MolNFT v1 · #118055 · protein
Crystal structure of the two-subunit tRNA M1A58 methyltransferase from saccharomyces cerevisiae
5EQJ · TRNA (ADENINE(58)-N(1))-methyltransferase non-catalytic…: “Crystal structure of the two-subunit tRNA M1A58 methyltransferase from saccharomyces cerevisiae”. X-ray diffraction, 9 pockets (best druggability 0.77). MolNFT v1 #118055 on…
- PDB
- 5EQJ
- Type
- protein
- Length
- 652 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TRNA (ADENINE(58)-N(1))-methyltransferase non-catalytic subunit TRM6; TRNA…
- EC
- 2.1.1.220
- UniProt
- P41814, P46959
- Pockets
- 9 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TRNA (ADENINE(58)-N(1))-methyltransferase non-catalytic subunit TRM6 | protein | 333 | 32% helix, 27% strand | P41814 |
| B | TRNA (ADENINE(58)-N(1))-methyltransferase catalytic subunit TRM61 (EC 2.1.1.220) | protein | 319 | 27% helix, 31% strand | P46959 |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 754 | 0.77 | 0.82 | 71 | empty |
| 2 | 394 | 0.70 | 0.82 | 50 | empty |
| 3 | 133 | 0.41 | 0.75 | 20 | empty |
| 4 | 135 | 0.41 | 0.74 | 28 | empty |
| 5 | 51 | 0.34 | 0.78 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 3229 Ų buried · 47 hydrogen bonds · protein-protein
Compared structures
- 5EQJ · Crystal structure of the two-subunit tRNA m1A58 methyltransferase from Saccharomyces… · the same entry in another collection · chain A against A, TM-score 1.00
- P41814 · AlphaFold monomer V2.0 prediction for tRNA (ADENINE(58)-N(1))-methyltransferase… · a predicted model of the same protein · chain A against A, TM-score 0.96
- P46959 · AlphaFold monomer V2.0 prediction for tRNA (ADENINE(58)-N(1))-methyltransferase catalytic… · a predicted model of the same protein · chain B against A, TM-score 0.93
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 P41814
- Every structure of UniProt P46959
- Elsewhere: RCSB PDB 5EQJ · PDBe 5EQJ · UniProt P41814 · UniProt P46959
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.