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- PDB-1xsv: X-ray crystal structure of conserved hypothetical UPF0122 protein... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1xsv | ||||||
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Title | X-ray crystal structure of conserved hypothetical UPF0122 protein SAV1236 from Staphylococcus aureus subsp. aureus Mu50 | ||||||
![]() | Hypothetical UPF0122 protein SAV1236 | ||||||
![]() | UNKNOWN FUNCTION / helix-turn-helix / putative DNA-binding protein / signal recognition particle / UPF0122 | ||||||
Function / homology | Putative helix-turn-helix protein, YlxM/p13-like / Putative helix-turn-helix protein, YlxM / p13 like / RNA polymerase sigma factor, region 3/4-like / Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain / Arc Repressor Mutant, subunit A / Winged helix-like DNA-binding domain superfamily / Orthogonal Bundle / Mainly Alpha / UPF0122 protein SAV1236![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Walker, J.R. / Xu, X. / Virag, C. / McDonald, M.-L. / Houston, S. / Buzadzija, K. / Vedadi, M. / Dharamsi, A. / Fiebig, K.M. / Savchenko, A. | ||||||
![]() | ![]() Title: 1.7 Angstrom Crystal Structure of Conserved Hypothetical UPF0122 Protein SAV1236 From Staphylococcus aureus Authors: Walker, J.R. / Xu, X. / Virag, C. / McDonald, M.-L. / Houston, S. / Buzadzija, K. / Vedadi, M. / Dharamsi, A. / Fiebig, K.M. / Savchenko, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 59.2 KB | Display | ![]() |
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PDB format | ![]() | 47.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 368.5 KB | Display | ![]() |
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Full document | ![]() | 370.6 KB | Display | |
Data in XML | ![]() | 5.4 KB | Display | |
Data in CIF | ![]() | 9.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | The biological assembly is a dimer, consisting of Chains A and B. |
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Components
#1: Protein | Mass: 13972.197 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Species: Staphylococcus aureus / Strain: subsp. aureus / Gene: SAV1236 / Plasmid: pPW2 / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.31 Å3/Da / Density % sol: 46.8 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: 0.1M Sodium Acetate, 2.0M Ammonium sulfate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Aug 6, 2004 |
Radiation | Monochromator: Si(111) double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97936 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→32 Å / Num. all: 24963 / Num. obs: 24963 / % possible obs: 99.4 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 5.68 % / Biso Wilson estimate: 19 Å2 / Rmerge(I) obs: 0.054 |
Reflection shell | Resolution: 1.7→1.78 Å / Redundancy: 5.9 % / Rmerge(I) obs: 0.23 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 52.5857 Å2 / ksol: 0.409932 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 21.1 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.7→32.54 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.7→1.81 Å / Rfactor Rfree error: 0.017 / Total num. of bins used: 6
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Xplor file |
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