Research workbench
Structure of the cascade-I-fv R-loop complex from shewanella putrefaciens
Analyse Structure of the cascade-I-fv R-loop complex from shewanella putrefaciens in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5O6U
- Type
- protein + DNA + RNA
- Length
- 1,505 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Crrna; CRISPR-associated protein, CSY4 family; Uncharacterized protein; Non-target DNA…
- UniProt
- A4Y6G3, A4Y6G1, A4Y6G2
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 7 distinct chains · 26% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Crrna | rna | 42 | — | — |
| B | CRISPR-associated protein, CSY4 family | protein | 182 | 30% helix, 25% strand | A4Y6G3 |
| C | Uncharacterized protein | protein | 267 | 23% helix, 31% strand | A4Y6G1 |
| D, E | Uncharacterized protein | protein | 315 | 19% helix, 36% strand | A4Y6G1 |
| F | Uncharacterized protein | protein | 336 | 33% helix, 22% strand | A4Y6G2 |
| H | Non-target DNA | dna | 21 | — | — |
| I | Target DNA | dna | 27 | — | — |
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 | 1097 | 0.87 | 0.89 | 98 | empty |
| 2 | 1036 | 0.83 | 0.84 | 80 | empty |
| 3 | 1081 | 0.82 | 0.83 | 94 | empty |
| 4 | 148 | 0.80 | 0.97 | 29 | empty |
| 5 | 739 | 0.76 | 0.81 | 71 | empty |
Interfaces
20 interfaces between chains.
- E–F · 2713 Ų buried · 41 hydrogen bonds · protein-protein
- D–E · 1896 Ų buried · 25 hydrogen bonds · protein-protein
- A–B · 1876 Ų buried · 48 hydrogen bonds · protein-nucleic
- C–D · 1714 Ų buried · 25 hydrogen bonds · protein-protein
- A–F · 1382 Ų buried · 39 hydrogen bonds · protein-nucleic
Compared structures
- 5O6U · Structure of the Cascade-I-Fv R-loop complex from Shewanella putrefaciens · the same entry in another collection · chain B against B, 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 A4Y6G3
- Every structure of UniProt A4Y6G1
- Every structure of UniProt A4Y6G2
- Elsewhere: RCSB PDB 5O6U · PDBe 5O6U · UniProt A4Y6G3 · UniProt A4Y6G1 · UniProt A4Y6G2
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