Research workbench
Nanr dimer-DNA hetero-complex
Analyse Nanr dimer-DNA hetero-complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WFQ
- Type
- protein + DNA
- Length
- 477 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hth-type transcriptional repressor nanr; DNA (5'-D(P*GP*GP*TP*AP*TP*AP*AP*CP*AP*GP*GP*TP*A…
- UniProt
- J7QHT8
- Pockets
- 9 · best druggability 0.87
Structure
electron microscopy · 4 distinct chains · 65% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Hth-type transcriptional repressor nanr | protein | 228 | 64% helix, 0% strand | J7QHT8 |
| D | Hth-type transcriptional repressor nanr | protein | 219 | 67% helix, 0% strand | J7QHT8 |
| A | DNA (5'-D(P*GP*GP*TP*AP*TP*AP*AP*CP*AP*GP*GP*TP*AP*TP*A)- 3') | dna | 15 | — | — |
| B | DNA (5'-D(P*TP*AP*TP*AP*CP*CP*TP*GP*TP*TP*AP*TP*AP*CP*C)- 3') | dna | 15 | — | — |
Pockets
9 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1190 | 0.87 | 0.88 | 117 | empty |
| 2 | 878 | 0.84 | 0.86 | 81 | empty |
| 3 | 72 | 0.69 | 0.94 | 19 | empty |
| 4 | 357 | 0.67 | 0.81 | 39 | empty |
| 5 | 91 | 0.59 | 0.87 | 20 | empty |
Interfaces
6 interfaces between chains.
- C–D · 1585 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 691 Ų buried · 59 hydrogen bonds · nucleic-nucleic
- C–B · 379 Ų buried · 8 hydrogen bonds · protein-nucleic
- D–A · 276 Ų buried · 8 hydrogen bonds · protein-nucleic
- C–A · 252 Ų buried · 2 hydrogen bonds · protein-nucleic
Compared structures
- 6WFQ · NanR dimer-DNA hetero-complex · the same entry in another collection · chain C against C, 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 J7QHT8
- Elsewhere: RCSB PDB 6WFQ · PDBe 6WFQ · UniProt J7QHT8
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