X-group (possible homology)

3070 N0 domain in phage tail proteins and secretins-like

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Ligands and drugs

1,293

Member domains

135

with ligand contacts (≤ 4 Å)

10.4% of members

with DrugDomain annotations

7.3% of members

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.

Proteins with classified ligands

Superclasses bound (of 23)

7.0

Superclasses per 20 proteins

narrower than 61% 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
Homogeneous metal compounds	10	10.2	0.98×	q = 1.00
Nucleosides, nucleotides, and analogues	0	5.7	0	q = 4.9e-3
Phenylpropanoids and polyketides	2	0.4	4.64×	not tested
Organic acids and derivatives	6	3.2	1.87×	not tested
Lipids and lipid-like molecules	3	2.3	1.30×	not tested
Organoheterocyclic compounds	2	3.2	0.63×	not tested
Homogeneous non-metal compounds	2	4.5	0.45×	not tested
Organic oxygen compounds	1	4.1	0.24×	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
DB03574	FCI	Ferricrocin-iron	4
DB00115	CNC	Cyanocobalamin	3
DB08217	MTN	S-[(1-Hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)methyl] methanesulfonothioate	2
DB09459	TLA	L-tartaric acid	2
DB18267	HEM	Ferroheme	2
DB01747	HWS	Coprogen	1
DB02626	PFC	Phenylferricrocin-iron	1
DB02724	ALB	Delta-2-Albomycin A1	1
DB04220	RIF	CGP 4832	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CUmetal	COPPER (II) ION	12
AGmetal	SILVER ION	10
PVE	(1S)-1-CARBOXY-5-[(3-CARBOXYPROPANOYL)AMINO]-8,9-DIHYDROXY-1,2,3,4-TETRAHYDROPYRIMIDO[1,2-A]QUINOLIN-11-IUM	10
FEmetal	FE (III) ION	9
Kmetal	POTASSIUM ION	7
CL	CHLORIDE ION	6
NAmetal	SODIUM ION	6
FCI	FERRICROCIN-IRON	4
ZNmetal	ZINC ION	4
0UE	Ferrioxamine B	3
188	PYOCHELIN FE(III)	3
CNC	CYANOCOBALAMIN	3
FV8	(4~{S},5~{R})-2-[2,3-bis(oxidanyl)phenyl]-~{N}-[2-(1~{H}-imidazol-4-yl)ethyl]-5-methyl-~{N}-oxidanyl-4,5-dihydro-1,3-oxazole-4-carboxamide	3
HEM	PROTOPORPHYRIN IX CONTAINING FE	3
A1H49	2-(2-hydroxyphenyl)-1,3-thiazole-4-carboxylic acid	2
A1IG8	Pyochelin Fe(III) isomer	2
A1IJR	~{N}-[(~{E},5~{S})-6-[2-[2-(2-azanylethoxy)ethoxy]ethylamino]-5-[[2-(2-hydroxyphenyl)-1,3-thiazol-4-yl]carbonylamino]-6-oxidanylidene-hex-2-enyl]-2-(2-hydroxyphenyl)-1,3-thiazole-4-carboxamide	2
CAmetal	CALCIUM ION	2
CU1metal	COPPER (I) ION	2
EFE	ENANTIO-PYOCHELIN FE(III)	2