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- PDB-1qj9: CRYSTAL STRUCTURE OF THE OUTER MEMBRANE PROTEIN OMPX FROM ESCHERI... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1qj9 | ||||||
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Title | CRYSTAL STRUCTURE OF THE OUTER MEMBRANE PROTEIN OMPX FROM ESCHERICHIA COLI | ||||||
![]() | OUTER MEMBRANE PROTEIN X | ||||||
![]() | INTEGRAL MEMBRANE PROTEIN / BETA BARREL / BACTERIAL DEFENSE SYSTEM | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Vogt, J. / Schulz, G.E. | ||||||
![]() | ![]() Title: The structure of the outer membrane protein OmpX from Escherichia coli reveals possible mechanisms of virulence. Authors: Vogt, J. / Schulz, G.E. #1: Journal: Proteins: Struct.,Funct., Genet. / Year: 1999 Title: Strategy for Membrane Protein Crystallization Exemplified with Ompa and Ompx Authors: Pautsch, A. / Vogt, J. / Model, K. / Siebold, C. / Schulz, G.E. | ||||||
History |
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Remark 700 | SHEET DETERMINATION METHOD: DSSP THE SHEET PRESENTED AS "A" ON SHEET RECORDS BELOW IS ACTUALLY AN ... SHEET DETERMINATION METHOD: DSSP THE SHEET PRESENTED AS "A" ON SHEET RECORDS BELOW IS ACTUALLY AN 8-STRANDED BETA-BARREL. THIS IS REPRESENTED BY A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 42.6 KB | Display | ![]() |
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PDB format | ![]() | 30.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 420.2 KB | Display | ![]() |
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Full document | ![]() | 428.5 KB | Display | |
Data in XML | ![]() | 9.7 KB | Display | |
Data in CIF | ![]() | 12.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 16371.768 Da / Num. of mol.: 1 / Mutation: H100N Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.1 Å3/Da / Density % sol: 70 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 4.6 Details: 30 % (V/V) 2-PROPANOL, 20 % (V/V) GLYCEROL, 0.2 M CACL2, 0.1 M NA-ACETATE PH 4.6 | ||||||||||||||||||||||||||||||||||||||||||||||||
Crystal | *PLUS Density % sol: 70 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Apr 15, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9057 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→35 Å / Num. obs: 16165 / % possible obs: 99 % / Observed criterion σ(I): 0 / Redundancy: 3.6 % / Biso Wilson estimate: 42 Å2 / Rsym value: 0.076 / Net I/σ(I): 11 |
Reflection shell | Resolution: 2.1→2.2 Å / Redundancy: 3 % / Mean I/σ(I) obs: 2.7 / Rsym value: 0.317 / % possible all: 99 |
Reflection | *PLUS Rmerge(I) obs: 0.076 |
Reflection shell | *PLUS Rmerge(I) obs: 0.32 |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 58 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→35 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.233 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |