Research workbench
The nata acetyltransferase complex bound to ppgpp
Analyse The nata acetyltransferase complex bound to ppgpp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4HNX
- Type
- protein
- Length
- 926 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- N-terminal acetyltransferase a complex subunit NAT1; N-terminal acetyltransferase a…
- EC
- 2.3.1.88
- UniProt
- P12945, P07347
- Ligands
- G4P
- Pockets
- 12 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | N-terminal acetyltransferase a complex subunit NAT1 | protein | 713 | 77% helix, 0% strand | P12945 |
| B | N-terminal acetyltransferase a complex catalytic subunit ARD1 (EC 2.3.1.88) | protein | 213 | 36% helix, 25% strand | P07347 |
Ligands and binding sites
- G4P · Guanosine-5',3'-tetraphosphate · ligand · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 492 | 0.77 | 0.85 | 51 | G4P |
| 2 | 558 | 0.69 | 0.79 | 57 | empty |
| 3 | 144 | 0.63 | 0.85 | 28 | empty |
| 4 | 406 | 0.62 | 0.77 | 56 | empty |
| 5 | 210 | 0.52 | 0.77 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 3693 Ų buried · 52 hydrogen bonds · protein-protein
Compared structures
- 4HNX · The NatA Acetyltransferase Complex Bound To ppGpp · the same entry in another collection · chain A against A, TM-score 1.00
- P12945 · AlphaFold monomer V2.0 prediction for N-terminal acetyltransferase a complex subunit NAT1… · a predicted model of the same protein · chain A against A, TM-score 0.96
- P07347 · AlphaFold monomer V2.0 prediction for N-terminal acetyltransferase a complex catalytic… · a predicted model of the same protein · chain B against A, TM-score 0.79
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 P12945
- Every structure of UniProt P07347
- Elsewhere: RCSB PDB 4HNX · PDBe 4HNX · UniProt P12945 · UniProt P07347
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