X-group (possible homology)

306 Glucose permease domain IIB-like

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Ligands and drugs

2,597

Member domains

321

with ligand contacts (≤ 4 Å)

12.4% of members

284

with DrugDomain annotations

10.9% of members

165

with a DrugBank compound

6.4% 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)

5.9

Superclasses per 20 proteins

narrower than 76% of the 256 X-groups with enough proteins to compare (median 7.6)

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	11	10.7	1.03×	q = 1.00
Nucleosides, nucleotides, and analogues	0	6.0	0	q = 3.1e-3
Organic acids and derivatives	8	3.4	2.38×	not tested
Organic nitrogen compounds	1	0.7	1.45×	not tested
Homogeneous non-metal compounds	5	4.7	1.07×	not tested
Organoheterocyclic compounds	2	3.3	0.60×	not tested
Organic oxygen compounds	2	4.3	0.46×	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
DB00120	PHE	Phenylalanine	65
DB00125	ARG	Arginine	42
DB04400	HBI	7,8-dihydrobiopterin	21
DB01833	GGB	Canavanine	6
DB00135	TYR	Tyrosine	4
DB00536	GAI	Guanidine	2
DB09459	TLA	L-tartaric acid	2
DB04349	PGO	(S)-propane-1,2-diol	1
DB12529	NO2	Nitrite	1
DB16426	SO2	Sulfur dioxide	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
MGmetal	MAGNESIUM ION	96
Kmetal	POTASSIUM ION	66
PHE	PHENYLALANINE	65
ARG	ARGININE	44
NAmetal	SODIUM ION	36
HBI	7,8-DIHYDROBIOPTERIN	10
CAmetal	CALCIUM ION	9
GGB	L-CANAVANINE	6
5RW	2-azanyl-8-[(4-fluorophenyl)methylsulfanyl]-1,7-dihydropurin-6-one	4
CL	CHLORIDE ION	4
TYR	TYROSINE	4
IOD	IODIDE ION	3
PBmetal	LEAD (II) ION	3
HGmetal	MERCURY (II) ION	2
TLA	L(+)-TARTARIC ACID	2
ZNmetal	ZINC ION	2
GAI	GUANIDINE	1
NImetal	NICKEL (II) ION	1
NO2	NITRITE ION	1
PGO	S-1,2-PROPANEDIOL	1