MolNFT v1 · #152708 · protein
Crystal structure of cagv, a VIRB8 homolog of T4SS from helicobacter pylori strain 26695
6IQT · Cag pathogenicity island protein (CAG10): “Crystal structure of cagv, a VIRB8 homolog of T4SS from helicobacter pylori strain 26695”. X-ray diffraction, 7 pockets (best druggability 0.73). MolNFT v1 #152708 on GenesisL1: 3D…
- PDB
- 6IQT
- Type
- protein
- Length
- 527 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cag pathogenicity island protein (CAG10)
- UniProt
- O25265
- Pockets
- 7 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cag pathogenicity island protein (CAG10) | protein | 135 | 31% helix, 36% strand | O25265 |
| B | Cag pathogenicity island protein (CAG10) | protein | 129 | 32% helix, 39% strand | O25265 |
| C | Cag pathogenicity island protein (CAG10) | protein | 130 | 31% helix, 38% strand | O25265 |
| D | Cag pathogenicity island protein (CAG10) | protein | 133 | 31% helix, 38% strand | O25265 |
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 | 556 | 0.73 | 0.82 | 64 | empty |
| 2 | 432 | 0.70 | 0.81 | 48 | empty |
| 3 | 130 | 0.53 | 0.81 | 25 | empty |
| 4 | 123 | 0.46 | 0.78 | 25 | empty |
| 5 | 62 | 0.46 | 0.83 | 16 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1025 Ų buried · 18 hydrogen bonds · protein-protein
- C–D · 956 Ų buried · 19 hydrogen bonds · protein-protein
- B–D · 619 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 531 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 320 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- 6IQT · Crystal Structure of CagV, a VirB8 homolog of T4SS from Helicobacter pylori Strain 26695 · 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 O25265
- Elsewhere: RCSB PDB 6IQT · PDBe 6IQT · UniProt O25265
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