Human Gene RPS6KA3 (ENST00000379565.9_14) from GENCODE V47lift37
  Description: ribosomal protein S6 kinase A3 (from RefSeq NM_004586.3)
Gencode Transcript: ENST00000379565.9_14
Gencode Gene: ENSG00000177189.14_21
Transcript (Including UTRs)
   Position: hg19 chrX:20,168,029-20,285,027 Size: 116,999 Total Exon Count: 22 Strand: -
Coding Region
   Position: hg19 chrX:20,173,516-20,284,750 Size: 111,235 Coding Exon Count: 22 

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Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:20,168,029-20,285,027)mRNA (may differ from genome)Protein (740 aa)
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-  Comments and Description Text from UniProtKB
  ID: KS6A3_HUMAN
DESCRIPTION: RecName: Full=Ribosomal protein S6 kinase alpha-3; Short=S6K-alpha-3; EC=2.7.11.1; AltName: Full=90 kDa ribosomal protein S6 kinase 3; Short=p90-RSK 3; Short=p90RSK3; AltName: Full=Insulin-stimulated protein kinase 1; Short=ISPK-1; AltName: Full=MAP kinase-activated protein kinase 1b; Short=MAPK-activated protein kinase 1b; Short=MAPKAP kinase 1b; Short=MAPKAPK-1b; AltName: Full=Ribosomal S6 kinase 2; Short=RSK-2; AltName: Full=pp90RSK2;
FUNCTION: Serine/threonine-protein kinase that acts downstream of ERK (MAPK1/ERK2 and MAPK3/ERK1) signaling and mediates mitogenic and stress-induced activation of the transcription factors CREB1, ETV1/ER81 and NR4A1/NUR77, regulates translation through RPS6 and EIF4B phosphorylation, and mediates cellular proliferation, survival, and differentiation by modulating mTOR signaling and repressing pro-apoptotic function of BAD and DAPK1. In fibroblast, is required for EGF-stimulated phosphorylation of CREB1 and histone H3 at 'Ser-10', which results in the subsequent transcriptional activation of several immediate-early genes. In response to mitogenic stimulation (EGF and PMA), phosphorylates and activates NR4A1/NUR77 and ETV1/ER81 transcription factors and the cofactor CREBBP. Upon insulin-derived signal, acts indirectly on the transcription regulation of several genes by phosphorylating GSK3B at 'Ser-9' and inhibiting its activity. Phosphorylates RPS6 in response to serum or EGF via an mTOR- independent mechanism and promotes translation initiation by facilitating assembly of the preinitiation complex. In response to insulin, phosphorylates EIF4B, enhancing EIF4B affinity for the EIF3 complex and stimulating cap-dependent translation. Is involved in the mTOR nutrient-sensing pathway by directly phosphorylating TSC2 at 'Ser-1798', which potently inhibits TSC2 ability to suppress mTOR signaling, and mediates phosphorylation of RPTOR, which regulates mTORC1 activity and may promote rapamycin-sensitive signaling independently of the PI3K/AKT pathway. Mediates cell survival by phosphorylating the pro- apoptotic proteins BAD and DAPK1 and suppressing their pro- apoptotic function. Promotes the survival of hepatic stellate cells by phosphorylating CEBPB in response to the hepatotoxin carbon tetrachloride (CCl4). Is involved in cell cycle regulation by phosphorylating the CDK inhibitor CDKN1B, which promotes CDKN1B association with 14-3-3 proteins and prevents its translocation to the nucleus and inhibition of G1 progression. In LPS-stimulated dendritic cells, is involved in TLR4-induced macropinocytosis, and in myeloma cells, acts as effector of FGFR3-mediated transformation signaling, after direct phosphorylation at Tyr-529 by FGFR3. Phosphorylates DAPK1.
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
COFACTOR: Magnesium (By similarity).
ENZYME REGULATION: Upon extracellular signal or mitogen stimulation, phosphorylated at Thr-577 in the C-terminal kinase domain (CTKD) by MAPK1/ERK2 and MAPK3/ERK1. The activated CTKD then autophosphorylates Ser-386, allowing binding of PDPK1, which in turn phosphorylates Ser-227 in the N-terminal kinase domain (NTDK) leading to the full activation of the protein and subsequent phosphorylation of the substrates by the NTKD.
SUBUNIT: Forms a complex with either MAPK1/ERK2 or MAPK3/ERK1 in quiescent cells. Transiently dissociates following mitogenic stimulation (By similarity). Interacts with NFATC4, ETV1/ER81 and FGFR1.
SUBCELLULAR LOCATION: Nucleus (By similarity). Cytoplasm (By similarity).
TISSUE SPECIFICITY: Expressed in many tissues, highest levels in skeletal muscle.
PTM: Activated by phosphorylation at Ser-227 by PDPK1. Autophosphorylated on Ser-386, as part of the activation process. May be phosphorylated at Thr-365 and Ser-369 by MAPK1/ERK2 and MAPK3/ERK1. Can also be activated via phosphorylation at Ser-386 by MAPKAPK2.
PTM: N-terminal myristoylation results in an activated kinase in the absence of added growth factors.
DISEASE: Defects in RPS6KA3 are the cause of Coffin-Lowry syndrome (CLS) [MIM:303600]. A X-linked mental retardation associated with facial and digital dysmorphisms, progressive skeletal malformations, growth retardation, hearing deficit and paroxysmal movement disorders.
DISEASE: Defects in RPS6KA3 are the cause of mental retardation X- linked type 19 (MRX19) [MIM:300844]. MRX19 is a non-syndromic form of mild to moderate mental retardation. Mental retardation is characterized by significantly below average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period. In contrast to syndromic or specific X-linked mental retardation which also present with associated physical, neurological and/or psychiatric manifestations, intellectual deficiency is the only primary symptom of non-syndromic X-linked mental retardation.
SIMILARITY: Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. S6 kinase subfamily.
SIMILARITY: Contains 1 AGC-kinase C-terminal domain.
SIMILARITY: Contains 2 protein kinase domains.
SEQUENCE CAUTION: Sequence=BAD92170.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/RPS6KA3";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: RPS6KA3
Diseases sorted by gene-association score: coffin-lowry syndrome* (1725), x-linked non-specific intellectual disability* (247), hemorrhoid (8), partington syndrome (7), x-linked disease (5)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 13.88 RPKM in Muscle - Skeletal
Total median expression: 363.42 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -176.70277-0.638 Picture PostScript Text
3' UTR -1365.805487-0.249 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000961 - AGC-kinase_C
IPR011009 - Kinase-like_dom
IPR017892 - Pkinase_C
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
IPR016239 - Ribosomal_S6_kinase_II
IPR002290 - Ser/Thr_dual-sp_kinase_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF00433 - Protein kinase C terminal domain
PF06293 - Lipopolysaccharide kinase (Kdo/WaaP) family
PF07714 - Protein tyrosine and serine/threonine kinase
PF14531 - Kinase-like

SCOP Domains:
56112 - Protein kinase-like (PK-like)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
4D9T - X-ray MuPIT 4D9U - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P51812
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0000287 magnesium ion binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0043027 cysteine-type endopeptidase inhibitor activity involved in apoptotic process
GO:0046872 metal ion binding

Biological Process:
GO:0001501 skeletal system development
GO:0002224 toll-like receptor signaling pathway
GO:0006468 protein phosphorylation
GO:0006915 apoptotic process
GO:0007049 cell cycle
GO:0007165 signal transduction
GO:0007417 central nervous system development
GO:0016310 phosphorylation
GO:0018105 peptidyl-serine phosphorylation
GO:0030307 positive regulation of cell growth
GO:0032496 response to lipopolysaccharide
GO:0035556 intracellular signal transduction
GO:0043066 negative regulation of apoptotic process
GO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043555 regulation of translation in response to stress
GO:0043620 regulation of DNA-templated transcription in response to stress
GO:0045597 positive regulation of cell differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AB208933 - Homo sapiens mRNA for ribosomal protein S6 kinase, 90kDa, polypeptide 3 variant protein.
AK316482 - Homo sapiens cDNA, FLJ79381 complete cds, highly similar to Ribosomal protein S6 kinase alpha-3 (EC 2.7.11.1).
AK296775 - Homo sapiens cDNA FLJ56653 complete cds, highly similar to Ribosomal protein S6 kinase alpha-3 (EC 2.7.11.1).
AK294373 - Homo sapiens cDNA FLJ56618 complete cds, highly similar to Ribosomal protein S6 kinase alpha-3 (EC 2.7.11.1).
BC096301 - Homo sapiens ribosomal protein S6 kinase, 90kDa, polypeptide 3, mRNA (cDNA clone MGC:116978 IMAGE:40007452), complete cds.
BC096302 - Homo sapiens ribosomal protein S6 kinase, 90kDa, polypeptide 3, mRNA (cDNA clone MGC:116979 IMAGE:40007453), complete cds.
BC096303 - Homo sapiens ribosomal protein S6 kinase, 90kDa, polypeptide 3, mRNA (cDNA clone MGC:116981 IMAGE:40007456), complete cds.
GQ891534 - Homo sapiens clone HEL-S-255 epididymis secretory sperm binding protein mRNA, complete cds.
U08316 - Human insulin-stimulated protein kinase 1 (ISPK-1) mRNA, complete cds.
AB102662 - Homo sapiens RPS6KA3 mRNA, partial cds.
AK313932 - Homo sapiens cDNA, FLJ94572, Homo sapiens ribosomal protein S6 kinase, 90kDa, polypeptide 3(RPS6KA3), mRNA.
KJ892053 - Synthetic construct Homo sapiens clone ccsbBroadEn_01447 RPS6KA3 gene, encodes complete protein.
KR711805 - Synthetic construct Homo sapiens clone CCSBHm_00031068 RPS6KA3 (RPS6KA3) mRNA, encodes complete protein.
KR711806 - Synthetic construct Homo sapiens clone CCSBHm_00031082 RPS6KA3 (RPS6KA3) mRNA, encodes complete protein.
KR711807 - Synthetic construct Homo sapiens clone CCSBHm_00031102 RPS6KA3 (RPS6KA3) mRNA, encodes complete protein.
KR711808 - Synthetic construct Homo sapiens clone CCSBHm_00031122 RPS6KA3 (RPS6KA3) mRNA, encodes complete protein.
AB384785 - Synthetic construct DNA, clone: pF1KB3316, Homo sapiens RPS6KA3 gene for ribosomal protein S6 kinase alpha-3, complete cds, without stop codon, in Flexi system.
L07599 - Homo sapiens ribosomal protein S6 kinase 3 (RPS6KA3) mRNA, partial cds.
AK022869 - Homo sapiens cDNA FLJ12807 fis, clone NT2RP2002316.
JD307205 - Sequence 288229 from Patent EP1572962.
JD435051 - Sequence 416075 from Patent EP1572962.
JD529803 - Sequence 510827 from Patent EP1572962.
JD557568 - Sequence 538592 from Patent EP1572962.
JD430533 - Sequence 411557 from Patent EP1572962.
JD401847 - Sequence 382871 from Patent EP1572962.
JD401846 - Sequence 382870 from Patent EP1572962.
JD435050 - Sequence 416074 from Patent EP1572962.
BC015451 - Homo sapiens ribosomal protein S6 kinase, 90kDa, polypeptide 3, mRNA (cDNA clone IMAGE:4429357), with apparent retained intron.
JD458522 - Sequence 439546 from Patent EP1572962.
JD458521 - Sequence 439545 from Patent EP1572962.
JD458515 - Sequence 439539 from Patent EP1572962.
JD056230 - Sequence 37254 from Patent EP1572962.
JD056229 - Sequence 37253 from Patent EP1572962.
JD458514 - Sequence 439538 from Patent EP1572962.
JD271292 - Sequence 252316 from Patent EP1572962.
JD056228 - Sequence 37252 from Patent EP1572962.
JD458513 - Sequence 439537 from Patent EP1572962.
JD462061 - Sequence 443085 from Patent EP1572962.
JD200367 - Sequence 181391 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_gpcrPathway - Signaling Pathway from G-Protein Families
h_mapkPathway - MAPKinase Signaling Pathway

Reactome (by CSHL, EBI, and GO)

Protein P51812 (Reactome details) participates in the following event(s):

R-HSA-198746 ERK1/2/5 activate RSK1/2/3
R-HSA-444253 Phosphorylation by MAPK/ERK
R-HSA-374696 Phosphorylation of L1 by p90rsk
R-HSA-442739 Phosphorylation by PDK1
R-HSA-199895 RSK1/2/3 phosphorylates CREB at Serine 133
R-HSA-3857328 RPS6KA1/2/3 phosphorylates CEBPB on S321
R-NUL-3876071 RPS6KA1/2/3 phosphorylates Cebpb on S273
R-HSA-442724 Phosphorylation of CREB by ribosomal protein S6 kinase
R-HSA-198753 ERK/MAPK targets
R-HSA-881907 Gastrin-CREB signalling pathway via PKC and MAPK
R-HSA-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-HSA-444257 RSK activation
R-HSA-437239 Recycling pathway of L1
R-HSA-198725 Nuclear Events (kinase and transcription factor activation)
R-HSA-450282 MAPK targets/ Nuclear events mediated by MAP kinases
R-HSA-416476 G alpha (q) signalling events
R-HSA-2559583 Cellular Senescence
R-HSA-199920 CREB phosphorylation
R-HSA-442742 CREB phosphorylation through the activation of Ras
R-HSA-373760 L1CAM interactions
R-HSA-187037 Signaling by NTRK1 (TRKA)
R-HSA-450294 MAP kinase activation
R-HSA-388396 GPCR downstream signalling
R-HSA-2262752 Cellular responses to stress
R-HSA-438064 Post NMDA receptor activation events
R-HSA-422475 Axon guidance
R-HSA-166520 Signaling by NTRKs
R-HSA-166058 MyD88:Mal cascade initiated on plasma membrane
R-HSA-168164 Toll Like Receptor 3 (TLR3) Cascade
R-HSA-448424 Interleukin-17 signaling
R-HSA-937061 TRIF(TICAM1)-mediated TLR4 signaling
R-HSA-975138 TRAF6 mediated induction of NFkB and MAP kinases upon TLR7/8 or 9 activation
R-HSA-975871 MyD88 cascade initiated on plasma membrane
R-HSA-372790 Signaling by GPCR
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-442755 Activation of NMDA receptor and postsynaptic events
R-HSA-1266738 Developmental Biology
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-166016 Toll Like Receptor 4 (TLR4) Cascade
R-HSA-168179 Toll Like Receptor TLR1:TLR2 Cascade
R-HSA-168188 Toll Like Receptor TLR6:TLR2 Cascade
R-HSA-168898 Toll-Like Receptors Cascades
R-HSA-449147 Signaling by Interleukins
R-HSA-166166 MyD88-independent TLR4 cascade
R-HSA-975155 MyD88 dependent cascade initiated on endosome
R-HSA-168142 Toll Like Receptor 10 (TLR10) Cascade
R-HSA-168176 Toll Like Receptor 5 (TLR5) Cascade
R-HSA-162582 Signal Transduction
R-HSA-112314 Neurotransmitter receptors and postsynaptic signal transmission
R-HSA-181438 Toll Like Receptor 2 (TLR2) Cascade
R-HSA-168249 Innate Immune System
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168138 Toll Like Receptor 9 (TLR9) Cascade
R-HSA-168181 Toll Like Receptor 7/8 (TLR7/8) Cascade
R-HSA-112315 Transmission across Chemical Synapses
R-HSA-168256 Immune System
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: B2R9V4, ENST00000379565.1, ENST00000379565.2, ENST00000379565.3, ENST00000379565.4, ENST00000379565.5, ENST00000379565.6, ENST00000379565.7, ENST00000379565.8, ISPK1, KS6A3_HUMAN, MAPKAPK1B, NM_004586, P51812, Q4VAP3, Q59H26, Q5JPK8, Q7Z3Z7, RSK2, uc318pbb.1, uc318pbb.2
UCSC ID: ENST00000379565.9_14
RefSeq Accession: NM_004586.3
Protein: P51812 (aka KS6A3_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene RPS6KA3:
cls (RPS6KA3-Related Intellectual Disability)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.