Research workbench
PILT4 from geobacter metallireducens bound to ATP
Analyse PILT4 from geobacter metallireducens bound to ATP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OJX
- Type
- protein
- Length
- 1,061 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Twitching motility pilus retraction ATPase
- UniProt
- Q39VU6
- Ligands
- ATP, MG
- Pockets
- 6 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Twitching motility pilus retraction ATPase | protein | 353 | 41% helix, 26% strand | Q39VU6 |
| B, C | Twitching motility pilus retraction ATPase | protein | 354 | 41% helix, 26% strand | Q39VU6 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 3 copies · chains A, B, C
- MG · Magnesium ion · metal · 3 copies · chains A, B, C
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 678 | 0.82 | 0.87 | 82 | MG, ATP |
| 2 | 448 | 0.77 | 0.86 | 47 | EDO |
| 3 | 673 | 0.73 | 0.80 | 65 | EDO, MG, ATP |
| 4 | 700 | 0.73 | 0.79 | 65 | EDO, MG, ATP |
| 5 | 52 | 0.33 | 0.78 | 13 | EDO |
Interfaces
1 interface between chains.
- A–B · 1675 Ų buried · 39 hydrogen bonds · protein-protein
Compared structures
- 6OJX · PilT4 from Geobacter metallireducens bound to ATP · 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
- Every structure of UniProt Q39VU6
- Elsewhere: RCSB PDB 6OJX · PDBe 6OJX · UniProt Q39VU6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.