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Protein

Regulator of nonsense transcripts 1

Gene

smg-2

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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. The formation of an smg-2-3-4 surveillance complex is believed to activate NMD (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei450ATPBy similarity1
Binding sitei639ATPBy similarity1
Binding sitei676ATPBy similarity1
Binding sitei807ATPBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri93 – 243UPF1-typeAdd BLAST151
Nucleotide bindingi470 – 474ATPBy similarity5

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: WormBase
  • DNA binding Source: InterPro
  • protein phosphatase 2A binding Source: WormBase
  • RNA binding Source: UniProtKB-KW
  • zinc ion binding Source: InterPro

GO - Biological processi

  • embryonic genitalia morphogenesis Source: WormBase
  • ncRNA metabolic process Source: WormBase
  • nuclear mRNA surveillance of spliceosomal pre-mRNA splicing Source: CAFA
  • nuclear-transcribed mRNA catabolic process Source: UniProtKB
  • nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: WormBase
  • RNA interference Source: WormBase

Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
LigandATP-binding, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

ReactomeiR-CEL-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-CEL-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Names & Taxonomyi

Protein namesi
Recommended name:
Regulator of nonsense transcripts 1 (EC:3.6.4.-)
Alternative name(s):
ATP-dependent helicase smg-2
Nonsense mRNA reducing factor 1
Up-frameshift suppressor 1 homolog
Gene namesi
Name:smg-2
ORF Names:Y48G8AL.6
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome I

Organism-specific databases

WormBaseiY48G8AL.6; CE28367; WBGene00004880; smg-2.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: WormBase
  • nucleus Source: WormBase

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi470G → R in R866; loss of activity and increased phosphorylation. 1 Publication1
Mutagenesisi472G → E in R895; loss of activity and increased phosphorylation. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000807191 – 1069Regulator of nonsense transcripts 1Add BLAST1069

Post-translational modificationi

Phosphorylated probably by smg-1. Smg-3 and smg-4 are required for phosphorylation.

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiO76512.
PaxDbiO76512.
PeptideAtlasiO76512.
PRIDEiO76512.

PTM databases

iPTMnetiO76512.

Expressioni

Gene expression databases

BgeeiWBGene00004880.

Interactioni

GO - Molecular functioni

  • protein phosphatase 2A binding Source: WormBase

Protein-protein interaction databases

IntActiO76512. 1 interactor.
MINTiMINT-255670.
STRINGi6239.Y48G8AL.6.

Structurei

3D structure databases

ProteinModelPortaliO76512.
SMRiO76512.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi991 – 1069Gln/Ser-richAdd BLAST79
Compositional biasi1029 – 1034Poly-Thr6
Compositional biasi1036 – 1039Poly-His4

Sequence similaritiesi

Belongs to the DNA2/NAM7 helicase family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri93 – 243UPF1-typeAdd BLAST151

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG1802. Eukaryota.
COG1112. LUCA.
HOGENOMiHOG000205990.
InParanoidiO76512.
KOiK14326.
OrthoDBiEOG091G01B6.
PhylomeDBiO76512.

Family and domain databases

InterProiView protein in InterPro
IPR027417. P-loop_NTPase.
IPR018999. RNA-helicase_UPF1_UPF2-interct.
PfamiView protein in Pfam
PF09416. UPF1_Zn_bind. 1 hit.
SUPFAMiSSF52540. SSF52540. 2 hits.

Sequencei

Sequence statusi: Complete.

O76512-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDDSDDEYSR SHGETLTFVD PEDDGVSIGN TQDSQFAYEQ FSVPTQSSQA
60 70 80 90 100
TDLLPGGTDG TTNDLPFHDV EDDESDSEKS LTEEQHEQKL PEHACRYCGI
110 120 130 140 150
SDPLCVAKCT VCRKWFCNSN DGTSGGHIVH HMVRSQHKEA YTHKDSPCGD
160 170 180 190 200
TQLECYRCGS KNVFNLGFIP GKKDQVVVII CRTPCASIAF QNDDNWSPED
210 220 230 240 250
WKSVIAEKQL LSWIVNVPSE EQVARARKIT ATQAVRMEEL WRDHPEATVD
260 270 280 290 300
DLNKPGLDRE PDHVQLRYVD AHHYSKVFRP LVAIEAEYDR RVKESASQAV
310 320 330 340 350
GTVRWEQGLR QSVLAFFHLP QFADGVMKLA KGDELRLKHS QTVDGSEWTK
360 370 380 390 400
IGSVFKIPDN HGDEVGIEIR GAVDKSVMES RIMFTVDVVW NATTFERQYK
410 420 430 440 450
ALAALLNDSK AISPYLYQKL LGHPAEEMML KFDLPRRLSV AGLPELNSSQ
460 470 480 490 500
MQAVKQVLTR PLSLIQGPPG TGKTVVSATI VYHLVQKTEG NVLVCSPSNI
510 520 530 540 550
AVDHLAEKIH KTGLKVVRLC ARSREHSETT VPYLTLQHQL KVMGGAELQK
560 570 580 590 600
LIQLKDEAGE LEFKDDLRYM QLKRVKEHEL LAAADVICCT CSSAADARLS
610 620 630 640 650
KIRTRTVLID ESTQATEPEI LVSIMRGVRQ LVLVGDHCQL GPVVICKKAA
660 670 680 690 700
IAGLSQSLFE RLVLLGIRPF RLQVQYRMHP VLSEFPSNVF YDGSLQNGVT
710 720 730 740 750
ENDRHMTGVD WHWPKPNKPA FFWHCSGSEE LSASGTSFLN RTEAANVEKL
760 770 780 790 800
VSKLIKAGVQ PHQIGVITSY EGQRSFIVNY MHTQGTLNSK LYENVEIASV
810 820 830 840 850
DAFQGREKDY IIVTCVRSND ILGIGFLSDP RRLNVAITRA KYGLVLVGNA
860 870 880 890 900
KVLARHDLWH ELINHYKSKE MLYEGPINAL KPLNLALPKA TIRTKNNIAG
910 920 930 940 950
NANRFGIKRM QYTFNEYKSN DPSQPRLPPT YSNSQNLLSM SKLAQTFNKN
960 970 980 990 1000
VPIPAHMMDP NVYAAARNQK DRRRGDQRRP PPQAEAAMDL SQGMMSQQSQ
1010 1020 1030 1040 1050
QYPPQGASSQ SQYLLDGASS LSGWSQSQTT TTTTRHHHHR QNRNSQQQMS
1060
QDMDDIQQKM DDLLFSQDC
Length:1,069
Mass (Da):120,020
Last modified:November 1, 1998 - v1
Checksum:i5B4C91FB49B5C24B
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti86 – 87HE → QQ in CCD73461 (PubMed:9851916).Curated2
Sequence conflicti769S → P in CCD73461 (PubMed:9851916).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF074017 mRNA. Translation: AAC26789.1.
FO081800 Genomic DNA. Translation: CCD73461.1.
PIRiT43280.
RefSeqiNP_490829.1. NM_058428.4.
UniGeneiCel.17418.

Genome annotation databases

GeneIDi171696.
KEGGicel:CELE_Y48G8AL.6.
UCSCiY48G8AL.6. c. elegans.

Similar proteinsi

Entry informationi

Entry nameiRENT1_CAEEL
AccessioniPrimary (citable) accession number: O76512
Secondary accession number(s): Q9BL16
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 18, 2001
Last sequence update: November 1, 1998
Last modified: May 10, 2017
This is version 123 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families