X-group (possible homology)

182 Cryptochrome/photolyase FAD-binding domain-related

Open in classification tree →

Ligands and drugs

595

Member domains

321

with ligand contacts (≤ 4 Å)

53.9% of members

283

with DrugDomain annotations

47.6% of members

214

with a DrugBank compound

36.0% 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)

6.7

Superclasses per 20 proteins

narrower than 64% 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	28	8.7	3.21×	q < 0.0001
Homogeneous non-metal compounds	6	6.8	0.88×	q = 0.88
Homogeneous metal compounds	13	15.5	0.84×	q = 0.56
Organic oxygen compounds	2	6.3	0.32×	q = 0.11
Organoheterocyclic compounds	15	4.9	3.09×	not tested
Benzenoids	1	2.3	0.43×	not tested
Lipids and lipid-like molecules	1	3.5	0.28×	not tested
Organic acids and derivatives	1	4.9	0.20×	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
DB03147	FAD	Flavin adenine dinucleotide	186
DB12676	MHF	Modufolin	13
DB04447	DTT	1,4-Dithiothreitol	10
DB00131	AMP	Adenosine phosphate	8
DB02596	APC	alpha,beta-Methyleneadenosine 5'-triphosphate	2
DB02618	NDS	Ethyl Dimethyl Ammonio Propane Sulfonate	2
DB02210	HEZ	Hexane-1,6-Diol	1
DB03247	FMN	Flavin mononucleotide	1
DB03462	TDR	Thymine	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
FAD	FLAVIN-ADENINE DINUCLEOTIDE	214
SF4	IRON/SULFUR CLUSTER	63
CL	CHLORIDE ION	32
FDA	DIHYDROFLAVINE-ADENINE DINUCLEOTIDE	24
MGmetal	MAGNESIUM ION	20
MHF	5,10-METHENYL-6,7,8-TRIHYDROFOLIC ACID	13
DTT	2,3-DIHYDROXY-1,4-DITHIOBUTANE	10
DLZ	1-deoxy-1-(6,7-dimethyl-2,4-dioxo-3,4-dihydropteridin-8(2H)-yl)-D-ribitol	9
AMP	ADENOSINE MONOPHOSPHATE	8
HDF	8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRAHYDROXYPENTYL)-5-DEAZAISOALLOXAZINE	8
DYX	1-(4-chlorophenyl)-N-[2-(4-methoxyphenyl)-5,5-bis(oxidanylidene)-4,6-dihydrothieno[3,4-c]pyrazol-3-yl]cyclopentane-1-carboxamide	5
FO1	1-deoxy-1-(8-hydroxy-2,4-dioxo-3,4-dihydropyrimido[4,5-b]quinolin-10(2H)-yl)-D-ribitol	5
2CX	N-[(2S)-3-(9H-carbazol-9-yl)-2-hydroxypropyl]-N-(furan-2-ylmethyl)methanesulfonamide	4
ZNmetal	ZINC ION	4
GDmetal	GADOLINIUM ATOM	3
H8X	N-[(2R)-3-carbazol-9-yl-2-oxidanyl-propyl]-N-(furan-2-ylmethyl)methanesulfonamide	3
MNmetal	MANGANESE (II) ION	3
NAmetal	SODIUM ION	3
5YH	1-[(2R)-3-[3,6-bis(fluoranyl)carbazol-9-yl]-2-oxidanyl-propyl]imidazolidin-2-one	2
APC	DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER	2