Research workbench
Apo-form of T. thermophilus 16S rRNA A1518 and A1519 methyltransferase (ksga) in space group P21212
Analyse Apo-form of T. thermophilus 16S rRNA A1518 and A1519 methyltransferase (ksga)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3FUT
- Type
- protein
- Length
- 524 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dimethyladenosine transferase
- EC
- 2.1.1.-
- UniProt
- Q5SM60
- Pockets
- 9 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dimethyladenosine transferase (EC 2.1.1.-) | protein | 264 | 44% helix, 19% strand | Q5SM60 |
| B | Dimethyladenosine transferase (EC 2.1.1.-) | protein | 260 | 45% helix, 20% strand | Q5SM60 |
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 | 137 | 0.70 | 0.90 | 40 | empty |
| 2 | 206 | 0.69 | 0.86 | 39 | empty |
| 3 | 61 | 0.42 | 0.81 | 19 | empty |
| 4 | 103 | 0.40 | 0.76 | 15 | empty |
| 5 | 137 | 0.38 | 0.73 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 520 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 3FUT · Apo-form of T. thermophilus 16S rRNA A1518 and A1519 methyltransferase (KsgA) in space… · the same entry in another collection · chain A against A, TM-score 1.00
- Q5SM60 · AlphaFold monomer V2.0 prediction for ribosomal RNA small subunit methyltransferase a… · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q5SM60
- Elsewhere: RCSB PDB 3FUT · PDBe 3FUT · UniProt Q5SM60
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