Research workbench
High resolution structure of the holliday junction intermediate in cre-loxp site-specific recombination
Analyse High resolution structure of the holliday junction intermediate in cre-loxp… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XO0
- Type
- protein + DNA
- Length
- 714 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Loxp; Recombinase cre
- UniProt
- P06956
- Pockets
- 12 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 58% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Loxp | dna | 35 | — | — |
| D | Loxp | dna | 35 | — | — |
| A, B | Recombinase cre | protein | 322 | 58% helix, 7% strand | P06956 |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 879 | 0.82 | 0.85 | 76 | empty |
| 2 | 445 | 0.67 | 0.79 | 49 | empty |
| 3 | 307 | 0.61 | 0.79 | 34 | empty |
| 4 | 126 | 0.54 | 0.82 | 24 | empty |
| 5 | 215 | 0.53 | 0.77 | 22 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1788 Ų buried · 33 hydrogen bonds · protein-protein
- C–B · 1509 Ų buried · 33 hydrogen bonds · protein-nucleic
- D–A · 1364 Ų buried · 27 hydrogen bonds · protein-nucleic
- D–B · 1306 Ų buried · 22 hydrogen bonds · protein-nucleic
- C–D · 776 Ų buried · 53 hydrogen bonds · nucleic-nucleic
Compared structures
- 1XO0 · High resolution structure of the holliday junction intermediate in cre-loxp site-specific… · 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 1XO0 · PDBe 1XO0 · UniProt P06956
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