Research workbench
Spermidine N-acetyltransferase speg N152L mutant from vibrio cholerae
Analyse Spermidine N-acetyltransferase speg N152L mutant from vibrio cholerae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KWX
- Type
- protein
- Length
- 510 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spermidine N(1)-acetyltransferase
- EC
- 2.3.1.57
- UniProt
- Q9KL03
- Pockets
- 7 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Spermidine N(1)-acetyltransferase (EC 2.3.1.57) | protein | 169 | 33% helix, 38% strand | Q9KL03 |
| B | Spermidine N(1)-acetyltransferase (EC 2.3.1.57) | protein | 172 | 33% helix, 37% strand | Q9KL03 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 954 | 0.86 | 0.87 | 90 | empty |
| 2 | 90 | 0.77 | 0.98 | 17 | empty |
| 3 | 523 | 0.67 | 0.77 | 44 | empty |
| 4 | 169 | 0.55 | 0.80 | 21 | empty |
| 5 | 92 | 0.45 | 0.80 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1176 Ų buried · 26 hydrogen bonds · protein-protein
- A–C · 730 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 295 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7KWX · Spermidine N-acetyltransferase SpeG N152L mutant from Vibrio cholerae · the same entry in another collection · chain A against A, TM-score 1.00
- Q9KL03 · AlphaFold monomer V2.0 prediction for spermidine N(1)-acetyltransferase (Q9KL03) · a predicted model of the same protein · chain A 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 Q9KL03
- Elsewhere: RCSB PDB 7KWX · PDBe 7KWX · UniProt Q9KL03
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