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Yorodumi- PDB-2gqf: Crystal structure of flavoprotein HI0933 from Haemophilus influen... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2gqf | ||||||
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Title | Crystal structure of flavoprotein HI0933 from Haemophilus influenzae Rd | ||||||
Components | Hypothetical protein HI0933 | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / FAD-utilizing protein / flavoprotein / PSI / Protein Structure Initiative / New York SGX Research Center for Structural Genomics / NYSGXRC | ||||||
Function / homology | Function and homology information HI0933 insert domain-like / 3-Dehydro-bile acid delta(4,6)-reductase-like / HI0933-like insert domain superfamily / HI0933-like protein Rossmann domain / Translation factors / Elongation Factor Tu (Ef-tu); domain 3 / Helicase, Ruva Protein; domain 3 / FAD/NAD(P)-binding domain / FAD/NAD(P)-binding domain / 3-Layer(bba) Sandwich ...HI0933 insert domain-like / 3-Dehydro-bile acid delta(4,6)-reductase-like / HI0933-like insert domain superfamily / HI0933-like protein Rossmann domain / Translation factors / Elongation Factor Tu (Ef-tu); domain 3 / Helicase, Ruva Protein; domain 3 / FAD/NAD(P)-binding domain / FAD/NAD(P)-binding domain / 3-Layer(bba) Sandwich / FAD/NAD(P)-binding domain superfamily / Beta Barrel / Orthogonal Bundle / Mainly Beta / Mainly Alpha / Alpha Beta Similarity search - Domain/homology | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.7 Å | ||||||
Authors | Mulichak, A.M. / Patskovsky, Y. / Keefe, L.J. / Almo, S.C. / Burley, S.K. / New York SGX Research Center for Structural Genomics (NYSGXRC) | ||||||
Citation | Journal: To be Published Title: Crystal structure of hypothetical flavoprotein HI0933 from Haemophilus influenzae Rd. Authors: Mulichak, A.M. / Patskovsky, Y. / Keefe, L.J. / Almo, S.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2gqf.cif.gz | 93 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2gqf.ent.gz | 75 KB | Display | PDB format |
PDBx/mmJSON format | 2gqf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2gqf_validation.pdf.gz | 710.8 KB | Display | wwPDB validaton report |
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Full document | 2gqf_full_validation.pdf.gz | 726.3 KB | Display | |
Data in XML | 2gqf_validation.xml.gz | 20.7 KB | Display | |
Data in CIF | 2gqf_validation.cif.gz | 28.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gq/2gqf ftp://data.pdbj.org/pub/pdb/validation_reports/gq/2gqf | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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2 |
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3 |
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Unit cell |
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Components on special symmetry positions |
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Details | The biological assembly is a monomer. |
-Components
#1: Protein | Mass: 44846.066 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (bacteria) / Gene: HI0933 / Production host: Escherichia coli (E. coli) / References: UniProt: P44941 |
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#2: Chemical | ChemComp-SO4 / |
#3: Chemical | ChemComp-FAD / |
#4: 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: 4.19 Å3/Da / Density % sol: 70.64 % |
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Crystal grow | Temperature: 298 K / pH: 5.5 Details: ammonium sulfate, 0.1M Bis-Tris, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 5.50 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 17-ID / Wavelength: 0.979228 |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Feb 9, 2006 |
Radiation | Monochromator: SI 111 / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979228 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→50 Å / Num. obs: 40093 / % possible obs: 100 % / Observed criterion σ(I): 0 / Redundancy: 11.7 % / Rsym value: 0.11 |
Reflection shell | Resolution: 2.75→2.8 Å / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.7→30 Å / Isotropic thermal model: ISOTROPIC / σ(F): 0 / Stereochemistry target values: ENGH & HUBER
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Refinement step | Cycle: LAST / Resolution: 2.7→30 Å
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Refine LS restraints |
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Xplor file |
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