Research workbench
X-ray crystal structure of pyrococcus furiosus general transcription factor tfe-alpha (semet labeled protein)
Analyse X-ray crystal structure of pyrococcus furiosus general transcription factor… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XJF
- Type
- protein
- Length
- 825 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription factor E
- UniProt
- Q8U3H5
- Pockets
- 6 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 63% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Transcription factor E | protein | 102 | 62% helix, 15% strand | Q8U3H5 |
| B, C, E, F, H | Transcription factor E | protein | 103 | 64% helix, 17% strand | Q8U3H5 |
| G | Transcription factor E | protein | 106 | 63% helix, 11% strand | Q8U3H5 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 176 | 0.48 | 0.76 | 24 | empty |
| 2 | 161 | 0.48 | 0.77 | 21 | empty |
| 3 | 197 | 0.46 | 0.74 | 23 | empty |
| 4 | 171 | 0.46 | 0.75 | 24 | empty |
| 5 | 95 | 0.42 | 0.78 | 18 | empty |
Interfaces
15 interfaces between chains.
- F–H · 679 Ų buried · 8 hydrogen bonds · protein-protein
- E–G · 658 Ų buried · 7 hydrogen bonds · protein-protein
- B–D · 633 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 591 Ų buried · 6 hydrogen bonds · protein-protein
- E–F · 488 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 32 modified (engineered).
Compared structures
- 6XJF · X-ray crystal structure of Pyrococcus furiosus general transcription factor TFE-alpha… · the same entry in another collection · chain H against H, TM-score 1.00
- Q8U3H5 · AlphaFold monomer V2.0 prediction for transcription factor E (Q8U3H5) · a predicted model of the same protein · chain G against A, TM-score 0.91
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 Q8U3H5
- Elsewhere: RCSB PDB 6XJF · PDBe 6XJF · UniProt Q8U3H5
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