Research workbench
Structure of type I-D cascade bound to a dsdna target
Analyse Structure of type I-D cascade bound to a dsdna target in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SBA
- Type
- protein + DNA + RNA
- Length
- 3,741 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CAS7D; CAS5D; CAS10D; CAS11D; DNA target strand; DNA non-target strand; Crrna
- UniProt
- Q6ZEI6, Q6ZEI5, Q6ZEI7
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 7 distinct chains · 47% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | CAS7D | protein | 320 | 34% helix, 28% strand | Q6ZEI6 |
| H | CAS5D | protein | 238 | 8% helix, 44% strand | Q6ZEI5 |
| I | CAS10D | protein | 899 | 57% helix, 7% strand | Q6ZEI7 |
| J, K | CAS11D | protein | 146 | 73% helix, 0% strand | Q6ZEI7 |
| X | DNA target strand | dna | 16 | — | — |
| Y | DNA non-target strand | dna | 13 | — | — |
| Z | Crrna | rna | 43 | — | — |
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 | 930 | 0.85 | 0.86 | 98 | empty |
| 2 | 1038 | 0.82 | 0.83 | 103 | empty |
| 3 | 224 | 0.81 | 0.94 | 56 | empty |
| 4 | 576 | 0.81 | 0.87 | 70 | empty |
| 5 | 131 | 0.80 | 0.98 | 42 | empty |
Interfaces
44 interfaces between chains.
- H–I · 2700 Ų buried · 38 hydrogen bonds · protein-protein
- F–G · 2514 Ų buried · 52 hydrogen bonds · protein-protein
- C–D · 2371 Ų buried · 53 hydrogen bonds · protein-protein
- D–E · 2363 Ų buried · 51 hydrogen bonds · protein-protein
- B–C · 2333 Ų buried · 55 hydrogen bonds · protein-protein
Compared structures
- 7SBA · Structure of type I-D Cascade bound to a dsDNA target · 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 Q6ZEI6
- Every structure of UniProt Q6ZEI5
- Every structure of UniProt Q6ZEI7
- Elsewhere: RCSB PDB 7SBA · PDBe 7SBA · UniProt Q6ZEI6 · UniProt Q6ZEI5 · UniProt Q6ZEI7
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