Research workbench

TRAP3 (engineered trap)

Analyse TRAP3 (engineered trap) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2EXS
Type: protein
Length: 195 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transcription attenuation protein mtrb
UniProt: Q9X6J6
Ligands: TRP
Pockets: 4 · best druggability 0.75

Structure

x-ray diffraction · 2 distinct chains · 0% helix, 61% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Transcription attenuation protein mtrb	protein	63	0% helix, 60% strand	Q9X6J6
B, C	Transcription attenuation protein mtrb	protein	66	0% helix, 62% strand	Q9X6J6

Ligands and binding sites

TRP · Tryptophan · ligand · 3 copies · chains A, B, C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	80	0.75	0.98	21	TRP
2	81	0.73	0.96	20	TRP
3	56	0.40	0.81	17	empty
4	59	0.34	0.77	12	TRP

Interfaces

2 interfaces between chains.

B–C · 1026 Å² buried · 12 hydrogen bonds · protein-protein
A–B · 921 Å² buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 modified (engineered).

Compared structures

2EXS · TRAP3 (engineered TRAP) · the same entry in another collection · chain A against A, TM-score 1.00
Q9X6J6 · AlphaFold monomer V2.0 prediction for transcription attenuation protein mtrb (Q9X6J6) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q9X6J6
Elsewhere: RCSB PDB 2EXS · PDBe 2EXS · UniProt Q9X6J6

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