+Open data
-Basic information
Entry | Database: PDB / ID: 2b1k | ||||||
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Title | Crystal structure of E. coli CcmG protein | ||||||
Components | Thiol:disulfide interchange protein dsbE | ||||||
Keywords | OXIDOREDUCTASE / C-terminal thioredoxin-like domain / N-terminal beta-sheet / fingerprint rigion | ||||||
Function / homology | Function and homology information cytochrome complex assembly / disulfide oxidoreductase activity / outer membrane-bounded periplasmic space / plasma membrane Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Ouyang, N. / Gao, Y.G. / Hu, H.Y. / Xia, Z.X. | ||||||
Citation | Journal: Proteins / Year: 2006 Title: Crystal structures of E. coli CcmG and its mutants reveal key roles of the N-terminal beta-sheet and the fingerprint region Authors: Ouyang, N. / Gao, Y.G. / Hu, H.Y. / Xia, Z.X. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2b1k.cif.gz | 45.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2b1k.ent.gz | 31 KB | Display | PDB format |
PDBx/mmJSON format | 2b1k.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/b1/2b1k ftp://data.pdbj.org/pub/pdb/validation_reports/b1/2b1k | HTTPS FTP |
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-Related structure data
Related structure data | 2b1lC 2g0fC 1kngS S: Starting model for refinement C: citing same article (ref.) |
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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
#1: Protein | Mass: 18953.455 Da / Num. of mol.: 1 / Fragment: residues 18-185 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: ccmg / Plasmid: pET3a / Production host: Escherichia coli (E. coli) / References: UniProt: P0AA86 |
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#2: 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: 1.9 Å3/Da / Density % sol: 34.19 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.8 Details: HEPES buffer, ammonium sulfate, PEG 4000, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: SEALED TUBE / Type: CONVENTIONAL Cu / Wavelength: 1.5418 Å |
Detector | Type: BRUKER APEX / Detector: CCD / Date: Nov 21, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→50 Å / Num. all: 12182 / Num. obs: 12145 / % possible obs: 99.7 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 14.3 Å2 / Rmerge(I) obs: 0.062 |
Reflection shell | Resolution: 1.9→1.97 Å / Rmerge(I) obs: 0.456 / Num. unique all: 1159 / % possible all: 97 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1KNG Resolution: 1.9→32.73 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 324812.36 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 44.5999 Å2 / ksol: 0.343053 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 24.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→32.73 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→1.97 Å / Rfactor Rfree error: 0.028 / Total num. of bins used: 10
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Xplor file |
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