MolNFT v1 · #157944 · protein
Cyclic gmp-AMP synthase in complex with compound 16 inhibitor: 7- hydroxy-N-methyl-5-PHENYLPYRAZOLO[1,5-A]PYRIMIDINE-3-carboxamide
6NFG: “Cyclic gmp-AMP synthase in complex with compound 16 inhibitor: 7…”. X-ray diffraction, 2 ligands (KKP, ZN), 8 pockets (best druggability 0.74). MolNFT v1 #157944 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6NFG
- Type
- protein
- Length
- 694 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyclic gmp-AMP synthase
- EC
- 2.7.7.86
- UniProt
- Q8N884
- Ligands
- KKP, ZN
- Pockets
- 8 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cyclic gmp-AMP synthase (EC 2.7.7.86) | protein | 348 | 46% helix, 18% strand | Q8N884 |
| B | Cyclic gmp-AMP synthase (EC 2.7.7.86) | protein | 346 | 45% helix, 18% strand | Q8N884 |
Ligands and binding sites
- KKP · 7-hydroxy-N-methyl-5-phenylpyrazolo[1,5-a]pyrimidine-3-carboxamide · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 731 | 0.74 | 0.79 | 77 | KKP |
| 2 | 656 | 0.72 | 0.79 | 62 | KKP |
| 3 | 244 | 0.57 | 0.78 | 24 | empty |
| 4 | 133 | 0.43 | 0.75 | 25 | empty |
| 5 | 67 | 0.35 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 710 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
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 Q8N884
- Elsewhere: RCSB PDB 6NFG · PDBe 6NFG · UniProt Q8N884
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