MolNFT v1 · #58884 · protein
Triclinic structure of mimivirus capping enzyme triphosphatase at 1.65 a
3BGY · Polynucleotide 5'-triphosphatase: “Triclinic structure of mimivirus capping enzyme triphosphatase at 1.65 a”. X-ray diffraction, 5 pockets (best druggability 0.80). MolNFT v1 #58884 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3BGY
- Type
- protein
- Length
- 450 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polynucleotide 5'-triphosphatase
- EC
- 3.1.3.33
- UniProt
- Q5UQX1
- Pockets
- 5 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polynucleotide 5'-triphosphatase (EC 3.1.3.33) | protein | 226 | 32% helix, 38% strand | Q5UQX1 |
| B | Polynucleotide 5'-triphosphatase (EC 3.1.3.33) | protein | 224 | 34% helix, 36% strand | Q5UQX1 |
Ligands and binding sites
- ACT · Acetate ion · additive · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1116 | 0.80 | 0.81 | 83 | empty |
| 2 | 353 | 0.60 | 0.77 | 41 | ACT |
| 3 | 50 | 0.39 | 0.81 | 16 | empty |
| 4 | 70 | 0.31 | 0.74 | 17 | empty |
| 5 | 62 | 0.31 | 0.75 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 962 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3BGY · Triclinic structure of Mimivirus Capping Enzyme Triphosphatase at 1.65 A · 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 Q5UQX1
- Elsewhere: RCSB PDB 3BGY · PDBe 3BGY · UniProt Q5UQX1
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