PDE6G

gene
On this page

Also known as RP57

Summary

PDE6G (phosphodiesterase 6G, HGNC:8789) is a protein-coding gene on chromosome 17q25.3, encoding Retinal rod rhodopsin-sensitive cGMP 3’,5’-cyclic phosphodiesterase subunit gamma (P18545). Participates in processes of transmission and amplification of the visual signal. cGMP-PDEs are the effector molecules in G-protein-mediated phototransduction in vertebrate rods and cones.

This gene encodes the gamma subunit of cyclic GMP-phosphodiesterase, which is composed of alpha- and beta- catalytic subunits and two identical, inhibitory gamma subunits. This gene is expressed in rod photoreceptors and functions in the phototransduction signaling cascade. It is also expressed in a variety of other tissues, and has been shown to regulate the c-Src protein kinase and G-protein-coupled receptor kinase 2. Alternative splicing results in multiple transcript variants.

Source: NCBI Gene 5148 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): PDE6G-related retinopathy (Definitive, ClinGen) — +2 more curated relationships
  • GWAS associations: 3
  • Clinical variants (ClinVar): 114 total — 4 pathogenic
  • Phenotypes (HPO): 39
  • Druggable target: yes — 6 molecules with ChEMBL bioactivity
  • MANE Select transcript: NM_002602

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:8789
Approved symbolPDE6G
Namephosphodiesterase 6G
Location17q25.3
Locus typegene with protein product
StatusApproved
AliasesRP57
Ensembl geneENSG00000185527
Ensembl biotypeprotein_coding
OMIM180073
Entrez5148

Gene structure

Transcript identifiers

Ensembl transcripts: 10 — 8 protein_coding, 2 protein_coding_CDS_not_defined

ENST00000331056, ENST00000571004, ENST00000571224, ENST00000574024, ENST00000574777, ENST00000862059, ENST00000862060, ENST00000916622, ENST00000916623, ENST00000916624

RefSeq mRNA: 3 — MANE Select: NM_002602 NM_001365724, NM_001365725, NM_002602

CCDS: CCDS11783

Canonical transcript exons

ENST00000331056 — 4 exons

ExonStartEnd
ENSE000016938398165649381656542
ENSE000034646268165164581651685
ENSE000036014928165316081653364
ENSE000036131158165045981651150

Expression profiles

Bgee: expression breadth ubiquitous, 163 present calls, max score 89.99.

FANTOM5 (CAGE): breadth broad, TPM avg 4.1158 / max 2936.6600, expressed in 435 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
1687752.730714
1687741.0929422
1687760.29219

Top tissues by expression

287 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047389.99silver quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099187.88gold quality
endometrium epitheliumUBERON:000481184.01gold quality
granulocyteCL:000009482.83gold quality
lymph nodeUBERON:000002982.83gold quality
spleenUBERON:000210681.06gold quality
pigmented layer of retinaUBERON:000178279.20gold quality
monocyteCL:000057678.69gold quality
leukocyteCL:000073878.29gold quality
mononuclear cellCL:000084278.14gold quality
epithelial cell of pancreasCL:000008377.86gold quality
parotid glandUBERON:000183177.31gold quality
secondary oocyteCL:000065576.87silver quality
olfactory bulbUBERON:000226476.71gold quality
bloodUBERON:000017875.36gold quality
type B pancreatic cellCL:000016974.99gold quality
male germ cellCL:000001574.28gold quality
mucosa of paranasal sinusUBERON:000503074.01gold quality
spermCL:000001974.00gold quality
vastus lateralisUBERON:000137973.84gold quality
bone marrow cellCL:000209273.60gold quality
bone marrowUBERON:000237172.89gold quality
quadriceps femorisUBERON:000137772.88gold quality
cervix squamous epitheliumUBERON:000692272.79gold quality
vermiform appendixUBERON:000115472.70gold quality
cerebellar vermisUBERON:000472072.27gold quality
placentaUBERON:000198772.19gold quality
caecumUBERON:000115371.89gold quality
hair follicleUBERON:000207371.74gold quality
periodontal ligamentUBERON:000826670.91silver quality

Single-cell (SCXA)

Detected in 5 experiment(s), a significant marker in 5.

ExperimentMarker?Max mean expression
E-MTAB-7316yes26432.59
E-GEOD-137537yes12540.47
E-GEOD-135922yes12048.69
E-GEOD-98556yes2501.46
E-ANND-3no0.00

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 5)

  • PDEG functions to link c-Src and G-protein-coupled receptor kinase 2 in a signaling unit that regulates p42/p44 mitogen-activated protein kinase by epidermal growth factor (PMID:12624098)
  • Crystal structures of a chimaeric PDE5/PDE6 catalytic domain (PDE5/6cd) complexed with sildenafil or 3-isobutyl-1-methylxanthine and the Pgamma-inhibitory peptide Pgamma(70-87) have been determined at 2.9 and 3.0 A, respectively. (PMID:19798052)
  • The C-terminus of PED gamma occludes the active site of PDE6, thereby preventing hydrolysis of cGMP. (PMID:20397626)
  • These findings demonstrate the positive role of the gamma subunit in maintaining phosphodiesterase activity and confirm the contribution of PDE6G to the etiology of retinitis pigmentosa in humans. (PMID:20655036)
  • Collectively, we report previously unrecognized PDE6 expression in human lungs, significant alterations of the PDE6D and PDE6G/H subunits in IPF lungs. (PMID:20979602)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriopde6gbENSDARG00000101984
mus_musculusPde6gENSMUSG00000025386
rattus_norvegicusPde6gENSRNOG00000069361

Paralogs (1): PDE6H (ENSG00000139053)

Protein

Protein identifiers

Retinal rod rhodopsin-sensitive cGMP 3’,5’-cyclic phosphodiesterase subunit gammaP18545 (reviewed: P18545)

All UniProt accessions (1): P18545

UniProt curated annotations — full annotation on UniProt →

Function. Participates in processes of transmission and amplification of the visual signal. cGMP-PDEs are the effector molecules in G-protein-mediated phototransduction in vertebrate rods and cones.

Subunit / interactions. Oligomer composed of two catalytic chains (alpha and beta), an inhibitory chain (gamma) and the delta chain.

Disease relevance. Retinitis pigmentosa 57 (RP57) [MIM:613582] A retinal dystrophy belonging to the group of pigmentary retinopathies. Retinitis pigmentosa is characterized by retinal pigment deposits visible on fundus examination and primary loss of rod photoreceptor cells followed by secondary loss of cone photoreceptors. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. The disease is caused by variants affecting the gene represented in this entry.

Similarity. Belongs to the rod/cone cGMP-PDE gamma subunit family.

RefSeq proteins (3): NP_001352653, NP_001352654, NP_002593* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR006952PDE6_gammaFamily
IPR037030PDE6_gamma_sfHomologous_superfamily

Pfam: PF04868

Catalyzed reactions (Rhea), 1 shown:

  • 3’,5’-cyclic GMP + H2O = GMP + H(+) (RHEA:16957)

UniProt features (8 total): compositionally biased region 2, chain 1, region of interest 1, modified residue 1, sequence variant 1, turn 1, helix 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
3JWRX-RAY DIFFRACTION2.99

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P18545-F167.730.00

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (1): 1

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-2485179Activation of the phototransduction cascade
R-HSA-2514859Inactivation, recovery and regulation of the phototransduction cascade
R-HSA-4086398Ca2+ pathway

MSigDB gene sets: 178 (showing top): GRUETZMANN_PANCREATIC_CANCER_DN, GOBP_REGULATION_OF_ERBB_SIGNALING_PATHWAY, GOBP_POSITIVE_REGULATION_OF_MAPK_CASCADE, GOBP_ERBB_SIGNALING_PATHWAY, GOBP_SENSORY_PERCEPTION_OF_LIGHT_STIMULUS, DAVIES_MULTIPLE_MYELOMA_VS_MGUS_UP, GOBP_POSITIVE_REGULATION_OF_INTRACELLULAR_SIGNAL_TRANSDUCTION, KEGG_PURINE_METABOLISM, GOBP_SENSORY_PERCEPTION, GOCC_NEURON_PROJECTION, GOBP_POSITIVE_REGULATION_OF_ERBB_SIGNALING_PATHWAY, NIKOLSKY_BREAST_CANCER_17Q21_Q25_AMPLICON, GCM_VAV1, SHEN_SMARCA2_TARGETS_DN, GOCC_CELL_PROJECTION_MEMBRANE

GO Biological Process (4): visual perception (GO:0007601), positive regulation of MAPK cascade (GO:0043410), positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742), positive regulation of G protein-coupled receptor signaling pathway (GO:0045745)

GO Molecular Function (7): enzyme inhibitor activity (GO:0004857), spectrin binding (GO:0030507), cGMP binding (GO:0030553), 3’,5’-cyclic-GMP phosphodiesterase activity (GO:0047555), 3’,5’-cyclic-nucleotide phosphodiesterase activity (GO:0004114), protein binding (GO:0005515), hydrolase activity (GO:0016787)

GO Cellular Component (3): plasma membrane (GO:0005886), photoreceptor outer segment membrane (GO:0042622), photoreceptor disc membrane (GO:0097381)

Reactome top-level categories

Rollup of top-2 pathways:

CategoryPathways
The phototransduction cascade2
Beta-catenin independent WNT signaling1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
catalytic activity2
photoreceptor outer segment2
sensory perception of light stimulus1
MAPK cascade1
regulation of MAPK cascade1
positive regulation of intracellular signal transduction1
epidermal growth factor receptor signaling pathway1
regulation of epidermal growth factor receptor signaling pathway1
positive regulation of ERBB signaling pathway1
G protein-coupled receptor signaling pathway1
regulation of G protein-coupled receptor signaling pathway1
positive regulation of signal transduction1
enzyme regulator activity1
molecular function inhibitor activity1
cytoskeletal protein binding1
protein-containing complex binding1
cyclic nucleotide binding1
guanyl ribonucleotide binding1
anion binding1
3’,5’-cyclic-nucleotide phosphodiesterase activity1
cyclic-nucleotide phosphodiesterase activity1
binding1
membrane1
cell periphery1
ciliary membrane1
organelle membrane1

Protein interactions and networks

STRING

753 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PDE6GPDE6AP16499980
PDE6GPDE6BP35913949
PDE6GCNGA1P29973798
PDE6GZNF513Q8N8E2792
PDE6GPRPH2P23942782
PDE6GPCAREA6NGG8779
PDE6GPRCDQ00LT1779
PDE6GIMPG2Q9BZV3775
PDE6GCNGB1Q14028756
PDE6GGUCA1BQ9UMX6752
PDE6GCERKLQ49MI3739
PDE6GFSCN2O14926728
PDE6GIDH3BO43837725
PDE6GEYSQ5T1H1725
PDE6GROM1Q03395723

IntAct

29 interactions, top by confidence:

ABTypeScore
PDE6GPacsin2psi-mi:“MI:0915”(physical association)0.630
PDE6GPacsin2psi-mi:“MI:0407”(direct interaction)0.630
Pacsin2PDE6Gpsi-mi:“MI:0915”(physical association)0.630
PDE6GBHLHE40psi-mi:“MI:0915”(physical association)0.560
PDE6GL3MBTL3psi-mi:“MI:0915”(physical association)0.560
BHLHE40PDE6Gpsi-mi:“MI:0915”(physical association)0.560
L3MBTL3PDE6Gpsi-mi:“MI:0915”(physical association)0.560
PRKAB2PDE6Gpsi-mi:“MI:0915”(physical association)0.560
PDE6Gpsi-mi:“MI:0915”(physical association)0.560
PDE6GPMP22psi-mi:“MI:0915”(physical association)0.560
Grb2PDE6Gpsi-mi:“MI:0915”(physical association)0.530
Pik3r1PDE6Gpsi-mi:“MI:0915”(physical association)0.530
PDE6GFnbp1psi-mi:“MI:0915”(physical association)0.530
Grb2PDE6Gpsi-mi:“MI:0407”(direct interaction)0.530
PDE6GPik3r1psi-mi:“MI:0407”(direct interaction)0.530
Fnbp1PDE6Gpsi-mi:“MI:0407”(direct interaction)0.530
PDE6GgBpsi-mi:“MI:0915”(physical association)0.370
PDE6GSrcpsi-mi:“MI:0915”(physical association)0.370
PDE6GBin1psi-mi:“MI:0915”(physical association)0.370

BioGRID (12): BHLHE40 (Two-hybrid), L3MBTL3 (Two-hybrid), PDE6G (Affinity Capture-Western), PDE6G (Affinity Capture-Western), SRC (Affinity Capture-Western), ADRBK1 (Affinity Capture-Western), ADRBK1 (Reconstituted Complex), SRC (Reconstituted Complex), GRB2 (Reconstituted Complex), DNM2 (Reconstituted Complex), PDE6G (Two-hybrid), SRRT (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A0MD36, A1DL98, F1QGC8, O54842, O60356, O89085, O95182, P09511, P0DTP1, P0DTP2, P18545, P19810, P20290, P22571, P35940, P61249, P61250, P75347, Q04558, Q05752, Q06616, Q0MQA7, Q0MQA8, Q0VCV7, Q1KN16, Q1KN19, Q1KN21, Q1X6Y4, Q1X6Y6, Q1X6Z0, Q1X6Z2, Q1X6Z4, Q1X709, Q1X711, Q2T9V8, Q2U6N1, Q3KPS4, Q5VKP5, Q5ZK14, Q64152

Diamond homologs: O55175, P04972, P09174, P18545, P22571, P54827, P61248, P61249, P61250, Q13956, Q9EQQ8

SIGNOR signaling

4 interactions.

AEffectBMechanism
GRK2“up-regulates activity”PDE6Gphosphorylation
PDE6G“down-regulates activity”PDE6Abinding
GNAT1“down-regulates activity”PDE6Gbinding

Disease & clinical

Clinical variants and AI predictions

ClinVar

114 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic4
Likely pathogenic0
Uncertain significance57
Likely benign39
Benign9

Top pathogenic / likely-pathogenic (4)

Variant IDHGVSClassification
13102NM_002602.4(PDE6G):c.187+1G>TPathogenic
1465534NM_002602.4(PDE6G):c.69dup (p.Arg24fs)Pathogenic
1943178NM_002602.4(PDE6G):c.97C>T (p.Arg33Ter)Pathogenic
3250311NM_002602.4(PDE6G):c.146+1G>TPathogenic

SpliceAI

499 predictions. Top by Δscore:

VariantEffectΔscore
17:81651148:TGT:Tacceptor_gain1.0000
17:81651151:C:CAacceptor_loss1.0000
17:81651151:C:CCacceptor_gain1.0000
17:81651146:GATGT:Gacceptor_gain0.9900
17:81651147:ATGT:Aacceptor_gain0.9900
17:81651149:GT:Gacceptor_gain0.9900
17:81651642:TA:Tdonor_loss0.9900
17:81651643:A:Cdonor_loss0.9900
17:81651644:C:Adonor_loss0.9900
17:81653158:AC:Adonor_gain0.9900
17:81653159:CC:Cdonor_gain0.9900
17:81656487:ACT:Adonor_loss0.9900
17:81656488:CTCA:Cdonor_loss0.9900
17:81656489:T:TAdonor_loss0.9900
17:81656490:C:CCdonor_loss0.9900
17:81656491:A:ACdonor_gain0.9900
17:81656492:C:CCdonor_gain0.9900
17:81653154:GCTTA:Gdonor_loss0.9800
17:81653155:CTTA:Cdonor_loss0.9800
17:81653156:TTAC:Tdonor_loss0.9800
17:81653157:TA:Tdonor_loss0.9800
17:81653158:ACCCT:Adonor_loss0.9800
17:81653159:C:CAdonor_loss0.9800
17:81653233:T:Adonor_gain0.9800
17:81653283:G:Cdonor_gain0.9800
17:81653361:CGGT:Cacceptor_gain0.9800
17:81656491:AC:Adonor_gain0.9800
17:81656492:CC:Cdonor_gain0.9800
17:81656492:CCAA:Cdonor_gain0.9800
17:81651153:G:Cacceptor_gain0.9700

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000320557 (17:81660735 G>A,T), RS1000375584 (17:81650124 T>C), RS1000746504 (17:81650362 A>C), RS1000968926 (17:81655158 C>T), RS1000990654 (17:81660529 CTGTTTTTTGTT>C), RS1001000019 (17:81654967 C>T), RS1001204735 (17:81657859 C>T), RS1001245088 (17:81650156 G>A,T), RS1001367416 (17:81660792 G>A), RS1001418119 (17:81661052 G>A), RS1001726515 (17:81655864 C>A), RS1002152317 (17:81653794 T>C), RS1002386995 (17:81663634 AT>A), RS1002434540 (17:81650736 G>A,T), RS1002526663 (17:81654005 G>T)

Disease associations

OMIM: gene MIM:180073 | disease phenotypes: MIM:613582, MIM:268000

GenCC curated gene-disease

DiseaseClassificationInheritance
retinitis pigmentosa 57DefinitiveAutosomal recessive
retinitis pigmentosaSupportiveAutosomal dominant

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
PDE6G-related retinopathyDefinitiveAR

Mondo (3): retinitis pigmentosa 57 (MONDO:0013315), retinitis pigmentosa (MONDO:0019200), inherited retinal dystrophy (MONDO:0019118)

Orphanet (2): Retinitis pigmentosa (Orphanet:791), OBSOLETE: Inherited retinal disorder (Orphanet:71862)

HPO phenotypes

39 total (30 of 39 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000007Autosomal recessive inheritance
HP:0000405Conductive hearing impairment
HP:0000407Sensorineural hearing impairment
HP:0000501Glaucoma
HP:0000505Visual impairment
HP:0000510Rod-cone dystrophy
HP:0000512Abnormal electroretinogram
HP:0000543Optic disc pallor
HP:0000546Retinal degeneration
HP:0000551Color vision defect
HP:0000563Keratoconus
HP:0000602Ophthalmoplegia
HP:0000613Photophobia
HP:0000618Blindness
HP:0000639Nystagmus
HP:0000648Optic atrophy
HP:0000662Nyctalopia
HP:0000842Hyperinsulinemia
HP:0001105Retinal atrophy
HP:0001133Constriction of peripheral visual field
HP:0001419X-linked recessive inheritance
HP:0007663Reduced visual acuity
HP:0007675Progressive night blindness
HP:0007703Abnormal retinal pigmentation
HP:0007737Spicular pigmentation of the retina
HP:0007787Posterior subcapsular cataract
HP:0007843Attenuation of retinal blood vessels
HP:0007994Peripheral visual field loss
HP:0008046Abnormal retinal vascular morphology

GWAS associations

3 associations (top):

StudyTraitp-value
GCST006988_96Blond vs. brown/black hair color7.000000e-19
GCST009962_17High myopia2.000000e-13
GCST010002_133Refractive error2.000000e-50

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0003924hair color

MeSH disease descriptors (2)

DescriptorNameTree numbers
D058499Retinal DystrophiesC11.768.585.658
D012174Retinitis PigmentosaC11.270.684; C11.768.585.658.500; C16.320.290.684

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (3): CHEMBL2095220 (SELECTIVITY GROUP), CHEMBL2097163 (PROTEIN FAMILY), CHEMBL2363066 (PROTEIN FAMILY)

Molecules with ChEMBL bioactivity

6 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 154,266 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

MoleculeNamePhasePatents
CHEMBL1520VARDENAFIL421,078
CHEMBL192SILDENAFIL441,819
CHEMBL779TADALAFIL423,417
CHEMBL932DIPYRIDAMOLE451,743
CHEMBL28079ZAPRINAST216,158
CHEMBL3109802TBA-7371251

PharmGKB: 1 entry (VIP=true, CPIC=false)

GtoPdb / IUPHAR curated pharmacology

(IUPHAR/BPS Guide to Pharmacology — expert-curated)

Target class: enzyme — Phosphodiesterases, 3’,5’-cyclic nucleotide (PDEs)

ChEMBL bioactivities

102 potent at pChembl≥5 of 110 total, top 50 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
10.00IC500.1nMCHEMBL5081214
9.90IC500.1259nMCHEMBL5080391
9.80IC500.1585nMCHEMBL5087564
9.60IC500.2512nMCHEMBL5094110
9.50IC500.3162nMCHEMBL5086895
9.50IC500.3162nMCHEMBL5076558
9.30IC500.5nMSILDENAFIL
9.00IC501nMVARDENAFIL
9.00IC501nMCHEMBL5078680
9.00IC501nMCHEMBL5088742
8.66IC502.2nMCHEMBL2414311
8.13IC507.4nMCHEMBL2180942
8.02IC509.5nMSILDENAFIL
7.96IC5011nMVARDENAFIL
7.60IC5025nMSILDENAFIL
7.52IC5030.1nMCHEMBL4062273
7.40IC5040nMSILDENAFIL
7.30Ki50nMSILDENAFIL
7.21IC5062nMCHEMBL213060
7.14IC5073.15nMCHEMBL2069321
6.90Ki125nMDIPYRIDAMOLE
6.90IC50125nMCHEMBL282515
6.75IC50180nMCHEMBL373102
6.68Ki211nMCHEMBL1939800
6.65IC50226nMCHEMBL284070
6.60IC50249nMCHEMBL32255
6.57IC50271nMCHEMBL33518
6.56IC50276nMCHEMBL2070655
6.56Ki278nMCHEMBL1939803
6.55IC50280nMCHEMBL212397
6.48IC50330nMCHEMBL377563
6.48IC50330nMCHEMBL378255
6.48IC50330nMCHEMBL5434573
6.47IC50339nMCHEMBL2333219
6.46IC50349nMCHEMBL2070649
6.45IC50357nMCHEMBL418594
6.45IC50358nMCHEMBL33121
6.40Ki400nMZAPRINAST
6.36IC50435nMCHEMBL2070639
6.33IC50462nMCHEMBL2070631
6.31IC50493nMCHEMBL2070651
6.31IC50494nMCHEMBL282515
6.26IC50550nMCHEMBL213219
6.26Ki554nMCHEMBL1939802
6.25IC50561nMCHEMBL4554391
6.21IC50610nMCHEMBL438451
6.21IC50620nMCHEMBL285737
6.16IC50693nMCHEMBL2070654
6.16Ki697nMCHEMBL1939804
6.13IC50734nMCHEMBL2070641

PubChem BioAssay actives

102 with measured affinity, of 185 total; 50 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
[(1S)-1-[3-(cyclopropylmethoxy)-4-(difluoromethoxy)phenyl]-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)ethyl] 3-[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]sulfamoyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0001uM
[(1S)-1-[3-(cyclopropylmethoxy)-4-(difluoromethoxy)phenyl]-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)ethyl] 3-[[N-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxycarbonyl]anilino]methyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0001uM
[(1S)-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)-1-(3,4-dimethoxyphenyl)ethyl] 3-[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]amino]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0002uM
[(1S)-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)-1-(3,4-dimethoxyphenyl)ethyl] 3-[[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]amino]methyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0003uM
[(1S)-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)-1-(3,4-dimethoxyphenyl)ethyl] 3-[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]sulfamoyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0003uM
[(1S)-1-[3-(cyclopropylmethoxy)-4-(difluoromethoxy)phenyl]-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)ethyl] 3-[[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]amino]methyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0003uM
Sildenafil735483: Inhibition of PDE6 (unknown origin) using FAM-cGMP as substrate after 60 mins by fluorescence assayic500.0005uM
Vardenafil240962: Inhibition of human phosphodiesterase 6ic500.0010uM
[(1S)-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)-1-(3,4-dimethoxyphenyl)ethyl] 3-[[N-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxycarbonyl]anilino]methyl]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0010uM
[(1S)-1-[3-(cyclopropylmethoxy)-4-(difluoromethoxy)phenyl]-2-(3,5-dichloro-1-oxidopyridin-1-ium-4-yl)ethyl] 3-[[2-[[(3R)-1-azabicyclo[2.2.2]octan-3-yl]oxy]-2-oxo-1-phenylethyl]amino]benzoate1812119: Inhibition of PDE4 in human U-937 cells assessed as reduction in cAMP level by LANCE cAMP Assayic500.0010uM
(2S)-1-[3-(5-bromo-6-oxo-4-propan-2-yl-1H-pyrimidin-2-yl)-4-propoxyphenyl]sulfonylpyrrolidine-2-carboxylic acid764685: Inhibition of PDE6 (unknown origin)ic500.0022uM
5-bromo-2-[5-(4-methylpiperazin-1-yl)sulfonyl-2-propoxyphenyl]-4-propan-2-yl-1H-pyrimidin-6-one764685: Inhibition of PDE6 (unknown origin)ic500.0074uM
2-acetyl-10-[(3-chloro-4-methoxyphenyl)methylamino]-3,4-dihydro-1H-benzo[b][1,6]naphthyridine-8-carbonitrile1866074: Inhibition of PDE6 (unknown origin) using FAM-cGMP or FAM-cAMP as substrate incubated for 60 mins and measured by fluorescence polarization assayic500.0301uM
11-benzyl-13-methyl-4-phenyl-7-propan-2-yl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.0620uM
1-(2-chlorophenyl)-6,8-dimethoxy-3-methylimidazo[5,1-c][1,2,4]benzotriazine678635: Inhibition of PDE6ic500.0732uM
Dipyridamole238297: Inhibition of human phosphodiesterase 6ki0.1250uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-[2-(1-methylimidazol-2-yl)ethyl]pyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.1250uM
(7R)-7-benzyl-2-bromo-5-ethyl-3-[(4-hydroxyphenyl)methyl]-7,8-dihydroimidazo[2,1-b]purin-4-one240962: Inhibition of human phosphodiesterase 6ic500.1800uM
6-methoxy-3,8-dimethyl-N-(pyridin-4-ylmethyl)-2H-pyrazolo[3,4-b]quinolin-4-amine640658: Inhibition of recombinant human PDE6 using [3H]cAMP as substrate by scintillation proximity assayki0.2110uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-(2-pyridin-2-ylethyl)pyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.2260uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-benzylpyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.2490uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-(2-pyridin-3-ylethyl)pyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.2710uM
4-[1-(2-chlorophenyl)-6-methoxy-3-methylimidazo[5,1-c][1,2,4]benzotriazin-8-yl]morpholine678635: Inhibition of PDE6ic500.2760uM
6-methoxy-3,8-dimethyl-N-(oxan-4-yl)-2H-pyrazolo[3,4-b]quinolin-4-amine640658: Inhibition of recombinant human PDE6 using [3H]cAMP as substrate by scintillation proximity assayki0.2780uM
11-benzyl-7,13-dimethyl-4-pyridin-3-yl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.2800uM
11-benzyl-4-(furan-3-yl)-7,13-dimethyl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.3300uM
11-benzyl-13-(ethoxymethyl)-7-methyl-4-phenyl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.3300uM
N-(2-pyrazin-2-yl-4,6-dihydrothieno[3,4-c]pyrazol-3-yl)naphthalene-1-carboxamide1994821: Inhibition of PDE (unknown origin)ic500.3300uM
4-[(3-chloro-4-methoxyphenyl)methylamino]-8-cyclopropyl-3-(hydroxymethyl)quinoline-6-carbonitrile1866074: Inhibition of PDE6 (unknown origin) using FAM-cGMP or FAM-cAMP as substrate incubated for 60 mins and measured by fluorescence polarization assayic500.3390uM
6,8-dimethoxy-3-methyl-1-(2-methylphenyl)imidazo[5,1-c][1,2,4]benzotriazine678635: Inhibition of PDE6ic500.3490uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-[2-(1H-imidazol-2-yl)ethyl]pyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.3570uM
(2R,8R)-2-(1,3-benzodioxol-5-yl)-6-[(3R)-1-(2-pyrazin-2-ylethyl)pyrrolidin-3-yl]-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.3580uM
5-(2-propoxyphenyl)-2,6-dihydrotriazolo[4,5-d]pyrimidin-7-one238389: Inhibition of human phosphodiesterase 6ki0.4000uM
3-(2-chlorophenyl)-12-methoxy-5-methyl-2,4,7,8,13-pentazatricyclo[7.4.0.02,6]trideca-1(9),3,5,7,10,12-hexaene678635: Inhibition of PDE6ic500.4350uM
3-(2-chloro-4-fluorophenyl)-12-methoxy-5-methyl-2,4,7,8,13-pentazatricyclo[7.4.0.02,6]trideca-1(9),3,5,7,10,12-hexaene678635: Inhibition of PDE6ic500.4620uM
6,8-dimethoxy-3-methyl-1-(2-methyl-3-pyridinyl)imidazo[5,1-c][1,2,4]benzotriazine678635: Inhibition of PDE6ic500.4930uM
11-benzyl-7-ethyl-13-methyl-4-phenyl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.5500uM
6-methoxy-3,8-dimethyl-N-(2-pyridin-4-ylethyl)-2H-pyrazolo[3,4-b]quinolin-4-amine640658: Inhibition of recombinant human PDE6 using [3H]cAMP as substrate by scintillation proximity assayki0.5540uM
1-[[2-(7-fluoro-3-methylquinoxalin-2-yl)-5-[(3R)-3-fluoropyrrolidin-1-yl]pyrazolo[1,5-a]pyrimidin-7-yl]amino]-2-methylpropan-2-ol;hydrochloride1552322: Inhibition of PDE6 (unknown origin)ic500.5610uM
11-benzyl-13-methyl-4-phenyl-7-propyl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.6100uM
3-[(3R)-3-[(2R,8R)-2-(1,3-benzodioxol-5-yl)-4,7-dioxo-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraen-6-yl]pyrrolidin-1-yl]-N-ethylpropanamide158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.6200uM
4-[6-methoxy-3-methyl-1-(2-methylphenyl)imidazo[5,1-c][1,2,4]benzotriazin-8-yl]morpholine678635: Inhibition of PDE6ic500.6930uM
6-methoxy-3,8-dimethyl-N-(oxan-4-ylmethyl)-2H-pyrazolo[3,4-b]quinolin-4-amine640658: Inhibition of recombinant human PDE6 using [3H]cAMP as substrate by scintillation proximity assayki0.6970uM
3-(2-fluoro-5-methoxyphenyl)-12-methoxy-5-methyl-2,4,7,8,13-pentazatricyclo[7.4.0.02,6]trideca-1(9),3,5,7,10,12-hexaene678635: Inhibition of PDE6ic500.7340uM
3-[(3R)-3-[(2R,8R)-2-(1,3-benzodioxol-5-yl)-4,7-dioxo-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraen-6-yl]pyrrolidin-1-yl]-N,N-dimethylpropanamide158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.8070uM
3-(2,5-dichlorophenyl)-12-methoxy-5-methyl-2,4,7,8,13-pentazatricyclo[7.4.0.02,6]trideca-1(9),3,5,7,10,12-hexaene678635: Inhibition of PDE6ic500.8290uM
6-methoxy-3,8-dimethyl-N-(oxan-2-ylmethyl)-2H-pyrazolo[3,4-b]quinolin-4-amine640658: Inhibition of recombinant human PDE6 using [3H]cAMP as substrate by scintillation proximity assayki0.8430uM
(2R,8R)-6-[(3R)-1-[3-(azetidin-1-yl)-3-oxopropyl]pyrrolidin-3-yl]-2-(1,3-benzodioxol-5-yl)-3,6,17-triazatetracyclo[8.7.0.03,8.011,16]heptadeca-1(10),11,13,15-tetraene-4,7-dione158129: Inhibitory activity against phosphodiesterase 6 (PDE6) obtained from canine or bovine retinaic500.8460uM
11-benzyl-13-methyl-4-phenyl-5,6,8,11,12-pentazatricyclo[7.4.0.02,6]trideca-1(9),2,4,7,12-pentaen-10-one269694: Inhibition of PDE6ic500.8600uM
8-(difluoromethoxy)-6-methoxy-3-methyl-1-(3-methyl-4-pyridinyl)imidazo[5,1-c][1,2,4]benzotriazine678635: Inhibition of PDE6ic500.9090uM

CTD chemical–gene interactions

11 total (human), top 11 by PubMed support.

ChemicalActions (top 5)PubMed papers
aristolochic acid Iincreases expression1
butyraldehydeincreases expression1
bisphenol Sdecreases methylation1
jinfukangaffects cotreatment, increases expression1
Glyphosateincreases expression1
Amiodaroneincreases expression1
Benzo(a)pyreneaffects methylation1
Cisplatinaffects cotreatment, increases expression1
Phthalic Acidsincreases methylation1
Aflatoxin B1increases methylation1
Okadaic Aciddecreases expression1

ChEMBL screening assays

51 unique, capped per target: 49 binding, 2 admet

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL832228BindingRelative binding to Phosphodiesterase 6 and Phosphodiesterase 5, ratio of IC50Optimization of purine based PDE1/PDE5 inhibitors to a potent and selective PDE5 inhibitor for the treatment of male ED. — Bioorg Med Chem Lett
CHEMBL4348841ADMETInhibition of PDE6 (unknown origin)Structure Overhaul Affords a Potent Purine PI3Kδ Inhibitor with Improved Tolerability. — J Med Chem

Cellosaurus cell lines

1 cell lines: 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_1581NCI-H716Cancer cell lineMale

Clinical trials (associated diseases)

259 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT00717080PHASE4COMPLETEDThe Role of Capsular Tension Ring (CTR) in Anterior Capsular Contraction
NCT00000114PHASE3COMPLETEDRandomized Trial of Vitamin A and Vitamin E Supplementation for Retinitis Pigmentosa
NCT00000116PHASE3COMPLETEDRandomized Trial of DHA for Retinitis Pigmentosa Patients Receiving Vitamin A
NCT00346333PHASE3COMPLETEDClinical Trial of Lutein for Patients With Retinitis Pigmentosa Receiving Vitamin A
NCT01786395PHASE3TERMINATEDPhase III Efficacy and Safety Clinical Study of UF-021 for Treatment of Retinitis Pigmentosa
NCT04224207PHASE3COMPLETEDManagement of Retinitis Pigmentosa by Mesenchymal Stem Cells by Wharton’s Jelly Derived Mesenchymal Stem Cells
NCT04636853PHASE3COMPLETEDCB-PRP in Retinitis Pigmentosa and Dry Age-related Macular Degeneration
NCT05537220PHASE3ACTIVE_NOT_RECRUITINGOral N-acetylcysteine for Retinitis Pigmentosa
NCT05800301PHASE3COMPLETEDManagement of Retinitis Pigmentosa Via Combination of Wharton’s Jelly-derived Mesenchymal Stem Cells and Magnovision
NCT05926583PHASE3ACTIVE_NOT_RECRUITINGA Study of AAV5-hRKp.RPGR for the Treatment of Japanese Participants With X-linked Retinitis Pigmentosa
NCT06388200PHASE3ACTIVE_NOT_RECRUITINGA Phase 3 Study Of OCU400 Gene Therapy for the Treatment Of Retinitis Pigmentosa
NCT07082855PHASE3NOT_YET_RECRUITINGA Multicenter, Randomized, Double-Blind, Controlled Clinical Study of Minocycline for the Treatment of Retinitis Pigmentosa
NCT07290530PHASE3NOT_YET_RECRUITING24-Month Trial of NPI-001 for the Preservation of Photoreceptors in Retinitis Pigmentosa Associated With Usher Syndrome
NCT00100230PHASE2COMPLETEDDHA and X-Linked Retinitis Pigmentosa
NCT00447980PHASE2COMPLETEDA Study of Encapsulated Cell Technology (ECT) Implant for Participants With Early Stage Retinitis Pigmentosa
NCT00447993PHASE2COMPLETEDA Study of Encapsulated Cell Technology (ECT) Implant for Patients With Late Stage Retinitis Pigmentosa
NCT01233609PHASE2COMPLETEDTrial of Oral Valproic Acid for Retinitis Pigmentosa
NCT01399515PHASE2COMPLETEDEfficacy and Safety of Oral Valproic Acid for Retinitis Pigmentosa
NCT01530659PHASE2COMPLETEDRetinal Imaging in CNTF -Releasing Encapsulated Cell Implant Treated Patients for Early-stage Retinitis Pigmentosa
NCT01560715PHASE2COMPLETEDAutologous Bone Marrow-Derived Stem Cells Transplantation For Retinitis Pigmentosa
NCT02609165PHASE2COMPLETEDNerve Growth Factor Eye Drops Treatment in Patients With Retinitis Pigmentosa and Cystoid Macular Edema
NCT02661711PHASE2COMPLETEDAflibercept for Macular Oedema With Underlying Retinitis Pigmentosa (AMOUR) Study
NCT02804360PHASE2UNKNOWNIntravitreal Dexamethasone Implant in Retinitis Pigmentosa-related Macular Edema- a Retrospective Study
NCT02837640PHASE2UNKNOWNStudying a Potential Protective Effect of L-Dopa on Retinitis Pigmentosa
NCT03073733PHASE2COMPLETEDSafety and Efficacy of Intravitreal Injection of Human Retinal Progenitor Cells in Adults With Retinitis Pigmentosa
NCT04068207PHASE2COMPLETEDMinocycline Treatment in Retinitis Pigmentosa
NCT04356716PHASE2COMPLETEDSildenafil for Treatment of Choroidal Ischemia
NCT04604899PHASE2COMPLETEDSafety of Repeat Intravitreal Injection of Human Retinal Progenitor Cells (jCell) in Adult Subjects With Retinitis Pigmentosa
NCT04763369PHASE2UNKNOWNInvestigation of Therapeutic Efficacy and Safety of UMSCs for the Management of Retinitis Pigmentosa (RP)
NCT04864496PHASE2UNKNOWNEffects of Treatment With N- Acetylcysteine on Visual Outcomes in Patients With Retinitis Pigmentosa
NCT04945772PHASE2COMPLETEDEfficacy and Safety of MCO-010 Optogenetic Therapy in Adults With Retinitis Pigmentosa [RESTORE]
NCT05085964PHASE2TERMINATEDAn Open-Label Extension Study to Evaluate Safety & Tolerability of QR-421a in Subjects With Retinitis Pigmentosa
NCT05392179PHASE2COMPLETEDA Study in Subjects With Retinitis Pigmentosa
NCT06627179PHASE2RECRUITINGStudy to Evaluate Ultevursen in Subjects With Retinitis Pigmentosa (RP) Due to Mutations in Exon 13 of the USH2A Gene
NCT06628947PHASE2RECRUITINGA Phase II Study of Intravitreal KIO-301 in Patients With Late-stage Retinitis Pigmentosa
NCT06912633PHASE2RECRUITINGSafety of a Single, Intravitreal Injection of 6.0M jCell (Famzeretcel) in Retinitis Pigmentosa (RP)
NCT03763227PHASE2COMPLETEDIntravitreal Ranibizumab (Lucentis®) in the Treatment of Non-leaking Macular Cysts in Retinal Dystrophy
NCT00063765PHASE1COMPLETEDEvaluation of Safety of Ciliary Neurotrophic Factor Implants in the Eye
NCT00065455PHASE1COMPLETEDInvestigating the Effect of Vitamin A Supplementation on Retinitis Pigmentosa
NCT00458575PHASE1TERMINATEDA Study to Evaluate the Safety of CNTO 2476 in Patients With Advanced Retinitis Pigmentosa