MolNFT v1 · #18000 · protein + DNA
DNA recognition by beta-sheets in the arc repressor- operator crystal structure
1PAR · DNA (5'- D(*TP*AP*TP*AP*GP*TP*AP*GP*AP*GP*TP*GP*CP*TP*TP*CP*…: “DNA recognition by beta-sheets in the arc repressor- operator crystal structure”. X-ray diffraction, 3 pockets (best druggability 0.63). MolNFT v1 #18000 on GenesisL1…
- PDB
- 1PAR
- Type
- protein + DNA
- Length
- 252 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'- D(*TP*AP*TP*AP*GP*TP*AP*GP*AP*GP*TP*GP*CP*TP*TP*CP*T P*AP*TP*CP*AP*T)- 3'); DNA…
- UniProt
- P03050
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 5 distinct chains · 59% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | DNA (5'- D(*TP*AP*TP*AP*GP*TP*AP*GP*AP*GP*TP*GP*CP*TP*TP*CP*T P*AP*TP*CP*AP*T)- 3') | dna | 22 | — | — |
| F | DNA (5'- D(*AP*AP*TP*GP*AP*TP*AP*GP*AP*AP*GP*CP*AP*CP*TP*CP*T P*AP*CP*TP*AP*T)- 3') | dna | 22 | — | — |
| A | Protein (arc repressor) | protein | 52 | 58% helix, 10% strand | P03050 |
| B, D | Protein (arc repressor) | protein | 53 | 60% helix, 9% strand | P03050 |
| C | Protein (arc repressor) | protein | 50 | 58% helix, 10% strand | P03050 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 406 | 0.63 | 0.78 | 40 | empty |
| 2 | 52 | 0.25 | 0.74 | 10 | empty |
| 3 | 50 | 0.24 | 0.73 | 14 | empty |
Interfaces
12 interfaces between chains.
- A–B · 1868 Ų buried · 32 hydrogen bonds · protein-protein
- C–D · 1776 Ų buried · 31 hydrogen bonds · protein-protein
- E–F · 960 Ų buried · 84 hydrogen bonds · nucleic-nucleic
- E–A · 450 Ų buried · 14 hydrogen bonds · protein-nucleic
- E–D · 438 Ų buried · 11 hydrogen bonds · protein-nucleic
Compared structures
- 1PAR · DNA recognition by beta-sheets in the arc repressor-operator crystal structure · the same entry in another collection · chain E against E, 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 P03050
- Elsewhere: RCSB PDB 1PAR · PDBe 1PAR · UniProt P03050
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