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Yorodumi- PDB-1tp6: 1.5 A Crystal Structure of a NTF-2 Like Protein of Unknown Functi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1tp6 | ||||||
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Title | 1.5 A Crystal Structure of a NTF-2 Like Protein of Unknown Function PA1314 from Pseudomonas aeruginosa | ||||||
Components | hypothetical protein PA1314 | ||||||
Keywords | structural genomics / unknown function / Pseudomonas aeruginosa / alpha-beta sandwich / PSI / Protein Structure Initiative / Midwest Center for Structural Genomics / MCSG | ||||||
Function / homology | Uncharacterised conserved protein UCP029394 / Domain of unknown function DUF4440 / Domain of unknown function (DUF4440) / Nuclear Transport Factor 2; Chain: A, - #50 / NTF2-like domain superfamily / Nuclear Transport Factor 2; Chain: A, / Roll / Alpha Beta / DUF4440 domain-containing protein Function and homology information | ||||||
Biological species | Pseudomonas aeruginosa PAO1 (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.5 Å | ||||||
Authors | Zhang, R. / Xu, L.X. / savchenko, A. / Edwards, A. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: 1.5A crystal structure of a hypothetical protein PA1314 from Pseudomonas aeruginosa Authors: Zhang, R. / Xu, L.X. / Savchenko, A. / Edwards, A. / Joachimiak, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1tp6.cif.gz | 38.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1tp6.ent.gz | 26.3 KB | Display | PDB format |
PDBx/mmJSON format | 1tp6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1tp6_validation.pdf.gz | 412.6 KB | Display | wwPDB validaton report |
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Full document | 1tp6_full_validation.pdf.gz | 413.6 KB | Display | |
Data in XML | 1tp6_validation.xml.gz | 8.4 KB | Display | |
Data in CIF | 1tp6_validation.cif.gz | 11.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tp/1tp6 ftp://data.pdbj.org/pub/pdb/validation_reports/tp/1tp6 | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Details | This protein existed as monomer. The deposited coords. represents the monomer in the asymmtric unit. |
-Components
#1: Protein | Mass: 14234.001 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa PAO1 (bacteria) / Species: Pseudomonas aeruginosa / Strain: PA01 / Plasmid: pET15b / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: Q9I430 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.741 Å3/Da / Density % sol: 27 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.2 Details: 0.1 M Sodium Acetate, 0.2 M Sodium Citrate, 4% Glycerol, 25% PEG 3350, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-BM / Wavelength: 0.9795,0.9797,0.94656 | ||||||||||||
Detector | Type: SBC-3 / Detector: CCD / Date: May 29, 2004 / Details: mirrors | ||||||||||||
Radiation | Monochromator: Si 111 channel / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.5→50 Å / Num. all: 31652 / Num. obs: 30861 / % possible obs: 97.5 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 4 / Redundancy: 4.4 % / Biso Wilson estimate: 13.6 Å2 / Rmerge(I) obs: 0.043 / Net I/σ(I): 35.07 | ||||||||||||
Reflection shell | Resolution: 1.5→1.55 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.252 / Mean I/σ(I) obs: 3.8 / Num. unique all: 3202 / % possible all: 80.7 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.5→29.06 Å / Isotropic thermal model: restrained / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 16.2 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.5→29.06 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.5→1.59 Å / Rfactor Rfree error: 0.017
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