Research workbench
The structure of CT381, the arginine binding protein from the periplasm chlamydia trachomatis
Analyse The structure of CT381, the arginine binding protein from the periplasm… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3DEL
- Type
- protein
- Length
- 928 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Arginine binding protein
- UniProt
- O84385
- Pockets
- 8 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, C, D, F | Arginine binding protein | protein | 232 | 37% helix, 30% strand | O84385 |
Pockets
8 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 860 | 0.73 | 0.77 | 64 | empty |
| 2 | 142 | 0.70 | 0.90 | 25 | empty |
| 3 | 450 | 0.57 | 0.73 | 37 | empty |
| 4 | 150 | 0.53 | 0.80 | 28 | empty |
| 5 | 187 | 0.53 | 0.78 | 25 | empty |
Interfaces
5 interfaces between chains.
- C–F · 1419 Ų buried · 19 hydrogen bonds · protein-protein
- B–D · 331 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 142 Ų buried · 2 hydrogen bonds · protein-protein
- B–F · 141 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 45 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3DEL · The structure of CT381, the arginine binding protein from the periplasm Chlamydia… · the same entry in another collection · chain F against F, TM-score 1.00
- O84385 · AlphaFold monomer V2.0 prediction for probable ABC transporter arginine-binding protein… · a predicted model of the same protein · chain F against A, TM-score 0.63
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 O84385
- Elsewhere: RCSB PDB 3DEL · PDBe 3DEL · UniProt O84385
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.