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Reviewed, UniProtKB/Swiss-Prot P62314 (SMD1_HUMAN)

Last modified July 7, 2009. Version 66. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

Names and origin

Protein namesRecommended name:
    Small nuclear ribonucleoprotein Sm D1
      Short name=Sm-D1
Alternative name(s):
    snRNP core protein D1
    Sm-D autoantigen
Gene names
Name: SNRPD1
OrganismHomo sapiens (Human) [Complete proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length119 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is not processed.
Protein existenceEvidence at protein level.

General annotation (Comments)

Function

May act as a charged protein scaffold to promote snRNP assembly or strengthen snRNP-snRNP interactions through nonspecific electrostatic contacts with RNA.

Subunit structure

Identified in the spliceosome C complex, at least composed of AQR, ASCC3L1, C19orf29, CDC40, CDC5L, CRNKL1, DDX23, DDX41, DDX48, DDX5, DGCR14, DHX35, DHX38, DHX8, EFTUD2, FRG1, GPATC1, HNRPA1, HNRPA2B1, HNRPA3, HNRPC, HNRPF, HNRPH1, HNRPK, HNRPM, HNRPR, HNRPU, KIAA1160, KIAA1604, LSM2, LSM3, MAGOH, MORG1, PABPC1, PLRG1, PNN, PPIE, PPIL1, PPIL3, PPWD1, PRPF19, PRPF4B, PRPF6, PRPF8, RALY, RBM22, RBM8A, RBMX, SART1, SF3A1, SF3A2, SF3A3, SF3B1, SF3B2, SF3B3, SFRS1, SKIV2L2, SNRPA1, SNRPB, SNRPB2, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF, SNRPG, SNW1, SRRM1, SRRM2, SYF2, SYNCRIP, TFIP11, THOC4, U2AF1, WDR57, XAB2 and ZCCHC8.

Subcellular location

Nucleus.

Post-translational modification

Methylated on arginine residues by PRMT5 and PRMT7; methylation is required for assembly and biogenesis of snRNPs.

Involvement in disease

In the autoimmune disease systemic lupus erythematosus, antinuclear antibodies are developed with Sm specificity.

Sequence similarities

Belongs to the snRNP core protein family.

Ontologies

Keywords
   Biological processmRNA processing
mRNA splicing
   Cellular componentNucleus
Spliceosome
   DiseaseSystemic lupus erythematosus
   DomainRepeat
   Molecular functionRibonucleoprotein
   PTMMethylation
   Technical term3D-structure
Complete proteome
Direct protein sequencing
Gene Ontology (GO)
   Biological processspliceosomal snRNP biogenesis

Inferred from Experiment. Source: Reactome

spliceosome assembly

Traceable author statement. Source: ProtInc

   Cellular componentcytosol

Inferred from Experiment. Source: Reactome

nucleoplasm

Inferred from Experiment. Source: Reactome

small nuclear ribonucleoprotein complex

Traceable author statement. Source: ProtInc

spliceosome

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular functionRNA binding Ref.1

Traceable author statement. Source: ProtInc

protein binding

Inferred from physical interaction. Source: UniProtKB

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

LSM8O957771EBI-372177,EBI-347779

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 119119Small nuclear ribonucleoprotein Sm D1
PRO_0000122201

Regions

Compositional bias86 – 11934Arg/Lys-rich (basic)

Secondary structure

................ 119
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P62314-1 [UniParc].

Last modified July 5, 2004. Version 1.
Checksum: 0C81C94BF98E0810

FASTA11913,282
        10         20         30         40         50         60 
MKLVRFLMKL SHETVTIELK NGTQVHGTIT GVDVSMNTHL KAVKMTLKNR EPVQLETLSI 

        70         80         90        100        110 
RGNNIRYFIL PDSLPLDTLL VDVEPKVKSK KREAVAGRGR GRGRGRGRGR GRGRGGPRR 

« Hide

References

« Hide 'large scale' references
[1]"Molecular cloning of a cDNA encoding the human Sm-D autoantigen."
Rokeach L.A., Haselby J.A., Hoch S.O.
Proc. Natl. Acad. Sci. U.S.A. 85:4832-4836(1988) [PubMed: 3260384] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 1-11.
Tissue: Placenta.
[2]Rokeach L.A.
Submitted (JUL-1988) to the EMBL/GenBank/DDBJ databases
Cited for: SEQUENCE REVISION.
[3]"Expression of the major human ribonucleoprotein (RNP) autoantigens in Escherichia coli and their use in an EIA for screening sera from patients with autoimmune diseases."
Renz M., Heim C., Braeunling O., Czichos A., Wieland C., Seelig H.P.
Clin. Chem. 35:1861-1863(1989) [PubMed: 2528429] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[4]"Cloning of human full-length CDSs in BD Creator(TM) system donor vector."
Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A.
Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE 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: 15489334] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Eye.
[6]"Methylation of Sm proteins by a complex containing PRMT5 and the putative U snRNP assembly factor pICln."
Meister G., Eggert C., Buehler D., Brahms H., Kambach C., Fischer U.
Curr. Biol. 11:1990-1994(2001) [PubMed: 11747828] [Abstract]
Cited for: METHYLATION.
[7]"Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis."
Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J.
RNA 8:426-439(2002) [PubMed: 11991638] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPICEOSOMAL C COMPLEX.
[8]"Two distinct arginine methyltransferases are required for biogenesis of Sm-class ribonucleoproteins."
Gonsalvez G.B., Tian L., Ospina J.K., Boisvert F.-M., Lamond A.I., Matera A.G.
J. Cell Biol. 178:733-740(2007) [PubMed: 17709427] [Abstract]
Cited for: METHYLATION, INTERACTION WITH PRMT5 AND PRMT7.
[9]Colinge J., Superti-Furga G., Bennett K.L.
Submitted (OCT-2008) to UniProtKB
Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY.
[10]"Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs."
Kambach C., Walke S., Young R., Avis J.M., de la Fortelle E., Raker V.A., Luehrmann R., Li J., Nagai K.
Cell 96:375-387(1999) [PubMed: 10025403] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 2-81 IN COMPLEX WITH SNRPD2.
+Additional computationally mapped references.

Cross-references

Sequence databases

J03798 mRNA. Translation: AAA36620.1.
L36188 expand/collapse EMBL AC list , L36182, L36186, L36187 Genomic DNA. Translation: AAA85339.1.
CR542239 mRNA. Translation: CAG47035.1.
BC001721 mRNA. Translation: AAH01721.1.
BC072427 mRNA. Translation: AAH72427.1.
IPIIPI00302850.
PIRA27668. A94201.
RefSeqNP_008869.1.
UniGeneHs.464734

3D structure databases

EntryMethodResolution (Å)ChainPositionsPDBsum
1B34X-ray2.50A1-119[»]
3CW1X-ray5.49B/M/N/O1-119[»]
ModBaseSearch...

Protein-protein interaction databases

IntActP62314. 12 interactions.

PTM databases

PhosphoSiteP62314.

Proteomic databases

PeptideAtlasP62314.
PRIDEP62314.

Genome annotation databases

EnsemblENSG00000167088. Homo sapiens. [Contig view]
GeneID6632.
KEGGhsa:6632.
UCSCuc002ktj.1. human.

Organism-specific databases

GeneCardsGC01M044361.
GC18P017446.
H-InvDBHIX0014358.
HGNCHGNC:11158. SNRPD1.
MIM601063. gene.
PharmGKBPA35999.
GenAtlasSearch...

Phylogenomic databases

HOGENOMP62314.
HOVERGENP62314.

Enzyme and pathway databases

ReactomeREACT_11052. Metabolism of non-coding RNA.
REACT_125. Processing of Capped Intron-Containing Pre-mRNA.
REACT_6167. Influenza Infection.
REACT_71. Gene Expression.

Gene expression databases

ArrayExpressP62314.
BgeeP62314.
CleanExHS_SNRPD1.
GermOnlineENSG00000167088. Homo sapiens.

Family and domain databases

InterProIPR006649. Euk_arc_LSM_core.
IPR001163. LSM_snRNP_core.
[Graphical view]
PfamPF01423. LSM. 1 hit.
[Graphical view]
SMARTSM00651. Sm. 1 hit.
[Graphical view]
ProtoNetSearch...

Other Resources

NextBio25835.
SOURCESearch...

Entry information

Entry nameSMD1_HUMAN
AccessionPrimary (citable) accession number: P62314
Secondary accession number(s): P13641
Entry history
Integrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: July 5, 2004
Last modified: July 7, 2009
This is version 66 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHPI (Human Proteome Initiative)

Relevant documents

Human chromosome 18

Human chromosome 18: entries, gene names and cross-references to MIM

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents