Human Gene KSR1 (ENST00000398988.7) from GENCODE V44
  Description: Homo sapiens kinase suppressor of ras 1 (KSR1), transcript variant 1, mRNA. (from RefSeq NM_014238)
Gencode Transcript: ENST00000398988.7
Gencode Gene: ENSG00000141068.16
Transcript (Including UTRs)
   Position: hg38 chr17:27,472,010-27,626,438 Size: 154,429 Total Exon Count: 22 Strand: +
Coding Region
   Position: hg38 chr17:27,577,531-27,621,935 Size: 44,405 Coding Exon Count: 19 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:27,472,010-27,626,438)mRNA (may differ from genome)Protein (762 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: KSR1_HUMAN
DESCRIPTION: RecName: Full=Kinase suppressor of Ras 1;
FUNCTION: Location-regulated scaffolding protein connecting MEK to RAF. Promotes MEK and RAF phosphorylation and activity through assembly of an activated signaling complex. By itself, it has no demonstrated kinase activity.
SUBUNIT: Interacts with HSPCA/HSP90, YWHAB/14-3-3, CDC37, MAP2K/MEK, MARK3, PPP2R1A and PPP2CA. Also interacts with RAF and MAPK/ERK, in a Ras-dependent manner (By similarity). The binding of 14-3-3 proteins to phosphorylated KSR prevents the membrane localization. Interacts with isoform 1 of VRK2.
INTERACTION: Q86Y07:VRK2; NbExp=4; IntAct=EBI-486984, EBI-1207615;
SUBCELLULAR LOCATION: Cytoplasm. Membrane; Peripheral membrane protein (By similarity). Endoplasmic reticulum membrane. Note=In unstimulated cells, where the phosphorylated form is bound to a 14-3-3 protein, sequestration in the cytoplasm occurs. Following growth factor treatment, the protein is free for membrane translocation, and it moves from the cytoplasm to the cell periphery (By similarity).
PTM: Phosphorylated on Ser-309 and, to a higher extent, on Ser-404 by MARK3. Dephosphorylated on Ser-404 by PPP2CA. In resting cells, phosphorylated KSR1 is cytoplasmic and in stimulated cells, dephosphorylated KSR1 is membrane-associated (By similarity).
SIMILARITY: Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family.
SIMILARITY: Contains 1 phorbol-ester/DAG-type zinc finger.
SIMILARITY: Contains 1 protein kinase domain.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.32 RPKM in Pancreas
Total median expression: 214.03 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 -164.70445-0.370 Picture PostScript Text
3' UTR -1662.904503-0.369 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
IPR011009 - Kinase-like_dom
IPR025561 - KSR_SAM-like_dom
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR000719 - Prot_kinase_cat_dom
IPR001245 - Ser-Thr/Tyr_kinase_cat_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF13543 - SAM like domain present in kinase suppressor RAS 1
PF07714 - Protein tyrosine kinase

ModBase Predicted Comparative 3D Structure on Q8IVT5
FrontTopSide
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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004672 protein kinase activity
GO:0004871 signal transducer activity
GO:0005078 MAP-kinase scaffold activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008022 protein C-terminus binding
GO:0031434 mitogen-activated protein kinase kinase binding
GO:0046872 metal ion binding
GO:0051087 chaperone binding
GO:0051879 Hsp90 protein binding
GO:0071889 14-3-3 protein binding

Biological Process:
GO:0000165 MAPK cascade
GO:0006468 protein phosphorylation
GO:0007265 Ras protein signal transduction
GO:0019933 cAMP-mediated signaling
GO:0035556 intracellular signal transduction
GO:0042127 regulation of cell proliferation
GO:0043405 regulation of MAP kinase activity
GO:0043410 positive regulation of MAPK cascade

Cellular Component:
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0032587 ruffle membrane
GO:0032991 macromolecular complex
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  U43586 - Human kinase suppressor of ras-1 (KSR1) mRNA, partial cds.
BC035488 - Homo sapiens kinase suppressor of ras 1, mRNA (cDNA clone IMAGE:5166671).
BC042106 - Homo sapiens kinase suppressor of ras 1, mRNA (cDNA clone IMAGE:5168484), partial cds.
AK130719 - Homo sapiens cDNA FLJ27209 fis, clone SYN03476.
JD400182 - Sequence 381206 from Patent EP1572962.
BC167812 - Synthetic construct Homo sapiens clone IMAGE:100068202, MGC:195819 kinase suppressor of ras 1 (KSR1) mRNA, encodes complete protein.
JD495312 - Sequence 476336 from Patent EP1572962.
JD320899 - Sequence 301923 from Patent EP1572962.
JD125172 - Sequence 106196 from Patent EP1572962.
DQ578239 - Homo sapiens piRNA piR-46351, complete sequence.
BC037586 - Homo sapiens kinase suppressor of ras 1, mRNA (cDNA clone IMAGE:5194476), with apparent retained intron.
JD384308 - Sequence 365332 from Patent EP1572962.
JD384309 - Sequence 365333 from Patent EP1572962.
JD108940 - Sequence 89964 from Patent EP1572962.
JD159312 - Sequence 140336 from Patent EP1572962.
DQ587176 - Homo sapiens piRNA piR-54288, complete sequence.
AK124344 - Homo sapiens cDNA FLJ42353 fis, clone UTERU2007520.
AK095721 - Homo sapiens cDNA FLJ38402 fis, clone FEBRA2008210.
JD364082 - Sequence 345106 from Patent EP1572962.
JD207370 - Sequence 188394 from Patent EP1572962.
JD368498 - Sequence 349522 from Patent EP1572962.
JD295813 - Sequence 276837 from Patent EP1572962.
JD489616 - Sequence 470640 from Patent EP1572962.
JD535144 - Sequence 516168 from Patent EP1572962.
JD402631 - Sequence 383655 from Patent EP1572962.
JD164490 - Sequence 145514 from Patent EP1572962.
JD251799 - Sequence 232823 from Patent EP1572962.
JD557646 - Sequence 538670 from Patent EP1572962.
JD463373 - Sequence 444397 from Patent EP1572962.
JD233199 - Sequence 214223 from Patent EP1572962.
JD115931 - Sequence 96955 from Patent EP1572962.
JD365796 - Sequence 346820 from Patent EP1572962.
JD347847 - Sequence 328871 from Patent EP1572962.
JD065032 - Sequence 46056 from Patent EP1572962.
JD072681 - Sequence 53705 from Patent EP1572962.
JD545713 - Sequence 526737 from Patent EP1572962.
JD285624 - Sequence 266648 from Patent EP1572962.
JD163558 - Sequence 144582 from Patent EP1572962.
JD560597 - Sequence 541621 from Patent EP1572962.
JD298675 - Sequence 279699 from Patent EP1572962.
JD522137 - Sequence 503161 from Patent EP1572962.
JD109359 - Sequence 90383 from Patent EP1572962.
JD149930 - Sequence 130954 from Patent EP1572962.
JD486966 - Sequence 467990 from Patent EP1572962.
JD243036 - Sequence 224060 from Patent EP1572962.
JD237057 - Sequence 218081 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8IVT5 (Reactome details) participates in the following event(s):

R-HSA-5672948 MARK3 phosphorylates KSR1
R-HSA-5674019 BRAP binds KSR1:MARK3
R-HSA-5672958 YWHAB dimer dissociates from KSR1:MARK3
R-HSA-5672954 p-S311,S406 KSR1:MARK3 binds YWHAB dimer
R-HSA-5672957 PP2A dephosphorylates KSR1
R-HSA-5672972 MAP2Ks and MAPKs bind to the activated RAF complex
R-HSA-6802912 High kinase activity BRAF mutants bind MAP2Ks and MAPKs
R-HSA-6802914 RAS:GTP:moderate kinase activity p-RAF complexes bind MAP2Ks and MAPKs
R-HSA-6802925 Mutant RAS:p-RAF complexes bind MAP2Ks and MAPKs
R-HSA-6802934 p-BRAF and RAF fusion dimers bind MAP2Ks and MAPKs
R-HSA-6802942 RAS:GTP:p-RAF complexes paradoxically bind MAP2Ks and MAPKs
R-HSA-5672980 Dissociation of RAS:RAF complex
R-HSA-6802932 Dissociation of BRAF/RAF fusion complex
R-HSA-6803227 Dissociation of high activity BRAF complexes
R-HSA-6803230 Dissociation of moderate activity BRAF complexes
R-HSA-6803233 Dissociation of oncogenic RAS:RAF complex
R-HSA-6803234 Dissociation of paradoxically activated RAS:BRAF complexes
R-HSA-5672966 RAS:GTP:'activator' RAF homo/heterodimerizes with other RAF monomers
R-HSA-5672950 "Activator" RAF:YWHAB dimer binds RAS:GTP
R-HSA-5675431 PP2A dephosphorylates RAF1
R-HSA-5675417 PEBP1 binds activated RAF1
R-HSA-5675433 PP5 dephosphorylates RAF1 S338
R-HSA-5672978 RAF phosphorylates MAP2K dimer
R-HSA-5672973 MAP2Ks phosphorylate MAPKs
R-HSA-6802918 Activated MAP2Ks phosphorylate MAPKs downstream of inactive BRAF mutants
R-HSA-6802943 RAS:GTP:inactive p-RAF complexes phosphorylate MAP2Ks
R-HSA-6802919 RAS:GTP:moderate kinase activity p-RAF complexes phosphorylate MAP2Ks
R-HSA-6802921 Activated MAP2Ks phosphorylate MAPKs downstream of moderate kinase activity BRAF mutants
R-HSA-6802911 High kinase activity BRAF complexes phosphorylate MAP2Ks
R-HSA-6802910 Activated MAP2Ks phosphorylate MAPKs downstream of high kinase activity BRAF mutants
R-HSA-6802926 Mutant RAS:p-RAF complexes phosphorylate MAP2Ks
R-HSA-6802922 Activated MAP2Ks phosphorylate MAPKs downstream of oncogenic RAS
R-HSA-6802933 p-BRAF and RAF fusion dimers phosphorylate MAP2Ks
R-HSA-6802935 MAPKs are phosphorylated downstream of BRAF and RAF fusion dimers
R-HSA-5672969 Phosphorylation of RAF
R-HSA-5673000 RAF activation
R-HSA-5675221 Negative regulation of MAPK pathway
R-HSA-5673001 RAF/MAP kinase cascade
R-HSA-5674135 MAP2K and MAPK activation
R-HSA-6802948 Signaling by high-kinase activity BRAF mutants
R-HSA-6802946 Signaling by moderate kinase activity BRAF mutants
R-HSA-6802949 Signaling by RAS mutants
R-HSA-6802952 Signaling by BRAF and RAF fusions
R-HSA-6802955 Paradoxical activation of RAF signaling by kinase inactive BRAF
R-HSA-5684996 MAPK1/MAPK3 signaling
R-HSA-6802957 Oncogenic MAPK signaling
R-HSA-5683057 MAPK family signaling cascades
R-HSA-5663202 Diseases of signal transduction
R-HSA-162582 Signal Transduction
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000398988.1, ENST00000398988.2, ENST00000398988.3, ENST00000398988.4, ENST00000398988.5, ENST00000398988.6, KSR, KSR1_HUMAN, NM_014238, Q13476, Q8IVT5, uc002gzo.1, uc002gzo.2
UCSC ID: ENST00000398988.7
RefSeq Accession: NM_014238
Protein: Q8IVT5 (aka KSR1_HUMAN)
CCDS: CCDS58532.1

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