Research workbench
Flp recombinase-holliday junction complex I
Analyse Flp recombinase-holliday junction complex I in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1FLO
- Type
- protein + DNA
- Length
- 1,751 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Symmetrized frt DNA sites; Flp recombinase
- UniProt
- P03870
- Ligands
- PHS
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 7 distinct chains · 47% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, G, I, K | Symmetrized frt DNA sites | dna | 13 | — | — |
| F | Symmetrized frt DNA sites | dna | 20 | — | — |
| H, J, L | Symmetrized frt DNA sites | dna | 19 | — | — |
| A | Flp recombinase | protein | 405 | 49% helix, 12% strand | P03870 |
| B | Flp recombinase | protein | 408 | 48% helix, 12% strand | P03870 |
| C | Flp recombinase | protein | 404 | 45% helix, 12% strand | P03870 |
| D | Flp recombinase | protein | 405 | 45% helix, 11% strand | P03870 |
Ligands and binding sites
- PHS · Phosphonic acid · ligand · 4 copies · chains E, J, A, D, G, L, B, C, H, I, F, K
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 446 | 0.80 | 0.88 | 57 | empty |
| 2 | 672 | 0.79 | 0.84 | 71 | empty |
| 3 | 609 | 0.77 | 0.83 | 78 | empty |
| 4 | 1028 | 0.77 | 0.79 | 109 | empty |
| 5 | 554 | 0.75 | 0.83 | 61 | empty |
Interfaces
33 interfaces between chains.
- B–C · 1592 Ų buried · 17 hydrogen bonds · protein-protein
- A–D · 1549 Ų buried · 18 hydrogen bonds · protein-protein
- F–A · 1107 Ų buried · 25 hydrogen bonds · protein-nucleic
- H–B · 1071 Ų buried · 24 hydrogen bonds · protein-nucleic
- A–C · 1055 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 covalent (covalent ligand).
Compared structures
- 1FLO · FLP Recombinase-Holliday Junction Complex I · the same entry in another collection · chain D against D, 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 P03870
- Elsewhere: RCSB PDB 1FLO · PDBe 1FLO · UniProt P03870
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