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Yorodumi- PDB-1pob: CRYSTAL STRUCTURE OF COBRA-VENOM PHOSPHOLIPASE A2 IN A COMPLEX WI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1pob | ||||||
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Title | CRYSTAL STRUCTURE OF COBRA-VENOM PHOSPHOLIPASE A2 IN A COMPLEX WITH A TRANSITION-STATE ANALOGUE | ||||||
Components | PHOSPHOLIPASE A2 | ||||||
Keywords | HYDROLASE | ||||||
Function / homology | Function and homology information phospholipase A2 / phospholipase A2 activity / arachidonic acid secretion / phospholipid metabolic process / lipid catabolic process / toxin activity / calcium ion binding / extracellular region Similarity search - Function | ||||||
Biological species | Naja atra (Chinese cobra) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | White, S.P. / Scott, D.L. / Otwinowski, Z. / Sigler, P.B. | ||||||
Citation | Journal: Science / Year: 1990 Title: Crystal structure of cobra-venom phospholipase A2 in a complex with a transition-state analogue. Authors: White, S.P. / Scott, D.L. / Otwinowski, Z. / Gelb, M.H. / Sigler, P.B. #1: Journal: Science / Year: 1990 Title: Interfacial Catalysis: The Mechanism of Phospholipase A2 Authors: Scott, D.L. / White, S.P. / Otwinowski, Z. / Yuan, W. / Gelb, M.H. / Sigler, P.B. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pob.cif.gz | 61.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pob.ent.gz | 48.2 KB | Display | PDB format |
PDBx/mmJSON format | 1pob.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/po/1pob ftp://data.pdbj.org/pub/pdb/validation_reports/po/1pob | 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
#1: Protein | Mass: 13154.642 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Naja atra (Chinese cobra) / References: UniProt: P00598, phospholipase A2 #2: Chemical | ChemComp-CA / #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.19 Å3/Da / Density % sol: 43.93 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 8 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2 Å / Rmerge(I) obs: 0.07 |
-Processing
Software |
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Refinement | Rfactor Rwork: 0.179 / Rfactor obs: 0.179 / Highest resolution: 2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2 Å / Rfactor obs: 0.179 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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