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Download EndnoteCrystal structure of Phosphohydrolase (BT4208) from Bacteroides thetaiotaomicron VPI-5482 at 2.20 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2Q14
Crystal structure of Phosphohydrolase (BT4208) from Bacteroides thetaiotaomicron VPI-5482 at 2.20 A resolution
- DOI: 10.2210/pdb2Q14/pdb
- Classification: HYDROLASE
- Organism(s): Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482)
- Expression System: Escherichia coli
- Deposited: 2007-05-23 Released: 2007-06-12
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.2 Å
- R-Value Free: 0.252
- R-Value Work: 0.207
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by: Sequence | Structure
Entity ID: 1 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Phosphohydrolase | A, B, C, D, E, F, G, H | 410 | Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) | Mutation(s): 0 |
Find proteins for Q8A013 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482)) Go to UniProtKB: Q8A013 | ||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ADP Query on ADP | A, B, C, D, E, F, G, H | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N |  | Ligand Interaction | |
| CL Query on CL | A, C, D | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | Ligand Interaction | |
| GOL Query on GOL | B, D, H | GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| EDO Query on EDO | A, C, E, G | 1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D, E, F, G, H | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.2 Å
- R-Value Free: 0.252
- R-Value Work: 0.207
- Space Group: P 21 21 21
- Diffraction Data DOI:
10.18430/M32Q14 Protein Diffraction
Unit Cell:
| Length (Å) | Angle (°) |
|---|---|
| a = 115.436 | α = 90.00 |
| b = 137.504 | β = 90.00 |
| c = 279.051 | γ = 90.00 |
| Software Name | Purpose |
|---|---|
| autoSHARP | phasing |
| XDS | data reduction |
| REFMAC | refinement |
| MolProbity | model building |
| MAR345 | data collection |
| SHELXD | phasing |
| SHELX | phasing |
| PHENIX | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Deposited Date: 2007-05-23
- Released Date: 2007-06-12
- Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History
- Version 1.0: 2007-06-12
Type: Initial release - Version 1.1: 2008-05-01
Type: Version format compliance - Version 1.2: 2011-07-13
Type: Non-polymer description, Version format compliance - Version 1.3: 2017-10-18
Type: Refinement description - Version 1.4: 2017-10-25
Type: Author supporting evidence - Version 1.5: 2019-07-24
Type: Data collection, Derived calculations, Refinement description
