MolNFT v2 · #216847 · protein + DNA
transcription factor BARHL2 bound to TAATC DNA sequence
8PM7: “transcription factor BARHL2 bound to TAATC DNA sequence”. X-ray diffraction at 1.7, 6 pockets (best druggability 0.77). MolNFT v2 #216847 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 8PM7
- Type
- protein + DNA
- Length
- 336 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.7
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- DNA; BarH-like 2 homeobox protein
- UniProt
- Q9NY43
- Pockets
- 6 · best druggability 0.77
Structure
x-ray diffraction · resolution 1.7 · 5 distinct chains · 67% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, D, F, H | DNA | dna | 12 | — | — |
| I, J, K, L | DNA | dna | 12 | — | — |
| A | BarH-like 2 homeobox protein | protein | 61 | 69% helix, 0% strand | Q9NY43 |
| C | BarH-like 2 homeobox protein | protein | 59 | 66% helix, 0% strand | Q9NY43 |
| E, G | BarH-like 2 homeobox protein | protein | 60 | 65% helix, 0% strand | Q9NY43 |
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 | 1002 | 0.77 | 0.80 | 96 | empty |
| 2 | 987 | 0.73 | 0.77 | 81 | empty |
| 3 | 117 | 0.43 | 0.77 | 20 | empty |
| 4 | 113 | 0.42 | 0.77 | 14 | empty |
| 5 | 87 | 0.37 | 0.77 | 16 | empty |
Interfaces
21 interfaces between chains.
- B–A · 562 Ų buried · 15 hydrogen bonds · protein-nucleic
- L–G · 554 Ų buried · 13 hydrogen bonds · protein-nucleic
- D–C · 550 Ų buried · 14 hydrogen bonds · protein-nucleic
- K–E · 547 Ų buried · 12 hydrogen bonds · protein-nucleic
- H–L · 545 Ų buried · 48 hydrogen bonds · nucleic-nucleic
Compared structures
- Q9NY43 · AlphaFold monomer V2.0 prediction for barh-like 2 homeobox protein (Q9NY43) · a predicted model of the same protein · chain G against A, TM-score 0.91
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 Q9NY43
- Elsewhere: RCSB PDB 8PM7 · PDBe 8PM7 · UniProt Q9NY43
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.