4NUM | pdb_00004num

Crystal structure of mouse N-cadherin EC1-2 A78SI92M

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Cadherin-like	8055231	3002049	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cadherin-like	8055231	3002049	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cadherin-like	8055231	3002049	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cadherin-like	8055231	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)
C	SNF	e4numC1	A: alpha bundles	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (develop294)
D	SNF	e4numD1	A: alpha bundles	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (develop294)
B	SNF	e4numB1	A: alpha bundles	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (develop294)
A	SNF	e4numA1	A: alpha bundles	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.40.60	Mainly Beta	Sandwich	Immunoglobulin-like	Cadherins	CATH (4.3.0)
D	2.60.40.60	Mainly Beta	Sandwich	Immunoglobulin-like	Cadherins	CATH (4.3.0)
B	2.60.40.60	Mainly Beta	Sandwich	Immunoglobulin-like	Cadherins	CATH (4.3.0)
A	2.60.40.60	Mainly Beta	Sandwich	Immunoglobulin-like	Cadherins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, 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
A, B, C, D	Cadherin-2	protein binding binding alpha-catenin binding protein phosphatase binding phosphatase binding enzyme binding cell adhesion molecule binding cadherin binding protein-containing complex binding protein tyrosine kinase binding kinase binding protein kinase binding nitric-oxide synthase binding identical protein binding protein binding binding alpha-catenin binding protein phosphatase binding phosphatase binding enzyme binding cell adhesion molecule binding cadherin binding protein-containing complex binding protein tyrosine kinase binding kinase binding protein kinase binding nitric-oxide synthase binding identical protein binding gamma-catenin binding cation binding ion binding calcium ion binding metal ion binding small molecule binding RNA binding nucleic acid binding beta-catenin binding	adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization multicellular organismal process cellular localization postsynaptic membrane assembly membrane biogenesis cellular component biogenesis multicellular organism development localization cellular component assembly adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization multicellular organismal process cellular localization postsynaptic membrane assembly membrane biogenesis cellular component biogenesis multicellular organism development localization cellular component assembly cell junction assembly receptor clustering anatomical structure development synapse organization intracellular protein localization postsynaptic membrane organization system development developmental process membrane organization postsynapse organization postsynapse assembly neuroligin clustering involved in postsynaptic membrane assembly nervous system development localization within membrane protein localization to membrane membrane assembly macromolecule localization synapse assembly cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process signal transduction Wnt signaling pathway regulation of biological process regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus biological regulation negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication heterophilic cell-cell adhesion cell adhesion cell-cell adhesion cell migration cell motility cell-cell junction assembly small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction regulation of Rho protein signal transduction intracellular signal transduction Rho protein signal transduction regulation of intracellular signal transduction intracellular signaling cassette trans-synaptic signaling modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling head development forebrain development animal organ development brain development pallium development cerebral cortex development central nervous system development telencephalon development ameboidal-type cell migration mesenchymal cell migration anatomical structure morphogenesis cell morphogenesis homophilic cell-cell adhesion muscle structure development cellular developmental process cell differentiation striated muscle cell differentiation muscle cell differentiation epithelium development endocrine system development cell development type B pancreatic cell development tissue development epithelial cell differentiation epithelial cell development pancreas development endocrine pancreas development enteroendocrine cell differentiation type B pancreatic cell differentiation neuroepithelial cell differentiation columnar/cuboidal epithelial cell differentiation calcium-dependent cell-cell adhesion blood vessel morphogenesis tube development vasculature development circulatory system development tube morphogenesis blood vessel development neurogenesis gliogenesis glial cell differentiation neuronal stem cell population maintenance maintenance of cell number stem cell population maintenance regulation of multicellular organismal development regulation of developmental process regulation of myelination regulation of nervous system development myelination axon ensheathment ensheathment of neurons regulation of multicellular organismal process multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells regulation of neuron projection development axonogenesis regulation of cellular component organization cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell projection morphogenesis neuron differentiation neuron projection morphogenesis regulation of axonogenesis regulation of anatomical structure morphogenesis plasma membrane bounded cell projection organization regulation of cell projection organization axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron development regulation of plasma membrane bounded cell projection organization brain morphogenesis animal organ morphogenesis vesicle localization regulation of localization transport regulation of transport synaptic vesicle clustering synaptic vesicle cycle positive regulation of biological process establishment of localization vesicle-mediated transport vesicle-mediated transport in synapse positive regulation of transport organelle localization establishment of localization in cell positive regulation of synaptic vesicle clustering regulation of synaptic vesicle clustering synaptic vesicle localization oligodendrocyte progenitor proliferation cell population proliferation regulation of cell population proliferation neural precursor cell proliferation regulation of oligodendrocyte progenitor proliferation regulation of neural precursor cell proliferation cell-cell adhesion mediated by cadherin radial glial cell differentiation positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of cellular process positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade positive regulation of signaling regulation of protein localization postsynaptic density protein 95 clustering regulation of postsynaptic density protein 95 clustering postsynaptic density organization regulation of synapse structure or activity regulation of biological quality regulation of postsynaptic density organization regulation of protein localization to membrane regulation of postsynapse organization regulation of organelle organization regulation of synapse organization organelle organization regulation of cellular localization postsynaptic specialization organization stem cell development neural crest cell differentiation neural crest cell development mesenchyme development stem cell differentiation mesenchymal cell differentiation	cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery sarcolemma plasma membrane membrane T-tubule apical part of cell cell-cell junction anchoring junction cell junction cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery sarcolemma plasma membrane membrane T-tubule apical part of cell cell-cell junction anchoring junction cell junction basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane protein-containing complex extrinsic component of plasma membrane catenin complex plasma membrane protein complex membrane protein complex extrinsic component of membrane intracellular anatomical structure cytoplasm synapse glutamatergic synapse neuron projection adherens junction intercalated disc fascia adherens cell-cell contact zone desmosome apical plasma membrane cell surface presynapse apicolateral plasma membrane cell cortex cortical cytoskeleton intracellular membraneless organelle actin cytoskeleton intracellular organelle cytoskeleton organelle membraneless organelle cortical actin cytoskeleton membrane microdomain membrane raft plasma membrane raft

InterPro: Protein Family Classification InterPro Database Homepage

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

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.