X-group (possible homology)

4047 First alpha-helical domain in heme-dependent catalases

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Ligands and drugs

532

Member domains

530

with ligand contacts (≤ 4 Å)

99.6% of members

498

with DrugDomain annotations

93.6% of members

357

with a DrugBank compound

67.1% 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)

5.7

Superclasses per 20 proteins

narrower than 77% 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	10	6.3	1.59×	q = 0.15
Homogeneous metal compounds	10	11.1	0.90×	q = 0.75
Organoheterocyclic compounds	9	3.5	2.58×	not tested
Homogeneous non-metal compounds	11	4.9	2.25×	not tested
Benzenoids	1	1.7	0.60×	not tested
Organic acids and derivatives	1	3.5	0.28×	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
DB18267	HEM	Ferroheme	350
DB02338	NDP	NADPH	84
DB09526	HQE	Hydroquinone	4
DB11085	RCO	Resorcinol	4
DB11091	PEO	Hydrogen peroxide	4
DB03110	2CH	2-Chlorophenol	2
DB11359	JZ3	Guaiacol	2
DB02232	CAQ	1,2-Dihydroxybenzene	1
DB03461	NAP	Nicotinamide adenine dinucleotide phosphate	1
DB09140	OXY	Oxygen	1
DB14556	F50	Peracetic acid	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
HEM	PROTOPORPHYRIN IX CONTAINING FE	382
HDD	CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE	166
NDP	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	112
CAmetal	CALCIUM ION	64
HDE	CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE 17R, 18S	40
H2S	HYDROSULFURIC ACID	32
NO	NITRIC OXIDE	12
3TR	3-AMINO-1,2,4-TRIAZOLE	11
Kmetal	POTASSIUM ION	8
O	OXYGEN ATOM	8
CYN	CYANIDE ION	6
AZI	AZIDE ION	5
PEO	HYDROGEN PEROXIDE	5
2CH	2-CHLOROPHENOL	4
CAQ	CATECHOL	4
HQE	benzene-1,4-diol	4
JZ3	Guaiacol	4
LLR	(~{S})-azanyl-[2-[[3-bromanyl-4-(diethylamino)phenyl]methyl]hydrazinyl]methanethiol	4
NH3	AMMONIA	4
PYG	BENZENE-1,2,3-TRIOL	4