X-group (possible homology)

6076 Catalytic cysteine domain in ubiquitin-activating enzyme

Open in classification tree →

Ligands and drugs

213

Member domains

with ligand contacts (≤ 4 Å)

21.1% of members

with DrugDomain annotations

16.9% of members

with a DrugBank compound

15.5% 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
Mixed metal/non-metal compounds	1	0.1	12×	not tested
Nucleosides, nucleotides, and analogues	3	1.1	2.75×	not tested
Organic acids and derivatives	1	0.6	1.64×	not tested
Homogeneous non-metal compounds	1	0.9	1.18×	not tested
Homogeneous metal compounds	2	1.9	1.03×	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
DB00171	ATP	ATP	12
DB04119	TBR	Hexatantalum Dodecabromide	4
DB00172	PRO	Proline	2
DB04216	—	Quercetin	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CL	CHLORIDE ION	8
ATP	ADENOSINE-5'-TRIPHOSPHATE	4
TBR	HEXATANTALUM DODECABROMIDE	3
PRO	PROLINE	2
AMP	ADENOSINE MONOPHOSPHATE	1
Kmetal	POTASSIUM ION	1
MGmetal	MAGNESIUM ION	1
VMX	5'-{[(3-aminopropyl)sulfonyl]amino}-5'-deoxyadenosine	1