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Entry version 122 (07 Apr 2021)
Sequence version 1 (01 Jun 2001)
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Protein

Sm-like protein LSM3B

Gene

LSM3B

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:4 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

Component of LSM protein complexes, which are involved in RNA processing. Component of the cytoplasmic LSM1-LSM7 complex which is involved in mRNA degradation by promoting decapping and leading to accurate 5'-3' mRNA decay. The cytoplasmic LSM1-LSM7 complex regulates developmental gene expression by the decapping of specific development-related transcripts. Component of the nuclear LSM2-LSM8 complex which is involved splicing nuclear mRNAs. LSM2-LSM8 binds directly to the U6 small nuclear RNAs (snRNAs) and is essential for accurate splicing of selected development-related mRNAs through the stabilization of the spliceosomal U6 snRNA. Plays a critical role in the regulation of development-related gene expression.

2 Publications

<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

  • RNA binding Source: GO_Central

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

Molecular functionRibonucleoprotein, RNA-binding
Biological processmRNA processing, mRNA splicing

<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%5Fand%5Ftaxonomy%5Fsection">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:
Sm-like protein LSM3BCurated
Short name:
AtLSM3B1 Publication
Alternative name(s):
U6 snRNA-associated Sm-like protein LSM3BCurated
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:LSM3B1 Publication
Ordered Locus Names:At1g76860Imported
ORF Names:F7O12.3Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fmanual">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 1

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G76860

The Arabidopsis Information Resource

More...
TAIRi
locus:2036257, AT1G76860

<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

Cytoplasm, Nucleus, Spliceosome

<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 <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemovedCombined sources
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004316452 – 98Sm-like protein LSM3BAdd BLAST97

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei2N-acetylserineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

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

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PaxDbi
Q9C6K5

PRoteomics IDEntifications database

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PRIDEi
Q9C6K5

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
238803

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q9C6K5

<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 provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Expressed in roots, leaves, stems, flowers and siliques.2 Publications

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

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ExpressionAtlasi
Q9C6K5, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9C6K5, 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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the heptameric LSM1-LSM7 complex that forms a seven-membered ring structure with a donut shape. The LSM subunits are arranged in the order LSM1, LSM2, LSM3, LSM6, LSM5, LSM7 and LSM4.

Component of the heptameric LSM2-LSM8 complex that forms a seven-membered ring structure with a donut shape. The LSM subunits are arranged in the order LSM8, LSM2, LSM3, LSM6, LSM5, LSM7 and LSM4 (PubMed:23221597, PubMed:23620288). LSM3B subunit interacts only with its two neighboring subunits, LSM2 and LSM6A or LSM6B (PubMed:23221597).

2 Publications

Protein-protein interaction databases

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-1345, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1
CPX-1346, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1
CPX-1348, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1
CPX-1349, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1
CPX-1353, LSM2-8 complex, variant LSM3B-LSM6A
CPX-1354, LSM2-8 complex, variant LSM3B-LSM6B
CPX-1393, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H1
CPX-1394, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H1
CPX-1397, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1H1
CPX-1398, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1H1
CPX-1401, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H2
CPX-1402, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H2
CPX-1405, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1H2
CPX-1406, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1H2

Protein interaction database and analysis system

More...
IntActi
Q9C6K5, 1 interactor

STRING: functional protein association networks

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STRINGi
3702.AT1G76860.1

<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

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SMRi
Q9C6K5

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

Belongs to the snRNP Sm proteins family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
KOG3460, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_076902_5_1_1

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
Q9C6K5

Identification of Orthologs from Complete Genome Data

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OMAi
KIYVKMR

Database of Orthologous Groups

More...
OrthoDBi
1633672at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9C6K5

Family and domain databases

Conserved Domains Database

More...
CDDi
cd01730, LSm3, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR034105, Lsm3
IPR001163, LSM_dom_euk/arc
IPR010920, LSM_dom_sf
IPR040002, Sm-like_LSM3

The PANTHER Classification System

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PANTHERi
PTHR13110, PTHR13110, 1 hit

Pfam protein domain database

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Pfami
View protein in Pfam
PF01423, LSM, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

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SMARTi
View protein in SMART
SM00651, Sm, 1 hit

Superfamily database of structural and functional annotation

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SUPFAMi
SSF50182, SSF50182, 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%5Flength">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>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

Q9C6K5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSGEEEATVR EPLDLIRLSL DERIYVKLRS DRELRGKLHA FDQHLNMILG
60 70 80 90
DVEETITTVE IDDETYEEIV RTTKRTIEFL FVRGDGVILV SPPLRTAA
Length:98
Mass (Da):11,286
Last modified:June 1, 2001 - 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:i7960146D8C0AF9DC
GO

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
AC079283 Genomic DNA Translation: AAG51149.1
CP002684 Genomic DNA Translation: AEE35896.1
BT025575 mRNA Translation: ABF58993.1
AY086266 mRNA Translation: AAM64339.1

Protein sequence database of the Protein Information Resource

More...
PIRi
D96797

NCBI Reference Sequences

More...
RefSeqi
NP_177812.1, NM_106337.2

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT1G76860.1; AT1G76860.1; AT1G76860

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
844021

Gramene; a comparative resource for plants

More...
Gramenei
AT1G76860.1; AT1G76860.1; AT1G76860

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT1G76860

<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
AC079283 Genomic DNA Translation: AAG51149.1
CP002684 Genomic DNA Translation: AEE35896.1
BT025575 mRNA Translation: ABF58993.1
AY086266 mRNA Translation: AAM64339.1
PIRiD96797
RefSeqiNP_177812.1, NM_106337.2

3D structure databases

SMRiQ9C6K5
ModBaseiSearch...

Protein-protein interaction databases

ComplexPortaliCPX-1345, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1
CPX-1346, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1
CPX-1348, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1
CPX-1349, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1
CPX-1353, LSM2-8 complex, variant LSM3B-LSM6A
CPX-1354, LSM2-8 complex, variant LSM3B-LSM6B
CPX-1393, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H1
CPX-1394, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H1
CPX-1397, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1H1
CPX-1398, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1H1
CPX-1401, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H2
CPX-1402, LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H2
CPX-1405, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6A-PAT1H2
CPX-1406, LSM1-7-PAT1 complex, variant LSM1B-LSM3B-LSM6B-PAT1H2
IntActiQ9C6K5, 1 interactor
STRINGi3702.AT1G76860.1

PTM databases

iPTMnetiQ9C6K5

Proteomic databases

PaxDbiQ9C6K5
PRIDEiQ9C6K5
ProteomicsDBi238803

Genome annotation databases

EnsemblPlantsiAT1G76860.1; AT1G76860.1; AT1G76860
GeneIDi844021
GrameneiAT1G76860.1; AT1G76860.1; AT1G76860
KEGGiath:AT1G76860

Organism-specific databases

AraportiAT1G76860
TAIRilocus:2036257, AT1G76860

Phylogenomic databases

eggNOGiKOG3460, Eukaryota
HOGENOMiCLU_076902_5_1_1
InParanoidiQ9C6K5
OMAiKIYVKMR
OrthoDBi1633672at2759
PhylomeDBiQ9C6K5

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9C6K5

Gene expression databases

ExpressionAtlasiQ9C6K5, baseline and differential
GenevisibleiQ9C6K5, AT

Family and domain databases

CDDicd01730, LSm3, 1 hit
InterProiView protein in InterPro
IPR034105, Lsm3
IPR001163, LSM_dom_euk/arc
IPR010920, LSM_dom_sf
IPR040002, Sm-like_LSM3
PANTHERiPTHR13110, PTHR13110, 1 hit
PfamiView protein in Pfam
PF01423, LSM, 1 hit
SMARTiView protein in SMART
SM00651, Sm, 1 hit
SUPFAMiSSF50182, SSF50182, 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 nameiLSM3B_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: Q9C6K5
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 7, 2015
Last sequence update: June 1, 2001
Last modified: April 7, 2021
This is version 122 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

Reference proteome

Documents

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