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Entry version 110 (16 Oct 2019)
Sequence version 1 (01 Nov 1996)
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Protein

DNA cross-link repair protein SNM1

Gene

SNM1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-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 transcript 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

May be required for repair of DNA lesions formed after exposure to oxidative stress.1 Publication

<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 processDNA damage, DNA repair

<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
Recommended name:
DNA cross-link repair protein SNM1
Short name:
AtSNM1
<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:SNM1
Ordered Locus Names:At3g26680
ORF Names:MLJ15.8
<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>OrganismiArabidopsis thaliana (Mouse-ear cress)
<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 identifieri3702 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<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
  • UP000006548 <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 3

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT3G26680

The Arabidopsis Information Resource

More...
TAIRi
locus:2090832 AT3G26680

<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

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<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

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002091281 – 484DNA cross-link repair protein SNM1Add BLAST484

Proteomic databases

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

More...
PaxDbi
Q38961

PRoteomics IDEntifications database

More...
PRIDEi
Q38961

<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

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Induced by bleomycin, methyl methane sulphonate and hydrogen peroxide, which are known to induce oxidative lesions in DNA. Also induced by bacterial flagellin, which is known to elicit plant defense responses and a rapid oxidative burst, and by xylanase.1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q38961 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q38961 AT

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
3702.AT3G26680.2

<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
Q38961

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

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1361 Eukaryota
COG1236 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000030842

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q38961

KEGG Orthology (KO)

More...
KOi
K15340

Identification of Orthologs from Complete Genome Data

More...
OMAi
AFRYGTI

Database of Orthologous Groups

More...
OrthoDBi
1441774at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q38961

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.60.15.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011084 DRMBL
IPR036866 RibonucZ/Hydroxyglut_hydro

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF07522 DRMBL, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF56281 SSF56281, 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

Q38961-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDFSDEDDDE NCFGSRFNDG VNEEEEDEEG FVFNDDVEEN EEEEGFASDF
60 70 80 90 100
YKAGSDWSCL VEDEETVSSS VKKMKQSNLF QIWGLQENSP DTTKKMKQTD
110 120 130 140 150
LFQSWGLQKP SPFTSPASNS AKKTTSALGK RRRDSSFSND SPRPCPFYKK
160 170 180 190 200
LPGTPFTVDA FRYGCVQGCS AYFLTHFHAD HYIGLTKAWS HGPIYCSSLT
210 220 230 240 250
SRLLRLSLSV NPSSIHPLEL DVEYTINGIK VTLIEANHCP GAALIHFRLL
260 270 280 290 300
DGTCYLHTGD FRASKQMQTH PLLFNQRVHV LYLDTTYCNP RYKFPSKEDV
310 320 330 340 350
LSYVVRITKD FLRKQPKTLI VVGSYSIGKE CVYLAIAKAL GVKIFANASR
360 370 380 390 400
RRILQSFGWD DISKNLSTDG KATCLHVLPM SSLKVERLDE HLKIYREQYG
410 420 430 440 450
AVLAFRPTGW TYSEKIGEHL DLIKPTSRGK ITIYGVPYSE HSSFTELREF
460 470 480
VQFLRPDKII PTVNNGNAGT REKMQSCFRE WLRR
Length:484
Mass (Da):55,161
Last modified:November 1, 1996 - v1
<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:iB429A279811EA414
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
A0A1I9LSS2A0A1I9LSS2_ARATH
DNA repair metallo-beta-lactamase f...
SNM1 ATSNM1, At3g26680
426Annotation score:

Annotation score:1 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 Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti484R → P in CAA66406 (PubMed:8932388).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
X97827 mRNA Translation: CAA66406.1
X98130 Genomic DNA Translation: CAA66817.1
AB026648 Genomic DNA Translation: BAB01732.1
CP002686 Genomic DNA Translation: AEE77196.1
CP002686 Genomic DNA Translation: AEE77197.1
CP002686 Genomic DNA Translation: AEE77198.1
AK117422 mRNA Translation: BAC42087.1
BT005000 mRNA Translation: AAO50533.1

NCBI Reference Sequences

More...
RefSeqi
NP_001319649.1, NM_001338816.1
NP_001319650.1, NM_001338817.1
NP_850635.1, NM_180304.2

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT3G26680.1; AT3G26680.1; AT3G26680
AT3G26680.2; AT3G26680.2; AT3G26680
AT3G26680.3; AT3G26680.3; AT3G26680

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
822280

Gramene; a comparative resource for plants

More...
Gramenei
AT3G26680.1; AT3G26680.1; AT3G26680
AT3G26680.2; AT3G26680.2; AT3G26680
AT3G26680.3; AT3G26680.3; AT3G26680

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT3G26680

<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
X97827 mRNA Translation: CAA66406.1
X98130 Genomic DNA Translation: CAA66817.1
AB026648 Genomic DNA Translation: BAB01732.1
CP002686 Genomic DNA Translation: AEE77196.1
CP002686 Genomic DNA Translation: AEE77197.1
CP002686 Genomic DNA Translation: AEE77198.1
AK117422 mRNA Translation: BAC42087.1
BT005000 mRNA Translation: AAO50533.1
RefSeqiNP_001319649.1, NM_001338816.1
NP_001319650.1, NM_001338817.1
NP_850635.1, NM_180304.2

3D structure databases

SMRiQ38961
ModBaseiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G26680.2

Proteomic databases

PaxDbiQ38961
PRIDEiQ38961

Genome annotation databases

EnsemblPlantsiAT3G26680.1; AT3G26680.1; AT3G26680
AT3G26680.2; AT3G26680.2; AT3G26680
AT3G26680.3; AT3G26680.3; AT3G26680
GeneIDi822280
GrameneiAT3G26680.1; AT3G26680.1; AT3G26680
AT3G26680.2; AT3G26680.2; AT3G26680
AT3G26680.3; AT3G26680.3; AT3G26680
KEGGiath:AT3G26680

Organism-specific databases

AraportiAT3G26680
TAIRilocus:2090832 AT3G26680

Phylogenomic databases

eggNOGiKOG1361 Eukaryota
COG1236 LUCA
HOGENOMiHOG000030842
InParanoidiQ38961
KOiK15340
OMAiAFRYGTI
OrthoDBi1441774at2759
PhylomeDBiQ38961

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q38961

Gene expression databases

ExpressionAtlasiQ38961 baseline and differential
GenevisibleiQ38961 AT

Family and domain databases

Gene3Di3.60.15.10, 1 hit
InterProiView protein in InterPro
IPR011084 DRMBL
IPR036866 RibonucZ/Hydroxyglut_hydro
PfamiView protein in Pfam
PF07522 DRMBL, 1 hit
SUPFAMiSSF56281 SSF56281, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

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 nameiSNM1_ARATH
<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: Q38961
Secondary accession number(s): Q96280
<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/Swiss-Prot: August 16, 2005
Last sequence update: November 1, 1996
Last modified: October 16, 2019
This is version 110 of the entry and version 1 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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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