PRKG1

protein-coding

protein kinase cGMP-dependent 1, the group of MicroRNA protein coding host genes|AGC family kinases

Gene summary

Mammals have three different isoforms of cyclic GMP-dependent protein kinase (Ialpha, Ibeta, and II). These PRKG isoforms act as key mediators of the nitric oxide/cGMP signaling pathway and are important components of many signal transduction processes in diverse cell types. This PRKG1 gene on human chromosome 10 encodes the soluble Ialpha and Ibeta isoforms of PRKG by alternative transcript splicing. A separate gene on human chromosome 4, PRKG2, encodes the membrane-bound PRKG isoform II. The PRKG1 proteins play a central role in regulating cardiovascular and neuronal functions in addition to relaxing smooth muscle tone, preventing platelet aggregation, and modulating cell growth. This gene is most strongly expressed in all types of smooth muscle, platelets, cerebellar Purkinje cells, hippocampal neurons, and the lateral amygdala. Isoforms Ialpha and Ibeta have identical cGMP-binding and catalytic domains but differ in their leucine/isoleucine zipper and autoinhibitory sequences and therefore differ in their dimerization substrates and kinase enzyme activity. [provided by RefSeq, Sep 2011]

Previous symbols:
  • PRKGR1B
  • PRKG1B

MANE transcript

NM_006258.4

Inheritance

AD

ClinVar variants

P:1U:375B:298

Top phenotype

Aortic aneurysm, familial thoracic 8

gnomAD constraint

pLI —, LoF o/e 0.1

Max pathogenic AF

—

Genomic locus

chr10:50,990,888-52,298,423

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~1,307.5 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

aortic aneurysm, familial thoracic 8STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0014187

Submitter: Labcorp Genetics (formerly Invitae)

familial thoracic aortic aneurysm and aortic dissectionSTRONG

Inheritance Pattern: Unknown

Disease ID:MONDO:0019625

Submitter: ClinGen

aortic aneurysm, familial thoracic 8MODERATE

Inheritance Pattern: AD

Disease ID:MONDO:0014187

Submitter: Ambry Genetics

aortic aneurysm, familial thoracic 8STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0014187

Submitter: PanelApp Australia

familial thoracic aortic aneurysm and aortic dissectionSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0019625

Submitter: Orphanet

Clinical Genomic Database (CGD)

Aortic aneurysm, familial thoracic 8AD

Manifestation: Cardiovascular

Intervention: Cardiovascular

Rationale: Individuals have been described as suffering from sudden death secondary to aortic dissection/rupture, and surveillance and preventive measures, as well as early treatment of disease-related manifestations (including aortic aneurysms as well as other vascular anomalies), may help ameloriate morbidity and mortality

Refs: 16646045; 23910461Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to PRKG1 variants in ClinVar

9 Conditions Cataloged
Aortic aneurysm, familial thoracic 8Total: 604
Familial thoracic aortic aneurysm and aortic dissectionTotal: 385
not specifiedTotal: 194
not providedTotal: 180
PRKG1-related disorderTotal: 31
Connective tissue disorderTotal: 12
Cardiovascular phenotypeTotal: 1
SchizophreniaTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_006258.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
2
clinvar
284
clinvar
4
clinvar
290
missense
1
clinvar
356
clinvar
10
clinvar
367
nonsense
7
clinvar
7
start loss
0
frameshift
5
clinvar
5
splice donor/acceptor (+/-2bp)
5
clinvar
5
Total103752944674

Highest pathogenic variant AF is 6.849597e-7

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 16 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_006258.4RefSeqNP_006249.118MANE Select
ENST00000373980.11EnsemblENSP00000363092.518MANE Select
NM_001098512.3RefSeqNP_001091982.118Standard
NM_001374781.1RefSeqNP_001361710.18Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Platelet activation - Homo sapiens (human)
  • Regulation of lipolysis in adipocytes - Homo sapiens (human)
  • Long-term depression - Homo sapiens (human)
  • Gap junction - Homo sapiens (human)
  • Circadian entrainment - Homo sapiens (human)

Biological Process

  • neuron migration
  • protein phosphorylation
  • signal transduction
  • dendrite development
  • cGMP-mediated signaling

Molecular Function

  • protein kinase activity
  • protein serine/threonine kinase activity
  • cGMP-dependent protein kinase activity
  • calcium channel regulator activity
  • protein binding

Cellular Component

  • cytoplasm
  • Golgi apparatus
  • cytosol
  • plasma membrane

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000373980
Coding exons
18
Length
1307166
Individuals with no LoFs
125722
Homozygous LoFs
0
Heterozygous LoFs
7
Defined
125729
p
0.0000278
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.982113730.5660.00001844538
Missense (PolyPhen)58130.270.445241703
Synonymous-0.9311501361.100.000007131241
Loss of Function5.19438.90.1030.00000190490

Population LoF Frequency

PopulationCAFp-valueStatus
African00.0absent
Latino/Admixed American0.0000290.000029rare
Ashkenazi Jewish00.0absent
East Asian00.0absent
Finnish0.0000940.000092rare
European (Non-Finnish)0.0000350.000035rare
South Asian00.0absent
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Serine/threonine protein kinase that acts as key mediator of the nitric oxide (NO)/cGMP signaling pathway. GMP binding activates PRKG1, which phosphorylates serines and threonines on many cellular proteins. Numerous protein targets for PRKG1 phosphorylation are implicated in modulating cellular calcium, but the contribution of each of these targets may vary substantially among cell types. Proteins that are phosphorylated by PRKG1 regulate platelet activation and adhesion, smooth muscle contraction, cardiac function, gene expression, feedback of the NO-signaling pathway, and other processes involved in several aspects of the CNS like axon guidance, hippocampal and cerebellar learning, circadian rhythm and nociception. Smooth muscle relaxation is mediated through lowering of intracellular free calcium, by desensitization of contractile proteins to calcium, and by decrease in the contractile state of smooth muscle or in platelet activation. Regulates intracellular calcium levels via several pathways: phosphorylates MRVI1/IRAG and inhibits IP3- induced Ca(2+) release from intracellular stores, phosphorylation of KCNMA1 (BKCa) channels decreases intracellular Ca(2+) levels, which leads to increased opening of this channel. PRKG1 phosphorylates the canonical transient receptor potential channel (TRPC) family which inactivates the associated inward calcium current. Another mode of action of NO/cGMP/PKGI signaling involves PKGI-mediated inactivation of the Ras homolog gene family member A (RhoA). Phosphorylation of RHOA by PRKG1 blocks the action of this protein in myriad processes: regulation of RHOA translocation; decreasing contraction; controlling vesicle trafficking, reduction of myosin light chain phosphorylation resulting in vasorelaxation. Activation of PRKG1 by NO signaling alters also gene expression in a number of tissues. In smooth muscle cells, increased cGMP and PRKG1 activity influence expression of smooth muscle-specific contractile proteins, levels of proteins in the NO/cGMP signaling pathway, down-regulation of the matrix proteins osteopontin and thrombospondin-1 to limit smooth muscle cell migration and phenotype. Regulates vasodilator-stimulated phosphoprotein (VASP) functions in platelets and smooth muscle. {ECO:0000269|PubMed:10567269, ECO:0000269|PubMed:11162591, ECO:0000269|PubMed:11723116, ECO:0000269|PubMed:12082086, ECO:0000269|PubMed:14608379, ECO:0000269|PubMed:15194681, ECO:0000269|PubMed:16990611, ECO:0000269|PubMed:8182057}.;
Disease
DISEASE: Aortic aneurysm, familial thoracic 8 (AAT8) [MIM:615436]: A disease characterized by permanent dilation of the thoracic aorta usually due to degenerative changes in the aortic wall. It is primarily associated with a characteristic histologic appearance known as 'medial necrosis' or 'Erdheim cystic medial necrosis' in which there is degeneration and fragmentation of elastic fibers, loss of smooth muscle cells, and an accumulation of basophilic ground substance. {ECO:0000269|PubMed:23910461}. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.707

Intolerance Scores

LoFtool
0.0367
RVIS EVS
-0.8
RVIS percentile EVS
12.46

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.985

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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