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P38798

- NMD2_YEAST

UniProt

P38798 - NMD2_YEAST

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Protein
Nonsense-mediated mRNA decay protein 2
Gene
NMD2, IFS1, SUA1, UPF2, YHR077C
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

Functioni

Involved in nonsense-mediated decay of mRNAs containing premature stop codons. It interacts, via its C-terminus, with NAM7/UPF1. Could be involved in determining the efficiency of translational termination or reinitiation or factors involved in the initial assembly of an initiation- and termination-competent mRNP.

GO - Molecular functioni

  1. RNA binding Source: InterPro
Complete GO annotation...

GO - Biological processi

  1. nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay Source: SGD
Complete GO annotation...

Enzyme and pathway databases

BioCyciYEAST:G3O-31124-MONOMER.
ReactomeiREACT_189050. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Names & Taxonomyi

Protein namesi
Recommended name:
Nonsense-mediated mRNA decay protein 2
Alternative name(s):
Up-frameshift suppressor 2
Gene namesi
Name:NMD2
Synonyms:IFS1, SUA1, UPF2
Ordered Locus Names:YHR077C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome VIII

Organism-specific databases

CYGDiYHR077c.
SGDiS000001119. NMD2.

Subcellular locationi

Cytoplasm Reviewed prediction

GO - Cellular componenti

  1. cytoplasm Source: SGD
  2. polysome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10891089Nonsense-mediated mRNA decay protein 2
PRO_0000096873Add
BLAST

Proteomic databases

MaxQBiP38798.
PaxDbiP38798.

Expressioni

Gene expression databases

GenevestigatoriP38798.

Interactioni

Protein-protein interaction databases

BioGridi36511. 160 interactions.
DIPiDIP-2295N.
IntActiP38798. 4 interactions.
MINTiMINT-1521719.
STRINGi4932.YHR077C.

Structurei

3D structure databases

ProteinModelPortaliP38798.
SMRiP38798. Positions 3-311, 575-780.

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi843 – 975133Asp/Glu-rich (highly acidic)
Add
BLAST

Phylogenomic databases

eggNOGiNOG321770.
GeneTreeiENSGT00530000064318.
KOiK14327.
OMAiIRKLHWE.
OrthoDBiEOG7TJ3S6.

Family and domain databases

Gene3Di1.25.40.180. 2 hits.
InterProiIPR016024. ARM-type_fold.
IPR016021. MIF4-like_typ_1/2/3.
IPR003890. MIF4G-like_typ-3.
IPR007193. Up-fram_suppressor-2.
[Graphical view]
PfamiPF02854. MIF4G. 3 hits.
PF04050. Upf2. 1 hit.
[Graphical view]
SMARTiSM00543. MIF4G. 3 hits.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 2 hits.

Sequencei

Sequence statusi: Complete.

P38798-1 [UniParc]FASTAAdd to Basket

« Hide

MDDGRKKELH DLNTRAWNGE EVFPLKSKKL DSSIKRNTGF IKKLKKGFVK     50
GSESSLLKDL SEASLEKYLS EIIVTVTECL LNVLNKNDDV IAAVEIISGL 100
HQRFNGRFTS PLLGAFLQAF ENPSVDIESE RDELQRITRV KGNLRVFTEL 150
YLVGVFRTLD DIESKDAIPN FLQKKTGRKD PLLFSILREI LNYKFKLGFT 200
TTIATAFIKK FAPLFRDDDN SWDDLIYDSK LKGALQSLFK NFIDATFARA 250
TELHKKVNKL QREHQKCQIR TGKLRDEYVE EYDKLLPIFI RFKTSAITLG 300
EFFKLEIPEL EGASNDDLKE TASPMITNQI LPPNQRLWEN EDTRKFYEIL 350
PDISKTVEES QSSKTEKDSN VNSKNINLFF TDLEMADCKD IIDDLSNRYW 400
SSYLDNKATR NRILKFFMET QDWSKLPVYS RFIATNSKYM PEIVSEFINY 450
LDNGFRSQLH SNKINVKNII FFSEMIKFQL IPSFMIFHKI RTLIMYMQVP 500
NNVEILTVLL EHSGKFLLNK PEYKELMEKM VQLIKDKKND RQLNMNMKSA 550
LENIITLLYP PSVKSLNVTV KTITPEQQFY RILIRSELSS LDFKHIVKLV 600
RKAHWDDVAI QKVLFSLFSK PHKISYQNIP LLTKVLGGLY SYRRDFVIRC 650
IDQVLENIER GLEINDYGQN MHRISNVRYL TEIFNFEMIK SDVLLDTIYH 700
IIRFGHINNQ PNPFYLNYSD PPDNYFRIQL VTTILLNINR TPAAFTKKCK 750
LLLRFFEYYT FIKEQPLPKE TEFRVSSTFK KYENIFGNTK FERSENLVES 800
ASRLESLLKS LNAIKSKDDR VKGSSASIHN GKESAVPIES ITEDDEDEDD 850
ENDDGVDLLG EDEDAEISTP NTESAPGKHQ AKQDESEDED DEDDDEDDDD 900
DDDDDDDDGE EGDEDDDEDD DDEDDDDEEE EDSDSDLEYG GDLDADRDIE 950
MKRMYEEYER KLKDEEERKA EEELERQFQK MMQESIDARK SEKVVASKIP 1000
VISKPVSVQK PLLLKKSEEP SSSKETYEEL SKPKKIAFTF LTKSGKKTQS 1050
RILQLPTDVK FVSDVLEEEE KLKTERNKIK KIVLKRSFD 1089
Length:1,089
Mass (Da):126,747
Last modified:November 1, 1995 - v2
Checksum:i13BBE725675CBF52
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti2 – 21D → YQQ1 Publication
Sequence conflicti2 – 21D → YQQ1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U14974 Genomic DNA. Translation: AAA67724.1.
U12137 Genomic DNA. Translation: AAA66521.1.
U28158 Genomic DNA. Translation: AAA74948.1.
U10556 Genomic DNA. Translation: AAB68893.1.
BK006934 Genomic DNA. Translation: DAA06771.1.
PIRiS48244.
RefSeqiNP_011944.2. NM_001179207.1.

Genome annotation databases

EnsemblFungiiYHR077C; YHR077C; YHR077C.
GeneIDi856476.
KEGGisce:YHR077C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U14974 Genomic DNA. Translation: AAA67724.1 .
U12137 Genomic DNA. Translation: AAA66521.1 .
U28158 Genomic DNA. Translation: AAA74948.1 .
U10556 Genomic DNA. Translation: AAB68893.1 .
BK006934 Genomic DNA. Translation: DAA06771.1 .
PIRi S48244.
RefSeqi NP_011944.2. NM_001179207.1.

3D structure databases

ProteinModelPortali P38798.
SMRi P38798. Positions 3-311, 575-780.
ModBasei Search...

Protein-protein interaction databases

BioGridi 36511. 160 interactions.
DIPi DIP-2295N.
IntActi P38798. 4 interactions.
MINTi MINT-1521719.
STRINGi 4932.YHR077C.

Proteomic databases

MaxQBi P38798.
PaxDbi P38798.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YHR077C ; YHR077C ; YHR077C .
GeneIDi 856476.
KEGGi sce:YHR077C.

Organism-specific databases

CYGDi YHR077c.
SGDi S000001119. NMD2.

Phylogenomic databases

eggNOGi NOG321770.
GeneTreei ENSGT00530000064318.
KOi K14327.
OMAi IRKLHWE.
OrthoDBi EOG7TJ3S6.

Enzyme and pathway databases

BioCyci YEAST:G3O-31124-MONOMER.
Reactomei REACT_189050. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

NextBioi 982152.
PROi P38798.

Gene expression databases

Genevestigatori P38798.

Family and domain databases

Gene3Di 1.25.40.180. 2 hits.
InterProi IPR016024. ARM-type_fold.
IPR016021. MIF4-like_typ_1/2/3.
IPR003890. MIF4G-like_typ-3.
IPR007193. Up-fram_suppressor-2.
[Graphical view ]
Pfami PF02854. MIF4G. 3 hits.
PF04050. Upf2. 1 hit.
[Graphical view ]
SMARTi SM00543. MIF4G. 3 hits.
[Graphical view ]
SUPFAMi SSF48371. SSF48371. 2 hits.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Identification of a novel component of the nonsense-mediated mRNA decay pathway by use of an interacting protein screen."
    He F., Jacobson A.
    Genes Dev. 9:437-454(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Identification and characterization of genes that are required for the accelerated degradation of mRNAs containing a premature translational termination codon."
    Cui Y., Hagan K.W., Zhang S., Peltz S.W.
    Genes Dev. 9:423-436(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: PLY136.
  3. "A genetic screen identifies cellular factors involved in retroviral -1 frameshifting."
    Lee S.I., Umen J.G., Varmus H.E.
    Proc. Natl. Acad. Sci. U.S.A. 92:6587-6591(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiNMD2_YEAST
AccessioniPrimary (citable) accession number: P38798
Secondary accession number(s): D3DL27
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: November 1, 1995
Last modified: September 3, 2014
This is version 117 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 1280 molecules/cell in log phase SD medium.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome VIII
    Yeast (Saccharomyces cerevisiae) chromosome VIII: entries and gene names

External Data

Dasty 3

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