Research workbench
Crystal structure of pyrococcus abyssi TRM5A
Analyse Crystal structure of pyrococcus abyssi TRM5A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5HJJ
- Type
- protein
- Length
- 348 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TRNA (GUANINE(37)-N1)-methyltransferase TRM5A
- EC
- 2.1.1.228
- UniProt
- Q9V2G1
- Pockets
- 3 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TRNA (GUANINE(37)-N1)-methyltransferase TRM5A (EC 2.1.1.228) | protein | 348 | 33% helix, 33% strand | Q9V2G1 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 424 | 0.78 | 0.86 | 49 | empty |
| 2 | 69 | 0.39 | 0.79 | 16 | empty |
| 3 | 148 | 0.38 | 0.72 | 25 | empty |
Compared structures
- 5HJJ · Crystal Structure of Pyrococcus abyssi Trm5a · the same entry in another collection · chain A against A, TM-score 1.00
- Q9V2G1 · AlphaFold monomer V2.0 prediction for tRNA (GUANINE(37)-N1)/4-DEMETHYLWYOSINE(37)-methyltr… · a predicted model of the same protein · chain A against A, TM-score 0.77
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 Q9V2G1
- Elsewhere: RCSB PDB 5HJJ · PDBe 5HJJ · UniProt Q9V2G1
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