Research workbench
Crystal structure of CSM6 in complex with CDA4 by soaking CDA4 into CSM6
Analyse Crystal structure of CSM6 in complex with CDA4 by soaking CDA4 into CSM6 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6O71
- Type
- protein + DNA
- Length
- 873 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CSM6; Cyclic DNA CDA4
- UniProt
- B6YWC3
- Pockets
- 10 · best druggability 0.87
Structure
x-ray diffraction · 3 distinct chains · 47% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CSM6 | protein | 433 | 47% helix, 20% strand | B6YWC3 |
| B | CSM6 | protein | 432 | 47% helix, 20% strand | B6YWC3 |
| C, D | Cyclic DNA CDA4 | dna | 4 | — | — |
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 992 | 0.87 | 0.88 | 82 | empty |
| 2 | 266 | 0.82 | 0.94 | 40 | empty |
| 3 | 98 | 0.39 | 0.77 | 20 | empty |
| 4 | 73 | 0.39 | 0.78 | 11 | empty |
| 5 | 55 | 0.36 | 0.79 | 11 | empty |
Interfaces
5 interfaces between chains.
- A–B · 2361 Ų buried · 17 hydrogen bonds · protein-protein
- B–D · 469 Ų buried · 4 hydrogen bonds · protein-nucleic
- A–D · 424 Ų buried · 4 hydrogen bonds · protein-nucleic
- A–C · 381 Ų buried · 4 hydrogen bonds · protein-nucleic
- B–C · 368 Ų buried · 8 hydrogen bonds · protein-nucleic
Compared structures
- 6O71 · Crystal structure of Csm6 in complex with cdA4 by soaking cdA4 into Csm6 · 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 B6YWC3
- Elsewhere: RCSB PDB 6O71 · PDBe 6O71 · UniProt B6YWC3
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