MolNFT v1 · #15772 · protein
Triosephosphate isomerase in complex with dhap
1NF0: “Triosephosphate isomerase in complex with dhap”. X-ray diffraction, 1 ligand (13P), 4 pockets (best druggability 0.46). MolNFT v1 #15772 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1NF0
- Type
- protein
- Length
- 494 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Triosephosphate isomerase
- EC
- 5.3.1.1
- UniProt
- P00942
- Ligands
- 13P
- Pockets
- 4 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Triosephosphate isomerase (EC 5.3.1.1) | protein | 247 | 43% helix, 16% strand | P00942 |
Ligands and binding sites
- 13P · 1,3-dihydroxyacetonephosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 85 | 0.46 | 0.81 | 19 | 13P |
| 2 | 82 | 0.41 | 0.79 | 27 | 13P |
| 3 | 59 | 0.37 | 0.79 | 22 | empty |
| 4 | 51 | 0.28 | 0.76 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1694 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
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 P00942
- Elsewhere: RCSB PDB 1NF0 · PDBe 1NF0 · UniProt P00942
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