Research workbench
Crystal structure of the complex comprised of ETS1 (V170A), RUNX1, cbfbeta, and the tcralpha gene enhancer DNA
Analyse Crystal structure of the complex comprised of ETS1 (V170A), RUNX1, cbfbeta, and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3WTU
- Type
- protein + DNA
- Length
- 774 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Runt-related transcription factor 1; Core-binding factor subunit beta; Protein C-ets-1…
- UniProt
- Q03347, Q08024, P14921
- Pockets
- 13 · best druggability 0.62
Structure
x-ray diffraction · 7 distinct chains · 26% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, F | Runt-related transcription factor 1 | protein | 118 | 0% helix, 43% strand | Q03347 |
| B | Core-binding factor subunit beta | protein | 130 | 27% helix, 36% strand | Q08024 |
| C | Protein C-ets-1 | protein | 118 | 44% helix, 12% strand | P14921 |
| G | Core-binding factor subunit beta | protein | 129 | 25% helix, 35% strand | Q08024 |
| H | Protein C-ets-1 | protein | 101 | 34% helix, 7% strand | P14921 |
| D, I | DNA (5'-D(*GP*AP*AP*GP*CP*CP*AP*CP*AP*TP*CP*CP*TP*CP*T)- 3') | dna | 15 | — | — |
| E, J | DNA (5'-D(*AP*GP*AP*GP*GP*AP*TP*GP*TP*GP*GP*CP*TP*TP*C)- 3') | dna | 15 | — | — |
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 363 | 0.62 | 0.78 | 28 | empty |
| 2 | 392 | 0.62 | 0.77 | 28 | empty |
| 3 | 237 | 0.57 | 0.79 | 23 | empty |
| 4 | 327 | 0.55 | 0.75 | 33 | empty |
| 5 | 243 | 0.54 | 0.77 | 27 | empty |
Interfaces
19 interfaces between chains.
- A–B · 1161 Ų buried · 18 hydrogen bonds · protein-protein
- F–G · 1109 Ų buried · 18 hydrogen bonds · protein-protein
- D–E · 659 Ų buried · 56 hydrogen bonds · nucleic-nucleic
- I–J · 659 Ų buried · 60 hydrogen bonds · nucleic-nucleic
- H–I · 525 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 3WTU · Crystal structure of the complex comprised of ETS1 (V170A), RUNX1, CBFBETA, and the… · the same entry in another collection · chain J against J, TM-score 1.00
- Q08024 · AlphaFold monomer V2.0 prediction for core-binding factor subunit beta (Q08024) · a predicted model of the same protein · chain G against A, TM-score 0.99
- Q03347 · AlphaFold monomer V2.0 prediction for runt-related transcription factor 1 (Q03347) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q03347
- Every structure of UniProt Q08024
- Every structure of UniProt P14921
- Elsewhere: RCSB PDB 3WTU · PDBe 3WTU · UniProt Q03347 · UniProt Q08024 · UniProt P14921
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