endothelium development cell development developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development epithelium development endothelial cell differentiation cellular developmental process endothelium development cell development tissue development epithelial cell differentiation cell morphogenesis endothelial cell development anatomical structure morphogenesis epithelial cell development endothelial cell morphogenesis epithelial cell morphogenesis cell differentiation cellular process tube development branching morphogenesis of an epithelial tube morphogenesis of an epithelium tissue morphogenesis tube morphogenesis morphogenesis of a branching structure epithelial tube morphogenesis morphogenesis of a branching epithelium regulation of hydrogen peroxide-mediated programmed cell death cellular response to stimulus regulation of cellular process response to stimulus programmed cell death in response to reactive oxygen species cellular response to oxidative stress negative regulation of biological process regulation of programmed cell death cellular response to chemical stress negative regulation of hydrogen peroxide-mediated programmed cell death cellular response to reactive oxygen species hydrogen peroxide-mediated programmed cell death cellular response to stress response to stress negative regulation of cellular process regulation of biological process negative regulation of programmed cell death biological regulation response to oxygen-containing compound cell death cellular response to oxygen-containing compound response to reactive oxygen species response to oxidative stress cellular response to chemical stimulus response to chemical programmed cell death positive chemotaxis chemotaxis taxis response to external stimulus locomotion nervous system development generation of neurons neurogenesis neuron differentiation cell surface receptor signaling pathway signaling cell surface receptor protein tyrosine kinase signaling pathway cell communication hepatocyte growth factor receptor signaling pathway signal transduction enzyme-linked receptor protein signaling pathway regulation of postsynaptic membrane potential system process chemical synaptic transmission, postsynaptic synaptic signaling regulation of biological quality trans-synaptic signaling nervous system process cell-cell signaling chemical synaptic transmission anterograde trans-synaptic signaling excitatory postsynaptic potential regulation of membrane potential pancreas development positive regulation of locomotion regulation of cell motility regulation of response to external stimulus endothelial cell migration positive regulation of biological process positive regulation of chemotaxis positive regulation of cell migration positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of cell motility regulation of cell migration positive regulation of endothelial cell chemotaxis regulation of endothelial cell migration cell migration endothelial cell chemotaxis cell motility positive regulation of cellular process cell chemotaxis regulation of endothelial cell chemotaxis regulation of chemotaxis regulation of response to stimulus regulation of locomotion positive regulation of endothelial cell migration semaphorin-plexin signaling pathway negative regulation of catabolic process catabolic process negative regulation of metabolic process autophagy regulation of catabolic process regulation of autophagy negative regulation of autophagy metabolic process process utilizing autophagic mechanism regulation of metabolic process positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription	cellular anatomical structure membrane cell periphery basal part of cell plasma membrane basal plasma membrane plasma membrane region cell surface protein-containing complex signaling receptor complex extracellular region postsynapse synapse cell junction
A [auth H]	Heavy Chain of anti-MET Fab of amivantamab	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth M]	IPR017441	Protein kinase, ATP binding site	Binding Site
C [auth M]	IPR002909	IPT domain	Domain
C [auth M]	IPR008266	Tyrosine-protein kinase, active site	Active Site
C [auth M]	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
C [auth M]	IPR016201	PSI domain	Domain
C [auth M]	IPR016244	Tyrosine-protein kinase, HGF/MSP receptor	Family
C [auth M]	IPR000719	Protein kinase domain	Domain
C [auth M]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
C [auth M]	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
C [auth M]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
C [auth M]	IPR002165	Plexin repeat	Repeat
C [auth M]	IPR031148	Plexin family	Family
C [auth M]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
C [auth M]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth M]	IPR036352	Sema domain superfamily	Homologous Superfamily
C [auth M]	IPR001627	Sema domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth M]	: P08581	squamous cell carcinoma hepatocellular carcinoma glioblastoma renal cell carcinoma neuroblastoma osteosarcoma papillary renal cell carcinoma acute myeloid leukemia non-small cell lung carcinoma osteofibrous dysplasia ovarian cancer cancer nonsyndromic genetic deafness esophageal cancer autosomal recessive nonsyndromic deafness 97 squamous cell carcinoma hepatocellular carcinoma glioblastoma renal cell carcinoma neuroblastoma osteosarcoma papillary renal cell carcinoma acute myeloid leukemia non-small cell lung carcinoma osteofibrous dysplasia ovarian cancer cancer nonsyndromic genetic deafness esophageal cancer autosomal recessive nonsyndromic deafness 97 giant cell glioblastoma granular cell carcinoma sarcomatoid renal cell carcinoma Hepatitis, Chronic adenocarcinoma juvenile pilocytic astrocytoma lung cancer fibrillary astrocytoma protoplasmic astrocytoma schizophrenia collecting duct carcinoma astrocytic tumor gastric cancer pilocytic astrocytoma gemistocytic astrocytoma prostate cancer sarcomatoid carcinoma carcinoma sinusitis childhood cerebral astrocytoma subependymal giant cell astrocytoma chromophobe renal cell carcinoma tubular adenocarcinoma anaplastic astrocytoma malignant mesothelioma benign neoplasm of stomach malignant pancreatic neoplasm breast disease renal carcinoma hereditary diffuse gastric adenocarcinoma interstitial lung disease adrenal medulla cancer cribriform carcinoma of breast esophageal adenocarcinoma attention deficit hyperactivity disorder, inattentive type pancreatic intraductal papillary-mucinous neoplasm gastric neoplasm benign neoplasm of adrenal gland primitive neuroectodermal tumor breast cancer head and neck squamous cell carcinoma medullary thyroid gland carcinoma hepatoblastoma cerebral astrocytoma stomach carcinoma in situ cholangiocarcinoma tuberculosis hereditary papillary renal cell carcinoma ulcerative colitis large cell medulloblastoma ovarian neoplasm lung carcinoma atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia malignant colon neoplasm breast carcinoma psoriasis hepatitis medulloblastoma neoplasm of esophagus intellectual disability non-alcoholic fatty liver disease clear cell renal carcinoma undifferentiated carcinoma invasive ductal breast carcinoma oligodendroglioma colorectal adenocarcinoma liver cancer cribriform carcinoma lung benign neoplasm astrocytoma (excluding glioblastoma) pancreatic intraductal papillary-mucinous carcinoma diffuse astrocytoma lung disease autism gastric carcinoma Barrett esophagus pituitary cancer

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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.