MolNFT v1 · #82656 · protein
The crystal structure of the C-terminal domain of mu phage central spike
3VTO · Protein GP45: “The crystal structure of the C-terminal domain of mu phage central spike”. X-ray diffraction, 3 ligands (FE, CA, CL), 2 pockets (best druggability 0.78). MolNFT v1 #82656 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3VTO
- Type
- protein
- Length
- 632 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein GP45
- UniProt
- Q9T1V4
- Ligands
- FE, CA, CL
- Pockets
- 2 · best druggability 0.78
Structure
x-ray diffraction · 6 distinct chains · 0% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein GP45 | protein | 99 | 0% helix, 56% strand | Q9T1V4 |
| B | Protein GP45 | protein | 110 | 0% helix, 50% strand | Q9T1V4 |
| C | Protein GP45 | protein | 109 | 0% helix, 50% strand | Q9T1V4 |
| P | Protein GP45 | protein | 103 | 0% helix, 53% strand | Q9T1V4 |
| Q | Protein GP45 | protein | 108 | 0% helix, 51% strand | Q9T1V4 |
| R | Protein GP45 | protein | 103 | 0% helix, 53% strand | Q9T1V4 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 2 copies · chains A, B, C, P, Q, R
- CA · Calcium ion · metal · 2 copies · chains A, B, C, P, Q, R
- CL · Chloride ion · ion · 2 copies · chains A, B, C, P, Q, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 189 | 0.78 | 0.93 | 42 | empty |
| 2 | 137 | 0.47 | 0.78 | 21 | empty |
Interfaces
11 interfaces between chains.
- B–C · 3546 Ų buried · 88 hydrogen bonds · protein-protein
- A–C · 3485 Ų buried · 85 hydrogen bonds · protein-protein
- P–Q · 3479 Ų buried · 90 hydrogen bonds · protein-protein
- Q–R · 3476 Ų buried · 89 hydrogen bonds · protein-protein
- A–B · 3429 Ų buried · 89 hydrogen bonds · protein-protein
Compared structures
- 3VTO · The crystal structure of the C-terminal domain of Mu phage central spike · 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 Q9T1V4
- Elsewhere: RCSB PDB 3VTO · PDBe 3VTO · UniProt Q9T1V4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.