MolNFT v2 · #24659 · protein
Crystal structure of tt0168 from Thermus thermophilus HB8
1V26 · long-chain-fatty-acid-CoA synthetase: “Crystal structure of tt0168 from Thermus thermophilus HB8”. X-ray diffraction at 2.5, 3 ligands (MYR, AMP, MG), 11 pockets (best druggability 0.81). MolNFT v2 #24659 on GenesisL1: 3D structure…
- PDB
- 1V26
- Type
- protein
- Length
- 999 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.5
- Source
- Thermus thermophilus
- Molecule
- long-chain-fatty-acid-CoA synthetase
- EC
- 6.2.1.3
- Ligands
- MYR, AMP, MG
- Pockets
- 11 · best druggability 0.81
Structure
x-ray diffraction · resolution 2.5 · 2 distinct chains · 32% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | long-chain-fatty-acid-CoA synthetase (EC 6.2.1.3) | protein | 489 | 31% helix, 25% strand | — |
| B | long-chain-fatty-acid-CoA synthetase (EC 6.2.1.3) | protein | 510 | 33% helix, 25% strand | — |
Ligands and binding sites
- MYR · Myristic acid · ligand · 2 copies · chains A, B
- AMP · Adenosine monophosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 773 | 0.81 | 0.84 | 94 | MG, MYR, AMP |
| 2 | 635 | 0.79 | 0.85 | 86 | MG, MYR, AMP |
| 3 | 210 | 0.64 | 0.83 | 34 | empty |
| 4 | 180 | 0.64 | 0.84 | 31 | empty |
| 5 | 134 | 0.48 | 0.78 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 2949 Ų buried · 45 hydrogen bonds · protein-protein
Compared structures
- 1V26 · Crystal structure of TT0168 from thermus thermophilus HB8 · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 1V26 · PDBe 1V26
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