+Open data
-Basic information
Entry | Database: PDB / ID: 7co2 | ||||||
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Title | HtrA-type protease AlgW with tripeptide | ||||||
Components |
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Keywords | PEPTIDE BINDING PROTEIN / complex | ||||||
Function / homology | Function and homology information peptidase activity / periplasmic space / serine-type endopeptidase activity / proteolysis Similarity search - Function | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) synthetic construct (others) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.1 Å | ||||||
Authors | Li, T. / Song, Y.J. / Bao, R. | ||||||
Citation | Journal: Mbio / Year: 2021 Title: Molecular Basis of the Versatile Regulatory Mechanism of HtrA-Type Protease AlgW from Pseudomonas aeruginosa. Authors: Li, T. / Song, Y. / Luo, L. / Zhao, N. / He, L. / Kang, M. / Li, C. / Zhu, Y. / Shen, Y. / Zhao, C. / Yang, J. / Huang, Q. / Mou, X. / Zong, Z. / Yang, J. / Tang, H. / He, Y. / Bao, R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7co2.cif.gz | 91.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7co2.ent.gz | 55.9 KB | Display | PDB format |
PDBx/mmJSON format | 7co2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/co/7co2 ftp://data.pdbj.org/pub/pdb/validation_reports/co/7co2 | HTTPS FTP |
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-Related structure data
Related structure data | 7co3C 7co5C 7co7C 1sozS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein/peptide | Mass: 450.530 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) | ||||
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#2: Protein | Mass: 41036.914 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (bacteria) Strain: ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1 Gene: algW, PA4446 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: Q9HVX1 | ||||
#3: Chemical | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 35.19 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / Details: 0.2 M NACl,0.1 M Tris 8.5, 25% w/v PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL18U1 / Wavelength: 0.97891 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jun 7, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97891 Å / Relative weight: 1 |
Reflection | Resolution: 2.098→39.18 Å / Num. obs: 35722 / % possible obs: 99.92 % / Redundancy: 26.5 % / Biso Wilson estimate: 34.75 Å2 / CC1/2: 1 / Net I/σ(I): 24.67 |
Reflection shell | Resolution: 2.098→2.173 Å / Num. unique obs: 1891 / CC1/2: 0.243 / % possible all: 99.58 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1SOZ Resolution: 2.1→39.18 Å / SU ML: 0.3245 / Cross valid method: FREE R-VALUE / σ(F): 1.44 / Phase error: 26.4676 / Stereochemistry target values: GeoStd + Monomer Library
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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: 67.48 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→39.18 Å
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Refine LS restraints |
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LS refinement shell |
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