7STZ

Crystal Structure of Human E-cadherin EC1-5 bound by mouse monoclonal antibody Fab mAb-1_19A11

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth C]	SCOP2B Superfamily	Cadherin-like	8055235	3002049	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cadherin-like	8055235	3002049	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 H]	PF07654	e7stzH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth H]	PF07686	e7stzH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
E [auth I]	PF07654	e7stzI2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
E [auth I]	PF07686	e7stzI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth L]	PF07654	e7stzL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C [auth L]	PF07686	e7stzL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth M]	PF07654	e7stzM2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
F [auth M]	PF07686	e7stzM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
A [auth C]	PF00028	e7stzC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF00028	ECOD (1.6)
D	PF00028	e7stzD3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF00028	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H], E [auth I]	Heavy Chain	IGHV2	-	cadherin-1	SAbDab (2024-05-10)
C [auth L], F [auth M]	Light Chain	IGKV8	Kappa	cadherin-1	SAbDab (2024-05-10)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], D	PF00028	Cadherin domain (Cadherin)	Cadherin domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth H], E [auth I]	mAb-1_19A11 Heavy Chain	-	-	-
C [auth L], F [auth M]	mAb-1_19A11 Light Chain	-	-	-
A [auth C], D	Cadherin-1	cytoskeletal protein binding ankyrin binding protein binding binding cell adhesion molecule binding cadherin binding protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding identical protein binding gamma-catenin binding cation binding ion binding cytoskeletal protein binding ankyrin binding protein binding binding cell adhesion molecule binding cadherin binding protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding identical protein binding gamma-catenin binding cation binding ion binding calcium ion binding metal ion binding small molecule binding GTPase activating protein binding beta-catenin binding	response to stimulus response to chemical response to xenobiotic stimulus adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization cellular response to stimulus cellular response to inorganic substance cellular response to metal ion cellular response to lithium ion response to inorganic substance response to stimulus response to chemical response to xenobiotic stimulus adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization cellular response to stimulus cellular response to inorganic substance cellular response to metal ion cellular response to lithium ion response to inorganic substance cellular response to chemical stimulus response to lithium ion response to metal ion axon extension multicellular organismal process regulation of growth regulation of cellular process axonogenesis regulation of cellular component size developmental growth cell projection organization negative regulation of biological process regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development multicellular organism development cell projection morphogenesis neuron differentiation negative regulation of growth neuron projection morphogenesis cell differentiation anatomical structure development regulation of biological quality system development developmental process regulation of biological process negative regulation of cellular component organization regulation of cell projection organization negative regulation of cell growth nervous system development developmental growth involved in morphogenesis generation of neurons negative regulation of axonogenesis negative regulation of developmental growth negative regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization cellular developmental process regulation of developmental process plasma membrane bounded cell projection morphogenesis cell development cell growth cell morphogenesis regulation of axon extension regulation of nervous system development neurogenesis negative regulation of neurogenesis regulation of extent of cell growth regulation of axonogenesis negative regulation of cellular process negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation negative regulation of cell projection organization regulation of anatomical structure morphogenesis regulation of cell size neuron projection extension regulation of multicellular organismal development regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth negative regulation of developmental process biological regulation growth negative regulation of axon extension axon development regulation of cell growth cell morphogenesis involved in neuron differentiation negative regulation of neuron projection development anatomical structure morphogenesis negative regulation of cell development neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size regulation of biosynthetic process cellular biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression organic substance metabolic process biosynthetic process organic substance biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process protein localization localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane response to toxic substance cellular component biogenesis cellular component assembly cell junction assembly cell-cell junction assembly head development forebrain development endocrine system development pituitary gland development animal organ development gland development brain development diencephalon development central nervous system development regulation of localization establishment of protein localization nitrogen compound transport nucleocytoplasmic transport nuclear transport positive regulation of establishment of protein localization import into nucleus establishment of localization in cell regulation of intracellular transport positive regulation of protein localization to nucleus organic substance transport positive regulation of protein import into nucleus intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus establishment of localization establishment of protein localization to organelle positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport regulation of protein localization transport positive regulation of nucleocytoplasmic transport positive regulation of biological process regulation of protein localization to nucleus positive regulation of protein transport regulation of protein import into nucleus protein import into nucleus positive regulation of intracellular transport positive regulation of cellular process regulation of transport regulation of establishment of protein localization regulation of protein transport positive regulation of transport regulation of cellular localization protein transport protein localization to organelle regulation of cell adhesion negative regulation of cell adhesion cell adhesion cell-cell adhesion negative regulation of cell-cell adhesion regulation of cell-cell adhesion negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion cell-cell adhesion via plasma-membrane adhesion molecules homophilic cell adhesion via plasma membrane adhesion molecules synapse organization synapse assembly calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules cell-cell adhesion mediated by cadherin catabolic process modulation of chemical synaptic transmission signaling macromolecule catabolic process regulation of protein catabolic process at postsynapse, modulating synaptic transmission regulation of primary metabolic process cell communication synaptic signaling postsynaptic modulation of chemical synaptic transmission protein metabolic process organonitrogen compound catabolic process trans-synaptic signaling regulation of signaling organonitrogen compound metabolic process regulation of protein metabolic process cell-cell signaling primary metabolic process protein catabolic process regulation of catabolic process chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication organic substance catabolic process regulation of protein catabolic process cellular response to nitrogen compound response to organic substance response to alcohol response to organonitrogen compound response to endogenous stimulus cellular response to organic cyclic compound response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to alcohol cellular response to organonitrogen compound response to indole-3-methanol cellular response to indole-3-methanol cellular response to organic substance response to organic cyclic compound positive regulation of macromolecule biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of biosynthetic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process biological process involved in interspecies interaction between organisms response to other organism response to bacterium response to external stimulus response to external biotic stimulus response to biotic stimulus response to Gram-positive bacterium	cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoskeleton intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle cell periphery protein-containing complex extrinsic component of plasma membrane catenin complex plasma membrane protein complex plasma membrane membrane protein complex extrinsic component of membrane membrane raft plasma membrane raft caveola membrane microdomain flotillin complex plasma membrane region synapse cell junction glutamatergic synapse apical junction complex cell-cell junction anchoring junction adherens junction Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system trans-Golgi network cytoplasm perinuclear region of cytoplasm postsynapse endosome intracellular vesicle cytoplasmic vesicle lateral plasma membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], D	IPR014868	Cadherin prodomain	Domain
A [auth C], D	IPR027397	Catenin binding domain superfamily	Homologous Superfamily
A [auth C], D	IPR015919	Cadherin-like superfamily	Homologous Superfamily
A [auth C], D	IPR039808	Cadherin	Family
A [auth C], D	IPR002126	Cadherin-like	Domain
A [auth C], D	IPR000233	Cadherin, Y-type LIR-motif	Domain
A [auth C], D	IPR020894	Cadherin conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth C], D	Pharos: P12830	ulcerative colitis ovarian cancer prostate cancer squamous cell carcinoma colorectal cancer invasive ductal breast carcinoma endometrial cancer hereditary diffuse gastric adenocarcinoma Neoplasms, Experimental adenoid cystic carcinoma blepharocheilodontic syndrome cancer urinary bladder cancer familial prostate carcinoma breast carcinoma ulcerative colitis ovarian cancer prostate cancer squamous cell carcinoma colorectal cancer invasive ductal breast carcinoma endometrial cancer hereditary diffuse gastric adenocarcinoma Neoplasms, Experimental adenoid cystic carcinoma blepharocheilodontic syndrome cancer urinary bladder cancer familial prostate carcinoma breast carcinoma hereditary breast carcinoma carcinoma invasive lobular breast carcinoma endometrial carcinoma gastric cancer prostate intraepithelial neoplasia breast cancer salivary gland adenoid cystic carcinoma sarcomatoid carcinoma urinary bladder neoplasm intestinal disease kidney disease non-small cell lung carcinoma cutaneous melanoma lung adenocarcinoma ovarian carcinoma ductal breast carcinoma in situ lung disease pancreatic neoplasm atypical teratoid rhabdoid tumor Helicobacter pylori infectious disease mammary neoplasms, animal salivary gland cancer medulloblastoma thyroid gland carcinoma uterine disease liver disease osteosarcoma lung cancer ovarian disease malignant glioma pilocytic astrocytoma primitive neuroectodermal tumor gastric carcinoma benign mesothelioma prostate disease gastrointestinal stromal tumor blepharocheilodontic syndrome 1 psoriasis hematologic disease stomach carcinoma in situ mesothelioma urinary bladder disease interstitial cystitis colorectal carcinoma connective tissue disease lung carcinoma ovarian neoplasm malignant mesothelioma precancerous condition gastric neoplasm malignant pancreatic neoplasm benign neoplasm of stomach breast disease stomach disease mouth disease undifferentiated carcinoma colorectal adenoma

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 R01GM133198.