X-group (possible homology)

7586 Rossmann-like domain in prismane-like proteins

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Ligands and drugs

849

Member domains

430

with ligand contacts (≤ 4 Å)

50.6% of members

307

with DrugDomain annotations

36.2% of members

with a DrugBank compound

10.2% 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)

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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	8.2	1.22×	q = 0.55
Mixed metal/non-metal compounds	6	0.4	17×	not tested
Organic nitrogen compounds	2	0.5	3.74×	not tested
Homogeneous non-metal compounds	9	3.6	2.50×	not tested
Organic oxygen compounds	5	3.3	1.50×	not tested
Organoheterocyclic compounds	1	2.6	0.39×	not tested
Organic acids and derivatives	1	2.6	0.39×	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
DB14522	OH	Hydroxide ion	6
DB09157	CO2	Carbon dioxide	4
DB11588	CMO	Carbon monoxide	4
DB04237	TAM	Tris(Hydroxyethyl)Aminomethane	3
DB03843	FOR	Formaldehyde	2
DB01826	NBN	N-Butyl Isocyanide	1
DB02078	PG5	Triglyme	1
DB02249	ETX	2-Ethoxyethanol	1
DB02580	PG6	Pentaglyme	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
XCC	FE(4)-NI(1)-S(4) CLUSTER	186
SF4	IRON/SULFUR CLUSTER	65
FEmetal	FE (III) ION	54
FE2metal	FE (II) ION	50
WCC	FE(3)-NI(1)-S(4) CLUSTER	40
CUV	Fe(4)-Ni(1)-S(4) cluster, oxidized	26
SF3	FE4-S3 CLUSTER	22
CMO	CARBON MONOXIDE	21
XE	XENON	21
FSO	IRON/SULFUR/OXYGEN HYBRID CLUSTER	20
NFS	FE(4)-NI(1)-S(5) CLUSTER	18
NImetal	NICKEL (II) ION	18
CO2	CARBON DIOXIDE	16
FS2	FE-S-O HYBRID CLUSTER	16
T2N	3,5-dioxa-7-thia-1-thionia-2$l^{2},4$l^{2},6$l^{3},8$l^{2}-tetraferrabicyclo[4.2.0]octane	16
H2S	HYDROSULFURIC ACID	11
CL	CHLORIDE ION	10
F3S	FE3-S4 CLUSTER	10
OH	HYDROXIDE ION	8
BF8	FE(4)-NI(1)-S(5) CLUSTER with Oxygen	6