Research workbench
Crystal structure of ACECAS9 bound with guide RNA and DNA with 5'- nnncc-3' pam
Analyse Crystal structure of ACECAS9 bound with guide RNA and DNA with 5'- nnncc-3' pam in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WBR
- Type
- protein + DNA + RNA
- Length
- 1,073 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CRISPR-associated endonuclease, CSN1 FAMILY,CRISPR- associated endonuclease, CSN1 family…
- UniProt
- A0LWB3
- Pockets
- 20 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CRISPR-associated endonuclease, CSN1 FAMILY,CRISPR- associated endonuclease, CSN1 family | protein | 942 | 40% helix, 15% strand | A0LWB3 |
| B | RNA (94-mer) | rna | 91 | — | — |
| C | DNA (30-mer) | dna | 30 | — | — |
| D | DNA (5'-D(*AP*TP*AP*CP*CP*TP*GP*GP*CP*G)-3') | dna | 10 | — | — |
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 562 | 0.83 | 0.89 | 68 | empty |
| 2 | 424 | 0.82 | 0.90 | 37 | empty |
| 3 | 859 | 0.73 | 0.78 | 76 | empty |
| 4 | 79 | 0.68 | 0.94 | 24 | empty |
| 5 | 101 | 0.65 | 0.90 | 18 | empty |
Interfaces
5 interfaces between chains.
- A–B · 4967 Ų buried · 116 hydrogen bonds · protein-nucleic
- A–C · 1750 Ų buried · 27 hydrogen bonds · protein-nucleic
- B–C · 961 Ų buried · 75 hydrogen bonds · nucleic-nucleic
- A–D · 511 Ų buried · 5 hydrogen bonds · protein-nucleic
- C–D · 469 Ų buried · 37 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 6WBR · Crystal structure of AceCas9 bound with guide RNA and DNA with 5'-NNNCC-3' PAM · 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 A0LWB3
- Elsewhere: RCSB PDB 6WBR · PDBe 6WBR · UniProt A0LWB3
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