MolNFT v1 · #16001 · protein + DNA
Crystal structure of mad-max recognizing DNA
1NLW · 5'-D(*GP*AP*GP*TP*AP*GP*CP*AP*CP*GP*TP*GP*CP*TP*AP*CP*TP*C)…: “Crystal structure of mad-max recognizing DNA”. X-ray diffraction, 8 pockets (best druggability 0.83). MolNFT v1 #16001 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1NLW
- Type
- protein + DNA
- Length
- 378 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*AP*GP*TP*AP*GP*CP*AP*CP*GP*TP*GP*CP*TP*AP*CP*TP*C) -3'; Mad protein; Max protein
- UniProt
- Q05195, P61244
- Pockets
- 8 · best druggability 0.83
Structure
x-ray diffraction · 5 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F, G, H, J | 5'-D(*GP*AP*GP*TP*AP*GP*CP*AP*CP*GP*TP*GP*CP*TP*AP*CP*TP*C) -3' | dna | 18 | — | — |
| A | Mad protein | protein | 79 | 81% helix, 0% strand | Q05195 |
| B | Max protein | protein | 76 | 82% helix, 0% strand | P61244 |
| D | Mad protein | protein | 77 | 82% helix, 0% strand | Q05195 |
| E | Max protein | protein | 74 | 81% helix, 0% strand | P61244 |
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 282 | 0.83 | 0.95 | 26 | empty |
| 2 | 362 | 0.80 | 0.90 | 33 | empty |
| 3 | 743 | 0.70 | 0.77 | 65 | empty |
| 4 | 76 | 0.40 | 0.79 | 16 | empty |
| 5 | 62 | 0.34 | 0.78 | 12 | empty |
Interfaces
18 interfaces between chains.
- A–B · 1543 Ų buried · 11 hydrogen bonds · protein-protein
- D–E · 1499 Ų buried · 9 hydrogen bonds · protein-protein
- F–G · 799 Ų buried · 75 hydrogen bonds · nucleic-nucleic
- H–J · 795 Ų buried · 61 hydrogen bonds · nucleic-nucleic
- G–B · 498 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 1NLW · Crystal structure of Mad-Max recognizing DNA · the same entry in another collection · chain E against E, TM-score 1.00
- P61244 · AlphaFold monomer V2.0 prediction for protein max (P61244) · a predicted model of the same protein · chain E against A, TM-score 0.97
- Q05195 · AlphaFold monomer V2.0 prediction for max dimerization protein 1 (Q05195) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 Q05195
- Every structure of UniProt P61244
- Elsewhere: RCSB PDB 1NLW · PDBe 1NLW · UniProt Q05195 · UniProt P61244
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