Research workbench
Structure of double-stranded target DNA engaged csy complex from pseudomonas aeruginosa (pa-14)
Analyse Structure of double-stranded target DNA engaged csy complex from pseudomonas… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6NE0
- Type
- protein + DNA + RNA
- Length
- 2,979 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CRISPR-associated protein CSY1; CRISPR-associated protein CSY2; CRISPR-associated protein…
- EC
- 3.1.-.-
- UniProt
- Q02ML9, Q02MM0, Q02MM1, Q02MM2
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 10 distinct chains · 26% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CRISPR-associated protein CSY1 | protein | 401 | 40% helix, 3% strand | Q02ML9 |
| B | CRISPR-associated protein CSY2 | protein | 305 | 18% helix, 27% strand | Q02MM0 |
| C | CRISPR-associated protein CSY3 | protein | 293 | 24% helix, 26% strand | Q02MM1 |
| D, G, H | CRISPR-associated protein CSY3 | protein | 333 | 22% helix, 25% strand | Q02MM1 |
| E | CRISPR-associated protein CSY3 | protein | 334 | 21% helix, 27% strand | Q02MM1 |
| F | CRISPR-associated protein CSY3 | protein | 335 | 27% helix, 25% strand | Q02MM1 |
| L | CRISPR-associated endonuclease CAS6/CSY4 (EC 3.1.-.-) | protein | 189 | 22% helix, 12% strand | Q02MM2 |
| M | CRISPR RNA (60-mer) | rna | 58 | — | — |
| N | CRISPR target DNA (44-mer) | dna | 44 | — | — |
| O | Non-complementary R-loop DNA strand | dna | 21 | — | — |
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 | 779 | 0.85 | 0.88 | 102 | empty |
| 2 | 208 | 0.82 | 0.96 | 44 | empty |
| 3 | 645 | 0.76 | 0.82 | 75 | empty |
| 4 | 734 | 0.75 | 0.80 | 70 | empty |
| 5 | 641 | 0.75 | 0.81 | 67 | empty |
Interfaces
36 interfaces between chains.
- A–B · 4027 Ų buried · 41 hydrogen bonds · protein-protein
- B–H · 1977 Ų buried · 27 hydrogen bonds · protein-protein
- F–G · 1967 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1899 Ų buried · 31 hydrogen bonds · protein-protein
- D–E · 1892 Ų buried · 31 hydrogen bonds · protein-protein
Compared structures
- 6NE0 · Structure of double-stranded target DNA engaged Csy complex from Pseudomonas aeruginosa… · the same entry in another collection · chain O against O, 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 Q02ML9
- Every structure of UniProt Q02MM0
- Every structure of UniProt Q02MM1
- Every structure of UniProt Q02MM2
- Elsewhere: RCSB PDB 6NE0 · PDBe 6NE0 · UniProt Q02ML9 · UniProt Q02MM0 · UniProt Q02MM1 · UniProt Q02MM2
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