MolNFT v1 · #85607 · protein
Parallel screening of a low molecular weight compound library: do differences in methodology affect hit identification
4AHT · Integrase: “Parallel screening of a low molecular weight compound library: do differences in methodology affect hit…”. X-ray diffraction, 3 ligands (TAM, Q6T, SO4), 7 pockets (best druggability 0.52). MolNFT v1 #85607 on GenesisL1…
- PDB
- 4AHT
- Type
- protein
- Length
- 301 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Integrase
- EC
- 2.7.7.1
- UniProt
- P12497
- Ligands
- TAM, Q6T, SO4
- Pockets
- 7 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Integrase (EC 2.7.7.1) | protein | 151 | 50% helix, 20% strand | P12497 |
| B | Integrase (EC 2.7.7.1) | protein | 150 | 49% helix, 20% strand | P12497 |
Ligands and binding sites
- TAM · Tris(hydroxyethyl)aminomethane · ligand · 2 copies · chains A, B
- Q6T · 1,3-benzodioxole-4-carboxylic acid · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 8 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 3 copies · chains A, B
- ACY · Acetic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 153 | 0.52 | 0.79 | 19 | empty |
| 2 | 113 | 0.51 | 0.81 | 26 | Q6T |
| 3 | 121 | 0.50 | 0.81 | 25 | Q6T |
| 4 | 188 | 0.44 | 0.74 | 35 | empty |
| 5 | 111 | 0.42 | 0.76 | 16 | SO4 |
Interfaces
1 interface between chains.
- A–B · 1526 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 4AHT · Parallel screening of a low molecular weight compound library: do differences in… · 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 P12497
- Elsewhere: RCSB PDB 4AHT · PDBe 4AHT · UniProt P12497
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