+Open data
-Basic information
Entry | Database: PDB / ID: 5mbn | ||||||||||||
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Title | REFINEMENT OF MYOGLOBIN AND CYTOCHROME C | ||||||||||||
Components | MYOGLOBIN | ||||||||||||
Keywords | OXYGEN STORAGE | ||||||||||||
Function / homology | Function and homology information Oxidoreductases; Acting on other nitrogenous compounds as donors / nitrite reductase activity / sarcoplasm / Oxidoreductases; Acting on a peroxide as acceptor; Peroxidases / removal of superoxide radicals / oxygen carrier activity / peroxidase activity / oxygen binding / heme binding / extracellular exosome / metal ion binding Similarity search - Function | ||||||||||||
Biological species | Physeter catodon (sperm whale) | ||||||||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||||||||
Authors | Takano, T. | ||||||||||||
Citation | Journal: Methods and Applications in Crystallographic Computing Year: 1984 Title: Refinement of Myoglobin and Cytochrome C Authors: Takano, T. #1: Journal: J.Mol.Biol. / Year: 1977 Title: Structure of Myoglobin Refined at 2.0 Angstroms Resolution. II. Structure of Deoxymyoglobin from Sperm Whale Authors: Takano, T. #2: Journal: J.Mol.Biol. / Year: 1977 Title: Structure of Myoglobin Refined at 2.0 Angstroms Resolution. I. Crystallographic Refinement of Metmyoglobin from Sperm Whale Authors: Takano, T. #3: Journal: Prog.Stereochem. / Year: 1976 Title: The Stereochemistry of the Protein Myoglobin Authors: Watson, H.C. #4: Journal: Acta Crystallogr. / Year: 1966 Title: A Mathematical Model-Building Procedure for Proteins Authors: Diamond, R. #5: Journal: Acta Crystallogr.,Sect.A / Year: 1971 Title: A Real-Space Refinement Procedure for Proteins Authors: Diamond, R. #6: Journal: J.Mol.Biol. / Year: 1974 Title: Real-Space Refinement of the Structure of Hen Egg-White Lysozyme Authors: Diamond, R. #7: Journal: Nature / Year: 1966 Title: Structure of Deoxymyoglobin, a Crystallographic Study Authors: Nobbs, C.L. / Watson, H.C. / Kendrew, J.C. #8: Journal: J.Mol.Biol. / Year: 1975 Title: Three-Dimensional Fourier Synthesis of Human Deoxyhaemoglobin at 2.5 Angstroms, Refinement of the Atomic Model Authors: Fermi, G. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5mbn.cif.gz | 47.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5mbn.ent.gz | 33.4 KB | Display | PDB format |
PDBx/mmJSON format | 5mbn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5mbn_validation.pdf.gz | 815.7 KB | Display | wwPDB validaton report |
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Full document | 5mbn_full_validation.pdf.gz | 820.1 KB | Display | |
Data in XML | 5mbn_validation.xml.gz | 10.5 KB | Display | |
Data in CIF | 5mbn_validation.cif.gz | 14.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mb/5mbn ftp://data.pdbj.org/pub/pdb/validation_reports/mb/5mbn | HTTPS FTP |
-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: 17234.951 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Physeter catodon (sperm whale) / References: UniProt: P02185 |
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#2: Chemical | ChemComp-SO4 / |
#3: Chemical | ChemComp-HEM / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.96 Å3/Da / Density % sol: 37.1 % |
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-Processing
Software | Name: EREF / Classification: refinement | ||||||||||||
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Refinement | Rfactor Rwork: 0.179 / Highest resolution: 2 Å | ||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2 Å
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