Research workbench
Crystal structure of E. COLI oppa complexed with the tripeptide kge
Analyse Crystal structure of E. COLI oppa complexed with the tripeptide kge in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TCG
- Type
- protein
- Length
- 4,160 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periplasmic oligopeptide-binding protein; Kge peptide
- UniProt
- P23843
- Pockets
- 20 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | Periplasmic oligopeptide-binding protein | protein | 517 | 36% helix, 22% strand | P23843 |
| I, J, K, L, M, N, O, P | Kge peptide | protein | 3 | 0% helix, 33% strand | — |
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 | 919 | 0.83 | 0.84 | 80 | empty |
| 2 | 1180 | 0.81 | 0.82 | 106 | empty |
| 3 | 94 | 0.76 | 0.98 | 31 | empty |
| 4 | 142 | 0.72 | 0.91 | 36 | empty |
| 5 | 163 | 0.70 | 0.89 | 40 | empty |
Interfaces
19 interfaces between chains.
- B–G · 851 Ų buried · 17 hydrogen bonds · protein-protein
- B–D · 848 Ų buried · 12 hydrogen bonds · protein-protein
- E–H · 837 Ų buried · 16 hydrogen bonds · protein-protein
- A–E · 828 Ų buried · 14 hydrogen bonds · protein-protein
- G–O · 428 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 3TCG · Crystal structure of E. coli OppA complexed with the tripeptide KGE · the same entry in another collection · chain P against P, 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 P23843
- Elsewhere: RCSB PDB 3TCG · PDBe 3TCG · UniProt P23843
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