4EKU | pdb_00004eku

Crystal Structure of FERM Domain of Proline-rich Tyrosine Kinase 2

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	ADH_zinc_N	e4ekuA1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ADH_zinc_N	ECOD (v294.1)
A	FERM_M	e4ekuA4	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: FERM_M	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
A	1.20.80.10	Mainly Alpha	Up-down Bundle	Acyl-CoA Binding Protein		CATH (4.3.0)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21477	FAK1/PYK2, FERM domain C-lobe (FERM_C_FAK1)	FAK1/PYK2, FERM domain C-lobe	FAK1 (focal adhesion kinase 1) is a non-receptor tyrosine kinase that localizes to focal adhesions in adherent cells and it is involved in diverse cellular roles. The N-terminal region of FAK1 contains a FERM domain which is subdivided FERM_N or A-lo ...	FAK1 (focal adhesion kinase 1) is a non-receptor tyrosine kinase that localizes to focal adhesions in adherent cells and it is involved in diverse cellular roles. The N-terminal region of FAK1 contains a FERM domain which is subdivided FERM_N or A-lobe, FERM_M or B-lobe and FERM_C or C-lobe. This entry represents the C-lobe, which is structurally similar to the PH and PTB domains and consequently is capable of binding to both peptides and phospholipids at different sites [1-5]. This domain is also present in protein-tyrosine kinase 2-beta (also known as PYK2), a cytoplasmic, non-receptor tyrosine kinase which is a close paralogue to FAK in vertebrates. FRMPD1/3/4 also contain this domain; FRMPD1 regulates the subcellular location of activator of G-protein signaling 3 and its interaction with G-proteins. FRMPD4 has been shown to regulate dendritic spine morphogenesis and the function of FRMPD3 is not clear.	Domain
A	PF00373	FERM central domain (FERM_M)	FERM central domain	This domain is the central structural domain of the FERM domain.	Domain
A	PF18038	FERM N-terminal domain (FERM_N_2)	FERM N-terminal domain	This entry represents the FERM N-terminal domain found in focal adhesion kinases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Protein-tyrosine kinase 2-beta	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 binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate 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 binding 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 non-membrane spanning protein tyrosine kinase activity protein serine/threonine kinase activity calcium/calmodulin-dependent protein kinase activity neurotransmitter receptor regulator activity molecular function regulator activity signaling receptor regulator activity ionotropic glutamate receptor binding protein binding signaling receptor binding glutamate receptor binding molecular function activator activity signaling receptor activator activity	cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality positive regulation of cellular process trans-synaptic signaling regulation of biological process regulation of signaling cell surface receptor signaling pathway nervous system process biological regulation cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication cellular process excitatory postsynaptic potential regulation of membrane potential positive regulation of signaling regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion cell-substrate adhesion positive regulation of cell-matrix adhesion cell adhesion cell-matrix adhesion positive regulation of cell-substrate adhesion regulation of cell-matrix adhesion apoptotic process cell death programmed cell death response to lipid response to oxygen-containing compound cellular response to oxygen-containing compound response to retinoic acid cellular response to chemical stimulus cellular response to retinoic acid response to chemical cellular response to lipid regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process cell projection organization cell development neuron projection development cellular component organization neurogenesis multicellular organism development neuron differentiation positive regulation of neuron projection development cell differentiation anatomical structure development positive regulation of cell projection organization cellular component organization or biogenesis system development developmental process plasma membrane bounded cell projection organization regulation of cell projection organization nervous system development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization regulation of postsynaptic specialization assembly cellular component biogenesis cellular component assembly cell junction assembly regulation of excitatory synapse assembly postsynaptic density organization regulation of synapse structure or activity synapse organization regulation of synapse assembly regulation of postsynaptic density organization postsynapse organization organelle assembly postsynaptic specialization assembly postsynapse assembly regulation of postsynapse organization regulation of cellular component biogenesis regulation of organelle organization excitatory synapse assembly regulation of cell junction assembly regulation of synapse organization organelle organization cell junction organization regulation of organelle assembly postsynaptic specialization organization synapse assembly postsynaptic density assembly regulation of postsynaptic density assembly cellular response to stress response to stress response to fluid shear stress cellular response to fluid shear stress mononuclear cell differentiation mature B cell differentiation B cell activation involved in immune response lymphocyte activation cell activation involved in immune response lymphocyte differentiation marginal zone B cell differentiation leukocyte activation B cell differentiation leukocyte activation involved in immune response lymphocyte activation involved in immune response mature B cell differentiation involved in immune response immune response hemopoiesis B cell activation cell activation immune effector process immune system process leukocyte differentiation defense response cellular defense response regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity primary metabolic process regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process protein-containing complex organization signal complex assembly protein-containing complex assembly negative regulation of potassium ion transport regulation of localization regulation of potassium ion transport transport regulation of transport negative regulation of monoatomic ion transport regulation of monoatomic ion transport negative regulation of biological process negative regulation of transport establishment of localization metal ion transport localization monoatomic ion transport potassium ion transport monoatomic cation transport regulation of metal ion transport intracellular signal transduction positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process regulation of cytoskeleton organization regulation of actin filament-based process actin cytoskeleton organization regulation of actin cytoskeleton organization actin filament-based process cytoskeleton organization response to cytokine response to chemokine cytokine-mediated signaling pathway cellular response to chemokine chemokine-mediated signaling pathway response to peptide G protein-coupled receptor signaling pathway cellular response to cytokine stimulus cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cortical cytoskeleton organization positive regulation of organelle organization regulation of cellular component size regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of protein polymerization regulation of actin filament polymerization protein polymerization actin polymerization or depolymerization regulation of actin filament organization actin filament polymerization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization regulation of actin polymerization or depolymerization actin filament organization positive regulation of supramolecular fiber organization regulation of protein polymerization regulation of actin filament length regulation of supramolecular fiber organization supramolecular fiber organization positive regulation of actin filament polymerization regulation of anatomical structure size 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 cell migration cell motility locomotion regulation of developmental process regulation of cell differentiation regulation of cell development negative regulation of cell differentiation regulation of immune system process regulation of multicellular organismal development negative regulation of developmental process regulation of myeloid cell differentiation negative regulation of myeloid cell differentiation myeloid cell differentiation regulation of hemopoiesis ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway positive regulation of receptor signaling pathway via STAT peptidyl-amino acid modification regulation of receptor signaling pathway via JAK-STAT activation of protein kinase activity regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via STAT peptidyl-tyrosine modification positive regulation of receptor signaling pathway via JAK-STAT activation of Janus kinase activity peptidyl-tyrosine phosphorylation cell surface receptor signaling pathway via JAK-STAT cell surface receptor protein tyrosine kinase signaling pathway vascular endothelial growth factor receptor signaling pathway enzyme-linked receptor protein signaling pathway Golgi organization endomembrane system organization protein autophosphorylation peptidyl-tyrosine autophosphorylation regulation of B cell chemotaxis positive regulation of chemotaxis regulation of lymphocyte chemotaxis taxis regulation of mononuclear cell migration positive regulation of immune system process chemotaxis regulation of leukocyte chemotaxis positive regulation of lymphocyte migration regulation of leukocyte migration lymphocyte migration response to external stimulus positive regulation of leukocyte chemotaxis leukocyte migration B cell chemotaxis regulation of response to external stimulus lymphocyte chemotaxis regulation of lymphocyte migration positive regulation of lymphocyte chemotaxis positive regulation of response to external stimulus positive regulation of mononuclear cell migration positive regulation of B cell chemotaxis cell chemotaxis positive regulation of leukocyte migration regulation of chemotaxis mononuclear cell migration leukocyte chemotaxis adaptive immune response blood vessel morphogenesis tube development angiogenesis sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development positive regulation of JNK cascade JNK cascade regulation of JNK cascade ERBB signaling pathway epidermal growth factor receptor signaling pathway macrophage chemotaxis macrophage migration regulation of macrophage migration myeloid leukocyte migration regulation of macrophage chemotaxis cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway response to tumor necrosis factor regulation of calcium ion transport monoatomic ion transmembrane transport regulation of monoatomic ion transmembrane transport calcium ion transport regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport calcium ion transmembrane import into cytosol regulation of release of sequestered calcium ion into cytosol transmembrane transport release of sequestered calcium ion into cytosol regulation of transmembrane transport regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport multicellular organismal-level homeostasis homeostatic process tissue remodeling bone remodeling anatomical structure homeostasis tissue homeostasis bone resorption endothelial cell migration positive regulation of endothelial cell migration regulation of endothelial cell migration catabolic process regulation of ubiquitin-dependent protein catabolic process macromolecule catabolic process positive regulation of ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process regulation of protein catabolic process integrin-mediated signaling pathway regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process regulation of cell shape cell morphogenesis regulation of cell morphogenesis regulation of anatomical structure morphogenesis endothelin receptor signaling pathway negative regulation of cell population proliferation regulation of vasculature development positive regulation of developmental process positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process regulation of synaptic plasticity neuron migration long-term synaptic potentiation negative regulation of biomineral tissue development regulation of biomineral tissue development regulation of bone mineralization negative regulation of bone mineralization ossification biomineral tissue development bone mineralization animal organ development tissue development negative regulation of ossification negative regulation of multicellular organismal process regulation of ossification	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell body anchoring junction cell junction focal adhesion cell-substrate junction protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell body anchoring junction cell junction focal adhesion cell-substrate junction protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex NMDA selective glutamate receptor complex receptor complex cell periphery ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex monoatomic ion channel complex somatodendritic compartment apical dendrite cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection cell leading edge lamellipodium synapse glutamatergic synapse perinuclear region of cytoplasm neuronal cell body postsynaptic density, intracellular component postsynaptic specialization intracellular membraneless organelle postsynaptic specialization, intracellular component intracellular organelle postsynaptic density postsynapse neuron to neuron synapse organelle membraneless organelle asymmetric synapse cell cortex presynapse growth cone axon distal axon site of polarized growth membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
A	IPR000719	Protein kinase domain	Domain
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR014352	FERM/acyl-CoA-binding protein superfamily	Homologous Superfamily
A	IPR049385	FAK1-like, FERM domain C-lobe	Domain
A	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A	IPR019749	Band 4.1 domain	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR000299	FERM domain	Domain
A	IPR041784	FAK1/PYK2, FERM domain C-lobe	Domain
A	IPR008266	Tyrosine-protein kinase, active site	Active Site
A	IPR019748	FERM central domain	Domain
A	IPR041390	Focal adhesion kinase, N-terminal	Domain
A	IPR035963	FERM superfamily, second domain	Homologous Superfamily
A	IPR036137	Focal adhesion kinase, targeting (FAT) domain superfamily	Homologous Superfamily
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR005189	Focal adhesion kinase, targeting (FAT) domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q14289	melanoma status epilepticus skin neoplasm skin cancer Petit mal status primitive neuroectodermal tumor subependymal giant cell astrocytoma astrocytic tumor malignant ependymoma oligodendroglioma Pick disease Takayasu arteritis atypical teratoid rhabdoid tumor cutaneous melanoma large cell medulloblastoma melanoma status epilepticus skin neoplasm skin cancer Petit mal status primitive neuroectodermal tumor subependymal giant cell astrocytoma astrocytic tumor malignant ependymoma oligodendroglioma Pick disease Takayasu arteritis atypical teratoid rhabdoid tumor cutaneous melanoma large cell medulloblastoma malignant glioma osteosarcoma pilocytic astrocytoma Alzheimer disease autism spectrum disorder glioblastoma lung carcinoma medulloblastoma non-small cell lung 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.