MolNFT v1 · #188688 · protein
Structure of E. COLI dgtpase bound to T7 bacteriophage protein GP1.2 and GTP
7U67 · Deoxyguanosinetriphosphate triphosphohydrolase: “Structure of E. COLI dgtpase bound to T7 bacteriophage protein GP1.2 and GTP”. Electron microscopy, 2 ligands (GTP, MG), 20 pockets (best druggability 0.85). MolNFT v1 #188688 on…
- PDB
- 7U67
- Type
- protein
- Length
- 3,360 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Deoxyguanosinetriphosphate triphosphohydrolase; Inhibitor of dgtpase
- EC
- 3.1.5.1
- UniProt
- P15723, P03780
- Ligands
- GTP, MG
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 2 distinct chains · 59% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D, C, B, F, E | Deoxyguanosinetriphosphate triphosphohydrolase (EC 3.1.5.1) | protein | 476 | 62% helix, 1% strand | P15723 |
| G, J, I, H, L, K | Inhibitor of dgtpase | protein | 84 | 43% helix, 32% strand | P03780 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · 6 copies · chains A, G, J, D, I, C, H, B, L, F, K, E
- MG · Magnesium ion · metal · 6 copies · chains A, D, C, B, F, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1041 | 0.85 | 0.86 | 97 | GTP |
| 2 | 1042 | 0.85 | 0.86 | 85 | GTP, MG |
| 3 | 1110 | 0.85 | 0.86 | 112 | GTP |
| 4 | 1090 | 0.84 | 0.85 | 109 | GTP, MG |
| 5 | 1101 | 0.84 | 0.85 | 104 | GTP, MG |
Interfaces
24 interfaces between chains.
- D–C · 1878 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1877 Ų buried · 15 hydrogen bonds · protein-protein
- F–E · 1873 Ų buried · 15 hydrogen bonds · protein-protein
- L–F · 760 Ų buried · 5 hydrogen bonds · protein-protein
- A–G · 758 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7U67 · Structure of E. coli dGTPase bound to T7 bacteriophage protein Gp1.2 and GTP · the same entry in another collection · chain E against E, 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 P15723
- Every structure of UniProt P03780
- Elsewhere: RCSB PDB 7U67 · PDBe 7U67 · UniProt P15723 · UniProt P03780
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