Research workbench
Crystal structure of a 2:1 complex of treponema pallidum TATP(T) (TP0957) bound to tatt (TP0956)
Analyse Crystal structure of a 2:1 complex of treponema pallidum TATP(T) (TP0957) bound… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4DI3
- Type
- protein
- Length
- 1,439 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TATP(T) (TP0957); Tatt (TP0956)
- UniProt
- O83923, O83922
- Pockets
- 17 · best druggability 0.85
Structure
x-ray diffraction · 3 distinct chains · 56% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | TATP(T) (TP0957) | protein | 303 | 46% helix, 19% strand | O83923 |
| E | TATP(T) (TP0957) | protein | 317 | 47% helix, 20% strand | O83923 |
| A, B, C | Tatt (TP0956) | protein | 273 | 77% helix, 0% strand | O83922 |
Pockets
17 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 901 | 0.85 | 0.87 | 107 | empty |
| 2 | 1167 | 0.84 | 0.85 | 89 | empty |
| 3 | 717 | 0.84 | 0.87 | 89 | empty |
| 4 | 1039 | 0.81 | 0.82 | 76 | empty |
| 5 | 396 | 0.76 | 0.85 | 52 | empty |
Interfaces
5 interfaces between chains.
- E–C · 1250 Ų buried · 13 hydrogen bonds · protein-protein
- D–A · 1230 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 665 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 650 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 629 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4DI3 · Crystal structure of a 2:1 complex of Treponema pallidum TatP(T) (Tp0957) bound to TatT… · the same entry in another collection · chain D against D, TM-score 1.00
- O83922 · AlphaFold monomer V2.0 prediction for uncharacterized protein TP_0956 (O83922) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 O83923
- Every structure of UniProt O83922
- Elsewhere: RCSB PDB 4DI3 · PDBe 4DI3 · UniProt O83923 · UniProt O83922
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.