Research workbench
Crystal structure of E.COLI transthyretin-related protein with bound zn
Analyse Crystal structure of E.COLI transthyretin-related protein with bound zn in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2G2N
- Type
- protein
- Length
- 446 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transthyretin-like protein
- UniProt
- P76341
- Ligands
- ZN, SO4
- Pockets
- 4 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Transthyretin-like protein | protein | 111 | 6% helix, 48% strand | P76341 |
| C, D | Transthyretin-like protein | protein | 112 | 6% helix, 50% strand | P76341 |
Ligands and binding sites
- ZN · Zinc ion · metal · 18 copies · chains A, B, C, D
- SO4 · Sulfate ion · ion · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 229 | 0.56 | 0.78 | 30 | ZN |
| 2 | 182 | 0.54 | 0.79 | 24 | empty |
| 3 | 71 | 0.33 | 0.76 | 19 | empty |
| 4 | 55 | 0.30 | 0.76 | 23 | SO4 |
Interfaces
6 interfaces between chains.
- C–D · 1030 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 996 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 447 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 435 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 365 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 2G2N · Crystal Structure of E.coli transthyretin-related protein with bound Zn · 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 0.99
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 P76341
- Elsewhere: RCSB PDB 2G2N · PDBe 2G2N · UniProt P76341
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