+Open data
-Basic information
Entry | Database: PDB / ID: 2bto | ||||||
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Title | Structure of BtubA from Prosthecobacter dejongeii | ||||||
Components |
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Keywords | CYTOSKELETAL PROTEIN / BACTERIAL TUBULIN / POLYMERIZATION / CYTOSKELETON / PROTEIN COMPLEX | ||||||
Function / homology | Function and homology information positive regulation of DNA-directed DNA polymerase activity / DNA polymerase processivity factor activity / protein-disulfide reductase activity / microtubule-based process / cell redox homeostasis / structural constituent of cytoskeleton / microtubule / oxidoreductase activity / hydrolase activity / GTP binding ...positive regulation of DNA-directed DNA polymerase activity / DNA polymerase processivity factor activity / protein-disulfide reductase activity / microtubule-based process / cell redox homeostasis / structural constituent of cytoskeleton / microtubule / oxidoreductase activity / hydrolase activity / GTP binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | PROSTHECOBACTER DEJONGEII (bacteria) ESCHERICHIA COLI (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.5 Å | ||||||
Authors | Schlieper, D. / Lowe, J. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2005 Title: Structure of Bacterial Tubulin Btuba/B: Evidence for Horizontal Gene Transfer. Authors: Schlieper, D. / Oliva, M.A. / Andreu, J.M. / Lowe, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2bto.cif.gz | 191.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2bto.ent.gz | 157.7 KB | Display | PDB format |
PDBx/mmJSON format | 2bto.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bt/2bto ftp://data.pdbj.org/pub/pdb/validation_reports/bt/2bto | 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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
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-Components
#1: Protein | Mass: 51299.371 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) PROSTHECOBACTER DEJONGEII (bacteria) Description: GERMAN COLLECTION OF MICROORGANISMS (DSM 12251) Plasmid: PET32(APDA10) / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): C41(DE3) / References: UniProt: Q8GCC5 #2: Protein | | Mass: 11687.388 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ESCHERICHIA COLI (E. coli) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P00274, UniProt: P0AA25*PLUS #3: Chemical | #4: Water | ChemComp-HOH / | Sequence details | THE PROTEIN WAS CRYSTALLIZED AS A THIOREDOXIN-BTUBA-HIS6 FUSION PROTEIN. THE SEQUENCE OF THIS ...THE PROTEIN WAS CRYSTALLIZ | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.8 Å3/Da / Density % sol: 67.37 % |
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Crystal grow | Details: 1.6M NA K PHOSPHATE, PH 6.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.934 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Apr 28, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.934 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→31.6 Å / Num. obs: 54524 / % possible obs: 99.9 % / Observed criterion σ(I): 3 / Redundancy: 4.9 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 12.5 |
Reflection shell | Resolution: 2.5→2.64 Å / Redundancy: 5 % / Rmerge(I) obs: 0.45 / Mean I/σ(I) obs: 3 / % possible all: 100 |
-Processing
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Refinement | Method to determine structure: MAD / Resolution: 2.5→50 Å / Cor.coef. Fo:Fc: 0.943 / Cor.coef. Fo:Fc free: 0.922 / SU B: 16.873 / SU ML: 0.187 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.294 / ESU R Free: 0.226 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. SOLVE AND SHARP WERE ALSO USED TO THE STRUCTURE.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 54.62 Å2
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Refinement step | Cycle: LAST / Resolution: 2.5→50 Å
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Refine LS restraints |
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