MolNFT v1 · #160371 · protein + RNA
V. cholerae tniq-cascade complex, closed conformation
6PIG · RNA (60-mer): “V. cholerae tniq-cascade complex, closed conformation”. Electron microscopy, 20 pockets (best druggability 0.84). MolNFT v1 #160371 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6PIG
- Type
- protein + RNA
- Length
- 3,499 residues
- Chains
- 11
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (60-mer); CAS7 type I-F CRISPR-associated protein CSY3; CAS5_8 naturally occurring…
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 9 distinct chains · 22% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1 | RNA (60-mer) | rna | 60 | — | — |
| A | CAS7 type I-F CRISPR-associated protein CSY3 | protein | 343 | 20% helix, 23% strand | — |
| B | CAS7 type I-F CRISPR-associated protein CSY3 | protein | 339 | 20% helix, 22% strand | — |
| C, D, E | CAS7 type I-F CRISPR-associated protein CSY3 | protein | 338 | 19% helix, 22% strand | — |
| F | CAS7 type I-F CRISPR-associated protein CSY3 | protein | 310 | 20% helix, 22% strand | — |
| G | CAS5_8 naturally occurring fusion protein from vibrio cholerae transposon TN6677 | protein | 511 | 17% helix, 14% strand | — |
| H | Type I-F CRISPR-associated endoribonuclease CAS6/CSY4 | protein | 197 | 23% helix, 11% strand | — |
| I | Tniq monomer 1 | protein | 357 | 29% helix, 1% strand | — |
| J | Tniq monomer 2 | protein | 368 | 30% helix, 3% strand | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1161 | 0.84 | 0.85 | 97 | empty |
| 2 | 1170 | 0.83 | 0.84 | 138 | empty |
| 3 | 140 | 0.78 | 0.96 | 38 | empty |
| 4 | 960 | 0.78 | 0.80 | 79 | empty |
| 5 | 1022 | 0.76 | 0.79 | 74 | empty |
Interfaces
26 interfaces between chains.
- C–D · 2371 Ų buried · 21 hydrogen bonds · protein-protein
- D–E · 2287 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 2277 Ų buried · 22 hydrogen bonds · protein-protein
- B–C · 2260 Ų buried · 23 hydrogen bonds · protein-protein
- E–F · 2166 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 6PIG · V. cholerae TniQ-Cascade complex, closed conformation · 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
- Elsewhere: RCSB PDB 6PIG · PDBe 6PIG
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