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Protein

U6 snRNA-associated Sm-like protein LSm5

Gene

LSM5

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

Functioni

Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex) (PubMed:28781166). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA (PubMed:10523320).2 Publications

GO - Molecular functioni

  • RNA binding Source: ProtInc

GO - Biological processi

Keywordsi

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

Enzyme and pathway databases

ReactomeiR-HSA-430039 mRNA decay by 5' to 3' exoribonuclease
R-HSA-72163 mRNA Splicing - Major Pathway

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm5
Gene namesi
Name:LSM5
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

EuPathDBiHostDB:ENSG00000106355.9
HGNCiHGNC:17162 LSM5
MIMi607285 gene
neXtProtiNX_Q9Y4Y9

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

DisGeNETi23658
OpenTargetsiENSG00000106355
PharmGKBiPA134881171

Polymorphism and mutation databases

BioMutaiLSM5
DMDMi10720081

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00001255722 – 91U6 snRNA-associated Sm-like protein LSm5Add BLAST90

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9Y4Y9
PaxDbiQ9Y4Y9
PeptideAtlasiQ9Y4Y9
PRIDEiQ9Y4Y9
ProteomicsDBi86265
86266 [Q9Y4Y9-2]
TopDownProteomicsiQ9Y4Y9-1 [Q9Y4Y9-1]
Q9Y4Y9-2 [Q9Y4Y9-2]

PTM databases

iPTMnetiQ9Y4Y9
PhosphoSitePlusiQ9Y4Y9

Expressioni

Gene expression databases

BgeeiENSG00000106355 Expressed in 235 organ(s), highest expression level in bone marrow
CleanExiHS_LSM5
ExpressionAtlasiQ9Y4Y9 baseline and differential
GenevisibleiQ9Y4Y9 HS

Organism-specific databases

HPAiHPA019054

Interactioni

Subunit structurei

Component of the precatalytic spliceosome (spliceosome B complex) (PubMed:28781166). Component of the U4/U6-U5 tri-snRNP complex, a building block of the precatalytic spliceosome (spliceosome B complex) (PubMed:10523320, PubMed:28781166, PubMed:26912367). The U4/U6-U5 tri-snRNP complex is composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, SNRNP40, SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF, SNRPG, DDX23, CD2BP2, PPIH, SNU13, EFTUD2, SART1 and USP39, plus LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8 (PubMed:26912367). LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8 form a heptameric, ring-shaped subcomplex (the LSM2-8 complex) that is part of the U4/U6-U5 tri-snRNP complex and the precatalytic spliceosome (PubMed:10523320, PubMed:26912367, PubMed:28781166).3 Publications

Binary interactionsi

Protein-protein interaction databases

BioGridi117180, 44 interactors
CORUMiQ9Y4Y9
DIPiDIP-31162N
IntActiQ9Y4Y9, 14 interactors
MINTiQ9Y4Y9
STRINGi9606.ENSP00000410758

Structurei

3D structure databases

ProteinModelPortaliQ9Y4Y9
SMRiQ9Y4Y9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the snRNP Sm proteins family.Curated

Phylogenomic databases

eggNOGiKOG1775 Eukaryota
COG1958 LUCA
GeneTreeiENSGT00390000001455
HOVERGENiHBG107310
InParanoidiQ9Y4Y9
KOiK12624
OMAiGSKIWVV
OrthoDBiEOG091G10CG
PhylomeDBiQ9Y4Y9
TreeFamiTF313575

Family and domain databases

CDDicd01732 LSm5, 1 hit
InterProiView protein in InterPro
IPR033871 LSm5
IPR001163 LSM_dom_euk/arc
IPR010920 LSM_dom_sf
PANTHERiPTHR20971 PTHR20971, 1 hit
PfamiView protein in Pfam
PF01423 LSM, 1 hit
SMARTiView protein in SMART
SM00651 Sm, 1 hit
SUPFAMiSSF50182 SSF50182, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q9Y4Y9-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MAANATTNPS QLLPLELVDK CIGSRIHIVM KSDKEIVGTL LGFDDFVNMV
60 70 80 90
LEDVTEFEIT PEGRRITKLD QILLNGNNIT MLVPGGEGPE V
Length:91
Mass (Da):9,937
Last modified:January 23, 2007 - v3
Checksum:i82B5C8830E64C992
GO
Isoform 2 (identifier: Q9Y4Y9-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-29: Missing.

Show »
Length:62
Mass (Da):6,850
Checksum:i6340D862682806E2
GO

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
B8ZZF8B8ZZF8_HUMAN
U6 snRNA-associated Sm-like protein...
LSM5
64Annotation score:
F8W8Y8F8W8Y8_HUMAN
U6 snRNA-associated Sm-like protein...
LSM5
71Annotation score:

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0409911 – 29Missing in isoform 2. 1 PublicationAdd BLAST29

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238097 mRNA Translation: CAB45868.1
AF182291 mRNA Translation: AAD56229.1
AC018641 Genomic DNA No translation available.
BC005938 mRNA Translation: AAH05938.1
BF701546 mRNA No translation available.
CCDSiCCDS47571.1 [Q9Y4Y9-2]
CCDS5438.1 [Q9Y4Y9-1]
RefSeqiNP_001124182.1, NM_001130710.1 [Q9Y4Y9-2]
NP_001132971.1, NM_001139499.1 [Q9Y4Y9-2]
NP_036454.1, NM_012322.2 [Q9Y4Y9-1]
UniGeneiHs.424908

Genome annotation databases

EnsembliENST00000409292; ENSP00000386814; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409782; ENSP00000387109; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409909; ENSP00000386363; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409952; ENSP00000387126; ENSG00000106355 [Q9Y4Y9-2]
ENST00000410044; ENSP00000386707; ENSG00000106355 [Q9Y4Y9-2]
ENST00000450169; ENSP00000410758; ENSG00000106355 [Q9Y4Y9-1]
GeneIDi23658
KEGGihsa:23658
UCSCiuc003tct.3 human [Q9Y4Y9-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238097 mRNA Translation: CAB45868.1
AF182291 mRNA Translation: AAD56229.1
AC018641 Genomic DNA No translation available.
BC005938 mRNA Translation: AAH05938.1
BF701546 mRNA No translation available.
CCDSiCCDS47571.1 [Q9Y4Y9-2]
CCDS5438.1 [Q9Y4Y9-1]
RefSeqiNP_001124182.1, NM_001130710.1 [Q9Y4Y9-2]
NP_001132971.1, NM_001139499.1 [Q9Y4Y9-2]
NP_036454.1, NM_012322.2 [Q9Y4Y9-1]
UniGeneiHs.424908

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3JCRelectron microscopy7.0051-91[»]
5O9Zelectron microscopy4.50r1-91[»]
ProteinModelPortaliQ9Y4Y9
SMRiQ9Y4Y9
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117180, 44 interactors
CORUMiQ9Y4Y9
DIPiDIP-31162N
IntActiQ9Y4Y9, 14 interactors
MINTiQ9Y4Y9
STRINGi9606.ENSP00000410758

PTM databases

iPTMnetiQ9Y4Y9
PhosphoSitePlusiQ9Y4Y9

Polymorphism and mutation databases

BioMutaiLSM5
DMDMi10720081

Proteomic databases

EPDiQ9Y4Y9
PaxDbiQ9Y4Y9
PeptideAtlasiQ9Y4Y9
PRIDEiQ9Y4Y9
ProteomicsDBi86265
86266 [Q9Y4Y9-2]
TopDownProteomicsiQ9Y4Y9-1 [Q9Y4Y9-1]
Q9Y4Y9-2 [Q9Y4Y9-2]

Protocols and materials databases

DNASUi23658
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000409292; ENSP00000386814; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409782; ENSP00000387109; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409909; ENSP00000386363; ENSG00000106355 [Q9Y4Y9-2]
ENST00000409952; ENSP00000387126; ENSG00000106355 [Q9Y4Y9-2]
ENST00000410044; ENSP00000386707; ENSG00000106355 [Q9Y4Y9-2]
ENST00000450169; ENSP00000410758; ENSG00000106355 [Q9Y4Y9-1]
GeneIDi23658
KEGGihsa:23658
UCSCiuc003tct.3 human [Q9Y4Y9-1]

Organism-specific databases

CTDi23658
DisGeNETi23658
EuPathDBiHostDB:ENSG00000106355.9
GeneCardsiLSM5
HGNCiHGNC:17162 LSM5
HPAiHPA019054
MIMi607285 gene
neXtProtiNX_Q9Y4Y9
OpenTargetsiENSG00000106355
PharmGKBiPA134881171
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1775 Eukaryota
COG1958 LUCA
GeneTreeiENSGT00390000001455
HOVERGENiHBG107310
InParanoidiQ9Y4Y9
KOiK12624
OMAiGSKIWVV
OrthoDBiEOG091G10CG
PhylomeDBiQ9Y4Y9
TreeFamiTF313575

Enzyme and pathway databases

ReactomeiR-HSA-430039 mRNA decay by 5' to 3' exoribonuclease
R-HSA-72163 mRNA Splicing - Major Pathway

Miscellaneous databases

ChiTaRSiLSM5 human
GeneWikiiLSM5
GenomeRNAii23658
PROiPR:Q9Y4Y9
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000106355 Expressed in 235 organ(s), highest expression level in bone marrow
CleanExiHS_LSM5
ExpressionAtlasiQ9Y4Y9 baseline and differential
GenevisibleiQ9Y4Y9 HS

Family and domain databases

CDDicd01732 LSm5, 1 hit
InterProiView protein in InterPro
IPR033871 LSm5
IPR001163 LSM_dom_euk/arc
IPR010920 LSM_dom_sf
PANTHERiPTHR20971 PTHR20971, 1 hit
PfamiView protein in Pfam
PF01423 LSM, 1 hit
SMARTiView protein in SMART
SM00651 Sm, 1 hit
SUPFAMiSSF50182 SSF50182, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiLSM5_HUMAN
AccessioniPrimary (citable) accession number: Q9Y4Y9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 163 of the entry and version 3 of the sequence. See 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
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