+Open data
-Basic information
Entry | Database: PDB / ID: 1g18 | ||||||
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Title | RECA-ADP-ALF4 COMPLEX | ||||||
Components | RECA PROTEIN | ||||||
Keywords | HYDROLASE / RECOMBINATION / DNA-REPAIR / Structural Genomics / PSI / Protein Structure Initiative / TB Structural Genomics Consortium / TBSGC | ||||||
Function / homology | Function and homology information UV protection / DNA strand invasion / intein-mediated protein splicing / intron homing / DNA strand exchange activity / recombinational repair / ATP-dependent DNA damage sensor activity / SOS response / ATP-dependent activity, acting on DNA / DNA endonuclease activity ...UV protection / DNA strand invasion / intein-mediated protein splicing / intron homing / DNA strand exchange activity / recombinational repair / ATP-dependent DNA damage sensor activity / SOS response / ATP-dependent activity, acting on DNA / DNA endonuclease activity / manganese ion binding / single-stranded DNA binding / endonuclease activity / damaged DNA binding / Hydrolases; Acting on ester bonds / DNA repair / response to antibiotic / DNA damage response / magnesium ion binding / ATP hydrolysis activity / ATP binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Mycobacterium tuberculosis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 3.8 Å | ||||||
Authors | Datta, S. / Prabu, M.M. / Vaze, M.B. / Ganesh, N. / Chandra, N.R. / Muniyappa, K. / Vijayan, M. / TB Structural Genomics Consortium (TBSGC) | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2000 Title: Crystal structures of Mycobacterium tuberculosis RecA and its complex with ADP-AlF(4): implications for decreased ATPase activity and molecular aggregation Authors: Datta, S. / Prabu, M.M. / Vaze, M.B. / Ganesh, N. / Chandra, N.R. / Muniyappa, K. / Vijayan, M. #1: Journal: Biochemistry / Year: 1996 Title: Functional Characterization of the Precursor and Spliced Forms of Reca Protein of Mycobacterium Tuberculosis Authors: Kumar, R.A. / Vaze, M.B. / 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 | 1g18.cif.gz | 62.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1g18.ent.gz | 48.5 KB | Display | PDB format |
PDBx/mmJSON format | 1g18.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1g18_validation.pdf.gz | 710.2 KB | Display | wwPDB validaton report |
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Full document | 1g18_full_validation.pdf.gz | 721.9 KB | Display | |
Data in XML | 1g18_validation.xml.gz | 14.3 KB | Display | |
Data in CIF | 1g18_validation.cif.gz | 18.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g1/1g18 ftp://data.pdbj.org/pub/pdb/validation_reports/g1/1g18 | HTTPS FTP |
-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: 37222.281 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mycobacterium tuberculosis (bacteria) References: UniProt: P0A5U4, UniProt: P9WHJ3*PLUS, Hydrolases; Acting on ester bonds |
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#2: Chemical | ChemComp-ALF / |
#3: Chemical | ChemComp-ADP / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.189 Å3/Da / Density % sol: 59.95 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: Phosphate-citrate buffer, PEG 4000, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||||||||||||||
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 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 11, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3.8→30 Å / Num. obs: 4738 / % possible obs: 98 % / Redundancy: 4 % / Rmerge(I) obs: 0.145 / Net I/σ(I): 14.5 |
Reflection shell | Resolution: 3.8→3.94 Å / Redundancy: 5.6 % / Rmerge(I) obs: 0.519 / Mean I/σ(I) obs: 3.5 / % possible all: 99.6 |
Reflection shell | *PLUS % possible obs: 99.6 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3.8→20 Å / Rfactor Rfree error: 0.013 / Data cutoff high absF: 10000000 / Data cutoff low absF: 0 / Isotropic thermal model: GROUP / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 23.7 Å2 | |||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3.8→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.8→4.04 Å / Rfactor Rfree error: 0.026 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS σ(F): 0 / % reflection Rfree: 11 % / Rfactor obs: 0.22 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 23.7 Å2 | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.238 / % reflection Rfree: 12.9 % / Rfactor Rwork: 0.209 |