X-group (possible homology)

229 Cdc48 domain 2-like

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Ligands and drugs

1,377

Member domains

with ligand contacts (≤ 4 Å)

4.7% of members

with DrugDomain annotations

1.3% of members

with a DrugBank compound

1.2% 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)

—

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
Organosulfur compounds	1	0.1	16×	not tested
Benzenoids	1	0.2	4.62×	not tested
Lipids and lipid-like molecules	1	0.3	3.04×	not tested
Organic acids and derivatives	1	0.5	2.19×	not tested
Homogeneous non-metal compounds	1	0.6	1.57×	not tested
Homogeneous metal compounds	1	1.5	0.69×	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
DB01902	NEN	1-Ethyl-Pyrrolidine-2,5-Dione	4
DB03345	BME	Mercaptoethanol	3
DB02210	HEZ	Hexane-1,6-Diol	1
DB04395	—	Phosphoaminophosphonic Acid-Adenylate Ester	1
DB12695	—	—	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
ADP	ADENOSINE-5'-DIPHOSPHATE	39
ANP	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER	6
BME	BETA-MERCAPTOETHANOL	3
NEN	1-ETHYL-PYRROLIDINE-2,5-DIONE	3
ATP	ADENOSINE-5'-TRIPHOSPHATE	2
CL	CHLORIDE ION	2
6LY	(1S)-2-amino-1-(4-bromophenyl)ethan-1-ol	1
COmetal	COBALT (II) ION	1
HEZ	HEXANE-1,6-DIOL	1
NAmetal	SODIUM ION	1