+Open data
-Basic information
Entry | Database: PDB / ID: 1h32 | ||||||
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Title | Reduced SoxAX complex from Rhodovulum sulfidophilum | ||||||
Components |
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Keywords | ELECTRON TRANSFER / SULFUR CYCLE / SOXAX COMPLEX / THIOSULFATE OXIDATION / CYSTEINE PERSULFIDE HEME LIGAND / CYTOCHROME C | ||||||
Function / homology | Function and homology information L-cysteine S-thiosulfotransferase / oxidoreductase activity, acting on a sulfur group of donors, cytochrome as acceptor / sulfide oxidation / sulfur oxidation / sulfurtransferase activity / cytochrome complex / thiosulfate sulfurtransferase activity / periplasmic space / oxidoreductase activity / electron transfer activity ...L-cysteine S-thiosulfotransferase / oxidoreductase activity, acting on a sulfur group of donors, cytochrome as acceptor / sulfide oxidation / sulfur oxidation / sulfurtransferase activity / cytochrome complex / thiosulfate sulfurtransferase activity / periplasmic space / oxidoreductase activity / electron transfer activity / protein heterodimerization activity / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | RHODOVULUM SULFIDOPHILUM (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.5 Å | ||||||
Authors | Bamford, V.A. / Bruno, S. / Rasmussen, T. / Appia-Ayme, C. / Cheesman, M.R. / Berks, B.C. / Hemmings, A.M. | ||||||
Citation | Journal: Embo J. / Year: 2002 Title: Structural Basis for the Oxidation of Thiosulfate by a Sulfur Cycle Enzyme Authors: Bamford, V.A. / Bruno, S. / Rasmussen, T. / Appia-Ayme, C. / Cheesman, M.R. / Berks, B.C. / Hemmings, A.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1h32.cif.gz | 104.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1h32.ent.gz | 85.1 KB | Display | PDB format |
PDBx/mmJSON format | 1h32.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1h32_validation.pdf.gz | 1.5 MB | Display | wwPDB validaton report |
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Full document | 1h32_full_validation.pdf.gz | 1.5 MB | Display | |
Data in XML | 1h32_validation.xml.gz | 28.1 KB | Display | |
Data in CIF | 1h32_validation.cif.gz | 41.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/h3/1h32 ftp://data.pdbj.org/pub/pdb/validation_reports/h3/1h32 | HTTPS FTP |
-Related 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: 28974.408 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) RHODOVULUM SULFIDOPHILUM (bacteria) / References: UniProt: Q939U1 | ||||
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#2: Protein | Mass: 14756.748 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) RHODOVULUM SULFIDOPHILUM (bacteria) / References: UniProt: Q939U4 | ||||
#3: Chemical | #4: Chemical | #5: 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: 1.91 Å3/Da / Density % sol: 34.97 % | ||||||||||||||||||||||||
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Crystal grow | pH: 6.5 / Details: pH 6.50 | ||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX14.2 / Wavelength: 0.98 |
Detector | Type: ADSC CCD / Detector: CCD / Date: May 15, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→25 Å / Num. obs: 66141 / % possible obs: 99.3 % / Redundancy: 10 % / Rmerge(I) obs: 0.041 |
Reflection | *PLUS Num. measured all: 670264 |
Reflection shell | *PLUS % possible obs: 98.4 % / Rmerge(I) obs: 0.284 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.5→25 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.5→25 Å
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Refine LS restraints |
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Refinement | *PLUS % reflection Rfree: 5 % / Rfactor Rfree: 0.23 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | *PLUS Rfactor Rfree: 0.274 / Rfactor Rwork: 0.235 |