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Protein

U1 small nuclear ribonucleoprotein A

Gene

SNRPA

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

Functioni

Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. U1 snRNP is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. SNRPA binds stem loop II of U1 snRNA. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. May bind preferentially to the 5'-UGCAC-3' motif on RNAs.1 Publication

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • RNA binding Source: UniProtKB
  • snRNA stem-loop binding Source: GO_Central
  • U1 snRNA binding Source: GO_Central

GO - Biological processi

  • mRNA splicing, via spliceosome Source: HGNC
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
U1 small nuclear ribonucleoprotein A
Short name:
U1 snRNP A
Short name:
U1-A
Short name:
U1A
Gene namesi
Name:SNRPA
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:11151. SNRPA.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: HPA
  • nucleolus Source: HPA
  • nucleoplasm Source: HPA
  • spliceosomal complex Source: HGNC
  • U1 snRNP Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi11 – 111T → V: Abolishes RNA binding. 1 Publication
Mutagenesisi13 – 131Y → F: Substantially reduces RNA binding. 1 Publication
Mutagenesisi15 – 151N → V: Abolishes RNA binding. 1 Publication
Mutagenesisi16 – 161N → V: Substantially reduces RNA binding. 1 Publication
Mutagenesisi52 – 521R → Q: Abolishes RNA binding. 1 Publication

Organism-specific databases

PharmGKBiPA35993.

Polymorphism and mutation databases

BioMutaiSNRPA.
DMDMi134092.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedCombined sources1 Publication
Chaini2 – 282281U1 small nuclear ribonucleoprotein APRO_0000081887Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineCombined sources1 Publication
Modified residuei60 – 601N6-acetyllysineCombined sources
Modified residuei131 – 1311PhosphothreonineCombined sources

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP09012.
MaxQBiP09012.
PaxDbiP09012.
PeptideAtlasiP09012.
PRIDEiP09012.
TopDownProteomicsiP09012.

PTM databases

iPTMnetiP09012.
PhosphoSiteiP09012.

Expressioni

Gene expression databases

BgeeiENSG00000077312.
CleanExiHS_SNRPA.
ExpressionAtlasiP09012. baseline and differential.
GenevisibleiP09012. HS.

Organism-specific databases

HPAiCAB004652.
HPA046440.
HPA054834.

Interactioni

Subunit structurei

U1 snRNP is composed of the 7 core 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, and at least three U1 snRNP-specific proteins SNRNP70/U1-70K, SNRPA/U1-A and SNRPC/U1-C. Interacts with SFPQ; component of a snRNP-free complex with SFPQ.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CIRBPQ140113EBI-607085,EBI-538850
ENOX2Q16206-23EBI-607085,EBI-10179508
GABPB1Q065473EBI-607085,EBI-618165
HNRPKQ6IBN13EBI-607085,EBI-3440248
LENG8Q96PV63EBI-607085,EBI-739546
METTL13Q8N6R03EBI-607085,EBI-1053295
MTUS2Q5JR593EBI-607085,EBI-742948
NDUFAF3Q9BU613EBI-607085,EBI-2114801
NDUFAF3Q9BU61-23EBI-607085,EBI-10298649
PCBP1Q153653EBI-607085,EBI-946095
PCBP2Q153663EBI-607085,EBI-945799
PTBP1P265995EBI-607085,EBI-350540
QKIQ96PU83EBI-607085,EBI-945792
RBM3P981793EBI-607085,EBI-2949699
RBMXP381593EBI-607085,EBI-743526
SFPQP232464EBI-607085,EBI-355453
SNRPA1P096614EBI-607085,EBI-876439
TRIM27P143733EBI-607085,EBI-719493
U2AF2P263685EBI-607085,EBI-742339

Protein-protein interaction databases

BioGridi112510. 93 interactions.
DIPiDIP-29407N.
IntActiP09012. 42 interactions.
MINTiMINT-125665.
STRINGi9606.ENSP00000243563.

Structurei

Secondary structure

1
282
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi10 – 167Combined sources
Beta strandi19 – 213Combined sources
Helixi23 – 3412Combined sources
Helixi35 – 373Combined sources
Beta strandi40 – 445Combined sources
Helixi47 – 515Combined sources
Beta strandi55 – 617Combined sources
Helixi62 – 7211Combined sources
Turni77 – 793Combined sources
Beta strandi83 – 864Combined sources
Helixi93 – 964Combined sources
Helixi97 – 1004Combined sources
Beta strandi208 – 2136Combined sources
Helixi221 – 2299Combined sources
Beta strandi234 – 2385Combined sources
Beta strandi246 – 2538Combined sources
Helixi254 – 26310Combined sources
Turni264 – 2663Combined sources
Helixi269 – 2713Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1AUDNMR-A2-102[»]
1DRZX-ray2.30A2-98[»]
1DZ5NMR-A/B2-102[»]
1FHTNMR-A2-117[»]
1M5KX-ray2.40C/F1-100[»]
1M5OX-ray2.20C/F1-100[»]
1M5PX-ray2.60C/F1-100[»]
1M5VX-ray2.40C/F1-100[»]
1NU4X-ray1.80A/B2-98[»]
1OIAX-ray2.40A/B1-95[»]
1SJ3X-ray2.20P1-100[»]
1SJ4X-ray2.70P1-100[»]
1SJFX-ray2.75A1-100[»]
1U6BX-ray3.10A1-98[»]
1URNX-ray1.92A/B/C2-98[»]
1VBXX-ray2.70A1-100[»]
1VBYX-ray2.90A1-100[»]
1VBZX-ray2.80A1-100[»]
1VC0X-ray2.50A1-100[»]
1VC5X-ray3.40A1-100[»]
1VC6X-ray2.80A1-100[»]
1ZZNX-ray3.37A1-98[»]
2A3JNMR-A3-80[»]
2NZ4X-ray2.50A/B/C/D5-98[»]
2OIHX-ray2.40A2-100[»]
2OJ3X-ray2.90A2-100[»]
2U1ANMR-A195-282[»]
3BO2X-ray3.31A4-98[»]
3BO3X-ray3.40A4-98[»]
3BO4X-ray3.33A4-98[»]
3CULX-ray2.80A/B1-96[»]
3CUNX-ray3.00A/B1-98[»]
3EGZX-ray2.20A1-98[»]
3G8SX-ray3.10A/B/C/D1-98[»]
3G8TX-ray3.00A/B/C/D1-98[»]
3G96X-ray3.01A/B/C/D1-98[»]
3G9CX-ray2.90A/B/C/D1-98[»]
3HHNX-ray2.99B/D2-98[»]
3IINX-ray4.18A4-98[»]
3IRWX-ray2.70P1-98[»]
3IWNX-ray3.20C/D6-96[»]
3K0JX-ray3.10A/B/C/D2-97[»]
3L3CX-ray2.85A/B/C/D7-96[»]
3MUMX-ray2.90P1-98[»]
3MURX-ray3.00P1-98[»]
3MUTX-ray3.00P1-98[»]
3MUVX-ray3.20P1-98[»]
3MXHX-ray2.30P1-98[»]
3P49X-ray3.55B1-98[»]
3PGWX-ray4.40A/P1-282[»]
3R1HX-ray3.15A/D1-98[»]
3R1LX-ray3.12A/D1-98[»]
3UCUX-ray2.80P1-98[»]
3UCZX-ray2.80P1-98[»]
3UD3X-ray3.10P1-98[»]
3UD4X-ray2.70P1-98[»]
3UTRmodel-B/D1-98[»]
4C4WX-ray2.95A/B/E/F1-102[»]
4PR6X-ray2.30A4-96[»]
4PRFX-ray2.40A1-100[»]
4W90X-ray3.12B6-96[»]
4W92X-ray3.21B6-96[»]
4YB1X-ray2.08P7-97[»]
5DDOX-ray3.10C/G2-98[»]
5DDPX-ray2.30C/D2-98[»]
5DDQX-ray2.40C/D2-98[»]
5DDRX-ray2.60C/D2-98[»]
5FJ4X-ray2.95A/B/E/F1-102[»]
ProteinModelPortaliP09012.
SMRiP09012. Positions 2-117, 195-282.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP09012.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini10 – 8980RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini208 – 28275RRM 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi140 – 20667Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the RRM U1 A/B'' family.Curated
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG4206. Eukaryota.
ENOG410XPZI. LUCA.
GeneTreeiENSGT00390000007046.
HOGENOMiHOG000217519.
HOVERGENiHBG000895.
InParanoidiP09012.
KOiK11091.
OMAiESANEAR.
OrthoDBiEOG091G0NFU.
PhylomeDBiP09012.
TreeFamiTF313834.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR024888. RRM_U1_A/B''.
[Graphical view]
PANTHERiPTHR10501. PTHR10501. 1 hit.
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P09012-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAVPETRPNH TIYINNLNEK IKKDELKKSL YAIFSQFGQI LDILVSRSLK
60 70 80 90 100
MRGQAFVIFK EVSSATNALR SMQGFPFYDK PMRIQYAKTD SDIIAKMKGT
110 120 130 140 150
FVERDRKREK RKPKSQETPA TKKAVQGGGA TPVVGAVQGP VPGMPPMTQA
160 170 180 190 200
PRIMHHMPGQ PPYMPPPGMI PPPGLAPGQI PPGAMPPQQL MPGQMPPAQP
210 220 230 240 250
LSENPPNHIL FLTNLPEETN ELMLSMLFNQ FPGFKEVRLV PGRHDIAFVE
260 270 280
FDNEVQAGAA RDALQGFKIT QNNAMKISFA KK
Length:282
Mass (Da):31,280
Last modified:January 23, 2007 - v3
Checksum:i9426E83EE5A22894
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M60784
, M60779, M60780, M60781, M60782, M60783 Genomic DNA. Translation: AAA61245.1.
X06347 mRNA. Translation: CAA29653.1.
BC000405 mRNA. Translation: AAH00405.1.
BC008290 mRNA. Translation: AAH08290.1.
CCDSiCCDS12565.1.
PIRiJQ1528.
RefSeqiNP_004587.1. NM_004596.4.
UniGeneiHs.466775.

Genome annotation databases

EnsembliENST00000243563; ENSP00000243563; ENSG00000077312.
GeneIDi6626.
KEGGihsa:6626.
UCSCiuc002ooz.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M60784
, M60779, M60780, M60781, M60782, M60783 Genomic DNA. Translation: AAA61245.1.
X06347 mRNA. Translation: CAA29653.1.
BC000405 mRNA. Translation: AAH00405.1.
BC008290 mRNA. Translation: AAH08290.1.
CCDSiCCDS12565.1.
PIRiJQ1528.
RefSeqiNP_004587.1. NM_004596.4.
UniGeneiHs.466775.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1AUDNMR-A2-102[»]
1DRZX-ray2.30A2-98[»]
1DZ5NMR-A/B2-102[»]
1FHTNMR-A2-117[»]
1M5KX-ray2.40C/F1-100[»]
1M5OX-ray2.20C/F1-100[»]
1M5PX-ray2.60C/F1-100[»]
1M5VX-ray2.40C/F1-100[»]
1NU4X-ray1.80A/B2-98[»]
1OIAX-ray2.40A/B1-95[»]
1SJ3X-ray2.20P1-100[»]
1SJ4X-ray2.70P1-100[»]
1SJFX-ray2.75A1-100[»]
1U6BX-ray3.10A1-98[»]
1URNX-ray1.92A/B/C2-98[»]
1VBXX-ray2.70A1-100[»]
1VBYX-ray2.90A1-100[»]
1VBZX-ray2.80A1-100[»]
1VC0X-ray2.50A1-100[»]
1VC5X-ray3.40A1-100[»]
1VC6X-ray2.80A1-100[»]
1ZZNX-ray3.37A1-98[»]
2A3JNMR-A3-80[»]
2NZ4X-ray2.50A/B/C/D5-98[»]
2OIHX-ray2.40A2-100[»]
2OJ3X-ray2.90A2-100[»]
2U1ANMR-A195-282[»]
3BO2X-ray3.31A4-98[»]
3BO3X-ray3.40A4-98[»]
3BO4X-ray3.33A4-98[»]
3CULX-ray2.80A/B1-96[»]
3CUNX-ray3.00A/B1-98[»]
3EGZX-ray2.20A1-98[»]
3G8SX-ray3.10A/B/C/D1-98[»]
3G8TX-ray3.00A/B/C/D1-98[»]
3G96X-ray3.01A/B/C/D1-98[»]
3G9CX-ray2.90A/B/C/D1-98[»]
3HHNX-ray2.99B/D2-98[»]
3IINX-ray4.18A4-98[»]
3IRWX-ray2.70P1-98[»]
3IWNX-ray3.20C/D6-96[»]
3K0JX-ray3.10A/B/C/D2-97[»]
3L3CX-ray2.85A/B/C/D7-96[»]
3MUMX-ray2.90P1-98[»]
3MURX-ray3.00P1-98[»]
3MUTX-ray3.00P1-98[»]
3MUVX-ray3.20P1-98[»]
3MXHX-ray2.30P1-98[»]
3P49X-ray3.55B1-98[»]
3PGWX-ray4.40A/P1-282[»]
3R1HX-ray3.15A/D1-98[»]
3R1LX-ray3.12A/D1-98[»]
3UCUX-ray2.80P1-98[»]
3UCZX-ray2.80P1-98[»]
3UD3X-ray3.10P1-98[»]
3UD4X-ray2.70P1-98[»]
3UTRmodel-B/D1-98[»]
4C4WX-ray2.95A/B/E/F1-102[»]
4PR6X-ray2.30A4-96[»]
4PRFX-ray2.40A1-100[»]
4W90X-ray3.12B6-96[»]
4W92X-ray3.21B6-96[»]
4YB1X-ray2.08P7-97[»]
5DDOX-ray3.10C/G2-98[»]
5DDPX-ray2.30C/D2-98[»]
5DDQX-ray2.40C/D2-98[»]
5DDRX-ray2.60C/D2-98[»]
5FJ4X-ray2.95A/B/E/F1-102[»]
ProteinModelPortaliP09012.
SMRiP09012. Positions 2-117, 195-282.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112510. 93 interactions.
DIPiDIP-29407N.
IntActiP09012. 42 interactions.
MINTiMINT-125665.
STRINGi9606.ENSP00000243563.

PTM databases

iPTMnetiP09012.
PhosphoSiteiP09012.

Polymorphism and mutation databases

BioMutaiSNRPA.
DMDMi134092.

Proteomic databases

EPDiP09012.
MaxQBiP09012.
PaxDbiP09012.
PeptideAtlasiP09012.
PRIDEiP09012.
TopDownProteomicsiP09012.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000243563; ENSP00000243563; ENSG00000077312.
GeneIDi6626.
KEGGihsa:6626.
UCSCiuc002ooz.4. human.

Organism-specific databases

CTDi6626.
GeneCardsiSNRPA.
HGNCiHGNC:11151. SNRPA.
HPAiCAB004652.
HPA046440.
HPA054834.
MIMi182285. gene.
neXtProtiNX_P09012.
PharmGKBiPA35993.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG4206. Eukaryota.
ENOG410XPZI. LUCA.
GeneTreeiENSGT00390000007046.
HOGENOMiHOG000217519.
HOVERGENiHBG000895.
InParanoidiP09012.
KOiK11091.
OMAiESANEAR.
OrthoDBiEOG091G0NFU.
PhylomeDBiP09012.
TreeFamiTF313834.

Enzyme and pathway databases

ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

ChiTaRSiSNRPA. human.
EvolutionaryTraceiP09012.
GeneWikiiSmall_nuclear_ribonucleoprotein_polypeptide_A.
GenomeRNAii6626.
PROiP09012.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000077312.
CleanExiHS_SNRPA.
ExpressionAtlasiP09012. baseline and differential.
GenevisibleiP09012. HS.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR024888. RRM_U1_A/B''.
[Graphical view]
PANTHERiPTHR10501. PTHR10501. 1 hit.
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSNRPA_HUMAN
AccessioniPrimary (citable) accession number: P09012
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 197 of the entry and version 3 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

3D-structure, 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

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 one 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.