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Protein

Small nuclear ribonucleoprotein Sm D3

Gene

Snrpd3

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Plays role in pre-mRNA splicing as core component of the SMN-Sm complex that mediates spliceosomal snRNP assembly and as component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Component of both the pre-catalytic spliceosome B complex and activated spliceosome C complexes. Is also a component of the minor U12 spliceosome (By similarity). As part of the U7 snRNP it is involved in histone pre-mRNA 3'-end processing (PubMed:19470752).By similarity1 Publication

GO - Molecular functioni

GO - Biological processi

Keywordsi

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

Enzyme and pathway databases

ReactomeiR-MMU-109688 Cleavage of Growing Transcript in the Termination Region
R-MMU-111367 SLBP independent Processing of Histone Pre-mRNAs
R-MMU-191859 snRNP Assembly
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72165 mRNA Splicing - Minor Pathway
R-MMU-77588 SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs

Names & Taxonomyi

Protein namesi
Recommended name:
Small nuclear ribonucleoprotein Sm D3
Short name:
Sm-D3
Alternative name(s):
snRNP core protein D3
Gene namesi
Name:Snrpd3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 10

Organism-specific databases

MGIiMGI:1914582 Snrpd3

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

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00001222152 – 126Small nuclear ribonucleoprotein Sm D3Add BLAST125

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1

Post-translational modificationi

Methylated on arginine residues by PRMT5 and PRMT7; probable asymmetric dimethylation which is required for assembly and biogenesis of snRNPs.By similarity

Keywords - PTMi

Acetylation, Methylation

Proteomic databases

EPDiP62320
MaxQBiP62320
PaxDbiP62320
PeptideAtlasiP62320
PRIDEiP62320

PTM databases

iPTMnetiP62320
PhosphoSitePlusiP62320
SwissPalmiP62320

Expressioni

Gene expression databases

BgeeiENSMUSG00000020180 Expressed in 287 organ(s), highest expression level in floor plate of midbrain
CleanExiMM_SNRPD3
ExpressionAtlasiP62320 baseline and differential
GenevisibleiP62320 MM

Interactioni

Subunit structurei

Core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Most spliceosomal snRNPs contain a common set of Sm proteins, SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in a heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. Component of the U1 snRNP. The U1 snRNP is composed of the U1 snRNA and the 7 core Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG, and at least three U1 snRNP-specific proteins SNRNP70/U1-70K, SNRPA/U1-A and SNRPC/U1-C. Component of the U4/U6-U5 tri-snRNP complex 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 (By similarity). Component of the U7 snRNP complex, or U7 Sm protein core complex, that is composed of the U7 snRNA and at least LSM10, LSM11, SNRPB, SNRPD3, SNRPE, SNRPF and SNRPG; the complex does not contain SNRPD1 and SNRPD2 (PubMed:19470752). Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Part of the SMN-Sm complex that contains SMN1, GEMIN2/SIP1, DDX20/GEMIN3, GEMIN4, GEMIN5, GEMIN6, GEMIN7, GEMIN8, STRAP/UNRIP and the Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG; catalyzes core snRNPs assembly. Forms a 6S pICln-Sm complex composed of CLNS1A/pICln, SNRPD1, SNRPD2, SNRPE, SNRPF and SNRPG; ring-like structure where CLNS1A/pICln mimics additional Sm proteins and which is unable to assemble into the core snRNP (By similarity).By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi212112, 3 interactors
IntActiP62320, 7 interactors
MINTiP62320
STRINGi10090.ENSMUSP00000020397

Structurei

3D structure databases

ProteinModelPortaliP62320
SMRiP62320
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati110 – 11112
Repeati112 – 11322
Repeati114 – 11532
Repeati116 – 11742
Repeati118 – 11952

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni110 – 1195 X 2 AA tandem repeats of [RM]-G10

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi84 – 126Arg/Lys-rich (basic)Add BLAST43

Sequence similaritiesi

Belongs to the snRNP core protein family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG3172 Eukaryota
COG1958 LUCA
GeneTreeiENSGT00610000086153
HOGENOMiHOG000182712
HOVERGENiHBG105305
InParanoidiP62320
KOiK11088
OMAiIMRANAR
OrthoDBiEOG091G0ZWE
PhylomeDBiP62320
TreeFamiTF354302

Family and domain databases

CDDicd01721 Sm_D3, 1 hit
InterProiView protein in InterPro
IPR027141 LSm4/Sm_D1/D3
IPR001163 LSM_dom_euk/arc
IPR010920 LSM_dom_sf
IPR034099 SmD3
PANTHERiPTHR23338 PTHR23338, 1 hit
PfamiView protein in Pfam
PF01423 LSM, 1 hit
SMARTiView protein in SMART
SM00651 Sm, 1 hit
SUPFAMiSSF50182 SSF50182, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

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

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

P62320-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSIGVPIKVL HEAEGHIVTC ETNTGEVYRG KLIEAEDNMN CQMSNITVTY
60 70 80 90 100
RDGRVAQLEQ VYIRGSKIRF LILPDMLKNA PMLKSMKNKN QGSGAGRGKA
110 120
AILKAQVAAR GRGRGMGRGN IFQKRR
Length:126
Mass (Da):13,916
Last modified:July 5, 2004 - v1
Checksum:i59A6E78E860AA3E0
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1W2P7K5A0A1W2P7K5_MOUSE
Small nuclear ribonucleoprotein Sm ...
Snrpd3 SNRPD3, mCG_5988
84Annotation score:

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005341 mRNA Translation: BAB23963.1
AK006692 mRNA Translation: BAB24705.1
AK019453 mRNA Translation: BAB31729.1
AK160321 mRNA Translation: BAE35738.1
CCDSiCCDS23926.1
RefSeqiNP_080371.1, NM_026095.4
UniGeneiMm.392843
Mm.45151

Genome annotation databases

EnsembliENSMUST00000020397; ENSMUSP00000020397; ENSMUSG00000020180
GeneIDi67332
KEGGimmu:67332
UCSCiuc007fqm.1 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005341 mRNA Translation: BAB23963.1
AK006692 mRNA Translation: BAB24705.1
AK019453 mRNA Translation: BAB31729.1
AK160321 mRNA Translation: BAE35738.1
CCDSiCCDS23926.1
RefSeqiNP_080371.1, NM_026095.4
UniGeneiMm.392843
Mm.45151

3D structure databases

ProteinModelPortaliP62320
SMRiP62320
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi212112, 3 interactors
IntActiP62320, 7 interactors
MINTiP62320
STRINGi10090.ENSMUSP00000020397

PTM databases

iPTMnetiP62320
PhosphoSitePlusiP62320
SwissPalmiP62320

Proteomic databases

EPDiP62320
MaxQBiP62320
PaxDbiP62320
PeptideAtlasiP62320
PRIDEiP62320

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000020397; ENSMUSP00000020397; ENSMUSG00000020180
GeneIDi67332
KEGGimmu:67332
UCSCiuc007fqm.1 mouse

Organism-specific databases

CTDi6634
MGIiMGI:1914582 Snrpd3

Phylogenomic databases

eggNOGiKOG3172 Eukaryota
COG1958 LUCA
GeneTreeiENSGT00610000086153
HOGENOMiHOG000182712
HOVERGENiHBG105305
InParanoidiP62320
KOiK11088
OMAiIMRANAR
OrthoDBiEOG091G0ZWE
PhylomeDBiP62320
TreeFamiTF354302

Enzyme and pathway databases

ReactomeiR-MMU-109688 Cleavage of Growing Transcript in the Termination Region
R-MMU-111367 SLBP independent Processing of Histone Pre-mRNAs
R-MMU-191859 snRNP Assembly
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72165 mRNA Splicing - Minor Pathway
R-MMU-77588 SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs

Miscellaneous databases

PROiPR:P62320
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000020180 Expressed in 287 organ(s), highest expression level in floor plate of midbrain
CleanExiMM_SNRPD3
ExpressionAtlasiP62320 baseline and differential
GenevisibleiP62320 MM

Family and domain databases

CDDicd01721 Sm_D3, 1 hit
InterProiView protein in InterPro
IPR027141 LSm4/Sm_D1/D3
IPR001163 LSM_dom_euk/arc
IPR010920 LSM_dom_sf
IPR034099 SmD3
PANTHERiPTHR23338 PTHR23338, 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 nameiSMD3_MOUSE
AccessioniPrimary (citable) accession number: P62320
Secondary accession number(s): P43331, Q3TV81
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: July 5, 2004
Last modified: November 7, 2018
This is version 120 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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