+Open data
-Basic information
Entry | Database: PDB / ID: 1etp | ||||||
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Title | CRYSTAL STRUCTURE OF CYTOCHROME C4 FROM PSEUDOMONAS STUTZERI | ||||||
Components | CYTOCHROME C4 | ||||||
Keywords | ELECTRON TRANSPORT / CYTOCHROME C4 / DIHEME PROTEIN / PSEUDOMONAS STUTZERI | ||||||
Function / homology | Function and homology information electron transfer activity / periplasmic space / iron ion binding / heme binding Similarity search - Function | ||||||
Biological species | Pseudomonas stutzeri (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.2 Å | ||||||
Authors | Kadziola, A. / Larsen, S. | ||||||
Citation | Journal: Structure / Year: 1997 Title: Crystal structure of the dihaem cytochrome c4 from Pseudomonas stutzeri determined at 2.2A resolution. Authors: Kadziola, A. / Larsen, S. #1: Journal: Eur.J.Biochem. / Year: 1995 Title: Electron Transfer and Spectral Alpha-Band Properties of the Di-Heme Protein Cytochrome C4 from Pseudomonas Stutzeri Authors: Conrad, L.S. / Karlsson, J.J. / Ulstrup, J. #2: Journal: Acta Crystallogr.,Sect.D / Year: 1995 Title: Crystallization and Preliminary Crystallographic Investigations of Cytochrome C4 from Pseudomonas Stutzeri Authors: Kadziola, A. / Larsen, S. / Christensen, H.M. / Karlsson, J.-J. / Ulstrup, J. #3: Journal: Gene / Year: 1994 Title: Cloning and Characterisation of the Gene Encoding Cytochrome C4 from Pseudomonas Stutzeri Authors: Christensen, H.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1etp.cif.gz | 83.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1etp.ent.gz | 67.6 KB | Display | PDB format |
PDBx/mmJSON format | 1etp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/et/1etp ftp://data.pdbj.org/pub/pdb/validation_reports/et/1etp | 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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2 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.798002, 0.444533, -0.40692), Vector: |
-Components
#1: Protein | Mass: 19700.062 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Pseudomonas stutzeri (bacteria) / References: UniProt: Q52369 #2: Chemical | ChemComp-HEM / #3: Water | ChemComp-HOH / | Compound details | RESIDUES HIS 18 AND MET 66 FORM HEME IRON LIGAND BONDS TO THE N-TERMINAL HEME WHILE HIS 123 AND MET ...RESIDUES HIS 18 AND MET 66 FORM HEME IRON LIGAND BONDS TO THE N-TERMINAL HEME WHILE HIS 123 AND MET 167 FORM HEME IRON LIGAND BONDS TO THE C-TERMINAL HEME. | Nonpolymer details | THE DEPOSITOR INDICATED THAT THE CHARGE ON THE HEME GROUP IS 2+ OR 3+. | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 39 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.6 / Details: pH 5.6 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 293 K / pH: 7.5 / Method: vapor diffusion, hanging dropDetails: Kadziola, A., (1995) Acta Crystallogr.,Sect.D, 51, 1071. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 274 K |
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Diffraction source | Source: ROTATING ANODE / Wavelength: 1.5418 |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Mar 12, 1993 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→58.7 Å / Num. obs: 18020 / % possible obs: 98.1 % / Observed criterion σ(I): 0 / Redundancy: 3.8 % / Rsym value: 0.033 / Net I/σ(I): 13.5 |
Reflection | *PLUS Rmerge(I) obs: 0.033 |
-Processing
Software |
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Refinement | Resolution: 2.2→8 Å / σ(F): 0 Details: RAMACHANDRAN PLOT ONE RESIDUE IN EACH MOLECULE (LISTED BELOW) ARE FOUND IN THE 'FORBIDDEN' REGION OF THE RAMACHANDRAN PLOT. BOTH RESIDUES ARE SITUATED IN REGIONS WITH WELL DEFINED ELECTRON ...Details: RAMACHANDRAN PLOT ONE RESIDUE IN EACH MOLECULE (LISTED BELOW) ARE FOUND IN THE 'FORBIDDEN' REGION OF THE RAMACHANDRAN PLOT. BOTH RESIDUES ARE SITUATED IN REGIONS WITH WELL DEFINED ELECTRON DENSITY. PHI PSI OMEGA 1 ALA A 124 65.95 149.82 -180.00 2 ALA B 124 76.18 151.83 -179.44
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Displacement parameters | Biso mean: 22.8 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.35 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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