X-group (possible homology)

3692 Ornithine cyclodeaminase-like enzymes dimerization domain

Open in classification tree →

Ligands and drugs

153

Member domains

with ligand contacts (≤ 4 Å)

39.9% of members

with DrugDomain annotations

36.6% of members

with a DrugBank compound

36.6% 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
Organic acids and derivatives	6	1.5	3.93×	not tested
Nucleosides, nucleotides, and analogues	10	2.7	3.67×	not tested
Organoheterocyclic compounds	1	1.5	0.66×	not tested
Homogeneous non-metal compounds	1	2.1	0.47×	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
DB14128	NAD	Nadide	36
DB02338	NDP	NADPH	10
DB00172	PRO	Proline	6
DB00125	ARG	Arginine	4
DB03817	DAB	L-2,4-diaminobutyric acid	4
DB00123	LYS	Lysine	3
DB00157	NAI	NADH	3
DB03461	NAP	Nicotinamide adenine dinucleotide phosphate	3
DB00279	T3	Liothyronine	2
DB00119	PYR	Pyruvic acid	1
DB00129	ORN	Ornithine	1
DB08845	AKG	Oxogluric acid	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
NAD	NICOTINAMIDE-ADENINE-DINUCLEOTIDE	35
NDP	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	10
YCP	(2S)-piperidine-2-carboxylic acid	8
PRO	PROLINE	6
ARG	ARGININE	4
DAB	2,4-DIAMINOBUTYRIC ACID	4
CL	CHLORIDE ION	3
LYS	LYSINE	3
NAI	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE	3
NAP	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	3
ORN	L-ornithine	2
T3	3,5,3'TRIIODOTHYRONINE	2
7MT	Tb-Xo4	1
AE5	N-[(2S)-2-amino-2-carboxyethyl]-L-glutamic acid	1
AKG	2-OXOGLUTARIC ACID	1
NAJ	NICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM)	1
PYR	PYRUVIC ACID	1
TBmetal	TERBIUM(III) ION	1