Research workbench
Cre recombinase bound to a loxp holliday junction
Analyse Cre recombinase bound to a loxp holliday junction in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1KBU
- Type
- protein + DNA
- Length
- 711 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Loxp; Cre recombinase
- UniProt
- P06956
- Pockets
- 10 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 55% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Loxp | dna | 34 | — | — |
| D | Loxp | dna | 34 | — | — |
| A | Cre recombinase | protein | 324 | 56% helix, 3% strand | P06956 |
| B | Cre recombinase | protein | 319 | 55% helix, 5% strand | P06956 |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 505 | 0.78 | 0.86 | 58 | empty |
| 2 | 967 | 0.74 | 0.77 | 64 | empty |
| 3 | 263 | 0.62 | 0.81 | 24 | empty |
| 4 | 235 | 0.53 | 0.77 | 22 | empty |
| 5 | 183 | 0.45 | 0.75 | 24 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1709 Ų buried · 29 hydrogen bonds · protein-protein
- C–B · 1528 Ų buried · 40 hydrogen bonds · protein-nucleic
- D–B · 1436 Ų buried · 33 hydrogen bonds · protein-nucleic
- D–A · 1319 Ų buried · 30 hydrogen bonds · protein-nucleic
- C–D · 714 Ų buried · 55 hydrogen bonds · nucleic-nucleic
Compared structures
- 1KBU · Cre recombinase bound to a loxp holliday junction · the same entry in another collection · chain C against C, 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 P06956
- Elsewhere: RCSB PDB 1KBU · PDBe 1KBU · UniProt P06956
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