MolNFT v1 · #32357 · protein + DNA
Structural basis for cooperative binding of ribbon-helix- helix omega repressor to inverted DNA heptad repeats
2BNZ · Orf omega: “Structural basis for cooperative binding of ribbon-helix- helix omega repressor to inverted DNA heptad repeats”. X-ray diffraction, 2 pockets (best druggability 0.61). MolNFT v1 #32357 on GenesisL1: 3D structure, binding…
- PDB
- 2BNZ
- Type
- protein + DNA
- Length
- 244 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Orf omega; 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*GP *TP*GP*AP*TP*TP*AP*GP*C)-3'…
- UniProt
- Q57468
- Pockets
- 2 · best druggability 0.61
Structure
x-ray diffraction · 7 distinct chains · 65% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Orf omega | protein | 50 | 64% helix, 14% strand | Q57468 |
| C | Orf omega | protein | 52 | 69% helix, 13% strand | Q57468 |
| D | Orf omega | protein | 47 | 62% helix, 15% strand | Q57468 |
| E | 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*GP *TP*GP*AP*TP*TP*AP*GP*C)-3' | dna | 17 | — | — |
| F | 5'-D(*CP*TP*AP*AP*TP*CP*AP*CP*TP*TP *GP*TP*GP*AP*TP*TP*CP*G)-3' | dna | 18 | — | — |
| G | 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*GP *TP*GP*AP*TP*TP*AP*GP*C)-3' | dna | 5 | — | — |
| H | 5'-D(*CP*TP*AP*AP*TP*CP*AP*CP*TP*TP *GP*TP*GP*AP*TP*TP*CP*G)-3' | dna | 5 | — | — |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 334 | 0.61 | 0.79 | 43 | empty |
| 2 | 75 | 0.32 | 0.75 | 15 | empty |
Interfaces
18 interfaces between chains.
- C–D · 1944 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 1853 Ų buried · 25 hydrogen bonds · protein-protein
- E–F · 810 Ų buried · 74 hydrogen bonds · nucleic-nucleic
- C–E · 297 Ų buried · 4 hydrogen bonds · protein-nucleic
- A–F · 295 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 2BNZ · Structural basis for cooperative binding of Ribbon-Helix-Helix Omega repressor to… · the same entry in another collection · chain A against A, 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 Q57468
- Elsewhere: RCSB PDB 2BNZ · PDBe 2BNZ · UniProt Q57468
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