Research workbench
NAA50P amino-terminal acetyltransferase bound to substrate peptide fragment and CoA
Analyse NAA50P amino-terminal acetyltransferase bound to substrate peptide fragment and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TFY
- Type
- protein
- Length
- 471 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- N-alpha-acetyltransferase 50, nate catalytic subunit; Hnrnp F
- EC
- 2.3.1.-
- UniProt
- Q9GZZ1
- Ligands
- COA
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 31% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | N-alpha-acetyltransferase 50, nate catalytic subunit (EC 2.3.1.-) | protein | 155 | 32% helix, 35% strand | Q9GZZ1 |
| D, E, F | Hnrnp F | protein | 4 | 0% helix, 0% strand | — |
| B, C | N-alpha-acetyltransferase 50, nate catalytic subunit (EC 2.3.1.-) | protein | 152 | 32% helix, 34% strand | Q9GZZ1 |
Ligands and binding sites
- COA · Coenzyme A · ligand · 3 copies · chains A, D, B, E, C, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 629 | 0.71 | 0.79 | 62 | empty |
| 2 | 260 | 0.64 | 0.82 | 32 | COA |
| 3 | 254 | 0.62 | 0.81 | 30 | COA |
| 4 | 263 | 0.62 | 0.80 | 30 | COA |
| 5 | 62 | 0.32 | 0.75 | 19 | empty |
Interfaces
5 interfaces between chains.
- A–C · 595 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 443 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 380 Ų buried · 5 hydrogen bonds · protein-protein
- B–E · 378 Ų buried · 6 hydrogen bonds · protein-protein
- C–F · 373 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 3TFY · Naa50p amino-terminal acetyltransferase bound to substrate peptide fragment and CoA · the same entry in another collection · chain F against F, TM-score 1.00
- Q9GZZ1 · AlphaFold monomer V2.0 prediction for N-alpha-acetyltransferase 50 (Q9GZZ1) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 Q9GZZ1
- Elsewhere: RCSB PDB 3TFY · PDBe 3TFY · UniProt Q9GZZ1
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