Tclin PDE6C Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha'

Protein Summary

Description

As cone-specific cGMP phosphodiesterase, it plays an essential role in light detection and cone phototransduction by rapidly decreasing intracellular levels of cGMP. This gene encodes the alpha-prime subunit of cone phosphodiesterase, which is composed of a homodimer of two alpha-prime subunits and 3 smaller proteins of 11, 13, and 15 kDa. Mutations in this gene are associated with cone dystrophy type 4 (COD4). [provided by RefSeq, Mar 2010]

Uniprot Accession IDs

• P51160
• A6NCR6
• Q5VY29

Gene Name

• PDE6C

Ensembl ID

• ENST00000371447
• ENSP00000360502
• ENSG00000095464

Symbol

• PDEA2
• COD4
• ACHM5
• PDEA2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
gene perturbation	0.98
molecular function	0.88
protein domain	0.85
small molecule perturbation	0.56
cell type or tissue	0.52

Related Tools

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

Go To Tool

GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

Go To Tool

GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

Go To Tool

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 41.44   (req: < 5)

Gene RIFs: 13   (req: <= 3)

Antibodies: 110   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 41.44   (req: >= 5)

Gene RIFs: 13   (req: > 3)

Antibodies: 110   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 6

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 32

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drugs: 3

Approved Drugs (3)

Explore Approved Drugs

1 – 3 of 3

dipyridamole

PDE6CTclin Enzyme

INHIBITOR Ki : 6.9

sildenafil

PDE6CTclin Enzyme

IC50 : 7.62

tadalafil

PDE6CTclin Enzyme

IC50 : 6.4

Active Ligands (32)

Explore Active Ligands

1 – 10 of 32

CHEMBL4218772

PDE6CTclin Enzyme

IC50 : 8.92

CHEMBL3936651

PDE6CTclin Enzyme

IC50 : 9.89

CHEMBL3900593

PDE6CTclin Enzyme

IC50 : 8.59

CHEMBL4212186

PDE6CTclin Enzyme

IC50 : 8.85

CHEMBL3401745

PDE6CTclin Enzyme

IC50 : 8.28

CHEMBL1463540

PDE6CTclin Enzyme

IC50 : 6.34

CHEMBL4217579

PDE6CTclin Enzyme

IC50 : 8.82

CHEMBL4217054

PDE6CTclin Enzyme

IC50 : 8.92

CHEMBL4462192

PDE6CTclin Enzyme

IC50 : 7.7

CHEMBL4289471

PDE6CTclin Enzyme

IC50 : 6.87

GWAS Traits (13)

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 13

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	3	5	6		82.8
waist-hip ratio	EFO_0004343	3	5	6		80.9
vitamin A measurement	EFO_0004857	1	1	1		62.8
waist circumference	EFO_0004342	1	1	1		56.4
BMI-adjusted waist circumference	EFO_0007789	1	1	1		42.3

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 13

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	6		82.8
waist-hip ratio	EFO_0004343	6		80.9
vitamin A measurement	EFO_0004857	1		62.8
waist circumference	EFO_0004342	1		56.4
BMI-adjusted waist circumference	EFO_0007789	1		42.3

Reset Zoom  Beta Count   Odds Ratio

Orthologs (8)

1 – 5 of 8

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	phosphodiesterase 6C	VGNC:7246	740456
Macaque	phosphodiesterase 6C		700261
Mouse	phosphodiesterase 6C, cGMP specific, cone, alpha prime	MGI:105956	110855
Rat	phosphodiesterase 6C	RGD:1309844	361752
Dog	phosphodiesterase 6C	VGNC:44359	486805

Species	Name	OMA	EggNOG	Inparanoid
Chimp	phosphodiesterase 6C
Macaque	phosphodiesterase 6C
Mouse	phosphodiesterase 6C, cGMP specific, cone, alpha prime
Rat	phosphodiesterase 6C
Dog	phosphodiesterase 6C

Protein Structure (3 Structures, 1 AlphaFold Model)

tutorial

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-P51160-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 3 of 3

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (5)

KEGG (2)

PathwayCommons (2)

WikiPathways (1)

Find Similar Targets

Items per page:

5

1 – 2 of 2

Data Source	Name	Explore in Pharos	Explore in Source
KEGG	Metabolic pathways	1433 targets	path:hsa01100
KEGG	Purine metabolism	127 targets	path:hsa00230

Name	Explore in Pharos	Explore in Source
Metabolic pathways	1433 targets	path:hsa01100
Purine metabolism	127 targets	path:hsa00230

Gene Ontology Terms (7)

Functions (3)

Components (1)

Processes (3)

Find Similar Targets

Items per page:

10

1 – 3 of 3

GO Term	Evidence	Assigned by
3',5'-cyclic-GMP phosphodiesterase activity	Inferred from Electronic Annotation (IEA)	UniProtKB-EC
cGMP binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW
metal ion binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Protein-Protein Interactions (108)

Explore Interacting Targets

1 – 10 of 108

• See Interactions on String-DB

CNGB3

Tchem

Family:  IC

Novelty:  0.01174942

Score:  0.995

Data Source:  STRINGDB

PDE6H

Tclin

Family:  Enzyme

Novelty:  0.0524804

Score:  0.992

Data Source:  STRINGDB

GNAT2

Tbio

Novelty:  0.01683655

Score:  0.989

Data Source:  STRINGDB

CNGA3

Tchem

Family:  IC

Novelty:  0.00818181

Score:  0.982

Data Source:  STRINGDB

GNGT1

Tbio

Novelty:  0.05291961

Score:  0.943

Data Source:  STRINGDB

RGS9BP

Tbio

Novelty:  0.04608613

Score:  0.939

Data Source:  STRINGDB

GNG11

Tbio

Novelty:  0.10721743

Score:  0.93

Data Source:  STRINGDB

GNB5

Tbio

Novelty:  0.0067714

Score:  0.912

Data Source:  STRINGDB

RGS9

Tbio

Novelty:  0.06662559

Score:  0.9

Data Source:  STRINGDB

GUCY2D

Tbio

Family:  Kinase

Novelty:  0.00578343

Score:  0.857

Data Source:  STRINGDB

Publication Statistics

PubMed Score  41.44

PubMed score by year

Reset Zoom

PubTator Score  21.3

PubTator score by year

Reset Zoom

Amino Acid Sequence

Residue Counts

Protein Sequence

Show Full Sequence

ProtVista Viewer

Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Cell membrane
cGMP
cGMP-binding
Complete proteome
Disease mutation
Hydrolase
Lipoprotein
Membrane
Metal-binding

GWAS Trait Find Similar Targets

No Header	No Header
beta-amyloid 1-42 measurement
BMI-adjusted waist circumference
BMI-adjusted waist-hip ratio
cerebrospinal fluid biomarker measurement
fasting blood glucose measurement
glucose measurement
high density lipoprotein cholesterol measurement
optic disc area measurement
reticulocyte count
triglyceride measurement

MGI Phenotype Find Similar Targets

No Header	No Header
nervous system phenotype
vision/eye phenotype