Research workbench
Bacteriophage G20C portal protein crystal structure for construct with intact N-terminus
Analyse Bacteriophage G20C portal protein crystal structure for construct with intact… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IBG
- Type
- protein
- Length
- 1,234 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Portal protein
- UniProt
- A7XXB9
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Portal protein | protein | 412 | 46% helix, 17% strand | A7XXB9 |
| C | Portal protein | protein | 410 | 47% helix, 17% strand | A7XXB9 |
Ligands and binding sites
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 737 | 0.87 | 0.91 | 88 | MPD |
| 2 | 424 | 0.86 | 0.94 | 61 | empty |
| 3 | 523 | 0.84 | 0.90 | 70 | empty |
| 4 | 306 | 0.81 | 0.92 | 44 | empty |
| 5 | 376 | 0.71 | 0.83 | 34 | empty |
Interfaces
3 interfaces between chains.
- A–B · 5594 Ų buried · 61 hydrogen bonds · protein-protein
- B–C · 5573 Ų buried · 57 hydrogen bonds · protein-protein
- A–C · 18 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6IBG · Bacteriophage G20c portal protein crystal structure for construct with intact N-terminus · 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 A7XXB9
- Elsewhere: RCSB PDB 6IBG · PDBe 6IBG · UniProt A7XXB9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.