X-group (possible homology)

4040 Fic-like

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Ligands and drugs

341

Member domains

160

with ligand contacts (≤ 4 Å)

46.9% of members

144

with DrugDomain annotations

42.2% of members

101

with a DrugBank compound

29.6% 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.

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	10	7.7	1.29×	q = 0.40
Organohalogen compounds	1	0.0	22×	not tested
Organic nitrogen compounds	2	0.5	3.97×	not tested
Organosulfur compounds	1	0.3	3.08×	not tested
Nucleosides, nucleotides, and analogues	13	4.4	2.98×	not tested
Homogeneous non-metal compounds	6	3.4	1.77×	not tested
Organic oxygen compounds	3	3.1	0.95×	not tested
Organic acids and derivatives	1	2.4	0.41×	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
DB16833	ADP	Adenosine disphosphate	24
DB00171	ATP	ATP	12
DB02596	APC	alpha,beta-Methyleneadenosine 5'-triphosphate	8
DB00131	AMP	Adenosine phosphate	6
DB04315	GDP	Guanosine-5'-Diphosphate	4
DB03403	C5P	Cytidine-5'-Monophosphate	3
DB02486	HED	2-Hydroxyethyl Disulfide	2
DB03226	ETF	Trifluoroethanol	2
DB03570	144	Tris-Hydroxymethyl-Methyl-Ammonium	2
DB04555	CDP	Cytidine-5'-Diphosphate	2
DB12153	CDC	Citicoline	2
DB00145	GLY	Glycine	1
DB01694	TAR	D-tartaric acid	1
DB03945	PC	N,N,N-Trimethyl-2-(phosphonooxy)ethanaminium	1
DB09459	TLA	L-tartaric acid	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
MGmetal	MAGNESIUM ION	34
ANP	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER	26
ADP	ADENOSINE-5'-DIPHOSPHATE	24
CAmetal	CALCIUM ION	14
ATP	ADENOSINE-5'-TRIPHOSPHATE	12
CL	CHLORIDE ION	12
APC	DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER	8
AMP	ADENOSINE MONOPHOSPHATE	6
TAR	D(-)-TARTARIC ACID	5
AN2	AMP PHOSPHORAMIDATE	4
GDP	GUANOSINE-5'-DIPHOSPHATE	4
NImetal	NICKEL (II) ION	4
BR	BROMIDE ION	3
C5P	CYTIDINE-5'-MONOPHOSPHATE	3
P6G	HEXAETHYLENE GLYCOL	3
ZNmetal	ZINC ION	3
144	TRIS-HYDROXYMETHYL-METHYL-AMMONIUM	2
CDC	[2-CYTIDYLATE-O'-PHOSPHONYLOXYL]-ETHYL-TRIMETHYL-AMMONIUM	2
CDP	CYTIDINE-5'-DIPHOSPHATE	2
ETF	TRIFLUOROETHANOL	2