+Open data
-Basic information
Entry | Database: PDB / ID: 7xfd | ||||||
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Title | Polysaccharide export protein Wza | ||||||
Components | Polysaccharide export protein | ||||||
Keywords | MEMBRANE PROTEIN / polysaccharide export protein | ||||||
Function / homology | Function and homology information polysaccharide transmembrane transporter activity / porin activity / pore complex / monoatomic ion transport / cell outer membrane Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Zheng, J. / Wang, B. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: polysaccharide export protein Wza Authors: Wang, B. / Zheng, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7xfd.cif.gz | 105.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7xfd.ent.gz | 65.4 KB | Display | PDB format |
PDBx/mmJSON format | 7xfd.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xf/7xfd ftp://data.pdbj.org/pub/pdb/validation_reports/xf/7xfd | HTTPS FTP |
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-Related structure data
Related structure data | 2j58S S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 20403.742 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) Gene: wza, A5U30_002223, A8499_004210, BON78_05920, BON79_06745, BR158_000680, CCV12_003719, CT143_03515, D3G36_16900, D4U49_08845, D9E49_15345, E2646_01750, E3O05_07155, ELT23_04100, ELT31_04920, ...Gene: wza, A5U30_002223, A8499_004210, BON78_05920, BON79_06745, BR158_000680, CCV12_003719, CT143_03515, D3G36_16900, D4U49_08845, D9E49_15345, E2646_01750, E3O05_07155, ELT23_04100, ELT31_04920, ELT38_06380, ELT50_04065, ELT52_20945, ELT56_02735, ELU95_02210, ELV05_05145, ELY31_02030, GF147_02635, HMW38_04280, IFB95_000024, NCTC10089_01822, NCTC9075_02568 Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) References: UniProt: A0A0V9R7J8 #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: 3.17 Å3/Da / Density % sol: 61.15 % |
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Crystal grow | Temperature: 291.1 K / Method: vapor diffusion, hanging drop Details: 0.05 M Potassium phosphate monobasic, pH 7.3, 5% glycerol PH range: 7.3 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.988 Å |
Detector | Type: AGILENT EOS CCD / Detector: CCD / Date: Oct 16, 2021 |
Radiation | Monochromator: synchrotron / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.988 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→29.52 Å / Num. obs: 27007 / % possible obs: 98.57 % / Redundancy: 5 % / Biso Wilson estimate: 17.64 Å2 / CC1/2: 0.8 / Net I/σ(I): 0.8 |
Reflection shell | Resolution: 2.2→2.279 Å / Num. unique obs: 7 / CC1/2: 0.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2J58 Resolution: 2.2→29.52 Å / SU ML: 0.3261 / Cross valid method: FREE R-VALUE / σ(F): 1.33 / Phase error: 31.236 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 28.25 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→29.52 Å
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Refine LS restraints |
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LS refinement shell |
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