+Open data
-Basic information
Entry | Database: PDB / ID: 2czs | ||||||
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Title | Crystal Structure Analysis of the Diheme c-type Cytochrome DHC2 | ||||||
Components | cytochrome c, putative | ||||||
Keywords | ELECTRON TRANSPORT / Diheme / C-Type Cytochrome | ||||||
Function / homology | Flavocytochrome C3; Chain A, domain 2 - #20 / Flavocytochrome C3; Chain A, domain 2 / Multiheme cytochrome superfamily / membrane => GO:0016020 / Orthogonal Bundle / Mainly Alpha / metal ion binding / PROTOPORPHYRIN IX CONTAINING FE / Cytochrome c Function and homology information | ||||||
Biological species | Geobacter sulfurreducens (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.5 Å | ||||||
Authors | Heitmann, D. / Einsle, O. | ||||||
Citation | Journal: Biochemistry / Year: 2005 Title: Structural and Biochemical Characterization of DHC2, a Novel Diheme Cytochrome c from Geobacter sulfurreducens Authors: Heitmann, D. / Einsle, O. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2czs.cif.gz | 46 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2czs.ent.gz | 37.1 KB | Display | PDB format |
PDBx/mmJSON format | 2czs.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2czs_validation.pdf.gz | 1.7 MB | Display | wwPDB validaton report |
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Full document | 2czs_full_validation.pdf.gz | 1.8 MB | Display | |
Data in XML | 2czs_validation.xml.gz | 12.5 KB | Display | |
Data in CIF | 2czs_validation.cif.gz | 15.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cz/2czs ftp://data.pdbj.org/pub/pdb/validation_reports/cz/2czs | HTTPS FTP |
-Related structure data
Similar structure data |
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-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
#1: Protein | Mass: 9249.699 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Geobacter sulfurreducens (bacteria) / Strain: PCA / Plasmid: pET22b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) pEC86 / References: UniProt: Q748S4 #2: Chemical | ChemComp-SO4 / #3: Chemical | #4: Chemical | ChemComp-HEM / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 45.6 % |
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-Data collection
Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, Hamburg / Beamline: BW7A / Wavelength: 0.9941, 1.7394, 1.7414 | ||||||||||||
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Detector | Type: MARRESEARCH / Detector: CCD / Date: Jul 20, 2004 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.5→38.12 Å / Num. obs: 26375 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.5→38.12 Å / Cor.coef. Fo:Fc: 0.954 / Cor.coef. Fo:Fc free: 0.921 / SU B: 2.043 / SU ML: 0.078 / Cross valid method: THROUGHOUT / ESU R: 0.101 / ESU R Free: 0.107 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.313 Å2
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Refinement step | Cycle: LAST / Resolution: 1.5→38.12 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.5→1.539 Å / Total num. of bins used: 20
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