CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-021056
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Regulator of nonsense transcripts 1 
Protein Synonyms/Alias
 ATP-dependent helicase RENT1; Nonsense mRNA reducing factor 1; NORF1; Up-frameshift suppressor 1 homolog; mUpf1 
Gene Name
 Upf1 
Gene Synonyms/Alias
 Rent1 
Created Date
 July 27, 2013 
Organism
 Mus musculus (Mouse) 
NCBI Taxa ID
 10090 
Lysine Modification
Position
Peptide
Type
References
259ITAQQINKLEELWKEubiquitination[1]
277ATLEDLEKPGVDEEPubiquitination[1]
373DEICLRYKGDLAPLWubiquitination[1]
381GDLAPLWKGIGHVIKubiquitination[1]
434DRMQSALKTFAVDETubiquitination[1]
462EVEDVVIKCQLPKRFubiquitination[1]
582DSMPELQKLQQLKDEubiquitination[1]
633AGDPRLAKMQFRSILubiquitination[1]
683VMCKKAAKAGLSQSLubiquitination[1]
781TEAANVEKITTKLLKubiquitination[1]
785NVEKITTKLLKAGAKubiquitination[1]
788KITTKLLKAGAKPDQubiquitination[1]
924MQFSKPRKLVNTVNPacetylation[2]
924MQFSKPRKLVNTVNPubiquitination[1]
Reference
 [1] Proteomic analyses reveal divergent ubiquitylation site patterns in murine tissues.
 Wagner SA, Beli P, Weinert BT, Schölz C, Kelstrup CD, Young C, Nielsen ML, Olsen JV, Brakebusch C, Choudhary C.
 Mol Cell Proteomics. 2012 Dec;11(12):1578-85. [PMID: 22790023]
 [2] SIRT5-Mediated Lysine Desuccinylation Impacts Diverse Metabolic Pathways.
 Park J, Chen Y, Tishkoff DX, Peng C, Tan M, Dai L, Xie Z, Zhang Y, Zwaans BM, Skinner ME, Lombard DB, Zhao Y.
 Mol Cell. 2013 Jun 27;50(6):919-30. [PMID: 23806337] 
Functional Description
 RNA-dependent helicase and ATPase required for nonsense- mediated decay (NMD) of mRNAs containing premature stop codons. Is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. Recruited by release factors to stalled ribosomes together with the SMG1C protein kinase complex to form the transient SURF (SMG1-UPF1-eRF1- eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) (located 50-55 or more nucleotides downstream from the termination codon) through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Phosphorylated UPF1 is recognized by EST1B/SMG5, SMG6 and SMG7 which are thought to provide a link to the mRNA degradation machinery involving exonucleolytic and endonucleolytic pathways, and to serve as adapters to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. UPF1 can also activate NMD without UPF2 or UPF3, and in the absence of the NMD-enhancing downstream EJC indicative for alternative NMD pathways. Plays a role in replication-dependent histone mRNA degradation at the end of phase S; the function is independent of UPF2. For the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome- bound release factors is proposed. The ATPase activity of UPF1 is required for disassembly of mRNPs undergoing NMD (By similarity). Essential for embryonic viability. 
Sequence Annotation
 ZN_FING 116 267 UPF1-type.
 NP_BIND 501 505 ATP (By similarity).
 REGION 1 410 Sufficient for interaction with RENT2 (By
 MOTIF 1084 1085 [ST]-Q motif 1.
 MOTIF 1102 1103 [ST]-Q motif 2.
 BINDING 481 481 ATP (By similarity).
 BINDING 671 671 ATP (By similarity).
 BINDING 708 708 ATP (By similarity).
 BINDING 839 839 ATP (By similarity).
 MOD_RES 1084 1084 Phosphoserine (By similarity).
 MOD_RES 1102 1102 Phosphoserine.
 MOD_RES 1122 1122 Phosphoserine.
 MOD_RES 1124 1124 Phosphotyrosine (By similarity).  
Keyword
 Alternative splicing; ATP-binding; Complete proteome; Cytoplasm; Helicase; Hydrolase; Metal-binding; Nonsense-mediated mRNA decay; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; Repeat; RNA-binding; Zinc; Zinc-finger. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1124 AA 
Protein Sequence
MSVEAYGPSS QTLTFLDTEE AELLGADTQG SEFEFTDFTL PSQTQTPPGG PGGAGGPGGA 60
GAGGAAGQLD AQVGPEGILQ NGAVDDSVAK TSQLLAELNF EEDEEDTYYT KDLPVHACSY 120
CGIHDPACVV YCNTSKKWFC NGRGNTSGSH IVNHLVRAKC KEVTLHKDGP LGETVLECYN 180
CGCRNVFLLG FIPAKADSVV VLLCRQPCAS QSSLKDINWD SSQWQPLIQD RCFLSWLVKI 240
PSEQEQLRAR QITAQQINKL EELWKENPSA TLEDLEKPGV DEEPQHVLLR YEDAYQYQNI 300
FGPLVKLEAD YDKKLKESQT QDNITVRWDL GLNKKRIAFF TLPKTDSGNE DLVIIWLRDM 360
RLMQGDEICL RYKGDLAPLW KGIGHVIKVP DNYGDEIAIE LRSSVGAPVE VTHNFQVDFV 420
WKSTSFDRMQ SALKTFAVDE TSVSGYIYHK LLGHEVEDVV IKCQLPKRFT AQGLPDLNHS 480
QVYAVKTVLQ RPLSLIQGPP GTGKTVTSAT IVYHLARQGN GPVLVCAPSN IAVDQLTEKI 540
HQTGLKVVRL CAKSREAIDS PVSFLALHNQ IRNMDSMPEL QKLQQLKDET GELSSADEKR 600
YRALKRTAER ELLMNADVIC CTCVGAGDPR LAKMQFRSIL IDESTQATEP ECMVPVVLGA 660
KQLILVGDHC QLGPVVMCKK AAKAGLSQSL FERLVVLGIR PIRLQVQYRM HPALSAFPSN 720
IFYEGSLQNG VTAADRVKKG FDFQWPQPDK PMFFYVTQGQ EEIASSGTSY LNRTEAANVE 780
KITTKLLKAG AKPDQIGIIT PYEGQRSYLV QYMQFSGSLH TKLYQEVEIA SVDAFQGREK 840
DFIILSCVRA NEHQGIGFLN DPRRLNVALT RARYGVIIVG NPKALSKQPL WNHLLSYYKE 900
QKALVEGPLN NLRESLMQFS KPRKLVNTVN PGARFMTTAM YDAREAIIPG SVYDRSSQGR 960
PSNMYFQTHD QISMISAGPS HVAAMNIPIP FNLVMPPMPP PGYFGQANGP AAGRGTPKTK 1020
TGRGGRQKNR FGLPGPSQTT LPNSQASQDV ASQPFSQGAL TQGYVSMSQP SQMSQPGLSQ 1080
PELSQDSYLG DEFKSQIDVA LSQDSTYQGE RAYQHGGVTG LSQY 1124 
Gene Ontology
 GO:0000785; C:chromatin; ISS:HGNC.
 GO:0000932; C:cytoplasmic mRNA processing body; IEA:UniProtKB-SubCell.
 GO:0035145; C:exon-exon junction complex; IEA:Compara.
 GO:0044530; C:supraspliceosomal complex; IEA:Compara.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0004004; F:ATP-dependent RNA helicase activity; ISS:UniProtKB.
 GO:0003682; F:chromatin binding; ISS:HGNC.
 GO:0003677; F:DNA binding; IEA:InterPro.
 GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
 GO:0008270; F:zinc ion binding; IEA:InterPro.
 GO:0007049; P:cell cycle; ISS:HGNC.
 GO:0006281; P:DNA repair; ISS:HGNC.
 GO:0006260; P:DNA replication; ISS:HGNC.
 GO:0009048; P:dosage compensation by inactivation of X chromosome; IMP:MGI.
 GO:0071044; P:histone mRNA catabolic process; ISS:UniProtKB.
 GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; IEA:UniProtKB-KW.
 GO:0006449; P:regulation of translational termination; ISS:HGNC. 
Interpro
 IPR027417; P-loop_NTPase.
 IPR018999; RNA-helicase_UPF1_UPF2-interct. 
Pfam
 PF09416; UPF1_Zn_bind 
SMART
  
PROSITE
  
PRINTS