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Yorodumi- PDB-2ffn: The E41Q mutant of tetraheme cytochrome c3 from Desulfovibrio Vul... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2ffn | ||||||
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Title | The E41Q mutant of tetraheme cytochrome c3 from Desulfovibrio Vulgaris Miyazaki F | ||||||
Components | Cytochrome c3 | ||||||
Keywords | ELECTRON TRANSPORT / cytochrome c3 | ||||||
Function / homology | Function and homology information anaerobic respiration / periplasmic space / electron transfer activity / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | Desulfovibrio vulgaris str. 'Miyazaki F' (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Higuchi, Y. / Komori, H. / Morita, K. | ||||||
Citation | Journal: BIOPHYSICS(BSJ) / Year: 2006 Title: Roles of charged residues in pH-dependent redox properties of cytochrome c3 from Desulfovibrio vulgaris Miyazaki F Authors: Yahata, N. / Ozawa, K. / Tomimoto, Y. / Morita, K. / Komori, H. / Ogata, H. / Higuchi, Y. / Akutsu, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ffn.cif.gz | 38.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ffn.ent.gz | 30.8 KB | Display | PDB format |
PDBx/mmJSON format | 2ffn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ff/2ffn ftp://data.pdbj.org/pub/pdb/validation_reports/ff/2ffn | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 11558.282 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Desulfovibrio vulgaris str. 'Miyazaki F' (bacteria) Species: Desulfovibrio vulgaris / Strain: Miyazaki / Genus (production host): Shewanella / Production host: Shewanella (bacteria) / References: UniProt: P00132 | ||
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#2: Chemical | ChemComp-HEM / #3: 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: 2.63 Å3/Da / Density % sol: 53.18 % |
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Crystal grow | Temperature: 278 K / Method: vapor diffusion / pH: 7 / Details: MPD 60%, pH 7, VAPOR DIFFUSION, temperature 278K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL44B2 / Wavelength: 1 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Dec 6, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→50 Å / Num. obs: 11870 / Observed criterion σ(I): 1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.8→10 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.8→10 Å
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