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Structure of the holliday junction intermediate in cre-loxp site-specific recombination
Analyse Structure of the holliday junction intermediate in cre-loxp site-specific… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2CRX
- Type
- protein + DNA
- Length
- 683 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA 35-mer; Protein (cre recombinase)
- UniProt
- P06956
- Pockets
- 11 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 59% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | DNA 35-mer | dna | 35 | — | — |
| D | DNA 35-mer | dna | 34 | — | — |
| A | Protein (cre recombinase) | protein | 305 | 60% helix, 6% strand | P06956 |
| B | Protein (cre recombinase) | protein | 309 | 58% helix, 6% strand | P06956 |
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 579 | 0.73 | 0.81 | 44 | empty |
| 2 | 420 | 0.65 | 0.79 | 47 | empty |
| 3 | 441 | 0.63 | 0.77 | 32 | empty |
| 4 | 234 | 0.56 | 0.78 | 26 | empty |
| 5 | 203 | 0.47 | 0.75 | 23 | empty |
Interfaces
5 interfaces between chains.
- C–B · 1365 Ų buried · 27 hydrogen bonds · protein-nucleic
- D–A · 1246 Ų buried · 21 hydrogen bonds · protein-nucleic
- D–B · 1209 Ų buried · 24 hydrogen bonds · protein-nucleic
- A–B · 1093 Ų buried · 18 hydrogen bonds · protein-protein
- C–D · 773 Ų buried · 63 hydrogen bonds · nucleic-nucleic
Compared structures
- 2CRX · Structure of the holliday junction intermediate in cre-loxp site-specific recombination · 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 2CRX · PDBe 2CRX · UniProt P06956
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