+Open data
-Basic information
Entry | Database: PDB / ID: 7xvq | ||||||
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Title | Crystal structure of AcrIIC4 | ||||||
Components | Uncharacterized protein | ||||||
Keywords | ANTIMICROBIAL PROTEIN | ||||||
Function / homology | Uncharacterized protein Function and homology information | ||||||
Biological species | Haemophilus parainfluenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Zhang, H. / Li, X.Z. / Song, G.Y. | ||||||
Funding support | 1items
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Citation | Journal: To Be Published Title: a bacteria protein Authors: Zhang, H. / Li, X.Z. / Song, G.Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7xvq.cif.gz | 99.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7xvq.ent.gz | 62 KB | Display | PDB format |
PDBx/mmJSON format | 7xvq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7xvq_validation.pdf.gz | 447.6 KB | Display | wwPDB validaton report |
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Full document | 7xvq_full_validation.pdf.gz | 449.9 KB | Display | |
Data in XML | 7xvq_validation.xml.gz | 15.5 KB | Display | |
Data in CIF | 7xvq_validation.cif.gz | 22.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xv/7xvq ftp://data.pdbj.org/pub/pdb/validation_reports/xv/7xvq | HTTPS FTP |
-Related structure data
Related structure data | 7xvoC 8hs8C C: citing same article (ref.) |
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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
#1: Protein | Mass: 9985.316 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus parainfluenzae (bacteria) / Gene: NCTC10672_00033, NCTC10672_02354 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A377JKY9 #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: 2.27 Å3/Da / Density % sol: 45.88 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / Details: Sodium malonate, Polyethylene glycol 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U1 / Wavelength: 0.9791 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Jul 3, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→42.94 Å / Num. obs: 28492 / % possible obs: 89.01 % / Redundancy: 1.9 % / Biso Wilson estimate: 25.71 Å2 / CC1/2: 0.994 / Net I/σ(I): 8.05 |
Reflection shell | Resolution: 1.8→1.864 Å / Num. unique obs: 2793 / CC1/2: 0.872 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: alphafold2 Resolution: 1.8→42.94 Å / SU ML: 0.2767 / Cross valid method: FREE R-VALUE / σ(F): 1.98 / Phase error: 29.7576 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.63 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→42.94 Å
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Refine LS restraints |
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LS refinement shell |
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