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Yorodumi- PDB-1mlj: STRUCTURAL AND FUNCTIONAL EFFECTS OF APOLAR MUTATIONS OF VAL68(E1... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1mlj | ||||||
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Title | STRUCTURAL AND FUNCTIONAL EFFECTS OF APOLAR MUTATIONS OF VAL68(E11) IN MYOGLOBIN | ||||||
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 | Quillin, M.L. / Phillips Jr., G.N. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1995 Title: Structural and functional effects of apolar mutations of the distal valine in myoglobin. Authors: Quillin, M.L. / Li, T. / Olson, J.S. / Phillips Jr., G.N. / Duo, Y. / Ikeda-Saito, M. / Regan, R. / Carlson, M. / Gibson, Q.H. / Li, H. / Elber, R. #1: Journal: J.Mol.Biol. / Year: 1993 Title: High-Resolution Crystal Structures of Distal Histidine Mutants of Sperm Whale Myoglobin Authors: Quillin, M.L. / Arduini, R.M. / Olson, J.S. / Phillips Jr., G.N. #2: Journal: J.Biol.Chem. / Year: 1992 Title: A Novel Site-Directed Mutant of Myoglobin with an Unusually High O2 Affinity and Low Autooxidation Rate Authors: Carver, T.E. / Brantley Junior, R.E. / Singleton, E.W. / Arduini, R.M. / Quillin, M.L. / Phillips Jr., G.N. / Olson, J.S. #3: Journal: Proteins / Year: 1990 Title: Crystal Structure of Myoglobin from a Synthetic Gene Authors: Phillips Jr., G.N. / Arduini, R.M. / Springer, B.A. / Sligar, S.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1mlj.cif.gz | 48 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1mlj.ent.gz | 33.3 KB | Display | PDB format |
PDBx/mmJSON format | 1mlj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1mlj_validation.pdf.gz | 821.3 KB | Display | wwPDB validaton report |
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Full document | 1mlj_full_validation.pdf.gz | 828.9 KB | Display | |
Data in XML | 1mlj_validation.xml.gz | 11.4 KB | Display | |
Data in CIF | 1mlj_validation.cif.gz | 15.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ml/1mlj ftp://data.pdbj.org/pub/pdb/validation_reports/ml/1mlj | HTTPS FTP |
-Related structure data
Related structure data | 1mlfC 1mlgC 1mlhC 1mlkC 1mllC 1mlmC 1mlnC 1mloC 1mlqC 1mlrC 1mlsC C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: THIS CARBON IS COORDINATED WITH FE OF THE HEME GROUP. |
-Components
#1: Protein | Mass: 17413.205 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: Chemical | ChemComp-CMO / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.16 Å3/Da / Density % sol: 61.1 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 9 / Method: batch method / Details: micro seeding | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2 Å / % possible obs: 98.7 % / Rmerge(I) obs: 0.11 |
-Processing
Software |
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Refinement | Rfactor Rwork: 0.1506 / Rfactor obs: 0.1506 / Highest resolution: 2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.1506 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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