3L6Y | pdb_00003l6y

Crystal structure of p120 catenin in complex with E-cadherin

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)
C	d3l6yc_	All alpha proteins	alpha-alpha superhelix	ARM repeat	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d3l6ye_	All alpha proteins	alpha-alpha superhelix	ARM repeat	automated matches	automated matches	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)
E	SCOP2B Superfamily	ARM repeat-like	8084784	3000116	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)
C	PGI	e3l6yC1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: PGI	ECOD (v294.1)
E	DNA_methylase	e3l6yE1	A: a/b three-layered sandwiches	X: YrdC/RibB	H: SH3	T: SH3	F: DNA_methylase	ECOD (v294.1)
A	PGI	e3l6yA1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: PGI	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)
E	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)
A	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E	PF00514	Armadillo/beta-catenin-like repeat (Arm)	Armadillo/beta-catenin-like repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E	Catenin delta-1	protein binding binding signaling receptor binding molecular sequestering activity protein sequestering activity cell adhesion molecule binding cell adhesion mediator activity cell-cell adhesion mediator activity enzyme regulator activity phosphatase inhibitor activity molecular function inhibitor activity phosphatase regulator activity molecular function regulator activity enzyme inhibitor activity protein binding binding signaling receptor binding molecular sequestering activity protein sequestering activity cell adhesion molecule binding cell adhesion mediator activity cell-cell adhesion mediator activity enzyme regulator activity phosphatase inhibitor activity molecular function inhibitor activity phosphatase regulator activity molecular function regulator activity enzyme inhibitor activity cadherin binding phosphatase binding enzyme binding	regulation of protein stability biological regulation regulation of biological quality protein stabilization regulation of postsynaptic membrane neurotransmitter receptor levels cellular response to stimulus regulation of signaling regulation of biological process regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of response to stimulus negative regulation of intracellular signal transduction regulation of protein stability biological regulation regulation of biological quality protein stabilization regulation of postsynaptic membrane neurotransmitter receptor levels cellular response to stimulus regulation of signaling regulation of biological process regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of response to stimulus negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction negative regulation of signal transduction negative regulation of cell communication intracellular signal transduction cell communication regulation of response to stimulus regulation of intracellular signal transduction negative regulation of cellular process regulation of cell communication cellular process signal transduction developmental process multicellular organismal process cell migration involved in sprouting angiogenesis blood vessel morphogenesis tube development endothelial cell migration angiogenesis sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel endothelial cell migration cell migration cell motility blood vessel development system development regulation of localization hexose transmembrane transport regulation of transport transport negative regulation of D-glucose transmembrane transport carbohydrate transport negative regulation of transport establishment of localization negative regulation of transmembrane transport transmembrane transport localization regulation of transmembrane transport D-glucose transmembrane transport regulation of D-glucose transmembrane transport monosaccharide transmembrane transport carbohydrate transmembrane transport cell adhesion cell-cell adhesion cell-cell adhesion mediated by cadherin regulation of developmental process branching morphogenesis of an epithelial tube regulation of vasculature development regulation of multicellular organismal process regulation of morphogenesis of an epithelium epithelial tube morphogenesis regulation of anatomical structure morphogenesis regulation of morphogenesis of a branching structure regulation of multicellular organismal development epithelium development negative regulation of blood vessel morphogenesis negative regulation of developmental process negative regulation of angiogenesis morphogenesis of an epithelium tissue development regulation of blood vessel branching branching involved in blood vessel morphogenesis negative regulation of vasculature development tissue morphogenesis regulation of angiogenesis morphogenesis of a branching structure negative regulation of morphogenesis of an epithelium negative regulation of multicellular organismal process negative regulation of blood vessel branching morphogenesis of a branching epithelium cell surface receptor signaling pathway Wnt signaling pathway regulation of protein localization regulation of protein localization to cell-cell junction positive regulation of biological process protein localization to cell-cell junction macromolecule localization positive regulation of protein localization to cell-cell junction positive regulation of protein localization intracellular protein localization protein localization to cell junction RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process	midbody cellular anatomical structure cell-cell junction anchoring junction cell junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle midbody cellular anatomical structure cell-cell junction anchoring junction cell junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane protein-containing complex extrinsic component of plasma membrane catenin complex plasma membrane protein complex membrane protein complex extrinsic component of membrane adherens junction intracellular membraneless organelle cilium plasma membrane bounded cell projection intracellular organelle ciliary basal body cell projection microtubule organizing center cytoskeleton membraneless organelle microtubule cytoskeleton nucleus intracellular membrane-bounded organelle
B, D, F	E-cadherin	cytoskeletal protein binding ankyrin binding protein binding binding cell adhesion molecule binding cell adhesion mediator activity cadherin binding protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding identical protein binding gamma-catenin binding cation binding cytoskeletal protein binding ankyrin binding protein binding binding cell adhesion molecule binding cell adhesion mediator activity 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 metal ion cellular response to chemical stimulus response to lithium ion cellular response to lithium ion 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 metal ion cellular response to chemical stimulus response to lithium ion cellular 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 regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization intracellular protein localization localization within membrane protein localization to membrane response to toxic substance cell migration cell motility cellular component biogenesis cellular component assembly cell junction assembly cell-cell junction assembly head development forebrain development endocrine system development pituitary gland development gland development animal organ development brain development diencephalon development central nervous system development regulation of localization establishment of protein localization regulation of protein localization nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of biological process positive regulation of establishment of protein localization regulation of protein localization to nucleus positive regulation of protein transport import into nucleus regulation of protein import into nucleus establishment of localization in cell protein import into nucleus positive regulation of intracellular transport positive regulation of cellular process regulation of intracellular transport regulation of transport positive regulation of protein localization to nucleus regulation of establishment of protein localization positive regulation of protein import into nucleus intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization establishment of protein localization to organelle positive regulation of transport protein transport regulation of cellular localization 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 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 negative regulation of cell migration locomotion homophilic cell-cell adhesion synapse organization synapse assembly calcium-dependent cell-cell adhesion response to heparin response to oxygen-containing compound response to nitrogen compound desmosome organization desmosome assembly 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 trans-synaptic signaling regulation of signaling 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 regulation of protein catabolic process cellular response to nitrogen compound response to alcohol cellular response to oxygen-containing compound cellular response to alcohol response to indole-3-methanol cellular response to indole-3-methanol positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic 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 positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription 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 cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle cell projection cellular anatomical structure cell leading edge 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 membraneless organelle intracellular membraneless organelle actin cytoskeleton 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 cytoplasm 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 vacuolar membrane lytic vacuole vacuole intracellular membrane-bounded organelle lytic vacuole membrane bounding membrane of organelle lysosomal membrane organelle membrane lysosome Golgi apparatus subcompartment Golgi apparatus organelle subcompartment endomembrane system trans-Golgi network membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen endoplasmic reticulum Golgi membrane desmosome perinuclear region of cytoplasm postsynapse endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane Golgi lumen endosome membrane early endosome endosome intracellular vesicle early endosome membrane cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane 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, C, E	IPR016024	Armadillo-type fold	Homologous Superfamily
A, C, E	IPR000225	Armadillo	Repeat
A, C, E	IPR011989	Armadillo-like helical	Homologous Superfamily
A, C, E	IPR028435	Plakophilin/Delta catenin	Family
B, D, F	IPR014868	Cadherin prodomain	Domain
B, D, F	IPR027397	Catenin binding domain superfamily	Homologous Superfamily
B, D, F	IPR015919	Cadherin-like superfamily	Homologous Superfamily
B, D, F	IPR039808	Cadherin	Family
B, D, F	IPR002126	Cadherin-like	Domain
B, D, F	IPR000233	Cadherin, Y-type LIR-motif	Domain
B, D, F	IPR020894	Cadherin conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C, E	Pharos: O60716	blepharocheilodontic syndrome subependymal giant cell astrocytoma attention deficit hyperactivity disorder, inattentive type bipolar disorder breast cancer interstitial cystitis malignant glioma ovarian cancer pilocytic astrocytoma tuberculosis atypical teratoid rhabdoid tumor endogenous depression large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm blepharocheilodontic syndrome subependymal giant cell astrocytoma attention deficit hyperactivity disorder, inattentive type bipolar disorder breast cancer interstitial cystitis malignant glioma ovarian cancer pilocytic astrocytoma tuberculosis atypical teratoid rhabdoid tumor endogenous depression large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor autism spectrum disorder blepharocheilodontic syndrome 2 glioblastoma malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia
B, D, F	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 carcinoma hereditary breast 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 mammary neoplasms, animal salivary gland cancer Helicobacter pylori infectious disease medulloblastoma thyroid gland carcinoma uterine disease liver disease osteosarcoma lung cancer ovarian disease malignant glioma pilocytic astrocytoma primitive neuroectodermal tumor benign mesothelioma prostate disease gastric carcinoma blepharocheilodontic syndrome 1 psoriasis gastrointestinal stromal tumor hematologic disease mesothelioma stomach carcinoma in situ colorectal carcinoma urinary bladder disease interstitial cystitis connective tissue disease lung carcinoma ovarian neoplasm malignant mesothelioma precancerous condition malignant pancreatic neoplasm benign neoplasm of stomach gastric neoplasm breast disease mouth disease stomach disease colorectal adenoma undifferentiated 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.