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Yorodumi- PDB-1bhy: LOW TEMPERATURE MIDDLE RESOLUTION STRUCTURE OF P64K FROM MASC DATA -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bhy | ||||||
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Title | LOW TEMPERATURE MIDDLE RESOLUTION STRUCTURE OF P64K FROM MASC DATA | ||||||
Components | P64K | ||||||
Keywords | OUTER MEMBRANE PROTEIN / MASC / MULTIWAVELENGTH ANOMALOUS SOLVENT CONTRAST | ||||||
Function / homology | Function and homology information dihydrolipoyl dehydrogenase / dihydrolipoyl dehydrogenase activity / flavin adenine dinucleotide binding Similarity search - Function | ||||||
Biological species | Neisseria meningitidis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT, RIGID BODY REFINEMENT / Resolution: 4.18 Å | ||||||
Authors | Ramin, M. / Shepard, W. / Fourme, R. / Kahn, R. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1999 Title: Multiwavelength anomalous solvent contrast (MASC): derivation of envelope structure-factor amplitudes and comparison with model values. Authors: Ramin, M. / Shepard, W. / Fourme, R. / Kahn, R. #1: Journal: J.Mol.Biol. / Year: 1997 Title: Molecular Structure of the Lipoamide Dehydrogenase Domain of a Surface Antigen from Neisseria Meningitidis Authors: Li De La Sierra, I. / Pernot, L. / Prange, T. / Saludjian, P. / Schiltz, M. / Fourme, R. / Padron, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bhy.cif.gz | 89.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bhy.ent.gz | 67.9 KB | Display | PDB format |
PDBx/mmJSON format | 1bhy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1bhy_validation.pdf.gz | 470.7 KB | Display | wwPDB validaton report |
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Full document | 1bhy_full_validation.pdf.gz | 518.6 KB | Display | |
Data in XML | 1bhy_validation.xml.gz | 18.6 KB | Display | |
Data in CIF | 1bhy_validation.cif.gz | 25.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bh/1bhy ftp://data.pdbj.org/pub/pdb/validation_reports/bh/1bhy | HTTPS FTP |
-Related structure data
Related structure data | 1bhwC 1bhzC 1ojtS S: Starting model for refinement 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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-Components
#1: Protein | Mass: 50797.992 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Neisseria meningitidis (bacteria) / References: UniProt: Q51225 |
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#2: Chemical | ChemComp-FAD / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.6 Å3/Da / Density % sol: 60.5 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Details: PROTEIN WAS CRYSTALLIZED FROM AMMONIUM SULPHATE | ||||||||||||||||||||||||||||||||||||||||||
Crystal | *PLUS | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.2 / Method: vapor diffusion, hanging dropDetails: Li De La Sierra, I., (1994) J.Mol.Biol., 235, 1154. | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 124 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Type: ESRF / Wavelength: 0.99 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jun 1, 1995 / Details: MIRRORS |
Radiation | Monochromator: SI(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.99 Å / Relative weight: 1 |
Reflection | Resolution: 4.18→100 Å / Num. obs: 6008 / % possible obs: 98.2 % / Observed criterion σ(I): 3 / Redundancy: 7.4 % / Rmerge(I) obs: 0.055 / Rsym value: 0.055 / Net I/σ(I): 5.2 |
Reflection shell | Resolution: 4.18→4.29 Å / Redundancy: 4.2 % / Rmerge(I) obs: 0.06 / Mean I/σ(I) obs: 10.7 / Rsym value: 0.06 / % possible all: 78 |
Reflection | *PLUS Num. measured all: 44222 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT, RIGID BODY REFINEMENT Starting model: 1OJT Resolution: 4.18→8 Å / Cross valid method: THROUGHOUT
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Refinement step | Cycle: LAST / Resolution: 4.18→8 Å
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