X-group (possible homology)

325 alpha/beta-Hammerhead/Barrel-sandwich hybrid

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Ligands and drugs

20,999

Member domains

2,908

with ligand contacts (≤ 4 Å)

13.8% of members

2,008

with DrugDomain annotations

9.6% of members

705

with a DrugBank compound

3.4% 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.

163

Proteins with classified ligands

Superclasses bound (of 23)

8.9

Superclasses per 20 proteins

broader than 75% 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
Organoheterocyclic compounds	30	24.7	1.21×	q = 0.35
Homogeneous metal compounds	92	78.9	1.17×	q = 0.07
Benzenoids	8	11.8	0.68×	q = 0.44
Nucleosides, nucleotides, and analogues	30	44.4	0.68×	q = 0.02
Lipids and lipid-like molecules	12	17.9	0.67×	q = 0.23
Homogeneous non-metal compounds	22	34.6	0.64×	q = 0.03
Organic oxygen compounds	19	32.0	0.59×	q = 0.02
Organic nitrogen compounds	3	5.1	0.58×	q = 0.58
Organic acids and derivatives	12	24.9	0.48×	q = 6.7e-3
Phenylpropanoids and polyketides	12	3.3	3.59×	not tested
Mixed metal/non-metal compounds	5	3.4	1.48×	not tested
Organosulfur compounds	1	3.3	0.30×	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
DB07497	BTI	5-(hexahydro-2-oxo-1H-thieno[3,4-D]imidazol-6-yl)pentanal	96
DB16833	ADP	Adenosine disphosphate	32
DB01796	NTM	Quinolinic Acid	18
DB00121	BTN	Biotin	15
DB00171	ATP	ATP	14
DB02746	PHT	Phthalic Acid	14
DB03227	NMN	Nicotinamide Mononucleotide	14
DB01045	RFP	Rifampin	13
DB14756	SRT	meso-Tartaric acid	13
DB01992	COA	Coenzyme A	10
DB02701	NCA	Nicotinamide	10
DB02536	3GR	D-glyceraldehyde	9
DB03760	RED	Dihydrolipoic Acid	9
DB12731	DGB	Daporinad	8
DB00134	MET	Methionine	6
DB01632	PRP	5-O-phosphono-alpha-D-ribofuranosyl diphosphate	6
DB02859	S1A	Soraphen A	6
DB03148	A12	Adenosine 5'-methylenediphosphate	6
DB03942	PCP	Carboxylic PRPP	6
DB04294	PPC	5-Phosphoribosyl-1-(Beta-Methylene) Pyrophosphate	6

Most frequently bound compounds

PDB ligand	Name	Domains in contact
MGmetal	MAGNESIUM ION	1,547
BTI	5-(HEXAHYDRO-2-OXO-1H-THIENO[3,4-D]IMIDAZOL-6-YL)PENTANAL	158
Kmetal	POTASSIUM ION	123
BTN	BIOTIN	118
NAmetal	SODIUM ION	90
ZNmetal	ZINC ION	89
OHX	osmium (III) hexammine	75
CL	CHLORIDE ION	54
ATP	ADENOSINE-5'-TRIPHOSPHATE	52
ADP	ADENOSINE-5'-DIPHOSPHATE	51
1N7	CHAPSO	35
SRmetal	STRONTIUM ION	30
ACO	ACETYL COENZYME *A	22
NCA	NICOTINAMIDE	21
NMN	BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE	17
IOD	IODIDE ION	16
NTM	QUINOLINIC ACID	16
PUT	1,4-DIAMINOBUTANE	15
UNX	UNKNOWN ATOM OR ION	15
PHT	PHTHALIC ACID	14