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Entry version 93 (29 Sep 2021)
Sequence version 4 (17 Feb 2016)
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Protein
Submitted name:

SMG6 nonsense mediated mRNA decay factor

Gene

Smg6

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processNonsense-mediated mRNA decayARBA annotation

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-RNO-975957, Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Protein family/group databases

PeroxiBase, a peroxidase database

More...
PeroxiBasei
4036, RnoMPO

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Submitted name:
SMG6 nonsense mediated mRNA decay factorImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:Smg6Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiRattus norvegicus (Rat)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri10116 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002494 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 10

Organism-specific databases

Rat genome database

More...
RGDi
1595918, Smg6

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

CytoplasmARBA annotation

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
D4A589

PeptideAtlas

More...
PeptideAtlasi
D4A589

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSRNOG00000003041, Expressed in testis and 20 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
D4A589, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
D4A589, RN

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
10116.ENSRNOP00000004058

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
D4A589

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini1245 – 1396PINcInterPro annotationAdd BLAST152

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni23 – 83DisorderedSequence analysisAdd BLAST61
Regioni175 – 401DisorderedSequence analysisAdd BLAST227
Regioni416 – 489DisorderedSequence analysisAdd BLAST74
Regioni856 – 882DisorderedSequence analysisAdd BLAST27

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and domains' section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili802 – 822Sequence analysisAdd BLAST21
Coiled coili1201 – 1221Sequence analysisAdd BLAST21

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi30 – 83Basic and acidic residuesSequence analysisAdd BLAST54
Compositional biasi177 – 230Basic and acidic residuesSequence analysisAdd BLAST54
Compositional biasi255 – 271Polar residuesSequence analysisAdd BLAST17
Compositional biasi274 – 344Basic and acidic residuesSequence analysisAdd BLAST71
Compositional biasi462 – 476Polar residuesSequence analysisAdd BLAST15

Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2162, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000155300

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_004735_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
D4A589

Identification of Orthologs from Complete Genome Data

More...
OMAi
NPYCYPM

TreeFam database of animal gene trees

More...
TreeFami
TF327119

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR018834, DNA/RNA-bd_Est1-type
IPR019458, EST1
IPR029060, PIN-like_dom_sf
IPR002716, PIN_dom
IPR011990, TPR-like_helical_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF10374, EST1, 1 hit
PF10373, EST1_DNA_bind, 1 hit
PF13638, PIN_4, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00670, PINc, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48452, SSF48452, 1 hit
SSF88723, SSF88723, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

D4A589-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAEGLERVRI SASELRGILA TLAPQAGSRE NMKELKEPRQ RKDNRRPDLE
60 70 80 90 100
IYKPGLSRLR NRPKTKEASG NEEFKDEIVN DRDASAVGND TQLIKVCKEL
110 120 130 140 150
DSQQQNGPID AENSQAQETF SKTVGLEDRS LKIIKRIKKP DLQIYQPGRR
160 170 180 190 200
LQTVTKESAG RADEEEILNQ VEQLTMEGDE CRGEAIKEEV INKPDKTEIE
210 220 230 240 250
KSQSNDRVRT AKGEKGKKID KGEGSKKVTD DSVQGKPGSV KRYSRSDKRR
260 270 280 290 300
NRYRTCSTSS AGSNNSAEGA GLTDNGCRRR RQDRTKERPR LKKQVSMSST
310 320 330 340 350
DSLDEDRVTE PDGLGSRRSS ERKKHLDRNW SGRGEGEQKS NGKENRGALR
360 370 380 390 400
VTFDAEAMSK DSPVVRSVKE NVDRMNSDKG SSSGGKGSEK QEFRNPKQEL
410 420 430 440 450
RDRGRGILIL PAHTALSVSS SGSPESTPLG PRLLFGSGSK GSRSWGRGGT
460 470 480 490 500
TRRLWDPNNP DQKPALKSQT PQLHFLDTDD EISPTSWGDS RQAQASFYKF
510 520 530 540 550
QNSDNPYYYP RTPGPASQYP YTGYSPLQYP VGPTNGMYPG PYYPGYPAPS
560 570 580 590 600
GQYVCSPLPA STMSPEEIEQ HVRNMQQQEL HRLLRVADNQ ELQLSNLLSR
610 620 630 640 650
DRISTEGMEK MAQLRTELLQ LYERCILLDI EFSDSQNVDQ ILWKNAFYQV
660 670 680 690 700
IEKFRQLLKD PNIENPEQIR NRLLELLDEG SDFFDSLLQK LQVTYKFKLE
710 720 730 740 750
DYMDGLAIRS KPLRKTVKYA LISAQRSMIC QGDISRYREQ ANDTANYGKA
760 770 780 790 800
RSWYLKAQHI APKNGRPYNQ LALLAVYTRR KLDAVYYYMR SLAASNPILT
810 820 830 840 850
AKESLMSLFE ETKRKAEQME KKQHEEFDLS PDQWRKGKKS TFRHVGDDTT
860 870 880 890 900
RLEIWIHPSH SRSSQGTESG KDSEQENGLG SLSPSDLNKR FILSFLHAHG
910 920 930 940 950
KLFTRIGMET FPAVAEKVLK EFQVLLQHSP SPIGSTRMLQ LMTINMFAVH
960 970 980 990 1000
NSQLKDCFSE ECRSVIQEQA ASLGLAMFSL LVQRCTCLLK DSAKAQLSSP
1010 1020 1030 1040 1050
EDQEDQDDIK VSSFVPDLKE LLPSVKVWSD WMLGYPDTWN PPPTSLDLPL
1060 1070 1080 1090 1100
QVAVDVWSTL ADFCNILTAV NQSEVPLYKD PDDDLTLLIL EEDRLLSGFV
1110 1120 1130 1140 1150
PLLAAPQDPC YVEKTSDKVI AADCKRVTVL KYFLEALCGQ EEPLLAFKGG
1160 1170 1180 1190 1200
KYVSVAPVPD TMGKEMGIQE GKQLEDEEED VVIEDFEEDS EAEGSGGEDD
1210 1220 1230 1240 1250
IRELRAKKLA LARKIAEQQR RQEKIQAVLE DQSQMRQMEL EIRPLFLVPD
1260 1270 1280 1290 1300
TNGFIDHLAS LARLLESRKY ILVVPLIVIN ELDGLAKGQE TDHRAGGYAR
1310 1320 1330 1340 1350
VVQEKARKSI EFLERRFESR DSCLRALTSR GNELESIAFR SEDITGQLGN
1360 1370 1380 1390 1400
NDDLILSCCL HYCKDKAKDY MPTSKEEPIR LLREVVLLTD DRNLRVKALT
1410
RNVPVRDIPA FLTWAQVG
Length:1,418
Mass (Da):160,431
Last modified:February 17, 2016 - v4
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i9497F257F823E30F
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0U1RS16A0A0U1RS16_RAT
SMG6 nonsense mediated mRNA decay f...
Smg6
356Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AABR07029966 Genomic DNA No translation available.
AABR07029967 Genomic DNA No translation available.
AABR07029968 Genomic DNA No translation available.
AABR07029969 Genomic DNA No translation available.
AABR07029970 Genomic DNA No translation available.
AABR07029971 Genomic DNA No translation available.
AABR07029972 Genomic DNA No translation available.

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSRNOT00000004058; ENSRNOP00000004058; ENSRNOG00000003041

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR07029966 Genomic DNA No translation available.
AABR07029967 Genomic DNA No translation available.
AABR07029968 Genomic DNA No translation available.
AABR07029969 Genomic DNA No translation available.
AABR07029970 Genomic DNA No translation available.
AABR07029971 Genomic DNA No translation available.
AABR07029972 Genomic DNA No translation available.

3D structure databases

SMRiD4A589
ModBaseiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000004058

Protein family/group databases

PeroxiBasei4036, RnoMPO

Proteomic databases

PaxDbiD4A589
PeptideAtlasiD4A589

Genome annotation databases

EnsembliENSRNOT00000004058; ENSRNOP00000004058; ENSRNOG00000003041

Organism-specific databases

RGDi1595918, Smg6

Phylogenomic databases

eggNOGiKOG2162, Eukaryota
GeneTreeiENSGT00940000155300
HOGENOMiCLU_004735_0_0_1
InParanoidiD4A589
OMAiNPYCYPM
TreeFamiTF327119

Enzyme and pathway databases

ReactomeiR-RNO-975957, Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

More...
ChiTaRSi
Smg6, rat

Gene expression databases

BgeeiENSRNOG00000003041, Expressed in testis and 20 other tissues
ExpressionAtlasiD4A589, baseline and differential
GenevisibleiD4A589, RN

Family and domain databases

Gene3Di1.25.40.10, 1 hit
InterProiView protein in InterPro
IPR018834, DNA/RNA-bd_Est1-type
IPR019458, EST1
IPR029060, PIN-like_dom_sf
IPR002716, PIN_dom
IPR011990, TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF10374, EST1, 1 hit
PF10373, EST1_DNA_bind, 1 hit
PF13638, PIN_4, 1 hit
SMARTiView protein in SMART
SM00670, PINc, 1 hit
SUPFAMiSSF48452, SSF48452, 1 hit
SSF88723, SSF88723, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiD4A589_RAT
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: D4A589
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: February 17, 2016
Last modified: September 29, 2021
This is version 93 of the entry and version 4 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Proteomics identificationCombined sources, Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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