[English] 日本語
![](img/lk-miru.gif)
- PDB-1po7: HIGH RESOLUTION STRUCTURE OF E28A MUTANT BENZOYLFORMATE DECARBOXY... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1po7 | ||||||
---|---|---|---|---|---|---|---|
Title | HIGH RESOLUTION STRUCTURE OF E28A MUTANT BENZOYLFORMATE DECARBOXYLASE FROM PSEUDOMONAS PUTIDA | ||||||
![]() | Benzoylformate decarboxylase | ||||||
![]() | LYASE / CARBON-CARBON / DECARBOXYLASE / MANDELATE CATABOLISM / THIAMIN DIPHOSPHATE / HIGH RESOLUTION | ||||||
Function / homology | ![]() benzoylformate decarboxylase / benzoylformate decarboxylase activity / mandelate catabolic process / acetolactate synthase activity / thiamine pyrophosphate binding / flavin adenine dinucleotide binding / magnesium ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bera, A.K. / Hasson, M.S. | ||||||
![]() | ![]() Title: High Resolution Structure of E28A Mutant Benzoylformate Decarboxylase from Pseudomonas Putida Authors: Bera, A.K. / Anderson, N.L. / Hasson, M.S. #1: ![]() Title: THE CRYSTAL STRUCTURE OF BENZOYLFORMATE DECARBOXYLASE AT 1.6 A RESOLUTION: DIVERSITY OF CATALYTIC RESIDUES IN THIAMIN DIPHOSPHATE-DEPENDENT ENZYMES Authors: HASSON, M.S. / Muscate, A. / McLeish, M.J. / POLOVNIKOVA, E.S. / Gerlt, J.A. / Kenyon, G.L. / Petsko, G.A. / Ringe, D. #2: ![]() Title: THE CRYSTAL STRUCTURE OF BENZOYLFORMATE DECARBOXYLASE AT 1.6 A RESOLUTION: DIVERSITY OF CATALYTIC RESIDUES IN THIAMIN DIPHOSPHATE-DEPENDENT ENZYMES Authors: POLOVNIKOVA, E.S. / McLeish, M.J. / Sergienko, E.A. / Burgner, J.T. / Anderson, N.L. / BERA, A.K. / Jordan, F. / Kenyon, G.L. / HASSON, M.S. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 131.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 98 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 712.2 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 717.7 KB | Display | |
Data in XML | ![]() | 27.2 KB | Display | |
Data in CIF | ![]() | 42.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1bfdS S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||||||||||||
Unit cell |
| ||||||||||||||||||
Components on special symmetry positions |
|
-
Components
#1: Protein | Mass: 56344.715 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() | ||||
---|---|---|---|---|---|
#2: Chemical | ChemComp-MG / | ||||
#3: Chemical | #4: Chemical | ChemComp-TZD / | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.04 Å3/Da / Density % sol: 47.9 % |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Diffraction source | Source: ![]() ![]() ![]() | |||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 14, 2001 | |||||||||
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
| |||||||||
Reflection | Resolution: 1.2→99 Å / Num. obs: 145746 / % possible obs: 87.7 % / Rmerge(I) obs: 0.059 / Net I/σ(I): 14.5 | |||||||||
Reflection shell | Resolution: 1.2→1.24 Å / Rmerge(I) obs: 0.247 / % possible all: 66.9 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1BFD Resolution: 1.2→20 Å / Num. parameters: 41023 / Num. restraintsaints: 49734 / Cross valid method: FREE R / σ(F): 0 / σ(I): 0 / Stereochemistry target values: ENGH AND HUBER / Details: ANISOTROPIC REFINEMENT REDUCED FREE R (NO CUTOFF)
| |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 11 / Occupancy sum hydrogen: 3784.49 / Occupancy sum non hydrogen: 4425.04 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.2→20 Å
| |||||||||||||||||||||||||||||||||
Refine LS restraints |
|