+Open data
-Basic information
Entry | Database: PDB / ID: 1mo5 | ||||||
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Title | RECA-ATP-GAMMA-S-MG COMPLEX | ||||||
Components | RecA | ||||||
Keywords | HYDROLASE / RECOMBINATION / DNA-REPAIR / Structural Genomics / PSI / Protein Structure Initiative / TB Structural Genomics Consortium / TBSGC | ||||||
Function / homology | Function and homology information DNA strand invasion / DNA strand exchange activity / UV protection / intron homing / intein-mediated protein splicing / recombinational repair / SOS response / ATP-dependent DNA damage sensor activity / ATP-dependent activity, acting on DNA / DNA endonuclease activity ...DNA strand invasion / DNA strand exchange activity / UV protection / intron homing / intein-mediated protein splicing / recombinational repair / SOS response / ATP-dependent DNA damage sensor activity / ATP-dependent activity, acting on DNA / DNA endonuclease activity / single-stranded DNA binding / manganese ion binding / endonuclease activity / damaged DNA binding / Hydrolases; Acting on ester bonds / response to antibiotic / DNA repair / DNA damage response / magnesium ion binding / ATP hydrolysis activity / ATP binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Mycobacterium tuberculosis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 3.25 Å | ||||||
Authors | Datta, S. / Ganesh, N. / Chandra, N.R. / TB Structural Genomics Consortium (TBSGC) | ||||||
Citation | Journal: Proteins / Year: 2003 Title: Structural studies on MtRecA-nucleotide complexes: Insights into DNA and nucleotide binding and the structural signature of NTP recognition Authors: Datta, S. / Ganesh, N. / Chandra, N.R. / Muniyappa, K. / Vijayan, M. #1: Journal: Nucleic Acids Res. / Year: 2000 Title: Crystal Structures of Mycobacterium Tuberculosis Reca and its Complex with Adp-Alf4: Implications For Decreased ATPase Activity and Molecular Aggregation Authors: Datta, S. / Prabu, M. / Vaze, M.B. / Ganesh, N. / Chandra, N.R. / Muniyappa, K. / Vijayan, M. #2: Journal: Biochemistry / Year: 1996 Title: Functional Characterization of the Precursor and Spliced Forms of Reca Protein of Mycobacterium Tuberculosis. Authors: Ajay Kumar, R. / Vaze, M. / Chandra, N.R. / Vijayan, M. / Muniyappa, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1mo5.cif.gz | 70.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1mo5.ent.gz | 51.7 KB | Display | PDB format |
PDBx/mmJSON format | 1mo5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mo/1mo5 ftp://data.pdbj.org/pub/pdb/validation_reports/mo/1mo5 | HTTPS FTP |
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-Related structure data
Related structure data | 1mo3C 1mo4C 1mo6C 1g19S C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 37222.281 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycobacterium tuberculosis (bacteria) / Plasmid: pEJ135 / Production host: Escherichia coli (E. coli) / Strain (production host): KM4104 References: UniProt: P0A5U4, UniProt: P9WHJ3*PLUS, EC: 3.4.99.37 |
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#2: Chemical | ChemComp-AGS / |
#3: Water | ChemComp-HOH / |
Sequence details | THIS STRUCTURE CORRESPONDS TO THE MATURE MTRECA, A 38 KD POLYPEPTIDE CHAIN WHICH IS AN AUTOSPLICED ...THIS STRUCTURE CORRESPOND |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.213 Å3/Da / Density % sol: 60.99 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: PEG 4000, TRIS-ACETATE, NACL, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 / Wavelength: 1.5418 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 22, 2001 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3.25→30 Å / Num. all: 7435 / Num. obs: 7435 / % possible obs: 96.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.7 % / Rmerge(I) obs: 0.093 / Net I/σ(I): 7.7 |
Reflection shell | Resolution: 3.25→3.37 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.314 / Mean I/σ(I) obs: 2.9 / Num. unique all: 720 / % possible all: 95.9 |
Reflection | *PLUS Num. measured all: 30714 |
Reflection shell | *PLUS % possible obs: 95.9 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1G19 Resolution: 3.25→30 Å / Rfactor Rfree error: 0.01 / Isotropic thermal model: GROUP / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 88.8817 Å2 / ksol: 0.346201 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.2 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3.25→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.25→3.45 Å / Rfactor Rfree error: 0.032 / Total num. of bins used: 6
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Xplor file |
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Refinement | *PLUS Rfactor Rwork: 0.187 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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