Research workbench
Crystal structure of sulfolobus acidocaldarius TRM10 at 2.4 ångström resolution.
Analyse Crystal structure of sulfolobus acidocaldarius TRM10 at 2.4 ångström resolution. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5A7T
- Type
- protein
- Length
- 253 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TRNA (ADENINE(9)-N1)-methyltransferase
- EC
- 2.1.1.218
- UniProt
- Q4J894
- Pockets
- 4 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TRNA (ADENINE(9)-N1)-methyltransferase (EC 2.1.1.218) | protein | 253 | 34% helix, 26% strand | Q4J894 |
Ligands and binding sites
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.54 | 0.87 | 16 | empty |
| 2 | 59 | 0.40 | 0.81 | 14 | empty |
| 3 | 77 | 0.39 | 0.78 | 23 | PEG |
| 4 | 79 | 0.36 | 0.76 | 18 | empty |
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 5A7T · Crystal structure of Sulfolobus acidocaldarius Trm10 at 2.4 angstrom resolution. · the same entry in another collection · chain A against A, TM-score 1.00
- Q4J894 · AlphaFold monomer V2.0 prediction for tRNA (ADENINE(9)-N1)-methyltransferase (Q4J894) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q4J894
- Elsewhere: RCSB PDB 5A7T · PDBe 5A7T · UniProt Q4J894
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