MolNFT v1 · #163126 · protein

Crystal structure of the ligand-free glycosyltransferase domain from the ygt toxin

6RTH · Rtx toxin and CA2+-binding protein: “Crystal structure of the ligand-free glycosyltransferase domain from the ygt toxin”. X-ray diffraction, 10 pockets (best druggability 0.76). MolNFT v1 #163126 on GenesisL1: 3D structure, binding…

PDB: 6RTH
Type: protein
Length: 1,000 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Rtx toxin and CA2+-binding protein
UniProt: C4SH25
Pockets: 10 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 58% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Rtx toxin and CA2+-binding protein	protein	504	59% helix, 8% strand	C4SH25
B	Rtx toxin and CA2+-binding protein	protein	496	58% helix, 9% strand	C4SH25

Pockets

10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1075	0.76	0.79	89	empty
2	515	0.71	0.80	45	empty
3	925	0.69	0.75	85	empty
4	422	0.56	0.74	46	empty
5	78	0.56	0.87	19	empty

Interfaces

1 interface between chains.

A–B · 493 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

6RTH · Crystal structure of the ligand-free glycosyltransferase domain from the YGT toxin · the same entry in another collection · chain A against A, TM-score 1.00

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 C4SH25
Elsewhere: RCSB PDB 6RTH · PDBe 6RTH · UniProt C4SH25

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