Research workbench
Crystal structure of RUNX1 and ETS1 bound to TCR alpha promoter (crystal form 2)
Analyse Crystal structure of RUNX1 and ETS1 bound to TCR alpha promoter (crystal form 2) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4L0Z
- Type
- protein + DNA
- Length
- 280 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Runt-related transcription factor 1; Protein C-ets-1…
- UniProt
- Q03347, P14921
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 24% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Runt-related transcription factor 1 | protein | 147 | 11% helix, 32% strand | Q03347 |
| B | Protein C-ets-1 | protein | 101 | 43% helix, 12% strand | P14921 |
| C | 5'-D(*GP*GP*AP*AP*GP*CP*CP*AP*CP*AP*TP*CP*CP*TP*CP*T)-3' | dna | 16 | — | — |
| D | 5'-D(*CP*AP*GP*AP*GP*GP*AP*TP*GP*TP*GP*GP*CP*TP*TP*C)-3' | dna | 16 | — | — |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 532 | 0.69 | 0.80 | 36 | empty |
| 2 | 347 | 0.59 | 0.77 | 29 | empty |
| 3 | 115 | 0.47 | 0.80 | 17 | empty |
| 4 | 58 | 0.39 | 0.80 | 14 | empty |
Interfaces
6 interfaces between chains.
- C–D · 685 Ų buried · 72 hydrogen bonds · nucleic-nucleic
- A–B · 526 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 516 Ų buried · 13 hydrogen bonds · protein-nucleic
- B–C · 483 Ų buried · 10 hydrogen bonds · protein-nucleic
- A–C · 424 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 4L0Z · Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 2) · the same entry in another collection · chain A against A, TM-score 1.00
- P14921 · AlphaFold monomer V2.0 prediction for protein C-ets-1 (P14921) · a predicted model of the same protein · chain B against A, TM-score 0.97
- 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 0.95
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 P14921
- Elsewhere: RCSB PDB 4L0Z · PDBe 4L0Z · UniProt Q03347 · UniProt P14921
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