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Protein

U6 snRNA-associated Sm-like protein LSm4

Gene

LSM4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds specifically to the 3'-terminal U-tract of U6 snRNA.

GO - Molecular functioni

  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiREACT_20518. mRNA decay by 5' to 3' exoribonuclease.

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm4
Alternative name(s):
Glycine-rich protein
Short name:
GRP
Gene namesi
Name:LSM4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:17259. LSM4.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: Reactome
  • small nuclear ribonucleoprotein complex Source: ProtInc
  • spliceosomal complex Source: UniProtKB-KW
  • U6 snRNP Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134906569.

Polymorphism and mutation databases

BioMutaiLSM4.
DMDMi10720082.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 139139U6 snRNA-associated Sm-like protein LSm4PRO_0000125564Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionine1 Publication

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiQ9Y4Z0.
PaxDbiQ9Y4Z0.
PeptideAtlasiQ9Y4Z0.
PRIDEiQ9Y4Z0.

PTM databases

PhosphoSiteiQ9Y4Z0.

Expressioni

Gene expression databases

BgeeiQ9Y4Z0.
CleanExiHS_LSM4.
ExpressionAtlasiQ9Y4Z0. baseline and differential.
GenevisibleiQ9Y4Z0. HS.

Organism-specific databases

HPAiHPA040932.

Interactioni

Subunit structurei

LSm subunits form a heteromer with a doughnut shape.

Binary interactionsi

WithEntry#Exp.IntActNotes
CALCOCO2Q131374EBI-372521,EBI-739580
IKZF1Q134223EBI-372521,EBI-745305
L3MBTL3Q96JM73EBI-372521,EBI-2686809
LSM7Q9UK456EBI-372521,EBI-348372
LSM8O957774EBI-372521,EBI-347779
PSTPIP1O435863EBI-372521,EBI-1050964
ZBTB10Q96DT73EBI-372521,EBI-10235384

Protein-protein interaction databases

BioGridi117336. 50 interactions.
DIPiDIP-31209N.
IntActiQ9Y4Z0. 20 interactions.
MINTiMINT-1469332.
STRINGi9606.ENSP00000469468.

Structurei

3D structure databases

ProteinModelPortaliQ9Y4Z0.
SMRiQ9Y4Z0. Positions 14-71.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the snRNP Sm proteins family.Curated

Phylogenomic databases

eggNOGiCOG1958.
GeneTreeiENSGT00610000086173.
HOGENOMiHOG000182713.
HOVERGENiHBG000486.
InParanoidiQ9Y4Z0.
KOiK12623.
OMAiPEVICTS.
OrthoDBiEOG747PMG.
PhylomeDBiQ9Y4Z0.
TreeFamiTF315027.

Family and domain databases

InterProiIPR027141. LSm4/Sm_D1/D3.
IPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
[Graphical view]
PANTHERiPTHR23338. PTHR23338. 1 hit.
PfamiPF01423. LSM. 1 hit.
[Graphical view]
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9Y4Z0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLPLSLLKTA QNHPMLVELK NGETYNGHLV SCDNWMNINL REVICTSRDG
60 70 80 90 100
DKFWRMPECY IRGSTIKYLR IPDEIIDMVK EEVVAKGRGR GGLQQQKQQK
110 120 130
GRGMGGAGRG VFGGRGRGGI PGTGRGQPEK KPGRQAGKQ
Length:139
Mass (Da):15,350
Last modified:November 1, 1999 - v1
Checksum:iBCEFB20247335A1B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238096 mRNA. Translation: CAB45867.1.
AF182290 mRNA. Translation: AAD56228.1.
AF117235 mRNA. Translation: AAF17216.1.
AF251218 mRNA. Translation: AAF90055.1.
BC000387 mRNA. Translation: AAH00387.1.
BC003652 mRNA. Translation: AAH03652.1.
BC022198 mRNA. Translation: AAH22198.1.
BC023665 mRNA. Translation: AAH23665.1.
CCDSiCCDS12374.1.
RefSeqiNP_036453.1. NM_012321.4.
UniGeneiHs.515255.

Genome annotation databases

EnsembliENST00000593829; ENSP00000469468; ENSG00000130520.
GeneIDi25804.
KEGGihsa:25804.
UCSCiuc002niq.3. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238096 mRNA. Translation: CAB45867.1.
AF182290 mRNA. Translation: AAD56228.1.
AF117235 mRNA. Translation: AAF17216.1.
AF251218 mRNA. Translation: AAF90055.1.
BC000387 mRNA. Translation: AAH00387.1.
BC003652 mRNA. Translation: AAH03652.1.
BC022198 mRNA. Translation: AAH22198.1.
BC023665 mRNA. Translation: AAH23665.1.
CCDSiCCDS12374.1.
RefSeqiNP_036453.1. NM_012321.4.
UniGeneiHs.515255.

3D structure databases

ProteinModelPortaliQ9Y4Z0.
SMRiQ9Y4Z0. Positions 14-71.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117336. 50 interactions.
DIPiDIP-31209N.
IntActiQ9Y4Z0. 20 interactions.
MINTiMINT-1469332.
STRINGi9606.ENSP00000469468.

PTM databases

PhosphoSiteiQ9Y4Z0.

Polymorphism and mutation databases

BioMutaiLSM4.
DMDMi10720082.

Proteomic databases

MaxQBiQ9Y4Z0.
PaxDbiQ9Y4Z0.
PeptideAtlasiQ9Y4Z0.
PRIDEiQ9Y4Z0.

Protocols and materials databases

DNASUi25804.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000593829; ENSP00000469468; ENSG00000130520.
GeneIDi25804.
KEGGihsa:25804.
UCSCiuc002niq.3. human.

Organism-specific databases

CTDi25804.
GeneCardsiGC19M018417.
HGNCiHGNC:17259. LSM4.
HPAiHPA040932.
MIMi607284. gene.
neXtProtiNX_Q9Y4Z0.
PharmGKBiPA134906569.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG1958.
GeneTreeiENSGT00610000086173.
HOGENOMiHOG000182713.
HOVERGENiHBG000486.
InParanoidiQ9Y4Z0.
KOiK12623.
OMAiPEVICTS.
OrthoDBiEOG747PMG.
PhylomeDBiQ9Y4Z0.
TreeFamiTF315027.

Enzyme and pathway databases

ReactomeiREACT_20518. mRNA decay by 5' to 3' exoribonuclease.

Miscellaneous databases

ChiTaRSiLSM4. human.
GeneWikiiLSM4.
GenomeRNAii25804.
NextBioi47015.
PROiQ9Y4Z0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y4Z0.
CleanExiHS_LSM4.
ExpressionAtlasiQ9Y4Z0. baseline and differential.
GenevisibleiQ9Y4Z0. HS.

Family and domain databases

InterProiIPR027141. LSm4/Sm_D1/D3.
IPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
[Graphical view]
PANTHERiPTHR23338. PTHR23338. 1 hit.
PfamiPF01423. LSM. 1 hit.
[Graphical view]
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin."
    Salgado-Garrido J., Bragado-Nilsson E., Kandels-Lewis S., Seraphin B.
    EMBO J. 18:3451-3462(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Liver.
  2. "A doughnut-shaped heteromer of human Sm-like proteins binds to the 3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro."
    Achsel T., Brahms H., Kastner B., Bachi A., Wilm M., Luehrmann R.
    EMBO J. 18:5789-5802(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Hypothalamus.
  4. Chan E.K.L.
    Submitted (APR-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Lung.
  6. Bienvenut W.V., Matallanas D., Cooper W.N., Kolch W.
    Submitted (JUL-2007) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 1-20, ACETYLATION AT MET-1, IDENTIFICATION BY MASS SPECTROMETRY.
    Tissue: Mammary carcinoma.
  7. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiLSM4_HUMAN
AccessioniPrimary (citable) accession number: Q9Y4Z0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1999
Last modified: June 24, 2015
This is version 134 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.