X-group (possible homology)

107 Cytochrome c-like

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Ligands and drugs

2,725

Member domains

2,060

with ligand contacts (≤ 4 Å)

75.6% of members

1,699

with DrugDomain annotations

62.3% of members

1,697

with a DrugBank compound

62.3% 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.

176

Proteins with classified ligands

Superclasses bound (of 23)

5.5

Superclasses per 20 proteins

narrower than 78% 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	162	26.7	6.07×	q < 0.0001
Lipids and lipid-like molecules	21	19.3	1.09×	q = 0.71
Homogeneous non-metal compounds	23	37.4	0.62×	q = 0.01
Homogeneous metal compounds	43	85.2	0.51×	q < 0.0001
Organic nitrogen compounds	2	5.5	0.36×	q = 0.25
Organic oxygen compounds	10	34.6	0.29×	q < 0.0001
Organic acids and derivatives	5	26.9	0.19×	q < 0.0001
Benzenoids	1	12.7	0.08×	q = 1.7e-4
Nucleosides, nucleotides, and analogues	0	48.0	0	q < 0.0001
Mixed metal/non-metal compounds	1	3.6	0.27×	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
DB03317	HEC	Ferroheme C	1,375
DB18267	HEM	Ferroheme	329
DB03426	DGD	Digalactosyl Diacyl Glycerol (Dgdg)	181
DB04450	HTG	Heptyl 1-Thiohexopyranoside	33
DB03469	DHE	Heme D	30
DB03152	BGL	B-2-Octylglucoside	16
DB09270	U10	Ubidecarenone	8
DB03934	ZNH	Zinc protoporphyrin	6
DB04327	PEE	Phosphatidylethanolamine	6
DB04455	BET	N,N,N-trimethylglycinium	6
DB00515	CPT	Cisplatin	5
DB01728	PEF	1,2-dihexadecanoyl-sn-glycero-3-phosphoethanolamine	4
DB03429	CDL	Tetrastearoyl cardiolipin	4
DB02110	COH	Protoporphyrin Ix Containing Co	3
DB04349	PGO	(S)-propane-1,2-diol	3
DB00536	GAI	Guanidine	2
DB02182	HEB	Hybrid Between B and C Type Hemes (Protoporphyrin Ixcontaining Fe)	2
DB03900	TBU	tert-butanol	2
DB04249	HES	ZINC SUBSTITUTED HEME C	2
DB09140	OXY	Oxygen	2

Most frequently bound compounds

PDB ligand	Name	Domains in contact
HEC	HEME C	1,492
HEM	PROTOPORPHYRIN IX CONTAINING FE	356
CAmetal	CALCIUM ION	349
DGD	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	215
NAmetal	SODIUM ION	75
HTG	heptyl 1-thio-beta-D-glucopyranoside	47
CDL	CARDIOLIPIN	40
ZNmetal	ZINC ION	39
SRmetal	STRONTIUM ION	36
CL	CHLORIDE ION	33
9YF	(2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate	27
DHE	HEME D	27
3PE	1,2-Distearoyl-sn-glycerophosphoethanolamine	26
FC6	HEXACYANOFERRATE(3-)	26
IOD	IODIDE ION	25
PC1	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	23
MQ9	MENAQUINONE-9	22
U10	UBIQUINONE-10	21
PEE	1,2-dioleoyl-sn-glycero-3-phosphoethanolamine	19
EVB	sulfonato-calix[8]arene	17