P62315 (SMD1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Small nuclear ribonucleoprotein Sm D1
Short name=Sm-D1

Alternative name(s):
Sm-D autoantigen
snRNP core protein D1

Gene names

Name:

Snrpd1

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	119 AA.
Sequence status	Complete.
Protein existence	Evidence 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. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome By similarity.
Subcellular location	Nucleus.
Post-translational modification	Methylated on arginine residues by PRMT5 and PRMT7; methylation is required for assembly and biogenesis of snRNPs By similarity.
Sequence similarities	Belongs to the snRNP core protein family.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing
Cellular component	Nucleus Spliceosome
Domain	Repeat
Molecular function	Ribonucleoprotein
PTM	Methylation
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	RNA splicing Inferred from electronic annotation. Source: UniProtKB-KW mRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	U12-type spliceosomal complex Inferred from electronic annotation. Source: Compara catalytic step 2 spliceosome Inferred from electronic annotation. Source: Compara cytoplasm Inferred from direct assay PubMed 15369763. Source: MGI nucleus Inferred from direct assay PubMed 15369763. Source: MGI
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 119

119

Small nuclear ribonucleoprotein Sm D1

PRO_0000122202

Regions

Compositional bias

86 – 119

34

Arg/Lys-rich (basic)

Secondary structure

1

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119

Helix Strand Turn

Details...

Helix

4 – 7

4

Beta strand

14 – 19

6

Beta strand

24 – 32

9

Beta strand

38 – 46

9

Beta strand

53 – 60

8

Helix

62 – 64

3

Beta strand

65 – 69

5

Helix

76 – 79

4

Sequences

	Sequence		Length	Mass (Da)
	P62315 [UniParc]. Last modified July 5, 2004. Version 1. Checksum: 0C81C94BF98E0810	FASTA	119	13,282
	10 20 30 40 50 60 MKLVRFLMKL SHETVTIELK NGTQVHGTIT GVDVSMNTHL KAVKMTLKNR EPVQLETLSI 70 80 90 100 110 RGNNIRYFIL PDSLPLDTLL VDVEPKVKSK KREAVAGRGR GRGRGRGRGR GRGRGGPRR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The murine Sm-D autoantigen: multiple genes, genetic polymorphism, evolutionary conservation and lack of intervening sequences in the coding region." Mitsuda T., Eisenberg R.A., Cohen P.L. J. Autoimmun. 5:277-287(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: BALB/c. Tissue: Lymphoma.
[2]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: C57BL/6J. Tissue: Egg, Medulla oblongata, Pancreas and Placenta.
[3]	"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]. Strain: Czech II. Tissue: Mammary gland.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M58558 mRNA. Translation: AAA96493.1.
AK005517 mRNA. Translation: BAB24092.1.
AK007674 mRNA. Translation: BAB25178.1.
AK011455 mRNA. Translation: BAB27628.1.
AK013075 mRNA. Translation: BAB28635.1.
AK134582 mRNA. Translation: BAE22192.1.
AK135979 mRNA. Translation: BAE22759.1.
BC024875 mRNA. Translation: AAH24875.1.

IPI

IPI00322749.

RefSeq

NP_033252.1. NM_009226.4.

UniGene

Mm.603.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
4F7U	X-ray	1.90	A/C	1-119	[»]

ProteinModelPortal

P62315.

ModBase

Search...

Protein-protein interaction databases

MINT

MINT-124808.

STRING

10090.ENSMUSP00000002551.

PTM databases

PhosphoSite

P62315.

Proteomic databases

PaxDb

P62315.

PRIDE

P62315.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENSMUST00000002551; ENSMUSP00000002551; ENSMUSG00000002477.

GeneID

20641.

KEGG

mmu:20641.

UCSC

uc008eaz.1. mouse.

Organism-specific databases

CTD

6632.

MGI

MGI:98344. Snrpd1.

Phylogenomic databases

eggNOG

COG1958.

GeneTree

ENSGT00510000047245.

HOGENOM

HOG000182713.

HOVERGEN

HBG061491.

InParanoid

P62315.

KO

K11087.

OMA

KMTIKNR.

OrthoDB

EOG4933KF.

Gene expression databases

Bgee

P62315.

CleanEx

MM_SNRPD1.

Genevestigator

P62315.

GermOnline

ENSMUSG00000002477. Mus musculus.

Family and domain databases

InterPro

IPR027141. LSm4/Sm_D1/D3.
IPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
[Graphical view]

PANTHER

PTHR23338. PTHR23338. 1 hit.

Pfam

PF01423. LSM. 1 hit.
[Graphical view]

SMART

SM00651. Sm. 1 hit.
[Graphical view]

SUPFAM

SSF50182. Sm_like_riboprot. 1 hit.

ProtoNet

Search...

Other

ChiTaRS

SNRPD1. mouse.

NextBio

25835.

SOURCE

Search...

Entry information

Entry name

SMD1_MOUSE

Accession

Primary (citable) accession number: P62315
Secondary accession number(s): P13641, Q3UYM0

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 5, 2004
Last sequence update:	July 5, 2004
Last modified:	May 1, 2013
This is version 82 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program