MolNFT v1 · #177245 · protein

Crystal structure of sdgb (complexed with peptides)

7EC6 · Glycosyl transferase, group 1 family protein: “Crystal structure of sdgb (complexed with peptides)”. X-ray diffraction, 8 pockets (best druggability 0.75). MolNFT v1 #177245 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 7EC6
Type: protein
Length: 987 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycosyl transferase, group 1 family protein; Asp-ser-asp
UniProt: A0A0H2XGN0
Pockets: 8 · best druggability 0.75

Structure

x-ray diffraction · 3 distinct chains · 33% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycosyl transferase, group 1 family protein	protein	494	33% helix, 27% strand	A0A0H2XGN0
C	Glycosyl transferase, group 1 family protein	protein	490	34% helix, 26% strand	A0A0H2XGN0
D	Asp-ser-asp	protein	3	0% helix, 0% strand	—

Pockets

8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	787	0.75	0.80	89	empty
2	729	0.73	0.79	73	empty
3	649	0.71	0.78	74	empty
4	110	0.41	0.76	19	empty
5	108	0.40	0.75	19	empty

Interfaces

2 interfaces between chains.

A–C · 1481 Å² buried · 26 hydrogen bonds · protein-protein
A–D · 261 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

7EC6 · Crystal structure of SdgB (complexed with peptides) · 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 A0A0H2XGN0
Elsewhere: RCSB PDB 7EC6 · PDBe 7EC6 · UniProt A0A0H2XGN0

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