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Yorodumi- PDB-1poc: CRYSTAL STRUCTURE OF BEE-VENOM PHOSPHOLIPASE A2 IN A COMPLEX WITH... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1poc | ||||||
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Title | CRYSTAL STRUCTURE OF BEE-VENOM PHOSPHOLIPASE A2 IN A COMPLEX WITH A TRANSITION-STATE ANALOGUE | ||||||
Components | PHOSPHOLIPASE A2 | ||||||
Keywords | HYDROLASE | ||||||
Function / homology | Function and homology information calcium-dependent phospholipase A2 activity / phospholipase A2 / arachidonate secretion / phospholipid metabolic process / lipid catabolic process / calcium ion binding / extracellular region Similarity search - Function | ||||||
Biological species | Apis mellifera (honey bee) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Scott, D.L. / Otwinowski, Z. / Sigler, P.B. | ||||||
Citation | Journal: Science / Year: 1990 Title: Crystal structure of bee-venom phospholipase A2 in a complex with a transition-state analogue. Authors: 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 | 1poc.cif.gz | 37.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1poc.ent.gz | 29.2 KB | Display | PDB format |
PDBx/mmJSON format | 1poc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1poc_validation.pdf.gz | 428.6 KB | Display | wwPDB validaton report |
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Full document | 1poc_full_validation.pdf.gz | 435.9 KB | Display | |
Data in XML | 1poc_validation.xml.gz | 6.2 KB | Display | |
Data in CIF | 1poc_validation.cif.gz | 8.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/po/1poc ftp://data.pdbj.org/pub/pdb/validation_reports/po/1poc | HTTPS FTP |
-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: 15274.324 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Apis mellifera (honey bee) / References: UniProt: P00630, phospholipase A2 |
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#2: Chemical | ChemComp-CA / |
#3: Chemical | ChemComp-GEL / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 4.34 Å3/Da / Density % sol: 71.67 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.6 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||
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 |
-Processing
Software |
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Refinement | Rfactor Rwork: 0.192 / Rfactor obs: 0.192 / 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: 0.192 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.1 |