X-group (possible homology)

298 FwdE/GAPDH domain-like

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Ligands and drugs

6,574

Member domains

2,089

with ligand contacts (≤ 4 Å)

31.8% of members

1,841

with DrugDomain annotations

28.0% of members

1,683

with a DrugBank compound

25.6% 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.

214

Proteins with classified ligands

Superclasses bound (of 23)

8.0

Superclasses per 20 proteins

broader than 56% 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
Nucleosides, nucleotides, and analogues	176	58.3	3.02×	q < 0.0001
Organic acids and derivatives	39	32.7	1.20×	q = 0.29
Organic oxygen compounds	40	42.0	0.95×	q = 0.86
Organic nitrogen compounds	5	6.7	0.74×	q = 0.76
Homogeneous non-metal compounds	33	45.4	0.73×	q = 0.06
Benzenoids	9	15.4	0.58×	q = 0.16
Organoheterocyclic compounds	14	32.5	0.43×	q = 5.0e-4
Homogeneous metal compounds	37	103.6	0.36×	q < 0.0001
Lipids and lipid-like molecules	7	23.5	0.30×	q = 2.0e-4
Organometallic compounds	1	0.3	3.33×	not tested
Organosulfur compounds	6	4.3	1.38×	not tested
Phenylpropanoids and polyketides	2	4.4	0.46×	not tested
Mixed metal/non-metal compounds	1	4.4	0.23×	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
DB14128	NAD	Nadide	823
DB03461	NAP	Nicotinamide adenine dinucleotide phosphate	206
DB02338	NDP	NADPH	200
DB00157	NAI	NADH	82
DB02263	G3H	D-glyceraldehyde 3-phosphate	45
DB02948	FOM	Fosmidomycin	29
DB04122	BG6	beta-D-glucose 6-phosphate	24
DB04267	PDC	Dipicolinic acid	22
DB04510	3PG	3-phospho-D-glyceric acid	15
DB09459	TLA	L-tartaric acid	15
DB13178	INS	Inositol	14
DB04193	HSE	L-Homoserine	11
DB00151	CYS	Cysteine	10
DB02379	BGC	Beta-D-Glucose	10
DB03345	BME	Mercaptoethanol	9
DB04207	SHR	L-Saccharopine	9
DB01992	COA	Coenzyme A	8
DB03085	GOA	Glycolic acid	8
DB02219	CXS	3-(cyclohexylamino)propanesulfonic acid	7
DB02515	G3P	sn-glycerol 3-phosphate	7

Most frequently bound compounds

PDB ligand	Name	Domains in contact
NAD	NICOTINAMIDE-ADENINE-DINUCLEOTIDE	978
NAP	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	228
NDP	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	216
CL	CHLORIDE ION	123
MNmetal	MANGANESE (II) ION	93
NAmetal	SODIUM ION	65
G3H	GLYCERALDEHYDE-3-PHOSPHATE	59
MGmetal	MAGNESIUM ION	57
NAI	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE	50
CAmetal	CALCIUM ION	35
FOM	3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID	30
XPE	3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL	26
BG6	6-O-phosphono-beta-D-glucopyranose	25
HP7	(2S,3S,4R,5R,6R)-5-acetamido-6-[[[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-3,4-dihydroxy-oxane-2-carboxylic acid	21
PDC	PYRIDINE-2,6-DICARBOXYLIC ACID	19
AGmetal	SILVER ION	17
3PG	3-PHOSPHOGLYCERIC ACID	15
INS	1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE	14
Kmetal	POTASSIUM ION	14
TLA	L(+)-TARTARIC ACID	14