+Open data
-Basic information
Entry | Database: PDB / ID: 1kaw | ||||||
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Title | STRUCTURE OF SINGLE STRANDED DNA BINDING PROTEIN (SSB) | ||||||
Components | SINGLE-STRANDED DNA BINDING PROTEIN | ||||||
Keywords | DNA BINDING PROTEIN / DNA-BINDING PROTEIN / SINGLE STRANDED DNA BINDING PROTEIN / SSB | ||||||
Function / homology | Function and homology information single-stranded DNA-binding protein complex / nucleoid / replisome / recombinational repair / positive regulation of catalytic activity / SOS response / mismatch repair / enzyme activator activity / DNA-templated DNA replication / single-stranded DNA binding ...single-stranded DNA-binding protein complex / nucleoid / replisome / recombinational repair / positive regulation of catalytic activity / SOS response / mismatch repair / enzyme activator activity / DNA-templated DNA replication / single-stranded DNA binding / DNA recombination / DNA replication / DNA repair / identical protein binding / cytosol Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.9 Å | ||||||
Authors | Raghunathan, S. / Waksman, G. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 1997 Title: Crystal structure of the homo-tetrameric DNA binding domain of Escherichia coli single-stranded DNA-binding protein determined by multiwavelength x-ray diffraction on the selenomethionyl ...Title: Crystal structure of the homo-tetrameric DNA binding domain of Escherichia coli single-stranded DNA-binding protein determined by multiwavelength x-ray diffraction on the selenomethionyl protein at 2.9-A resolution. Authors: Raghunathan, S. / Ricard, C.S. / Lohman, T.M. / Waksman, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1kaw.cif.gz | 86.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1kaw.ent.gz | 66.7 KB | Display | PDB format |
PDBx/mmJSON format | 1kaw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1kaw_validation.pdf.gz | 390.5 KB | Display | wwPDB validaton report |
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Full document | 1kaw_full_validation.pdf.gz | 431 KB | Display | |
Data in XML | 1kaw_validation.xml.gz | 11.3 KB | Display | |
Data in CIF | 1kaw_validation.cif.gz | 18.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ka/1kaw ftp://data.pdbj.org/pub/pdb/validation_reports/ka/1kaw | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 14480.156 Da / Num. of mol.: 4 / Fragment: CHYMOTRYPTIC FRAGMENT, RESIDUES 1 - 135 / Source method: isolated from a natural source / Source: (natural) Escherichia coli (E. coli) / References: UniProt: P02339, UniProt: P0AGE0*PLUS #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.36 Å3/Da / Density % sol: 52 % | |||||||||||||||
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Crystal grow | *PLUS pH: 8.5 / Method: vapor diffusion, hanging drop | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 1.08 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 11, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Num. obs: 14346 / % possible obs: 89.7 % / Observed criterion σ(I): 1 / Redundancy: 2.6 % / Rmerge(I) obs: 0.053 |
Reflection | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 30 Å / Num. obs: 12833 / % possible obs: 83.6 % |
-Processing
Software |
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Refinement | Resolution: 2.9→8 Å / σ(F): 1 Details: MOLECULAR DYNAMICS RESTRAINED REFINEMENT FOLLOWED BY LEAST-SQUARES OPTIMIZATION
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Displacement parameters | Biso mean: 21.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.85 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS % reflection Rfree: 10 % / Rfactor obs: 0.23 / Rfactor Rfree: 0.295 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Highest resolution: 2.9 Å / Lowest resolution: 3 Å |