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Yorodumi- PDB-4hz1: Crystal Structure of Pseudomonas aeruginosa azurin with iron(II) ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4hz1 | ||||||
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Title | Crystal Structure of Pseudomonas aeruginosa azurin with iron(II) at the copper-binding site. | ||||||
Components | Azurin | ||||||
Keywords | ELECTRON TRANSPORT / Copper binding site / reductase / arsenite | ||||||
Function / homology | Function and homology information transition metal ion binding / electron transfer activity / periplasmic space / copper ion binding / zinc ion binding / identical protein binding Similarity search - Function | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | McLaughlin, M.P. / Retegan, M. / Bill, E. / Payne, T.M. / Shafaat, H.S. / Pea, S. / Sudhamsu, J. / Ensign, A.A. / Crane, B.R. / Neese, F. / Holland, P.L. | ||||||
Citation | Journal: J.Am.Chem.Soc. / Year: 2012 Title: Azurin as a Protein Scaffold for a Low-coordinate Nonheme Iron Site with a Small-molecule Binding Pocket. Authors: McLaughlin, M.P. / Retegan, M. / Bill, E. / Payne, T.M. / Shafaat, H.S. / Pena, S. / Sudhamsu, J. / Ensign, A.A. / Crane, B.R. / Neese, F. / Holland, P.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4hz1.cif.gz | 109.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4hz1.ent.gz | 84.5 KB | Display | PDB format |
PDBx/mmJSON format | 4hz1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hz/4hz1 ftp://data.pdbj.org/pub/pdb/validation_reports/hz/4hz1 | HTTPS FTP |
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-Related structure data
Related structure data | 1azuS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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3 |
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4 |
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Unit cell |
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-Components
#1: Protein | Mass: 13961.799 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228 / Gene: azu, PA4922 / Plasmid: pET9a / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P00282 #2: Chemical | ChemComp-ACT / #3: Chemical | #4: 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: 2.26 Å3/Da / Density % sol: 45.6 % |
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Crystal grow | Temperature: 300 K / Method: vapor diffusion, hanging drop Details: 3.0 - 3.5 M ammonium sulfate, 0.5 M lithium nitrate, 0.1 M sodium acetate pH 5.2-5.4, VAPOR DIFFUSION, HANGING DROP, temperature 300K PH range: 5.2-5.4 |
-Data collection
Diffraction | Mean temperature: 77 K |
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Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: A1 / Wavelength: 1.608 Å |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Mar 15, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.608 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→43 Å / Num. all: 26498 / Num. obs: 26498 / % possible obs: 95 % / Observed criterion σ(F): 10000 / Observed criterion σ(I): 10000 / Rsym value: 0.127 / Net I/σ(I): 13.48 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1AZU Resolution: 2.2→43 Å / σ(F): 10000 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.2→43 Å
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