X-group (possible homology)

4021 alpha-helical domain in 2-methylcitrate dehydratase PrpD

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Ligands and drugs

248

Member domains

with ligand contacts (≤ 4 Å)

7.3% of members

with DrugDomain annotations

6.5% of members

with a DrugBank compound

4.0% 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)

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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	0.25×observed / expected4×	Ratio	Significance
Organic nitrogen compounds	1	0.1		11×	not tested
Organic oxygen compounds	2	0.6		3.40×	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
DB09459	TLA	L-tartaric acid	6
DB01692	DTU	Dithioerythritol	2
DB02219	CXS	3-(cyclohexylamino)propanesulfonic acid	2

Most frequently bound compounds

PDB ligand	Name	Domains in contact
TLA	L(+)-TARTARIC ACID	6
SF4	IRON/SULFUR CLUSTER	4
UNX	UNKNOWN ATOM OR ION	4
CXS	3-CYCLOHEXYL-1-PROPYLSULFONIC ACID	2
DTU	(2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL	2
NAmetal	SODIUM ION	2