+Open data
-Basic information
Entry | Database: PDB / ID: 5zxe | ||||||
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Title | Structure of a consensus sequence derived from the FGF family | ||||||
Components | Consensus sequence based basic form of fibroblast growth factor | ||||||
Keywords | CELL CYCLE / FGF / basic form | ||||||
Function / homology | Trefoil (Acidic Fibroblast Growth Factor, subunit A) - #50 / Trefoil (Acidic Fibroblast Growth Factor, subunit A) / Trefoil / Mainly Beta Function and homology information | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution: 1.3 Å | ||||||
Authors | Tripathi, S.K. / Mandalaparthy, V. / Ramaswamy, S. / Gosavi, S. | ||||||
Funding support | India, 1items
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Citation | Journal: To be published Title: Structure of a consensus sequence derived from the FGF family Authors: Tripathi, S.K. / Mandalaparthy, V. / Gosavi, S. #1: Journal: J Tissue Eng / Year: 2010 Title: Fibroblast growth factors: biology, function, and application for tissue regeneration Authors: Yun, Y.R. / Won, J.E. / Jeon, E. / Lee, S. / Kang, W. / Jo, H. / Jang, J.H. / Shin, U.S. / Kim, H.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5zxe.cif.gz | 80.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5zxe.ent.gz | 57.2 KB | Display | PDB format |
PDBx/mmJSON format | 5zxe.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zx/5zxe ftp://data.pdbj.org/pub/pdb/validation_reports/zx/5zxe | HTTPS FTP |
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-Related structure data
Related structure data | 2fgfS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 14968.312 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli K-12 (bacteria) |
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-Non-polymers , 5 types, 183 molecules
#2: Chemical | #3: Chemical | ChemComp-SO4 / | #4: Chemical | ChemComp-NA / | #5: Chemical | ChemComp-CL / | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.62 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.4 / Details: PEG 8000, Ammonium sulphate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | ||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: MASSIF-1 / Wavelength: 0.966 Å | ||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Mar 28, 2018 | ||||||||||||||||||||||||
Radiation | Monochromator: Si / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.966 Å / Relative weight: 1 | ||||||||||||||||||||||||
Reflection | Resolution: 1.24→45.91 Å / Num. obs: 42829 / % possible obs: 99.2 % / Redundancy: 5.1 % / CC1/2: 0.999 / Rmerge(I) obs: 0.061 / Rpim(I) all: 0.03 / Rrim(I) all: 0.068 / Net I/σ(I): 12 / Num. measured all: 217407 / Scaling rejects: 25 | ||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Phasing
Phasing | Method: molecular replacement | |||||||||
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Phasing MR | Model details: Phaser MODE: MR_AUTO
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2FGF Resolution: 1.3→45.435 Å / SU ML: 0.17 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 24.79 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.3→45.435 Å
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Refine LS restraints |
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LS refinement shell |
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