MolNFT v1 · #181387 · protein
Structure of the alpha-N-methyltransferase (sonm mutant Y58F) and ripp precursor (sona) heteromeric complex (no cofactor)
7LTF · Tp-methylase family protein: “Structure of the alpha-N-methyltransferase (sonm mutant Y58F) and ripp precursor (sona) heteromeric complex…”. X-ray diffraction, 8 pockets (best druggability 0.70). MolNFT v1 #181387 on GenesisL1: 3D…
- PDB
- 7LTF
- Type
- protein
- Length
- 661 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tp-methylase family protein; Liga domain-containing protein
- UniProt
- Q8EGW3, Q8EGW2
- Pockets
- 8 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 45% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Tp-methylase family protein | protein | 262 | 37% helix, 21% strand | Q8EGW3 |
| B | Liga domain-containing protein | protein | 69 | 61% helix, 1% strand | Q8EGW2 |
| D | Liga domain-containing protein | protein | 68 | 60% helix, 1% strand | Q8EGW2 |
Pockets
8 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 52 | 0.70 | 0.98 | 20 | empty |
| 2 | 51 | 0.70 | 0.98 | 19 | empty |
| 3 | 273 | 0.64 | 0.81 | 37 | empty |
| 4 | 248 | 0.63 | 0.81 | 34 | empty |
| 5 | 291 | 0.58 | 0.77 | 47 | empty |
Interfaces
5 interfaces between chains.
- A–C · 2859 Ų buried · 54 hydrogen bonds · protein-protein
- C–D · 1720 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1670 Ų buried · 21 hydrogen bonds · protein-protein
- A–D · 513 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 502 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (nonstandard).
Compared structures
- 7LTF · Structure of the alpha-N-methyltransferase (SonM mutant Y58F) and RiPP precursor (SonA)… · the same entry in another collection · chain A against A, TM-score 1.00
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 Q8EGW3
- Every structure of UniProt Q8EGW2
- Elsewhere: RCSB PDB 7LTF · PDBe 7LTF · UniProt Q8EGW3 · UniProt Q8EGW2
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