MolNFT v1 · #190809 · protein
Structure of C-terminally truncated AIF5B from pyrococcus abyssi complexed with GTP
7YZN · Probable translation initiation factor if-2: “Structure of C-terminally truncated AIF5B from pyrococcus abyssi complexed with GTP”. X-ray diffraction, 3 ligands (GTP, MG, NA), 7 pockets (best druggability 0.57). MolNFT v1 #190809 on…
- PDB
- 7YZN
- Type
- protein
- Length
- 453 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable translation initiation factor if-2
- UniProt
- Q9UZK7
- Ligands
- GTP, MG, NA
- Pockets
- 7 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable translation initiation factor if-2 | protein | 453 | 40% helix, 27% strand | Q9UZK7 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 148 | 0.57 | 0.82 | 22 | empty |
| 2 | 273 | 0.52 | 0.75 | 46 | empty |
| 3 | 152 | 0.49 | 0.78 | 22 | empty |
| 4 | 98 | 0.48 | 0.81 | 25 | MG, GTP, NA |
| 5 | 136 | 0.41 | 0.75 | 23 | empty |
Compared structures
- 7YZN · Structure of C-terminally truncated aIF5B from Pyrococcus abyssi complexed with GTP · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UZK7 · AlphaFold monomer V2.0 prediction for probable translation initiation factor if-2 (Q9UZK7) · a predicted model of the same protein · chain A against A, TM-score 0.70
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 Q9UZK7
- Elsewhere: RCSB PDB 7YZN · PDBe 7YZN · UniProt Q9UZK7
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