MolNFT v1 · #156138 · protein + DNA
Crystal structure of the SAMD1 wh domain and DNA complex
6LUI · Atherin: “Crystal structure of the SAMD1 wh domain and DNA complex”. X-ray diffraction, 2 pockets (best druggability 0.42). MolNFT v1 #156138 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6LUI
- Type
- protein + DNA
- Length
- 97 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Atherin; DNA (5'-D(*AP*CP*CP*TP*GP*CP*GP*CP*AP*CP*CP*AP*T)-3'); DNA…
- UniProt
- Q6SPF0
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 3 distinct chains · 55% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Atherin | protein | 71 | 55% helix, 17% strand | Q6SPF0 |
| B | DNA (5'-D(*AP*CP*CP*TP*GP*CP*GP*CP*AP*CP*CP*AP*T)-3') | dna | 13 | — | — |
| C | DNA (5'-D(*AP*TP*GP*GP*TP*GP*CP*GP*CP*AP*GP*GP*T)-3') | dna | 13 | — | — |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 106 | 0.42 | 0.78 | 20 | empty |
| 2 | 91 | 0.33 | 0.74 | 11 | empty |
Interfaces
3 interfaces between chains.
- B–C · 607 Ų buried · 50 hydrogen bonds · nucleic-nucleic
- A–B · 487 Ų buried · 6 hydrogen bonds · protein-nucleic
- A–C · 394 Ų buried · 13 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 modified (engineered).
Compared structures
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 Q6SPF0
- Elsewhere: RCSB PDB 6LUI · PDBe 6LUI · UniProt Q6SPF0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.