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Crystal structure of the DNA binding domain of human transcription factor FLI1 in complex with 16-mer DNA cagaggatgtggcttc
Analyse Crystal structure of the DNA binding domain of human transcription factor FLI1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VG2
- Type
- protein + DNA
- Length
- 249 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Friend leukemia integration 1 transcription factor; DNA…
- UniProt
- Q01543
- Pockets
- 5 · best druggability 0.51
Structure
x-ray diffraction · 4 distinct chains · 38% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Friend leukemia integration 1 transcription factor | protein | 93 | 42% helix, 13% strand | Q01543 |
| B, E | DNA (5'-D(*GP*AP*CP*CP*GP*GP*AP*AP*GP*TP*GP*GP*CP*TP*TP*C)- 3') | dna | 16 | — | — |
| C, F | DNA (5'-D(*GP*AP*AP*GP*CP*CP*AP*CP*TP*TP*CP*CP*GP*GP*TP*C)- 3') | dna | 16 | — | — |
| D | Friend leukemia integration 1 transcription factor | protein | 92 | 35% helix, 13% strand | Q01543 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 227 | 0.51 | 0.77 | 16 | empty |
| 2 | 216 | 0.50 | 0.76 | 19 | empty |
| 3 | 83 | 0.39 | 0.78 | 13 | empty |
| 4 | 72 | 0.37 | 0.78 | 16 | empty |
| 5 | 50 | 0.37 | 0.81 | 11 | empty |
Interfaces
7 interfaces between chains.
- A–D · 893 Ų buried · 4 hydrogen bonds · protein-protein
- E–F · 725 Ų buried · 70 hydrogen bonds · nucleic-nucleic
- B–C · 714 Ų buried · 56 hydrogen bonds · nucleic-nucleic
- A–C · 523 Ų buried · 11 hydrogen bonds · protein-nucleic
- D–F · 522 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 6VG2 · Crystal structure of the DNA binding domain of human transcription factor FLI1 in complex… · the same entry in another collection · chain F against F, TM-score 1.00
- Q01543 · AlphaFold monomer V2.0 prediction for friend leukemia integration 1 transcription factor… · a predicted model of the same protein · chain D 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 Q01543
- Elsewhere: RCSB PDB 6VG2 · PDBe 6VG2 · UniProt Q01543
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