Research workbench
Crystal structure of ternary DNA complex "FX(1-2)-1XIS" containing E. COLI fis and phage lambda xis
Analyse Crystal structure of ternary DNA complex "FX(1-2)-1XIS" containing E. COLI fis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6P0T
- Type
- protein + DNA
- Length
- 274 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-binding protein fis; DNA (27-mer), FX1-2; Excisionase
- UniProt
- P0A6R3, P03699
- Pockets
- 6 · best druggability 0.61
Structure
x-ray diffraction · 5 distinct chains · 55% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | DNA-binding protein fis | protein | 83 | 64% helix, 5% strand | P0A6R3 |
| A | DNA-binding protein fis | protein | 85 | 62% helix, 7% strand | P0A6R3 |
| C | DNA (27-mer), FX1-2 | dna | 27 | — | — |
| D | DNA (27-mer), FX1-2 | dna | 27 | — | — |
| E | Excisionase | protein | 52 | 31% helix, 29% strand | P03699 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 404 | 0.61 | 0.77 | 34 | empty |
| 2 | 201 | 0.58 | 0.81 | 34 | empty |
| 3 | 127 | 0.39 | 0.74 | 20 | empty |
| 4 | 69 | 0.30 | 0.74 | 13 | empty |
| 5 | 55 | 0.27 | 0.74 | 11 | empty |
Interfaces
9 interfaces between chains.
- B–A · 2130 Ų buried · 21 hydrogen bonds · protein-protein
- C–D · 1210 Ų buried · 109 hydrogen bonds · nucleic-nucleic
- C–E · 448 Ų buried · 9 hydrogen bonds · protein-nucleic
- D–E · 428 Ų buried · 7 hydrogen bonds · protein-nucleic
- B–C · 302 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 6P0T · Crystal structure of ternary DNA complex FX(1-2)-1Xis" containing E. coli Fis and phage… · the same entry in another collection · chain A against A, TM-score 1.00
- P0A6R3 · AlphaFold monomer V2.0 prediction for DNA-binding protein fis (P0A6R3) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 P0A6R3
- Every structure of UniProt P03699
- Elsewhere: RCSB PDB 6P0T · PDBe 6P0T · UniProt P0A6R3 · UniProt P03699
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