Research workbench
Crystal structure of E. COLI yedx, a transthyretin related protein
Analyse Crystal structure of E. COLI yedx, a transthyretin related protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IGL
- Type
- protein
- Length
- 464 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transthyretin-like protein
- UniProt
- P76341
- Pockets
- 5 · best druggability 0.63
Structure
x-ray diffraction · 1 distinct chain · 5% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Transthyretin-like protein | protein | 116 | 5% helix, 46% strand | P76341 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 318 | 0.63 | 0.79 | 41 | empty |
| 2 | 307 | 0.62 | 0.79 | 42 | empty |
| 3 | 76 | 0.35 | 0.76 | 18 | empty |
| 4 | 75 | 0.34 | 0.76 | 19 | empty |
| 5 | 56 | 0.28 | 0.75 | 15 | empty |
Interfaces
6 interfaces between chains.
- C–D · 993 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 988 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 545 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 463 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 369 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 2IGL · Crystal Structure of E. coli YEDX, a transthyretin related protein · the same entry in another collection · chain A against A, TM-score 1.00
- P76341 · AlphaFold monomer V2.0 prediction for 5-hydroxyisourate hydrolase (P76341) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P76341
- Elsewhere: RCSB PDB 2IGL · PDBe 2IGL · UniProt P76341
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.