Human Gene RIPK1 (ENST00000259808.9_4) from GENCODE V47lift37
  Description: receptor interacting serine/threonine kinase 1, transcript variant 1 (from RefSeq NM_003804.6)
Gencode Transcript: ENST00000259808.9_4
Gencode Gene: ENSG00000137275.16_11
Transcript (Including UTRs)
   Position: hg19 chr6:3,068,728-3,115,421 Size: 46,694 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr6:3,077,058-3,113,573 Size: 36,516 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:3,068,728-3,115,421)mRNA (may differ from genome)Protein (671 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: RIPK1_HUMAN
DESCRIPTION: RecName: Full=Receptor-interacting serine/threonine-protein kinase 1; EC=2.7.11.1; AltName: Full=Cell death protein RIP; AltName: Full=Receptor-interacting protein 1; Short=RIP-1; AltName: Full=Serine/threonine-protein kinase RIP;
FUNCTION: Serine-threonine kinase which transduces inflammatory and cell-death signals (necroptosis) following death receptors ligation, activation of pathogen recognition receptors (PRRs), and DNA damage. Upon activation of TNFR1 by the TNF-alpha family cytokines, TRADD and TRAF2 are recruited to the receptor. Ubiquitination by TRAF2 via 'Lys-63'-link chains acts as a critical enhancer of communication with downstream signal transducers in the mitogen-activated protein kinase pathway and the NF-kappa-B pathway, which in turn mediate downstream events including the activation of genes encoding inflammatory molecules. Polyubiquitinated protein binds to IKBKG/NEMO, the regulatory subunit of the IKK complex, a critical event for NF-kappa-B activation. Interaction with other cellular RHIM-containing adapters initiates gene activation and cell death. RIPK1 and RIPK3 association, in particular, forms a necroptosis-inducing complex.
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
ENZYME REGULATION: Inhibited by necrostatin-1.
SUBUNIT: Interacts (via RIP homotypic interaction motif) with RIPK3 (via RIP homotypic interaction motif); this interaction induces RIPK1 necroptosis-specific phosphorylation, formation of the necroptosis-inducing complex. Interacts (via the death domain) with TNFRSF6 (via the death domain) and TRADD (via the death domain). Is recruited by TRADD to TNFRSF1A in a TNF-dependent process. Binds RNF216, EGFR, IKBKG, TRAF1, TRAF2 and TRAF3. Interacts with BNLF1. Interacts with SQSTM1 upon TNF-alpha stimulation. May interact with MAVS/IPS1. Interacts with ZFAND5. Interacts with RBCK1 (By similarity). Interacts with BIRC2/c-IAP1, BIRC3/c-IAP2 and XIAP/BIRC4.
INTERACTION: Self; NbExp=5; IntAct=EBI-358507, EBI-358507; P04083:ANXA1; NbExp=5; IntAct=EBI-358507, EBI-354007; Q13490:BIRC2; NbExp=3; IntAct=EBI-358507, EBI-514538; Q13489:BIRC3; NbExp=3; IntAct=EBI-358507, EBI-517709; Q92851:CASP10; NbExp=2; IntAct=EBI-358507, EBI-495095; Q14790:CASP8; NbExp=23; IntAct=EBI-358507, EBI-78060; Q8IVM0:CCDC50; NbExp=2; IntAct=EBI-358507, EBI-723996; P48729:CSNK1A1; NbExp=5; IntAct=EBI-358507, EBI-1383726; Q13158:FADD; NbExp=5; IntAct=EBI-358507, EBI-494804; Q9Y6K9:IKBKG; NbExp=6; IntAct=EBI-358507, EBI-81279; Q9Y572:RIPK3; NbExp=24; IntAct=EBI-358507, EBI-298250; P19438:TNFRSF1A; NbExp=6; IntAct=EBI-358507, EBI-299451;
SUBCELLULAR LOCATION: Cytoplasm. Cell membrane (By similarity).
DOMAIN: Contains a C-terminal death domain (DD) that engages other DD-containing proteins as well as a central (intermediate) region important for NF-kB activation and RHIM-dependent signaling.
PTM: Proteolytically cleaved by caspase-8 during TNF-induced apoptosis. Cleavage abolishes NF-kappa-B activation and enhances pro-apoptotic signaling through the TRADD-FADD interaction.
PTM: RIPK1 and RIPK3 undergo reciprocal auto- and trans- phosphorylation. Phosphorylation of Ser-161 by RIPK3 is necessary for the formation of the necroptosis-inducing complex.
PTM: Ubiquitinated by 'Lys-11'-, 'Lys-48'-, 'Lys-63'- and linear- linked type ubiquitin. Polyubiquitination with 'Lys-63'-linked chains by TRAF2 induces association with the IKK complex. Deubiquitination of 'Lys-63'-linked chains and polyubiquitination with 'Lys-48'-linked chains by TNFAIP3 leads to RIPK1 proteasomal degradation and consequently down-regulates TNF-alpha-induced NFkappa-B signaling. Linear polyubiquitinated; the head-to-tail polyubiquitination is mediated by the LUBAC complex. LPS-mediated activation of NF-kappa-B. Also ubiquitinated with 'Lys-11'-linked chains. Polyubiquitinated with 'Lys-48' and 'Lys-63'-linked chains by BIRC2/c-IAP1 and BIRC3/c-IAP2, leading to activation of NF- kappa-B.
SIMILARITY: Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family.
SIMILARITY: Contains 1 death domain.
SIMILARITY: Contains 1 protein kinase domain.
SEQUENCE CAUTION: Sequence=BAG65471.1; Type=Erroneous initiation;
WEB RESOURCE: Name=SeattleSNPs; URL="http://pga.gs.washington.edu/data/ripk1/";

-  Primer design for this transcript
 

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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

+  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: 16.75 RPKM in Small Intestine - Terminal Ileum
Total median expression: 484.79 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 -107.70228-0.472 Picture PostScript Text
3' UTR -612.901848-0.332 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
IPR000488 - Death
IPR011029 - DEATH-like
IPR011009 - Kinase-like_dom
IPR000719 - Prot_kinase_cat_dom
IPR025735 - RHIM_dom
IPR001245 - Ser-Thr/Tyr_kinase_cat_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF00531 - Death domain
PF07714 - Protein tyrosine and serine/threonine kinase
PF12721 - RIP homotypic interaction motif

SCOP Domains:
47986 - DEATH domain
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q13546
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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    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0004871 signal transducer activity
GO:0005123 death receptor binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0031625 ubiquitin protein ligase binding
GO:0042802 identical protein binding
GO:0044877 macromolecular complex binding
GO:0070513 death domain binding

Biological Process:
GO:0001934 positive regulation of protein phosphorylation
GO:0002756 MyD88-independent toll-like receptor signaling pathway
GO:0006468 protein phosphorylation
GO:0006915 apoptotic process
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0007165 signal transduction
GO:0007249 I-kappaB kinase/NF-kappaB signaling
GO:0007257 activation of JUN kinase activity
GO:0010803 regulation of tumor necrosis factor-mediated signaling pathway
GO:0010940 positive regulation of necrotic cell death
GO:0010942 positive regulation of cell death
GO:0012501 programmed cell death
GO:0016032 viral process
GO:0016310 phosphorylation
GO:0016579 protein deubiquitination
GO:0032757 positive regulation of interleukin-8 production
GO:0032760 positive regulation of tumor necrosis factor production
GO:0033209 tumor necrosis factor-mediated signaling pathway
GO:0034138 toll-like receptor 3 signaling pathway
GO:0034612 response to tumor necrosis factor
GO:0035666 TRIF-dependent toll-like receptor signaling pathway
GO:0036289 peptidyl-serine autophosphorylation
GO:0042327 positive regulation of phosphorylation
GO:0043065 positive regulation of apoptotic process
GO:0043068 positive regulation of programmed cell death
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043124 negative regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043410 positive regulation of MAPK cascade
GO:0044257 cellular protein catabolic process
GO:0045651 positive regulation of macrophage differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0046330 positive regulation of JNK cascade
GO:0046777 protein autophosphorylation
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051260 protein homooligomerization
GO:0051291 protein heterooligomerization
GO:0060545 positive regulation of necroptotic process
GO:0070231 T cell apoptotic process
GO:0070266 necroptotic process
GO:0070926 regulation of ATP:ADP antiporter activity
GO:0071356 cellular response to tumor necrosis factor
GO:0071363 cellular response to growth factor stimulus
GO:0071550 death-inducing signaling complex assembly
GO:0097190 apoptotic signaling pathway
GO:0097191 extrinsic apoptotic signaling pathway
GO:0097343 ripoptosome assembly
GO:0097527 necroptotic signaling pathway
GO:1901026 ripoptosome assembly involved in necroptotic process
GO:1902041 regulation of extrinsic apoptotic signaling pathway via death domain receptors
GO:1902042 negative regulation of extrinsic apoptotic signaling pathway via death domain receptors
GO:1905206 positive regulation of hydrogen peroxide-induced cell death
GO:1990000 amyloid fibril formation
GO:2000377 regulation of reactive oxygen species metabolic process
GO:2000379 positive regulation of reactive oxygen species metabolic process
GO:2001237 negative regulation of extrinsic apoptotic signaling pathway
GO:2001238 positive regulation of extrinsic apoptotic signaling pathway
GO:2001240 negative regulation of extrinsic apoptotic signaling pathway in absence of ligand

Cellular Component:
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0010008 endosome membrane
GO:0016020 membrane
GO:0031264 death-inducing signaling complex
GO:0032991 macromolecular complex
GO:0043235 receptor complex
GO:0045121 membrane raft
GO:0097342 ripoptosome


-  Descriptions from all associated GenBank mRNAs
  AK314176 - Homo sapiens cDNA, FLJ94895, highly similar to Homo sapiens receptor (TNFRSF)-interacting serine-threonine kinase1 (RIPK1), mRNA.
AB208926 - Homo sapiens mRNA for receptor (TNFRSF)-interacting serine-threonine kinase 1 variant protein.
BC126254 - Homo sapiens receptor (TNFRSF)-interacting serine-threonine kinase 1, mRNA (cDNA clone MGC:161532 IMAGE:8991970), complete cds.
BC126256 - Homo sapiens receptor (TNFRSF)-interacting serine-threonine kinase 1, mRNA (cDNA clone MGC:161534 IMAGE:8991972), complete cds.
HQ258488 - Synthetic construct Homo sapiens clone IMAGE:100072917 receptor (TNFRSF)-interacting serine-threonine kinase 1 (RIPK1) (RIPK1) gene, encodes complete protein.
U50062 - Homo sapiens RIP protein kinase mRNA, complete cds.
AK304701 - Homo sapiens cDNA FLJ54258 complete cds, highly similar to Receptor-interacting serine/threonine-protein kinase 1 (EC 2.7.11.1).
U25994 - Human cell death protein (RIP) mRNA, partial cds.
AK096523 - Homo sapiens cDNA FLJ39204 fis, clone OCBBF2005476, highly similar to Receptor-interacting serine/threonine-protein kinase 1 (EC 2.7.11.1).
JD025636 - Sequence 6660 from Patent EP1572962.
JD034121 - Sequence 15145 from Patent EP1572962.
JD024031 - Sequence 5055 from Patent EP1572962.
JD029054 - Sequence 10078 from Patent EP1572962.
JD314049 - Sequence 295073 from Patent EP1572962.
JD234043 - Sequence 215067 from Patent EP1572962.
JD108090 - Sequence 89114 from Patent EP1572962.
JD245819 - Sequence 226843 from Patent EP1572962.
JD290902 - Sequence 271926 from Patent EP1572962.
JD157789 - Sequence 138813 from Patent EP1572962.
JD477665 - Sequence 458689 from Patent EP1572962.
JD195315 - Sequence 176339 from Patent EP1572962.
JD402163 - Sequence 383187 from Patent EP1572962.
JD163211 - Sequence 144235 from Patent EP1572962.
JD231283 - Sequence 212307 from Patent EP1572962.
JD510159 - Sequence 491183 from Patent EP1572962.
JD084694 - Sequence 65718 from Patent EP1572962.
JD302891 - Sequence 283915 from Patent EP1572962.
JD551101 - Sequence 532125 from Patent EP1572962.
AJ420482 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1678427.
JD202969 - Sequence 183993 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_HivnefPathway - HIV-I Nef: negative effector of Fas and TNF
h_ceramidePathway - Ceramide Signaling Pathway
h_nfkbPathway - NF-kB Signaling Pathway
h_keratinocytePathway - Keratinocyte Differentiation
h_RELAPathway - Acetylation and Deacetylation of RelA in The Nucleus
h_mapkPathway - MAPKinase Signaling Pathway
h_p38mapkPathway - p38 MAPK Signaling Pathway
h_soddPathway - SODD/TNFR1 Signaling Pathway
h_tnfr1Pathway - TNFR1 Signaling Pathway
h_deathPathway - Induction of apoptosis through DR3 and DR4/5 Death Receptors
h_stressPathway - TNF/Stress Related Signaling
h_tnfr2Pathway - TNFR2 Signaling Pathway

Reactome (by CSHL, EBI, and GO)

Protein Q13546 (Reactome details) participates in the following event(s):

R-HSA-83656 TNF:TNFR1 binds TRADD, TRAF2 and RIPK1
R-HSA-168921 TRIF:activated TLR3/TLR4 complex recruits RIP1
R-HSA-168930 Viral dsRNA:TLR3:TRIF complex recruits RIP1
R-HSA-168934 MAVS interacts with RIPK1 and FADD
R-HSA-1810457 ZBP1(DAI) recruits RIP1 and RIP3
R-HSA-5213462 RIPK3 binds RIPK1
R-HSA-5634221 TRAF1 binds TRAF2 within TNFR1 signaling complex
R-HSA-140978 TRADD:TRAF2:RIP1 complex binds FADD
R-HSA-83582 TRADD:TRAF2:RIP1 complex dissociates from the TNF-alpha:TNF-R1 complex.
R-HSA-5357780 TNF:TNFR1:TRADD:TRAF2:RIPK1 recruits BIRC2/3 (cIAP1/2)
R-HSA-168915 K63-linked ubiquitination of RIP1 bound to the activated TLR complex
R-HSA-2562541 TLR4-induced ripoptosome assembly
R-HSA-933526 Recruitment of caspase-8 and -10 to FADD complex
R-HSA-2562564 Caspase-8 processing within TLR4 complex
R-HSA-5213464 RIPK1 is phosphorylated
R-HSA-5690827 TNFAIP3 (A20) ubiquitinates RIPK1
R-HSA-5690856 TNFAIP3 (A20) deubiquitinates K63polyUb-RIPK1
R-HSA-9013895 Caspase-8 processing within TLR3 complex
R-HSA-9013889 TLR3-induced ripoptosome assembly
R-HSA-5696627 CYLD deubiquitinates K63polyUb-TRAF2,K63polyUb-TRAF6,K63polyUb-RIPK1,K63polyUb-IKBKG
R-HSA-9014342 K63-linked ubiquitination of RIP1 bound to the activated TLR complex
R-HSA-937029 IKBKG subunit of IKK complex binds polyubiquinated RIP1
R-HSA-9014343 IKBKG subunit of IKK complex binds K63pUb- RIP1 within the TLR3 complex
R-HSA-5357860 TNF:TNFR1:TRADD:TRAF2:K63polyUb-RIPK1:BIRC2/3 recruits TAK1 complex
R-HSA-5357904 TNF:TNFR1:TRADD:TRAF2:RIPK1 binds LUBAC
R-HSA-5357928 CLIP3 and CYLD bind TNF signaling complex
R-HSA-5693055 TAX1BP1:TNFAIP3(A20) binds RIPK1-containing complexes
R-HSA-5357757 BIRC(cIAP1/2) ubiquitinates RIPK1
R-HSA-5213466 RIPK3 is phosphorylated
R-HSA-75240 TRADD:TRAF2:RIP1:FADD complex binds Pro-Caspase 8
R-HSA-5693108 TNFAIP3 (A20) ubiquitinates RIPK1 with K48-linked Ub chains
R-HSA-2569057 RIP3 binds TRIF to mediate necroptosis
R-HSA-933523 Dimerzation of procaspase-8, procaspase-10
R-HSA-933539 Recruitment of IKK complex
R-HSA-5690159 USP21 deubiquitinates RIPK1,DDX58
R-HSA-9013963 RIP3 binds TICAM1 within TLR3 complex to mediate necroptosis
R-HSA-5357776 TNF:TNFR1:TRADD:TRAF2:K63polyUb-RIPK1:BIRC2,3:LUBAC recruits IKKA:IKBKB:IKBKG
R-HSA-141159 TNF-mediated dimerization of procaspase-8
R-HSA-3371360 FLIP(L) and procaspase-8 form heterodimer in TNF signaling
R-HSA-933532 Processing of caspases
R-HSA-3465429 FLIP(S) and procaspase-8 form heterodimer
R-HSA-5675456 FLIP(L) and procaspase-8 form heterodimer
R-HSA-75893 TNF signaling
R-HSA-937041 IKK complex recruitment mediated by RIP1
R-HSA-168927 TICAM1, RIP1-mediated IKK complex recruitment
R-HSA-933543 NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10
R-HSA-1810476 RIP-mediated NFkB activation via ZBP1
R-HSA-5213460 RIPK1-mediated regulated necrosis
R-HSA-5357905 Regulation of TNFR1 signaling
R-HSA-5675482 Regulation of necroptotic cell death
R-HSA-5357786 TNFR1-induced proapoptotic signaling
R-HSA-5357956 TNFR1-induced NFkappaB signaling pathway
R-HSA-2562578 TRIF-mediated programmed cell death
R-HSA-140534 Ligand-dependent caspase activation
R-HSA-5689896 Ovarian tumor domain proteases
R-HSA-9013957 TLR3-mediated TICAM1-dependent programmed cell death
R-HSA-5689880 Ub-specific processing proteases
R-HSA-73887 Death Receptor Signalling
R-HSA-937061 TRIF(TICAM1)-mediated TLR4 signaling
R-HSA-168164 Toll Like Receptor 3 (TLR3) Cascade
R-HSA-168928 DDX58/IFIH1-mediated induction of interferon-alpha/beta
R-HSA-1606322 ZBP1(DAI) mediated induction of type I IFNs
R-HSA-5218859 Regulated Necrosis
R-HSA-5357769 Caspase activation via extrinsic apoptotic signalling pathway
R-HSA-5688426 Deubiquitination
R-HSA-162582 Signal Transduction
R-HSA-166166 MyD88-independent TLR4 cascade
R-HSA-168898 Toll-Like Receptors Cascades
R-HSA-168249 Innate Immune System
R-HSA-1834949 Cytosolic sensors of pathogen-associated DNA
R-HSA-5357801 Programmed Cell Death
R-HSA-69416 Dimerization of procaspase-8
R-HSA-3371378 Regulation by c-FLIP
R-HSA-109581 Apoptosis
R-HSA-597592 Post-translational protein modification
R-HSA-166016 Toll Like Receptor 4 (TLR4) Cascade
R-HSA-168256 Immune System
R-HSA-5218900 CASP8 activity is inhibited
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A0AV89, B2RAG1, B4E3F9, ENST00000259808.1, ENST00000259808.2, ENST00000259808.3, ENST00000259808.4, ENST00000259808.5, ENST00000259808.6, ENST00000259808.7, ENST00000259808.8, NM_003804, Q13180, Q13546, Q59H33, RIP , RIP1 , RIPK1 , RIPK1_HUMAN, uc317ghu.1, uc317ghu.2
UCSC ID: ENST00000259808.9_4
RefSeq Accession: NM_001354930.2
Protein: Q13546 (aka RIPK1_HUMAN or RIK1_HUMAN)

-  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.