X-group (possible homology)

4178 Putative glucosidase YicI, C-terminal domain

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Ligands and drugs

407

Member domains

119

with ligand contacts (≤ 4 Å)

29.2% of members

with DrugDomain annotations

21.1% of members

with a DrugBank compound

11.8% of members

Aggregated over all current member domains of this group. Drug annotations come from DrugDomain; buffers and crystallization additives are excluded from the tables below.

Chemical profile

ClassyFire chemical superclasses of the ligands bound by this X-group's proteins, from DrugDomain annotations.

Proteins with classified ligands

Superclasses bound (of 23)

—

Superclasses per 20 proteins

fewer than 20 proteins: too few to compare at equal depth

The raw number of superclasses rises with the number of proteins sampled; the per-20 value compares X-groups at equal depth.

Superclass	Proteins	Expected	Ratio	Significance
Homogeneous metal compounds	9	6.8	1.33×	q = 0.36
Organic oxygen compounds	7	2.8	2.55×	not tested
Homogeneous non-metal compounds	3	3.0	1.01×	not tested
Organic acids and derivatives	1	2.1	0.47×	not tested

enriched (q < 0.05)depleted (q < 0.05)not significantnot tested (expected < 5)

Unit: a protein (UniProt accession) with a ligand-binding domain in this X-group, counted once per superclass. Expected counts use each superclass's frequency across all ligand-binding X-groups; significance is Fisher's exact test with Benjamini–Hochberg correction. Buffers and crystallization additives are excluded. ECOD v295.2; the method follows the ECOD 2027 update, whose published figures used a slightly different artifact filter.

DrugBank compounds

DrugBank	PDB ligand	Name	Domains
DB00141	NAG	N-Acetylglucosamine	8
DB00284	—	—	5
DB00491	—	Miglitol	2
DB00747	—	Scopolamine	2
DB03940	OXM	Oxamic Acid	2
DB04878	—	Voglibose	2
DB04807	XTG	4-NITROPHENYL-(6-S-ALPHA-D-XYLOPYRANOSYL)-BETA-D-GLUCOPYRANOSIDE	1
DB14109	—	—	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	13
CAmetal	CALCIUM ION	9
CL	CHLORIDE ION	9
P6G	HEXAETHYLENE GLYCOL	5
NImetal	NICKEL (II) ION	3
MGmetal	MAGNESIUM ION	2
OXM	OXAMIC ACID	2
TBmetal	TERBIUM(III) ION	2
SC2	N-ACETYL-L-CYSTEINE	1
XTG	4-NITROPHENYL 6-THIO-6-S-ALPHA-D-XYLOPYRANOSYL-BETA-D-GLUCOPYRANOSIDE	1