Research workbench
Heterodimeric tRNA-guanine transglycosylase from mouse
Analyse Heterodimeric tRNA-guanine transglycosylase from mouse in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7B2I
- Type
- protein
- Length
- 755 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Queuine tRNA-ribosyltransferase accessory subunit 2; Queuine tRNA-ribosyltransferase…
- EC
- 2.4.2.29
- UniProt
- B8ZXI1, Q9JMA2
- Ligands
- ZN, SO4
- Pockets
- 13 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Queuine tRNA-ribosyltransferase accessory subunit 2 (EC 2.4.2.29) | protein | 366 | 43% helix, 18% strand | B8ZXI1 |
| C | Queuine tRNA-ribosyltransferase catalytic subunit 1 (EC 2.4.2.29) | protein | 389 | 46% helix, 16% strand | Q9JMA2 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, C
- SO4 · Sulfate ion · ion · 4 copies · chains A, C
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A, C
- PG4 · Tetraethylene glycol · additive · 2 copies · chains A, C
- PGE · Triethylene glycol · additive · chains A, C
- P6G · Hexaethylene glycol · additive · chains C
- CIT · Citric acid · additive · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 70 | 0.74 | 0.98 | 22 | PGE |
| 2 | 200 | 0.61 | 0.82 | 35 | empty |
| 3 | 325 | 0.60 | 0.77 | 48 | CIT |
| 4 | 167 | 0.57 | 0.82 | 40 | empty |
| 5 | 136 | 0.50 | 0.79 | 24 | empty |
Interfaces
1 interface between chains.
- A–C · 1567 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 7B2I · Heterodimeric tRNA-Guanine Transglycosylase from mouse · the same entry in another collection · chain A against A, TM-score 1.00
- B8ZXI1 · AlphaFold monomer V2.0 prediction for queuine tRNA-ribosyltransferase accessory subunit 2… · a predicted model of the same protein · chain A against A, TM-score 0.98
- Q9JMA2 · AlphaFold monomer V2.0 prediction for queuine tRNA-ribosyltransferase catalytic subunit 1… · a predicted model of the same protein · chain C against A, TM-score 0.97
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 B8ZXI1
- Every structure of UniProt Q9JMA2
- Elsewhere: RCSB PDB 7B2I · PDBe 7B2I · UniProt B8ZXI1 · UniProt Q9JMA2
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