9EF2 | pdb_00009ef2

Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin candidate 2, open conformation

External Resource: Annotation

Domain Annotation: SCOP2 Classification
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	SCOP2B Superfamily	Integrin alpha N-terminal domain	8073719	3000314	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01839	FG-GAP repeat (FG-GAP)	FG-GAP repeat	-	Repeat
A	PF08441	Integrin alpha Ig-like domain 1 (Integrin_A_Ig_1)	Integrin alpha Ig-like domain 1	This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of Pfam:PF01839 repeats and to the N-terminus of the Pfam:PF00357 cytoplasmic region. This region is composed of an immunoglobulin-like domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	NeoNectin candidate 2	-	-	-
B	Integrin beta-1	cell adhesion molecule binding cadherin binding protein binding binding protein-containing complex binding protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding cation binding ion binding calcium ion binding metal ion binding small molecule binding cell adhesion molecule binding cadherin binding protein binding binding protein-containing complex binding protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding cation binding ion binding calcium ion binding metal ion binding small molecule binding protease binding magnesium ion binding collagen binding collagen binding involved in cell-matrix adhesion cell adhesion mediator activity cell-matrix adhesion mediator activity molecular transducer activity coreceptor activity signaling receptor activity extracellular matrix binding laminin binding fibronectin binding virus receptor activity exogenous protein binding protein heterodimerization activity protein dimerization activity integrin binding signaling receptor binding integrin binding involved in cell-matrix adhesion cytoskeletal protein binding actin binding	response to stimulus response to activity response to muscle activity regulation of tube diameter multicellular organismal process regulation of biological process system process regulation of tube size regulation of system process negative regulation of biological process biological regulation negative regulation of vasoconstriction circulatory system process regulation of blood circulation response to stimulus response to activity response to muscle activity regulation of tube diameter multicellular organismal process regulation of biological process system process regulation of tube size regulation of system process negative regulation of biological process biological regulation negative regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality negative regulation of multicellular organismal process vasoconstriction blood circulation regulation of anatomical structure size lamellipodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component organization cellular component biogenesis cellular component assembly lamellipodium organization cellular process cellular component organization or biogenesis cell projection assembly developmental process muscle structure development cellular developmental process cell differentiation anatomical structure development myoblast differentiation positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery protein localization to cell periphery protein localization to plasma membrane positive regulation of protein localization to membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization macromolecule localization positive regulation of protein localization regulation of protein localization to plasma membrane extracellular matrix organization extracellular structure organization external encapsulating structure organization heart development cardiac muscle tissue development cardiac muscle cell differentiation animal organ development muscle cell differentiation tissue development cardiocyte differentiation striated muscle tissue development circulatory system development multicellular organism development striated muscle cell differentiation muscle tissue development system development negative regulation of programmed cell death regulation of apoptotic process regulation of anoikis regulation of programmed cell death cell death negative regulation of anoikis negative regulation of apoptotic process anoikis negative regulation of cellular process apoptotic process programmed cell death muscle organ development cellular response to stimulus positive regulation of cell communication cellular response to growth factor stimulus positive regulation of signal transduction signaling regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway cell communication positive regulation of response to stimulus cellular response to endogenous stimulus signal transduction regulation of vascular endothelial growth factor signaling pathway enzyme-linked receptor protein signaling pathway regulation of signaling regulation of cellular response to vascular endothelial growth factor stimulus cell surface receptor signaling pathway response to endogenous stimulus regulation of cellular response to growth factor stimulus positive regulation of vascular endothelial growth factor signaling pathway vascular endothelial growth factor signaling pathway regulation of response to stimulus regulation of cell communication cellular response to vascular endothelial growth factor stimulus response to growth factor positive regulation of signaling calcium-independent cell-matrix adhesion cell adhesion cell-matrix adhesion cell-substrate adhesion response to fibroblast growth factor positive regulation of fibroblast growth factor receptor signaling pathway fibroblast growth factor receptor signaling pathway cellular response to fibroblast growth factor stimulus regulation of fibroblast growth factor receptor signaling pathway catabolic process regulation of catabolic process regulation of collagen metabolic process collagen catabolic process regulation of collagen catabolic process metabolic process collagen metabolic process regulation of metabolic process CD40 signaling pathway establishment of organelle localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization cell fate specification myoblast fate specification cell fate commitment myoblast fate commitment wound healing epithelium development morphogenesis of an epithelium epiboly involved in wound healing morphogenesis of an epithelial sheet wound healing, spreading of epidermal cells tissue morphogenesis anatomical structure morphogenesis response to stress epiboly cell migration wound healing, spreading of cells cell motility response to wounding cell-cell adhesion leukocyte cell-cell adhesion defense response cellular defense response cell-cell adhesion via plasma-membrane adhesion molecules homophilic cell adhesion via plasma membrane adhesion molecules axon extension axonogenesis developmental growth plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell growth cell morphogenesis neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis neuron projection extension developmental cell growth growth nervous system development axon development cell morphogenesis involved in neuron differentiation developmental growth involved in morphogenesis generation of neurons neuron development reactive gliosis inflammatory response neuroinflammatory response sexual reproduction reproductive process multicellular organismal reproductive process germ cell migration gamete generation positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity central nervous system neuron differentiation central nervous system development cell adhesion mediated by integrin basement membrane organization positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion maintenance of blood-brain barrier multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis formation of primary germ layer mesodermal cell differentiation mesoderm morphogenesis embryonic morphogenesis embryo development gastrulation anatomical structure formation involved in morphogenesis mesoderm formation mesoderm development cardiac muscle cell myoblast differentiation cardioblast differentiation stem cell differentiation cellular component assembly involved in morphogenesis membraneless organelle assembly striated muscle cell development cellular anatomical entity morphogenesis muscle cell development sarcomere organization actin filament-based process actomyosin structure organization actin cytoskeleton organization organelle assembly myofibril assembly supramolecular fiber organization leukocyte tethering or rolling leukocyte migration immune system process leukocyte adhesion to vascular endothelial cell cellular extravasation regulation of developmental process regulation of cell differentiation negative regulation of cell differentiation negative regulation of developmental process negative regulation of neuron differentiation regulation of neuron differentiation neuroblast proliferation cell population proliferation neural precursor cell proliferation positive regulation of response to wounding regulation of response to wounding positive regulation of wound healing regulation of response to stress regulation of wound healing import into cell receptor internalization transport receptor-mediated endocytosis endocytosis vesicle-mediated transport phagocytosis positive regulation of programmed cell death positive regulation of apoptotic process cell migration involved in sprouting angiogenesis blood vessel morphogenesis tube development endothelial cell migration angiogenesis sprouting angiogenesis vasculature development tube morphogenesis blood vessel endothelial cell migration blood vessel development embryo development ending in birth or egg hatching chordate embryonic development in utero embryonic development cellular response to low-density lipoprotein particle stimulus response to chemical response to lipoprotein particle response to nitrogen compound cellular response to lipoprotein particle stimulus cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle phase transition myoblast fusion cell-cell fusion myotube differentiation syncytium formation by plasma membrane fusion syncytium formation heterotypic cell-cell adhesion nitrogen compound transport carboxylic acid transmembrane transport positive regulation of amine transport regulation of amino acid transport organic acid transmembrane transport positive regulation of neurotransmitter transport carboxylic acid transport import across plasma membrane neurotransmitter transport organic acid transport transmembrane transport acidic amino acid transport positive regulation of glutamate uptake involved in transmission of nerve impulse regulation of amino acid import across plasma membrane regulation of transmembrane transport positive regulation of amino acid transport positive regulation of neurotransmitter uptake dicarboxylic acid transport L-alpha-amino acid transmembrane transport amino acid import across plasma membrane neurotransmitter uptake L-glutamate transmembrane transport positive regulation of L-glutamate import across plasma membrane amino acid transmembrane transport amino acid neurotransmitter reuptake L-amino acid transport L-glutamate import regulation of L-glutamate import across plasma membrane positive regulation of transmembrane transport regulation of amino acid transmembrane transport neurotransmitter reuptake regulation of glutamate uptake involved in transmission of nerve impulse regulation of neurotransmitter uptake L-glutamate import across plasma membrane organic anion transport regulation of transport glutamate reuptake regulation of neurotransmitter transport positive regulation of organic acid transport positive regulation of amino acid uptake involved in synaptic transmission amino acid transport amine transport positive regulation of transport regulation of organic acid transport regulation of amine transport regulation of amino acid uptake involved in synaptic transmission cell-cell adhesion mediated by integrin hemopoiesis B cell activation cell activation mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation leukocyte differentiation cardiac cell fate specification cardiac cell fate commitment regulation of fibroblast migration positive regulation of fibroblast migration fibroblast migration ameboidal-type cell migration integrin-mediated signaling pathway 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 spontaneous synaptic transmission regulation of spontaneous synaptic transmission head development brain development formation of radial glial scaffolds hindbrain radial glia guided cell migration hindbrain development cell migration in hindbrain cellular component disassembly regulation of synapse pruning regulation of cellular component organization cell junction disassembly synapse pruning regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization dendrite development dendrite morphogenesis regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction response to light stimulus learning learning or memory nervous system process visual learning visual behavior cognition associative learning behavior response to radiation response to abiotic stimulus small GTPase-mediated signal transduction negative regulation of Rho protein signal transduction negative regulation of signaling regulation of small GTPase mediated signal transduction negative regulation of intracellular signal transduction Rho protein signal transduction negative regulation of cell communication negative regulation of response to stimulus negative regulation of small GTPase mediated signal transduction regulation of Rho protein signal transduction negative regulation of signal transduction regulation of vasculature development positive regulation of developmental process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process regulation of cell cycle positive regulation of nervous system development positive regulation of cell population proliferation regulation of neuroblast proliferation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of cell differentiation positive regulation of neurogenesis regulation of neural precursor cell proliferation positive regulation of cell development positive regulation of neural precursor cell proliferation regulation of cell population proliferation positive regulation of neuroblast proliferation	protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex receptor complex cell periphery cellular anatomical structure integrin complex plasma membrane signaling receptor complex integrin alpha1-beta1 complex protein complex involved in cell adhesion integrin alpha5-beta1 complex neuromuscular junction protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex receptor complex cell periphery cellular anatomical structure integrin complex plasma membrane signaling receptor complex integrin alpha1-beta1 complex protein complex involved in cell adhesion integrin alpha5-beta1 complex neuromuscular junction synapse cell junction membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle intracellular membrane-bounded organelle recycling endosome endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle neuron spine neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection postsynapse dendrite dendritic tree endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane cell-cell junction intercalated disc anchoring junction cell-cell contact zone integrin alpha9-beta1 complex integrin alpha6-beta1 complex focal adhesion cell-substrate junction integrin alpha4-beta1 complex plasma membrane region synaptic membrane ruffle cell leading edge leading edge membrane ruffle membrane cell projection membrane cell surface membrane microdomain membrane raft cell division site cleavage furrow integrin alphav-beta1 complex integrin alpha7-beta1 complex Schaffer collateral - CA1 synapse integrin alpha2-beta1 complex lamellipodium external side of plasma membrane side of membrane myelin sheath abaxonal region myelin sheath extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle sarcolemma perinuclear region of cytoplasm integrin alpha10-beta1 complex cerebellar climbing fiber to Purkinje cell synapse neuron to neuron synapse asymmetric synapse glutamatergic synapse excitatory synapse asymmetric, glutamatergic, excitatory synapse actin-based cell projection filopodium pigment granule melanosome glial cell projection integrin alpha11-beta1 complex integrin alpha8-beta1 complex integrin alpha3-beta1 complex
A	Integrin alpha-5	protein binding binding signaling receptor binding platelet-derived growth factor receptor binding growth factor receptor binding virus receptor activity exogenous protein binding cation binding ion binding calcium ion binding metal ion binding small molecule binding molecular transducer activity signaling receptor activity protein binding binding signaling receptor binding platelet-derived growth factor receptor binding growth factor receptor binding virus receptor activity exogenous protein binding cation binding ion binding calcium ion binding metal ion binding small molecule binding molecular transducer activity signaling receptor activity cell adhesion molecule binding protein-containing complex binding integrin binding epidermal growth factor receptor binding cytokine receptor binding vascular endothelial growth factor receptor binding vascular endothelial growth factor receptor 2 binding	response to stimulus response to activity response to muscle activity regulation of biological process regulation of cellular process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion cellular process response to stimulus response to activity response to muscle activity regulation of biological process regulation of cellular process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion cellular process positive regulation of cellular process cellular response to stimulus positive regulation of cell communication cellular response to growth factor stimulus positive regulation of signal transduction signaling regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway cell communication regulation of vascular endothelial growth factor receptor signaling pathway positive regulation of response to stimulus cellular response to endogenous stimulus signal transduction enzyme-linked receptor protein signaling pathway regulation of signaling cell surface receptor signaling pathway response to endogenous stimulus regulation of cellular response to growth factor stimulus vascular endothelial growth factor receptor signaling pathway regulation of response to stimulus positive regulation of vascular endothelial growth factor receptor signaling pathway regulation of cell communication response to growth factor positive regulation of signaling negative regulation of programmed cell death regulation of apoptotic process regulation of anoikis negative regulation of biological process regulation of programmed cell death cell death negative regulation of anoikis negative regulation of apoptotic process anoikis negative regulation of cellular process apoptotic process programmed cell death regulation of vascular endothelial growth factor signaling pathway regulation of cellular response to vascular endothelial growth factor stimulus positive regulation of vascular endothelial growth factor signaling pathway vascular endothelial growth factor signaling pathway cellular response to vascular endothelial growth factor stimulus behavior multicellular organismal process system process learning or memory nervous system process cognition memory heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules cell-cell adhesion cell-cell adhesion via plasma-membrane adhesion molecules CD40 signaling pathway developmental process wound healing epithelium development morphogenesis of an epithelium epiboly involved in wound healing tissue development morphogenesis of an epithelial sheet wound healing, spreading of epidermal cells tissue morphogenesis anatomical structure morphogenesis response to stress anatomical structure development epiboly cell migration wound healing, spreading of cells cell motility response to wounding leukocyte cell-cell adhesion heterotypic cell-cell adhesion cell-cell adhesion mediated by integrin cell adhesion mediated by integrin cell-matrix adhesion blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development system development multi-multicellular organism process reproductive process female pregnancy multi-organism reproductive process formation of primary germ layer cellular developmental process embryonic morphogenesis embryo development gastrulation endoderm development cell differentiation endoderm formation endodermal cell differentiation integrin-mediated signaling pathway cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly cell-substrate junction assembly cell-substrate junction organization cellular component organization or biogenesis positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion regulation of sprouting angiogenesis regulation of developmental process regulation of vasculature development positive regulation of developmental process positive regulation of sprouting angiogenesis regulation of multicellular organismal process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis sprouting angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane protein-containing complex cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane protein-containing complex integrin alpha5-beta1 complex plasma membrane protein complex membrane protein complex receptor complex integrin complex plasma membrane signaling receptor complex protein complex involved in cell adhesion glutamatergic synapse membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system ruffle cell projection cell leading edge plasma membrane bounded cell projection anchoring junction focal adhesion cell-substrate junction alphav-beta3 integrin-vitronectin complex cytoplasmic vesicle intracellular vesicle vesicle endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR033760	Integrin beta N-terminal	Domain
B	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B	IPR032695	Integrin domain superfamily	Homologous Superfamily
B	IPR002369	Integrin beta subunit, VWA domain	Domain
B	IPR040622	Integrin beta, epidermal growth factor-like domain 1	Domain
B	IPR036349	Integrin beta tail domain superfamily	Homologous Superfamily
B	IPR014836	Integrin beta subunit, cytoplasmic domain	Domain
B	IPR012896	Integrin beta subunit, tail	Domain
B	IPR013111	Epidermal growth factor-like domain, extracellular	Domain
B	IPR015812	Integrin beta subunit	Family
B	IPR016201	PSI domain	Domain
A	IPR013517	FG-GAP repeat	Repeat
A	IPR048286	Integrin alpha, third immunoglobulin-like domain	Domain
A	IPR013649	Integrin alpha, first immunoglubulin-like domain	Domain
A	IPR048285	Integrin alpha, second immunoglobulin-like domain	Domain
A	IPR032695	Integrin domain superfamily	Homologous Superfamily
A	IPR013519	Integrin alpha beta-propellor	Repeat
A	IPR000413	Integrin alpha chain	Family
A	IPR028994	Integrin alpha, N-terminal	Homologous Superfamily
A	IPR018184	Integrin alpha chain, C-terminal cytoplasmic region, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P05556	dilated cardiomyopathy squamous cell carcinoma cardiomyopathy Liver Cirrhosis, Experimental non-small cell lung carcinoma congestive heart failure endometriosis calcinosis malignant glioma pilocytic astrocytoma cancer subependymal giant cell astrocytoma lung adenocarcinoma malignant pancreatic neoplasm multiple sclerosis dilated cardiomyopathy squamous cell carcinoma cardiomyopathy Liver Cirrhosis, Experimental non-small cell lung carcinoma congestive heart failure endometriosis calcinosis malignant glioma pilocytic astrocytoma cancer subependymal giant cell astrocytoma lung adenocarcinoma malignant pancreatic neoplasm multiple sclerosis osteosarcoma atypical teratoid rhabdoid tumor primitive neuroectodermal tumor Crohn disease dilated cardiomyopathy 1A malignant ependymoma medulloblastoma pancreatic ductal adenocarcinoma dermatomyositis Down syndrome glioblastoma heart failure
A	Pharos: P08648	squamous cell carcinoma Gliosis pancreatic ductal adenocarcinoma ulcerative colitis gastric carcinoma ischemia reperfusion injury malignant colon neoplasm malignant mesothelioma non-small cell lung carcinoma psoriasis subependymal giant cell astrocytoma breast cancer gastric neoplasm hereditary diffuse gastric adenocarcinoma lung adenocarcinoma squamous cell carcinoma Gliosis pancreatic ductal adenocarcinoma ulcerative colitis gastric carcinoma ischemia reperfusion injury malignant colon neoplasm malignant mesothelioma non-small cell lung carcinoma psoriasis subependymal giant cell astrocytoma breast cancer gastric neoplasm hereditary diffuse gastric adenocarcinoma lung adenocarcinoma malignant ependymoma osteosarcoma tuberculosis gastric cancer glioblastoma interstitial cystitis lung carcinoma malignant glioma