Download MendeleyCrystal structure of lipoamide dehydrogenase from Thermus thermophilus HB8
Nakai, T., Kamiya, N.To be published.
2EQ7
Crystal structure of lipoamide dehydrogenase from thermus thermophilus HB8 with psbdo
- PDB DOI: https://doi.org/10.2210/pdb2EQ7/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Thermus thermophilus HB8, Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-03-30 Released: 2008-04-01
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.238
- R-Value Work: 0.207
- R-Value Observed: 0.207
This is version 1.2 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 |
| 2-oxoglutarate dehydrogenase E3 component | 455 | Thermus thermophilus HB8 | Mutation(s): 0 Gene Names: TTHA0287 EC: 1.8.1.4 |  | |
UniProt | |||||
Find proteins for Q5SLK6 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SLK6 Go to UniProtKB: Q5SLK6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q5SLK6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 2-oxoglutarate dehydrogenase E2 component | 40 | N/A | Mutation(s): 0 EC: 2.3.1.61 |  | |
UniProt | |||||
Find proteins for Q5SLK5 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SLK5 Go to UniProtKB: Q5SLK5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q5SLK5 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FAD Query on FAD | D [auth A], F [auth B] | FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N |  | ||
| NAD Query on NAD | E [auth A], G [auth B] | NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.238
- R-Value Work: 0.207
- R-Value Observed: 0.207
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 85.028 | α = 90 |
| b = 107.073 | β = 90 |
| c = 131.706 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| HKL-2000 | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| AMoRE | phasing |
Entry History
Deposition Data
- Released Date: 2008-04-01 Deposition Author(s): Nakai, T., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Revision History (Full details and data files)
- Version 1.0: 2008-04-01
Type: Initial release - Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.2: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description
