X-group (possible homology)

7543 Methylglyoxal synthase-like

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Ligands and drugs

1,132

Member domains

138

with ligand contacts (≤ 4 Å)

12.2% of members

143

with DrugDomain annotations

12.6% of members

126

with a DrugBank compound

11.1% 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
Organic nitrogen compounds	1	0.3	3.97×	not tested
Homogeneous non-metal compounds	4	1.7	2.36×	not tested
Organic acids and derivatives	2	1.2	1.64×	not tested
Nucleosides, nucleotides, and analogues	3	2.2	1.38×	not tested
Organic oxygen compounds	2	1.6	1.27×	not tested
Organoheterocyclic compounds	1	1.2	0.82×	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
DB08837	NET	Tetraethylammonium	36
DB00129	ORN	Ornithine	33
DB02726	PGA	2-Phosphoglycolic Acid	18
DB02309	XMP	5-monophosphate-9-beta-D-ribofuranosyl xanthine	12
DB01700	AMZ	AICA ribonucleotide	6
DB03026	PGH	Phosphoglycolohydroxamic Acid	6
DB03685	U5P	Uridine monophosphate	4
DB04566	IMP	Inosinic Acid	4
DB01972	5GP	Guanosine-5'-Monophosphate	3
DB00116	—	—	1
DB00563	—	Methotrexate	1
DB00642	—	Pemetrexed	1
DB03442	—	Acid yellow 54 free acid	1
DB04057	—	N-[4-([(2-Amino-4-oxo-1,4-dihydropyrido[3,2-d]pyrimidin-6-yl)methyl]{(2E)-3-[4-carbamoyl-1-(5-O-phosphono-beta-D-ribofuranosyl)-1H-imidazol-5-yl]-2-propenoyl}amino)benzoyl]-L-glutamic acid	1
DB06775	—	—	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
ORN	L-ornithine	40
NET	TETRAETHYLAMMONIUM ION	35
CL	CHLORIDE ION	18
PGA	2-PHOSPHOGLYCOLIC ACID	18
XMP	XANTHOSINE-5'-MONOPHOSPHATE	8
AMZ	AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE	6
PGH	PHOSPHOGLYCOLOHYDROXAMIC ACID	6
GLN	GLUTAMINE	4
IMP	INOSINIC ACID	4
BR	BROMIDE ION	3
JLN	5-(FORMYLAMINO)-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-1H-IMIDAZOLE-4-CARBOXYLIC ACID	3
13A	7-(3,4-DIHYDROXY-5R-HYDROXYMETHYLTETRAHYDROFURAN-2-YL)-2,2-DIOXO-1,2R,3R,7-TETRAHYDRO-2L6-IMIDAZO[4,5-C][1,2,6]THIADIAZIN-4S-ONE	2
203	1,5-DIHYDROIMIDAZO[4,5-C][1,2,6]THIADIAZIN-4(3H)-ONE 2,2-DIOXIDE	2
93A	[3,4-DIHYDROXY-5R-(2,2,4-TRIOXO-1,2R,3S,4R-TETRAHYDRO-2L6-IMIDAZO[4,5-C][1,2,6]THIADIAZIN-7-YL)TETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN PHOSPHATE	2
5GP	GUANOSINE-5'-MONOPHOSPHATE	1