2PZ5

Crystal Structure of FGF Receptor 2 (FGFR2) Kinase Domain Harboring the Pathogenic N549T Mutation Responsible for Pfeiffer Syndrome

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)
A	d2pz5a_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Fibroblast growth factor receptor 2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2pz5b_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Fibroblast growth factor receptor 2	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)
A	SCOP2B Superfamily	Protein kinase-like (PK-like)	8036040	3000066	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8036040	3000066	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)
A	Pkinase_Tyr	e2pz5A1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)
B	Pkinase_Tyr	e2pz5B1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
A	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
B	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
B	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF07714	Protein tyrosine and serine/threonine kinase (PK_Tyr_Ser-Thr)	Protein tyrosine and serine/threonine kinase	Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosph ...	Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity [1]; Serine/threonine-protein kinases, tyrosine-protein kinases, and dual specificity protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins). This entry represents the catalytic domain found in a number of serine/threonine- and tyrosine-protein kinases. It does not include the catalytic domain of dual specificity kinases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Fibroblast growth factor receptor 2	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 organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding protein homodimerization activity protein dimerization activity fibroblast growth factor binding growth factor binding molecular transducer activity fibroblast growth factor receptor activity signaling receptor activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity heparin binding glycosaminoglycan binding sulfur compound binding	developmental process tissue morphogenesis anatomical structure morphogenesis epithelium development epidermis morphogenesis epidermis development anatomical structure development morphogenesis of an epithelium tissue development regulation of biological process cell population proliferation regulation of cellular process regulation of cell population proliferation biological regulation developmental process tissue morphogenesis anatomical structure morphogenesis epithelium development epidermis morphogenesis epidermis development anatomical structure development morphogenesis of an epithelium tissue development regulation of biological process cell population proliferation regulation of cellular process regulation of cell population proliferation biological regulation cellular process regulation of osteoblast proliferation osteoblast proliferation multicellular organismal process ossification bone mineralization animal organ development biomineral tissue development lateral sprouting from an epithelium morphogenesis of a branching structure morphogenesis of a branching epithelium mammary gland morphogenesis mammary gland development mammary gland bud formation gland development mammary gland bud morphogenesis embryo development multicellular organism development tube morphogenesis gland morphogenesis morphogenesis of an epithelial bud animal organ morphogenesis epithelial tube morphogenesis morphogenesis of an epithelial fold morphogenesis of embryonic epithelium tube development embryonic morphogenesis mammary gland duct morphogenesis mammary gland epithelium development anatomical structure formation involved in morphogenesis reproductive system development prostate gland development reproductive process urogenital system development developmental process involved in reproduction prostate gland morphogenesis reproductive structure development system development apoptotic process cell death programmed cell death cellular response to stimulus response to lipid response to stimulus 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 chordate embryonic development labyrinthine layer development embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development placenta development branching involved in labyrinthine layer morphogenesis in utero embryonic development embryonic placenta morphogenesis labyrinthine layer morphogenesis molting cycle process hair cycle skin development skin epidermis development hair follicle development molting cycle hair cycle process hair follicle morphogenesis cellular developmental process epithelial cell differentiation prostate glandular acinus development cell differentiation epithelial cell differentiation involved in prostate gland development squamous basal epithelial stem cell differentiation involved in prostate gland acinus development glandular epithelial cell differentiation stem cell differentiation columnar/cuboidal epithelial cell differentiation axonogenesis cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cellular component organization or biogenesis plasma membrane bounded cell projection organization nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron development regulation of phospholipase activity positive regulation of phospholipase activity regulation of catalytic activity positive regulation of catalytic activity positive regulation of lipase activity regulation of molecular function positive regulation of molecular function positive regulation of hydrolase activity regulation of hydrolase activity regulation of lipase activity heart development cardiac chamber morphogenesis heart morphogenesis circulatory system development cardiac septum development cardiac septum morphogenesis cardiac chamber development outflow tract septum morphogenesis outflow tract morphogenesis mesenchymal cell proliferation involved in lung development respiratory tube development mesenchymal cell proliferation lung development respiratory system development odontogenesis cell fate commitment skeletal system development skeletal system morphogenesis negative regulation of cell population proliferation regulation of keratinocyte proliferation negative regulation of biological process negative regulation of keratinocyte proliferation negative regulation of cellular process regulation of epithelial cell proliferation epithelial cell proliferation negative regulation of epithelial cell proliferation keratinocyte proliferation developmental growth growth organ growth bone growth endochondral bone growth bone development cellular biosynthetic process RNA metabolic process negative regulation of cellular 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 cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic 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 response to fibroblast growth factor cellular response to growth factor stimulus negative regulation of apoptotic process in bone marrow cell signaling regulation of apoptotic process in bone marrow cell regulation of programmed cell death cell surface receptor protein tyrosine kinase signaling pathway cell communication cellular response to endogenous stimulus fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptotic process in bone marrow cell signal transduction enzyme-linked receptor protein signaling pathway cell surface receptor signaling pathway negative regulation of programmed cell death response to endogenous stimulus apoptotic process in bone marrow cell regulation of apoptotic process negative regulation of apoptotic process fibroblast growth factor receptor signaling pathway response to growth factor cellular response to fibroblast growth factor stimulus positive regulation of biological process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process regulation of osteoblast differentiation regulation of developmental process regulation of cell differentiation osteoblast differentiation lung lobe morphogenesis lung lobe development lung morphogenesis positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling branching morphogenesis of a nerve ear morphogenesis embryonic organ morphogenesis ear development sensory organ development sensory organ morphogenesis inner ear development inner ear morphogenesis positive regulation of cell population proliferation epithelial cell proliferation involved in lung morphogenesis regulation of epithelial cell proliferation involved in lung morphogenesis positive regulation of epithelial cell proliferation involved in lung morphogenesis positive regulation of epithelial cell proliferation lung epithelium development neuroblast proliferation forebrain development forebrain neuroblast division ventricular zone neuroblast division cell proliferation in forebrain head development forebrain generation of neurons neuroblast division brain development central nervous system development forebrain ventricular zone progenitor cell division cell division neural precursor cell proliferation positive regulation of mesenchymal cell proliferation regulation of mesenchymal cell proliferation mammary gland specification specification of animal organ identity pattern specification process animal organ formation fibroblast growth factor receptor signaling pathway involved in mammary gland specification regionalization mammary gland formation positive regulation of cell proliferation in bone marrow fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow cell proliferation in bone marrow regulation of cell proliferation in bone marrow formation of primary germ layer mesodermal cell differentiation mesoderm morphogenesis gastrulation mesoderm formation mesoderm development regulation of morphogenesis of a branching structure regulation of multicellular organismal process regulation of anatomical structure morphogenesis regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of Wnt signaling pathway Wnt signaling pathway positive regulation of canonical Wnt signaling pathway regulation of Wnt signaling pathway embryonic pattern specification exocrine system development lacrimal gland development branching morphogenesis of an epithelial tube axis elongation bud elongation involved in lung branching branch elongation of an epithelium developmental growth involved in morphogenesis epithelial tube branching involved in lung morphogenesis biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin lung alveolus development otic vesicle development tube formation epithelial tube formation otic vesicle formation otic vesicle morphogenesis limb development appendage development limb bud formation appendage morphogenesis limb morphogenesis response to decreased oxygen levels cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to stress response to hypoxia response to stress response to oxygen levels response to abiotic stimulus regulation of growth regulation of cardiac muscle tissue growth cardiac muscle cell proliferation striated muscle tissue development positive regulation of developmental process positive regulation of cardiac muscle cell proliferation regulation of organ growth regulation of heart growth regulation of cardiac muscle cell proliferation muscle cell proliferation cardiac muscle tissue growth muscle tissue development positive regulation of developmental growth striated muscle cell proliferation positive regulation of heart growth heart growth regulation of multicellular organismal development regulation of developmental growth cardiac muscle tissue development positive regulation of organ growth positive regulation of growth positive regulation of cardiac muscle tissue growth positive regulation of multicellular organismal process smooth muscle cell differentiation regulation of smooth muscle cell differentiation muscle cell differentiation muscle structure development regulation of muscle cell differentiation ventricular septum development ventricular septum morphogenesis membranous septum morphogenesis cardiac ventricle development cell-cell signaling positive regulation of cell division regulation of cell division protein phosphorylation protein autophosphorylation phosphorylation macromolecule modification phosphate-containing compound metabolic process protein metabolic process protein modification process phosphorus metabolic process mesenchyme development mesenchymal cell differentiation epithelial to mesenchymal transition prostate gland epithelium morphogenesis prostate gland morphogenetic growth prostate gland growth branching involved in prostate gland morphogenesis prostate epithelial cord elongation fibroblast growth factor receptor signaling pathway involved in hemopoiesis hemopoiesis ventricular cardiac muscle tissue morphogenesis ventricular cardiac muscle tissue development muscle organ development muscle tissue morphogenesis cardiac ventricle morphogenesis cardiac muscle tissue morphogenesis muscle organ morphogenesis positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process bone morphogenesis orbitofrontal cortex development limbic system development midbrain development pyramidal neuron development central nervous system neuron development central nervous system neuron differentiation forebrain neuron development forebrain neuron differentiation pyramidal neuron differentiation blood vessel morphogenesis angiogenesis vasculature development blood vessel development lung-associated mesenchyme development response to transforming growth factor beta cellular response to transforming growth factor beta stimulus salivary gland development epithelial cell proliferation involved in salivary gland morphogenesis salivary gland morphogenesis embryonic cranial skeleton morphogenesis cranial skeletal system development embryonic skeletal system development embryonic skeletal system morphogenesis smoothened signaling pathway regulation of smoothened signaling pathway digestive system development digestive tract development regulation of vascular associated smooth muscle cell proliferation positive regulation of vascular associated smooth muscle cell proliferation regulation of smooth muscle cell proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation vascular associated smooth muscle cell proliferation response to alcohol response to ethanol peptidyl-tyrosine modification peptidyl-amino acid modification peptidyl-tyrosine phosphorylation ureteric bud development mesonephric epithelium development kidney epithelium development mesonephros development renal system development kidney development mesonephric tubule development mesenchymal cell differentiation involved in lung development prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis prostate glandular acinus morphogenesis fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development embryonic digestive tract morphogenesis digestive tract morphogenesis embryonic digestive tract development branching involved in salivary gland morphogenesis post-embryonic development branch elongation involved in salivary gland morphogenesis	protein-containing complex receptor complex cell surface cellular anatomical entity cell periphery plasma membrane membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm protein-containing complex receptor complex cell surface cellular anatomical entity cell periphery plasma membrane membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle extracellular region synapse cell junction excitatory synapse Golgi apparatus endomembrane system cell cortex nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
A, B	IPR000719	Protein kinase domain	Domain
A, B	IPR003599	Immunoglobulin domain subtype	Domain
A, B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B	IPR007110	Immunoglobulin-like domain	Domain
A, B	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A, B	IPR016248	Fibroblast growth factor receptor family	Family
A, B	IPR008266	Tyrosine-protein kinase, active site	Active Site
A, B	IPR003598	Immunoglobulin subtype 2	Domain
A, B	IPR013098	Immunoglobulin I-set	Domain
A, B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B	IPR050122	Receptor Tyrosine Kinase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P21802	LADD syndrome craniosynostosis Beare-Stevenson cutis gyrata syndrome Pfeiffer syndrome Jackson-Weiss syndrome Saethre-Chotzen syndrome Crouzon syndrome cholangiocarcinoma Cowden disease breast carcinoma acrocephalosyndactyly FGFR2-related bent bone dysplasia breast cancer Plagiocephaly, Nonsynostotic cancer LADD syndrome craniosynostosis Beare-Stevenson cutis gyrata syndrome Pfeiffer syndrome Jackson-Weiss syndrome Saethre-Chotzen syndrome Crouzon syndrome cholangiocarcinoma Cowden disease breast carcinoma acrocephalosyndactyly FGFR2-related bent bone dysplasia breast cancer Plagiocephaly, Nonsynostotic cancer cleft palate ankylosis apert syndrome familial scaphocephaly syndrome, McGillivray type intellectual disability hereditary diffuse gastric adenocarcinoma developmental coordination disorder endometrial cancer cirrhosis of liver spina bifida Antley-Bixler syndrome Antley-Bixler syndrome without genital anomalies or disordered steroidogenesis endometrial carcinoma gastric cancer intrahepatic cholangiocarcinoma non-small cell lung carcinoma lung adenocarcinoma malignant ependymoma biliary tract cancer Pfeiffer syndrome type 3 gastric carcinoma head and neck cancer medulloblastoma schizophrenia hydrolethalus syndrome skin disease cutaneous lupus erythematosus Lhermitte-Duclos disease osteogenesis imperfecta lung benign neoplasm atypical teratoid rhabdoid tumor ovarian serous adenocarcinoma benign neoplasm of stomach Pfeiffer syndrome type 1 endometrium adenocarcinoma familial scaphocephaly syndrome malignant glioma bipolar disorder polydactyly gastric neoplasm head and neck carcinoma PTEN hamartoma tumor syndrome Sjogren syndrome idiopathic pulmonary fibrosis adenoma interstitial lung disease nevus, epidermal stomach carcinoma in situ depressive disorder osteosarcoma Down syndrome trigonocephaly lung cancer Bannayan-Riley-Ruvalcaba syndrome pancreatic intraductal papillary-mucinous neoplasm malignant colon neoplasm bile duct cancer Pfeiffer syndrome type 2 endometrium carcinoma in situ pilocytic astrocytoma preeclampsia glioblastoma choanal atresia prostate cancer head and neck neoplasm cleft lip hydrocephalus adrenal cortex carcinoma squamous cell lung carcinoma subependymal giant cell astrocytoma large cell medulloblastoma oligodendroglioma tethered spinal cord syndrome arthrogryposis ovarian cancer ulcerative colitis 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.