+Open data
-Basic information
Entry | Database: PDB / ID: 1ihk | ||||||
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Title | CRYSTAL STRUCTURE OF FIBROBLAST GROWTH FACTOR 9 (FGF9) | ||||||
Components | GLIA-ACTIVATING FACTOR | ||||||
Keywords | HORMONE/GROWTH FACTOR / b-trefoil fold / HORMONE-GROWTH FACTOR COMPLEX | ||||||
Function / homology | Function and homology information regulation of timing of cell differentiation / positive regulation of activin receptor signaling pathway / negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching / positive regulation of reproductive process / Sertoli cell proliferation / Transcriptional regulation of testis differentiation / embryonic skeletal system development / FGFR3b ligand binding and activation / eye development / Signaling by activated point mutants of FGFR3 ...regulation of timing of cell differentiation / positive regulation of activin receptor signaling pathway / negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching / positive regulation of reproductive process / Sertoli cell proliferation / Transcriptional regulation of testis differentiation / embryonic skeletal system development / FGFR3b ligand binding and activation / eye development / Signaling by activated point mutants of FGFR3 / FGFR3c ligand binding and activation / embryonic digestive tract development / Phospholipase C-mediated cascade; FGFR3 / mesenchymal cell proliferation / fibroblast growth factor receptor binding / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / Phospholipase C-mediated cascade; FGFR2 / FGFR4 ligand binding and activation / Phospholipase C-mediated cascade; FGFR4 / male sex determination / activin receptor signaling pathway / Signaling by activated point mutants of FGFR1 / FGFR1c ligand binding and activation / Downstream signaling of activated FGFR1 / Phospholipase C-mediated cascade: FGFR1 / lung-associated mesenchyme development / positive regulation of smoothened signaling pathway / positive regulation of vascular associated smooth muscle cell migration / positive regulation of vascular endothelial growth factor receptor signaling pathway / embryonic limb morphogenesis / positive regulation of mesenchymal cell proliferation / cardiac muscle cell proliferation / smoothened signaling pathway / inner ear morphogenesis / PI-3K cascade:FGFR3 / negative regulation of Wnt signaling pathway / PI-3K cascade:FGFR2 / positive regulation of stem cell proliferation / PI-3K cascade:FGFR4 / PI-3K cascade:FGFR1 / positive regulation of cell division / PI3K Cascade / canonical Wnt signaling pathway / fibroblast growth factor receptor signaling pathway / chondrocyte differentiation / SHC-mediated cascade:FGFR3 / vascular endothelial growth factor receptor signaling pathway / SHC-mediated cascade:FGFR2 / SHC-mediated cascade:FGFR4 / SHC-mediated cascade:FGFR1 / FRS-mediated FGFR3 signaling / positive regulation of cardiac muscle cell proliferation / FRS-mediated FGFR2 signaling / regulation of cell migration / FRS-mediated FGFR4 signaling / Signaling by FGFR3 in disease / FRS-mediated FGFR1 signaling / positive regulation of vascular associated smooth muscle cell proliferation / Signaling by FGFR2 in disease / substantia nigra development / Signaling by FGFR1 in disease / stem cell proliferation / positive regulation of epithelial cell proliferation / Negative regulation of FGFR3 signaling / Negative regulation of FGFR2 signaling / Negative regulation of FGFR4 signaling / Negative regulation of FGFR1 signaling / animal organ morphogenesis / growth factor activity / lung development / osteoblast differentiation / protein import into nucleus / Constitutive Signaling by Aberrant PI3K in Cancer / male gonad development / positive regulation of canonical Wnt signaling pathway / PIP3 activates AKT signaling / cell-cell signaling / heparin binding / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / RAF/MAP kinase cascade / angiogenesis / cell differentiation / positive regulation of protein phosphorylation / positive regulation of cell population proliferation / positive regulation of gene expression / negative regulation of transcription by RNA polymerase II / signal transduction / extracellular space / extracellular region / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Plotnikov, A.N. / Eliseenkova, A.V. / Ibrahimi, O.A. / Lemmon, M.A. / Mohammadi, M. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2001 Title: Crystal structure of fibroblast growth factor 9 reveals regions implicated in dimerization and autoinhibition. Authors: Plotnikov, A.N. / Eliseenkova, A.V. / Ibrahimi, O.A. / Shriver, Z. / Sasisekharan, R. / Lemmon, M.A. / Mohammadi, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ihk.cif.gz | 45.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ihk.ent.gz | 32.2 KB | Display | PDB format |
PDBx/mmJSON format | 1ihk.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ih/1ihk ftp://data.pdbj.org/pub/pdb/validation_reports/ih/1ihk | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 19991.541 Da / Num. of mol.: 1 / Fragment: Residues 35-208 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: FGF9 / Production host: Escherichia coli (E. coli) / References: UniProt: P31371 | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.79 Å3/Da / Density % sol: 55.87 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: ammonium phosphate, Tris-HCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K | ||||||||||||||||||||||||||||||||||||
Crystal | *PLUS Density % sol: 56 % | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7.5 | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.9791 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Nov 14, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. all: 177016 / Num. obs: 177016 / % possible obs: 99.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 15 % / Rmerge(I) obs: 0.081 / Net I/σ(I): 10.4 |
Reflection shell | Resolution: 2.2→2.28 Å / Rmerge(I) obs: 0.264 / % possible all: 100 |
Reflection | *PLUS Num. obs: 11766 / Num. measured all: 177016 |
Reflection shell | *PLUS % possible obs: 100 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.2→25 Å / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.2→25 Å
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Refine LS restraints |
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