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Yorodumi- PDB-7al5: Crystal structure of the selenomethionine substituted hypothetica... -
+Open data
-Basic information
Entry | Database: PDB / ID: 7al5 | ||||||
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Title | Crystal structure of the selenomethionine substituted hypothetical protein PA1622 from Pseudomonas aeruginosa PAO1 | ||||||
Components | Probable hydrolase | ||||||
Keywords | UNKNOWN FUNCTION / Esterase fold / hypothetical protein / Pseudomonas aeruginosa PAO1 / possible drug target / selenomethionine / Alpha/Beta hydrolase fold / Putative lipolytic enzyme | ||||||
Function / homology | alpha/beta hydrolase fold / Alpha/beta hydrolase fold-1 / Alpha/Beta hydrolase fold / hydrolase activity / DI(HYDROXYETHYL)ETHER / TRIETHYLENE GLYCOL / Probable hydrolase Function and homology information | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.42 Å | ||||||
Authors | Feiler, C.G. / Blankenfeldt, W. | ||||||
Citation | Journal: To Be Published Title: Crystal structure of the selenomethionine substituted hypothetical protein PA1622 from Pseudomonas aeruginosa PAO1 Authors: Feiler, C.G. / Blankenfeldt, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7al5.cif.gz | 420.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7al5.ent.gz | 365.7 KB | Display | PDB format |
PDBx/mmJSON format | 7al5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/al/7al5 ftp://data.pdbj.org/pub/pdb/validation_reports/al/7al5 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
-Protein , 1 types, 4 molecules ABCD
#1: Protein | Mass: 31662.555 Da / Num. of mol.: 4 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: PA1622 / Plasmid: P10$ / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: Q9I3A0 |
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-Non-polymers , 5 types, 572 molecules
#2: Chemical | #3: Chemical | ChemComp-PGE / | #4: Chemical | ChemComp-EDO / | #5: Chemical | ChemComp-GOL / | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | N |
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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: 61.25 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 / Details: 0.1M HEPES pH7 5% PEG 6000 / PH range: 6.8 - 7.2 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.1 / Wavelength: 0.976 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Nov 14, 2012 |
Radiation | Monochromator: Si111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.976 Å / Relative weight: 1 |
Reflection | Resolution: 2.42→19.93 Å / Num. obs: 59611 / % possible obs: 99.6 % / Redundancy: 22.9 % / CC1/2: 0.988 / Rmerge(I) obs: 0.43 / Rpim(I) all: 0.094 / Rrim(I) all: 0.45 / Net I/σ(I): 10.2 |
Reflection shell | Resolution: 2.42→2.48 Å / Rmerge(I) obs: 2.555 / Mean I/σ(I) obs: 1.3 / Num. unique obs: 4580 / CC1/2: 0.4 / Rpim(I) all: 0.633 / Rrim(I) all: 2.711 / Χ2: 1 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.42→19.93 Å / SU ML: 0.32 / Cross valid method: FREE R-VALUE / σ(F): 1.33 / Phase error: 23.9 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.42→19.93 Å
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Refine LS restraints |
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LS refinement shell |
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