MolNFT v1 · #6173 · protein + DNA
Crystal structure of the replication terminator PROTEIN/B-site DNA complex
1F4K · 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*AP*AP*TP*GP*TP*TP*CP*AP…: “Crystal structure of the replication terminator PROTEIN/B-site DNA complex”. X-ray diffraction, 6 pockets (best druggability 0.63). MolNFT v1 #6173 on GenesisL1: 3D…
- PDB
- 1F4K
- Type
- protein + DNA
- Length
- 272 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*AP*AP*TP*GP*TP*TP*CP*AP *TP*AP*G)-3'…
- UniProt
- P68732
- Pockets
- 6 · best druggability 0.63
Structure
x-ray diffraction · 3 distinct chains · 61% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*AP*AP*TP*GP*TP*TP*CP*AP *TP*AP*G)-3' | dna | 21 | — | — |
| E | 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*TP*AP*TP*GP*TP*TP*CP*AP *TP*AP*G)-3' | dna | 21 | — | — |
| A, B | Replication termination protein | protein | 115 | 61% helix, 12% strand | P68732 |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 200 | 0.63 | 0.84 | 33 | empty |
| 2 | 156 | 0.46 | 0.77 | 17 | empty |
| 3 | 156 | 0.45 | 0.76 | 17 | empty |
| 4 | 95 | 0.38 | 0.76 | 23 | empty |
| 5 | 69 | 0.34 | 0.76 | 13 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1742 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 955 Ų buried · 83 hydrogen bonds · nucleic-nucleic
- E–A · 556 Ų buried · 13 hydrogen bonds · protein-nucleic
- D–B · 537 Ų buried · 14 hydrogen bonds · protein-nucleic
- E–B · 415 Ų buried · 8 hydrogen bonds · protein-nucleic
Compared structures
- 1F4K · Crystal structure of the replication terminator PROTEIN/B-site DNA complex · 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 P68732
- Elsewhere: RCSB PDB 1F4K · PDBe 1F4K · UniProt P68732
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