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- PDB-2qgo: Crystal structure of a putative Fe-S biosynthesis protein from La... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2qgo | ||||||
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Title | Crystal structure of a putative Fe-S biosynthesis protein from Lactobacillus acidophilus | ||||||
![]() | Putative Fe-S biosynthesis protein | ||||||
![]() | BIOSYNTHETIC PROTEIN / PSI-2 / NYSGXRC / 10399g / Fe-S cluster protein / Structural Genomics / Protein Structure Initiative / New York SGX Research Center for Structural Genomics | ||||||
Function / homology | Hypothetical Protein Aq_1857; Chain: A; / HesB-like domain / FeS cluster biogenesis / HesB-like domain superfamily / Iron-sulphur cluster biosynthesis / Sandwich / Mainly Beta / Fe-S_biosyn domain-containing protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Agarwal, R. / Burley, S.K. / Swaminathan, S. / New York SGX Research Center for Structural Genomics (NYSGXRC) | ||||||
![]() | ![]() Title: Structural analysis of Fe-S cluster proteins. Authors: Agarwal, R. / Burley, S.K. / Swaminathan, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 34.6 KB | Display | ![]() |
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PDB format | ![]() | 22.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 424.5 KB | Display | ![]() |
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Full document | ![]() | 425.7 KB | Display | |
Data in XML | ![]() | 6.7 KB | Display | |
Data in CIF | ![]() | 8.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 15552.614 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.44 Å3/Da / Density % sol: 49.57 % Description: The structure factor file contains Friedel pairs |
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Crystal grow | Temperature: 298 K / pH: 7 / Details: 1.8M Ammonium citrate, pH 7.0, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 19, 2007 / Details: MIRRORS |
Radiation | Monochromator: SI(III) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 2.04→50 Å / Num. obs: 17922 / % possible obs: 96.3 % / Observed criterion σ(I): 0 / Redundancy: 6.5 % / Biso Wilson estimate: 17.7 Å2 / Rmerge(I) obs: 0.05 / Net I/σ(I): 11.4 |
Reflection shell | Resolution: 2.04→2.11 Å / Redundancy: 3.2 % / Rmerge(I) obs: 0.213 / Mean I/σ(I) obs: 2 / % possible all: 73 |
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Processing
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Refinement | Method to determine structure: ![]() Details: The Friedel pairs were used for phasing. Residues listed as missing in Remark 465 are due to lack of electron density. Residues with missing atoms listed in Remark 470 are due to lack of ...Details: The Friedel pairs were used for phasing. Residues listed as missing in Remark 465 are due to lack of electron density. Residues with missing atoms listed in Remark 470 are due to lack of electron density for side chains and modeled as alanines.
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 42.569 Å2 / ksol: 0.36202 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 30.5 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.04→29.56 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.04→2.17 Å / Rfactor Rfree error: 0.042 / Total num. of bins used: 6
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Xplor file |
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