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- PDB-4bp2: CRYSTALLOGRAPHIC REFINEMENT OF BOVINE PRO-PHOSPHOLIPASE A2 AT 1.6... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4bp2 | ||||||
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Title | CRYSTALLOGRAPHIC REFINEMENT OF BOVINE PRO-PHOSPHOLIPASE A2 AT 1.6 ANGSTROMS RESOLUTION | ||||||
![]() | PHOSPHOLIPASE A2![]() | ||||||
![]() | CARBOXYLIC ESTER HYDROLASE ZYMOGEN | ||||||
Function / homology | ![]() Acyl chain remodelling of PS / Acyl chain remodelling of PG / Synthesis of PA / Acyl chain remodelling of PC / Acyl chain remodelling of PE / Acyl chain remodelling of PI / positive regulation of podocyte apoptotic process / phosphatidylglycerol metabolic process / phosphatidylcholine metabolic process / calcium-dependent phospholipase A2 activity ...Acyl chain remodelling of PS / Acyl chain remodelling of PG / Synthesis of PA / Acyl chain remodelling of PC / Acyl chain remodelling of PE / Acyl chain remodelling of PI / positive regulation of podocyte apoptotic process / phosphatidylglycerol metabolic process / phosphatidylcholine metabolic process / calcium-dependent phospholipase A2 activity / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Finzel, B.C. / Weber, P.C. / Ohlendorf, D.H. / Salemme, F.R. | ||||||
![]() | ![]() Title: Crystallographic refinement of bovine pro-phospholipase A2 at 1.6 A resolution. Authors: Finzel, B.C. / Weber, P.C. / Ohlendorf, D.H. / Salemme, F.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 33.6 KB | Display | ![]() |
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PDB format | ![]() | 25.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Atom site foot note | 1: ELECTRON DENSITY IS POOR FOR RESIDUES ALA 1, LEU 2, TRP 3, CYS 61, LYS 62, VAL 63, LEU 64, ASN 71 AND ASN 72 AND THE COORDINATES FOR THESE REGIONS SHOULD NOT BE CONSIDERED RELIABLE. 2: ONLY CALCIUM ION 201 WAS FOUND IN THE PROTEIN. |
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Components
#1: Protein | ![]() Mass: 14538.293 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() | ||||||
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#2: Chemical | ChemComp-CA / | ||||||
#3: Chemical | ![]() #4: Water | ChemComp-HOH / | ![]() Nonpolymer details | TWO MOLECULES OF THE PRECIPITAT | Sequence details | ZYMOGEN HAS FOUR EXTRA RESIDUES AT THE AMINO TERMINUS COMPARED WITH MATURE PHOSPHOLIPASE. THESE ...ZYMOGEN HAS FOUR EXTRA RESIDUES AT THE AMINO TERMINUS COMPARED WITH MATURE PHOSPHOLIP | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.88 % | ||||||||||||||||||||||||||||||
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Crystal grow![]() | *PLUS Method: unknown / pH: 7.2 / Details: Drenth, J., (1976) Nature(London), 264, 373. | ||||||||||||||||||||||||||||||
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: 1.5 Å / Num. all: 18736 / Num. obs: 17470 / Num. measured all: 88408 / Rmerge(I) obs: 0.054 |
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Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 1.6→5 Å Details: ELECTRON DENSITY IS POOR FOR RESIDUES ALA 1, LEU 2, TRP 3, CYS 61, LYS 62, VAL 63, LEU 64, ASN 71 AND ASN 72 AND THE COORDINATES FOR THESE REGIONS SHOULD NOT BE CONSIDERED RELIABLE.
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Refinement step | Cycle: LAST / Resolution: 1.6→5 Å
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Refine LS restraints |
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Software | *PLUS Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 5 Å / Num. reflection obs: 14667 / σ(I): 0.1 / Rfactor obs: 0.194 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |