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Yorodumi- PDB-2blh: Ligand Migration and Protein Fluctuations in Myoglobin Mutant L29W -
+Open data
-Basic information
Entry | Database: PDB / ID: 2blh | ||||||
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Title | Ligand Migration and Protein Fluctuations in Myoglobin Mutant L29W | ||||||
Components | MYOGLOBIN | ||||||
Keywords | OXYGEN TRANSPORT / MYOGLOBIN / MUTANT / HEME | ||||||
Function / homology | Function and homology information hydrogen peroxide mediated signaling pathway / oxygen carrier activity / oxygen binding / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | PHYSETER CATODON (sperm whale) | ||||||
Method | X-RAY DIFFRACTION / OTHER / Resolution: 1.77 Å | ||||||
Authors | Nienhaus, K. / Ostermann, A. / Nienhaus, G.U. / Parak, F.G. / Schmidt, M. | ||||||
Citation | Journal: Biochemistry / Year: 2005 Title: Ligand Migration and Protein Fluctuations in Myoglobin Mutant L29W Authors: Nienhaus, K. / Ostermann, A. / Nienhaus, G.U. / Parak, F.G. / Schmidt, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2blh.cif.gz | 45 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2blh.ent.gz | 36 KB | Display | PDB format |
PDBx/mmJSON format | 2blh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bl/2blh ftp://data.pdbj.org/pub/pdb/validation_reports/bl/2blh | HTTPS FTP |
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-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: 17307.020 Da / Num. of mol.: 1 / Mutation: YES Source method: isolated from a genetically manipulated source Details: SLOW CO REBINDER / Source: (gene. exp.) PHYSETER CATODON (sperm whale) / Tissue: MUSCLESkeletal muscle / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P02185 | ||
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#2: Chemical | ChemComp-HEM / | ||
#3: Water | ChemComp-HOH / | ||
Compound details | ENGINEEREDSequence details | SEQUENCE REVISION TO CHAIN A 122, ASP TO ASN. REFERENCE: ROMERO-HERRERA A.E., LEHMANN H. RESIDUE ...SEQUENCE REVISION TO CHAIN A 122, ASP TO ASN. REFERENCE: ROMERO-HERRERA A.E., LEHMANN H. RESIDUE 122 OF SPERM WHALE AND HORSE MYOGLOBIN. BIOCHIM. BIOPHYS. ACTA 336:318-323(1974). | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.33 Å3/Da / Density % sol: 63.1 % |
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Crystal grow | pH: 7.8 Details: 2.8 M AMMONIUM SULFATE, 25 MM TRIS, 1 MM EDTA, PH 8.0 |
-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: ROTATING ANODE / Type: ENRAF-NONIUS FR591 / Wavelength: 1.5418 |
Detector | Type: BRUKER, MULTIWIRE / Detector: AREA DETECTOR / Date: Sep 19, 2003 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.77→50 Å / Num. obs: 81268 / % possible obs: 89.4 % / Observed criterion σ(I): 2 / Redundancy: 4.2 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 18.1 |
Reflection shell | Resolution: 1.77→1.86 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.18 / Mean I/σ(I) obs: 4.2 / % possible all: 51 |
-Processing
Software |
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Refinement | Method to determine structure: OTHER / Resolution: 1.77→50 Å / Data cutoff high absF: 10000 / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MAXIMUM LIKELIHODD
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Solvent computation | Bsol: 62.5483 Å2 / ksol: 0.34319 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.77→50 Å
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Refine LS restraints |
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Xplor file |
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