Download MendeleyCrystal structure of Gluconate 5-dehydrogenase (TM0441) from Thermotoga maritima at 2.07 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
1VL8
Crystal structure of Gluconate 5-dehydrogenase (TM0441) from Thermotoga maritima at 2.07 A resolution
- PDB DOI: https://doi.org/10.2210/pdb1VL8/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Thermotoga maritima MSB8
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2004-07-14 Released: 2004-08-17
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.07 ?
- R-Value Free: 0.180
- R-Value Work: 0.150
- R-Value Observed: 0.151
Starting Model: experimental
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This is version 1.4 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Gluconate 5-dehydrogenase | 267 | Thermotoga maritima MSB8 | Mutation(s): 0 Gene Names: TM0441 EC: 1.1.1.69 |  | |
UniProt | |||||
Find proteins for Q9WYS2 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WYS2 Go to UniProtKB: Q9WYS2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9WYS2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAP Query on NAP | D [auth A], F [auth B] | NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N |  | ||
| PO4 Query on PO4 | C [auth A] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| MG Query on MG | E [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.07 ?
- R-Value Free: 0.180
- R-Value Work: 0.150
- R-Value Observed: 0.151
- Space Group: P 43 21 2
- Diffraction Data: https://doi.org/10.18430/M31VL8
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 123.504 | ¦Á = 90 |
| b = 123.504 | ¦Â = 90 |
| c = 122.323 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| MOLREP | phasing |
| REFMAC | refinement |
Entry History
Deposition Data
- Released Date: 2004-08-17 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2004-08-17
Type: Initial release - Version 1.1: 2008-04-26
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Source and taxonomy, Version format compliance - Version 1.3: 2023-01-25
Changes: Database references, Derived calculations - Version 1.4: 2023-09-20
Changes: Data collection, Refinement description
