MolNFT v1 · #168778 · protein + DNA
Csl (rbpj) bound to NOTCH3 ram and DNA
6WQU · DNA (5'-D(*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*AP*CP*GP*GP*T)- 3'): “Csl (rbpj) bound to NOTCH3 ram and DNA”. X-ray diffraction, 9 pockets (best druggability 0.76). MolNFT v1 #168778 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6WQU
- Type
- protein + DNA
- Length
- 462 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*AP*CP*GP*GP*T)- 3'); DNA…
- UniProt
- P31266, Q9UM47
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 8% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*AP*CP*GP*GP*T)- 3') | dna | 15 | — | — |
| B | DNA (5'-D(*TP*TP*AP*CP*CP*GP*TP*GP*GP*GP*AP*AP*AP*GP*A)- 3') | dna | 15 | — | — |
| C | Recombining binding protein suppressor of hairless | protein | 417 | 8% helix, 46% strand | P31266 |
| D | Neurogenic locus notch homolog protein 3 | protein | 15 | 0% helix, 33% strand | Q9UM47 |
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 614 | 0.76 | 0.83 | 65 | empty |
| 2 | 139 | 0.48 | 0.78 | 22 | empty |
| 3 | 147 | 0.46 | 0.77 | 24 | empty |
| 4 | 101 | 0.46 | 0.79 | 22 | empty |
| 5 | 59 | 0.37 | 0.79 | 12 | empty |
Interfaces
4 interfaces between chains.
- C–D · 1009 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 610 Ų buried · 57 hydrogen bonds · nucleic-nucleic
- A–C · 565 Ų buried · 12 hydrogen bonds · protein-nucleic
- B–C · 510 Ų buried · 14 hydrogen bonds · protein-nucleic
Compared structures
- 6WQU · CSL (RBPJ) bound to Notch3 RAM and DNA · the same entry in another collection · chain A against A, TM-score 1.00
- P31266 · AlphaFold monomer V2.0 prediction for recombining binding protein suppressor of hairless… · a predicted model of the same protein · chain C against A, TM-score 0.95
- Q9UM47 · AlphaFold monomer V2.0 prediction for neurogenic locus notch homolog protein 3 (Q9UM47) · a predicted model of the same protein · chain D against A, TM-score 0.26
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 P31266
- Every structure of UniProt Q9UM47
- Elsewhere: RCSB PDB 6WQU · PDBe 6WQU · UniProt P31266 · UniProt Q9UM47
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