MolNFT v1 · #169660 · protein

X-ray crystal structure of pyrococcus furiosus general transcription factor tfe-alpha (semet labeled protein)

6XJF · Transcription factor E: “X-ray crystal structure of pyrococcus furiosus general transcription factor tfe-alpha (semet labeled protein)”. X-ray diffraction, 6 pockets (best druggability 0.48). MolNFT v1 #169660 on GenesisL1: 3D…

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.

Pocket	Volume (Å³)	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 Å² buried · 8 hydrogen bonds · protein-protein
E–G · 658 Å² buried · 7 hydrogen bonds · protein-protein
B–D · 633 Å² buried · 8 hydrogen bonds · protein-protein
A–C · 591 Å² buried · 6 hydrogen bonds · protein-protein
E–F · 488 Å² 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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