[English] 日本語
![](img/lk-miru.gif)
- PDB-1ppa: THE CRYSTAL STRUCTURE OF A LYSINE 49 PHOSPHOLIPASE A2 FROM THE VE... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1ppa | ||||||
---|---|---|---|---|---|---|---|
Title | THE CRYSTAL STRUCTURE OF A LYSINE 49 PHOSPHOLIPASE A2 FROM THE VENOM OF THE COTTONMOUTH SNAKE AT 2.0 ANGSTROMS RESOLUTION | ||||||
![]() | PHOSPHOLIPASE A2 | ||||||
![]() | HYDROLASE(CARBOXYLIC ESTERASE) | ||||||
Function / homology | ![]() phospholipase A2 activity / arachidonic acid secretion / phospholipid metabolic process / lipid catabolic process / toxin activity / calcium ion binding / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Holland, D.R. / Clancy, L.L. / Muchmore, S.W. / Rydel, T.J. / Einspahr, H.M. / Finzel, B.C. / Heinrikson, R.L. / Watenpaugh, K.D. | ||||||
![]() | ![]() Title: The crystal structure of a lysine 49 phospholipase A2 from the venom of the cottonmouth snake at 2.0-A resolution. Authors: Holland, D.R. / Clancy, L.L. / Muchmore, S.W. / Ryde, T.J. / Einspahr, H.M. / Finzel, B.C. / Heinrikson, R.L. / Watenpaugh, K.D. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 39.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 27.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 390.4 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 398.3 KB | Display | |
Data in XML | ![]() | 5.8 KB | Display | |
Data in CIF | ![]() | 8.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Atom site foot note | 1: THE SIDE GROUP OF SER 74 IS DISORDERED SUCH THAT TWO DISCRETE 'OG' POSITIONS APPEAR IN THE ELECTRON DENSITY MAP. |
-
Components
#1: Protein | Mass: 13987.321 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Species: Agkistrodon piscivorus / Strain: piscivorus / References: UniProt: P04361, phospholipase A2 |
---|---|
#2: Chemical | ChemComp-ANL / |
#3: Water | ChemComp-HOH / |
Nonpolymer details | THE SUBSTRATE CYLCLOHEXYLAMINE IS UNCERTAIN. IT WAS DESCRIBED AS A 'STRANGE DENSITY', MAYBE ...THE SUBSTRATE CYLCLOHEXY |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.63 Å3/Da / Density % sol: 53.28 % | |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | *PLUS pH: 9 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Radiation | Scattering type: x-ray |
---|---|
Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2 Å / Num. obs: 10136 / Rmerge(I) obs: 0.08 |
-
Processing
Software | Name: CEDAR / Classification: refinement | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 2→10 Å /
| ||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→10 Å
| ||||||||||||
Software | *PLUS Name: CEDAR / Classification: refinement | ||||||||||||
Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 10 Å / Num. reflection obs: 10003 / Rfactor obs: 0.157 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |