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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
  • U1 snRNP binding Source: Ensembl

GO - Biological processi

  • mRNA splicing, via spliceosome Source: HGNC
  • regulation of mRNA polyadenylation Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000077312-MONOMER.
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)DescriptionActionsGraphical viewLength
Mutagenesisi11T → V: Abolishes RNA binding. 1 Publication1
Mutagenesisi13Y → F: Substantially reduces RNA binding. 1 Publication1
Mutagenesisi15N → V: Abolishes RNA binding. 1 Publication1
Mutagenesisi16N → V: Substantially reduces RNA binding. 1 Publication1
Mutagenesisi52R → Q: Abolishes RNA binding. 1 Publication1

Organism-specific databases

DisGeNETi6626.
OpenTargetsiENSG00000077312.
PharmGKBiPA35993.

Polymorphism and mutation databases

BioMutaiSNRPA.
DMDMi134092.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources1 Publication
ChainiPRO_00000818872 – 282U1 small nuclear ribonucleoprotein AAdd BLAST281

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1 Publication1
Modified residuei60N6-acetyllysineCombined sources1
Modified residuei131PhosphothreonineCombined sources1
Modified residuei152Omega-N-methylarginineCombined sources1

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

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

PTM databases

iPTMnetiP09012.
PhosphoSitePlusiP09012.

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
itself4EBI-607085,EBI-607085
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
PCBP1Q153655EBI-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
SNRPA1P096616EBI-607085,EBI-876439
TRIM27P143735EBI-607085,EBI-719493
U2AF2P263685EBI-607085,EBI-742339

Protein-protein interaction databases

BioGridi112510. 93 interactors.
DIPiDIP-29407N.
IntActiP09012. 50 interactors.
MINTiMINT-125665.
STRINGi9606.ENSP00000243563.

Structurei

Secondary structure

1282
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi10 – 16Combined sources7
Beta strandi19 – 21Combined sources3
Helixi23 – 34Combined sources12
Helixi35 – 37Combined sources3
Beta strandi40 – 44Combined sources5
Helixi47 – 51Combined sources5
Beta strandi55 – 61Combined sources7
Helixi62 – 72Combined sources11
Turni77 – 79Combined sources3
Beta strandi83 – 86Combined sources4
Helixi93 – 96Combined sources4
Helixi97 – 100Combined sources4
Beta strandi208 – 213Combined sources6
Helixi221 – 229Combined sources9
Beta strandi234 – 238Combined sources5
Beta strandi246 – 253Combined sources8
Helixi254 – 263Combined sources10
Turni264 – 266Combined sources3
Helixi269 – 271Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP09012.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini10 – 89RRM 1PROSITE-ProRule annotationAdd BLAST80
Domaini208 – 282RRM 2PROSITE-ProRule annotationAdd BLAST75

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi140 – 206Pro-richAdd BLAST67

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
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112510. 93 interactors.
DIPiDIP-29407N.
IntActiP09012. 50 interactors.
MINTiMINT-125665.
STRINGi9606.ENSP00000243563.

PTM databases

iPTMnetiP09012.
PhosphoSitePlusiP09012.

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.
DisGeNETi6626.
GeneCardsiSNRPA.
HGNCiHGNC:11151. SNRPA.
HPAiCAB004652.
HPA046440.
HPA054834.
MIMi182285. gene.
neXtProtiNX_P09012.
OpenTargetsiENSG00000077312.
PharmGKBiPA35993.
GenAtlasiSearch...

Phylogenomic databases

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

Enzyme and pathway databases

BioCyciZFISH:ENSG00000077312-MONOMER.
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: November 30, 2016
This is version 200 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.