[English] 日本語
![](img/lk-miru.gif)
- PDB-1qge: NEW CRYSTAL FORM OF PSEUDOMONAS GLUMAE (FORMERLY CHROMOBACTERIUM ... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1qge | ||||||
---|---|---|---|---|---|---|---|
Title | NEW CRYSTAL FORM OF PSEUDOMONAS GLUMAE (FORMERLY CHROMOBACTERIUM VISCOSUM ATCC 6918) LIPASE | ||||||
![]() | (PROTEIN (TRIACYLGLYCEROL HYDROLASE)) x 2 | ||||||
![]() | HYDROLASE / PSEUDOMONADACEAE / CIS-PEPTIDE / CLOSED CONFORMATION / LID | ||||||
Function / homology | ![]() triacylglycerol lipase / triacylglycerol lipase activity / lipid catabolic process / extracellular region / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lang, D.A. / Stadler, P. / Kovacs, A. / Paltauf, F. / Dijkstra, B.W. | ||||||
![]() | ![]() Title: Structural and Kinetic Investigations of Enantiomeric Binding Mode of Subclass I Lipases from the Family of Pseudomonadaceae Authors: Lang, D.A. / Stadler, P. / Kovacs, A. / Paltauf, F. / Dijkstra, B.W. #1: ![]() Title: Crystal structure of a bacterial lipase from Chromobacterium viscosum ATCC 6918 refined at 1.6 angstroms resolution. Authors: Lang, D. / Hofmann, B. / Haalck, L. / Hecht, H.J. / Spener, F. / Schmid, R.D. / Schomburg, D. #2: ![]() Title: The crystal structure of triacylglycerol lipase from Pseudomonas glumae reveals a partially redundant catalytic aspartate. Authors: Noble, M.E. / Cleasby, A. / Johnson, L.N. / Egmond, M.R. / Frenken, L.G. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 79 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 57.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 371 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 374.3 KB | Display | |
Data in XML | ![]() | 7.5 KB | Display | |
Data in CIF | ![]() | 13.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1cvlS S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 22954.373 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: ATCC / Source: (natural) ![]() References: UniProt: Q05489, UniProt: P0DUB9*PLUS, triacylglycerol lipase |
---|---|
#2: Protein | Mass: 10179.379 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: ATCC / Source: (natural) ![]() References: UniProt: Q05489, UniProt: P0DUB9*PLUS, triacylglycerol lipase |
#3: Chemical | ChemComp-CA / |
#4: Water | ChemComp-HOH / |
Compound details | PARTLY DEGRADED LIPASE AS A RESULT OF UNSPECIFIC PROTEOLYTIC DIGESTION DURING PURIFICATION AND/OR ...PARTLY DEGRADED LIPASE AS A RESULT OF UNSPECIFIC |
Sequence details | 1QGE SWS Q05489 1 - 39 NOT IN ATOMS LIST REFERENCE: THE SEQUENCE FOR PSEUDOMONAS GLUMAE DESCRIBED ...1QGE SWS Q05489 1 - 39 NOT IN ATOMS LIST REFERENCE: THE SEQUENCE FOR PSEUDOMONA |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 35 % |
---|---|
Crystal grow | pH: 7.8 Details: PROTEIN WAS CRYSTALLIZED FROM 10 % PEG 6000, 5 % PEG 1000, 100 MM HEPES BUFFER, PH 7.8 |
-Data collection
Diffraction | Mean temperature: 90 K |
---|---|
Diffraction source | Source: ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Dec 15, 1996 / Details: MIRRORS |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→100 Å / Num. obs: 28124 / % possible obs: 98.6 % / Observed criterion σ(I): 2 / Redundancy: 3.4 % / Rsym value: 0.067 / Net I/σ(I): 10.5 |
Reflection shell | Resolution: 1.7→1.73 Å / Redundancy: 2.5 % / Mean I/σ(I) obs: 4.1 / Rsym value: 0.27 / % possible all: 94.4 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1CVL Resolution: 1.7→20 Å / Cross valid method: THROUGHOUT / σ(F): 0 Details: THE DISORDERED REGION (VAL 220, LEU 221 AND GLY 223) WAS NOT MODELED OR REFINED.
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 14.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→20 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
|