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Protein

U6 snRNA phosphodiesterase

Gene

Usb1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at transcript leveli

Functioni

Phosphodiesterase responsible for the U6 snRNA 3' end processing. Acts as an exoribonuclease (RNase) responsible for trimming the poly(U) tract of the last nucleotides in the pre-U6 snRNA molecule, leading to the formation of mature U6 snRNA 3' end-terminated with a 2',3'-cyclic phosphate.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei122 – 1221Proton donor/acceptorUniRule annotation
Active sitei210 – 2101Proton donor/acceptorUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Nuclease

Keywords - Biological processi

mRNA processing, mRNA splicing

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA phosphodiesteraseUniRule annotation (EC:3.1.4.-UniRule annotation)
Gene namesi
Name:Usb1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 19

Organism-specific databases

RGDi1305215. Usb1.

Subcellular locationi

  • Nucleus UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 267267U6 snRNA phosphodiesterasePRO_0000274393Add
BLAST

Proteomic databases

PaxDbiQ5I0I5.
PRIDEiQ5I0I5.

Expressioni

Gene expression databases

GenevisibleiQ5I0I5. RN.

Interactioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000017960.

Family & Domainsi

Sequence similaritiesi

Belongs to the 2H phosphoesterase superfamily. USB1 family.UniRule annotation

Phylogenomic databases

eggNOGiKOG3102. Eukaryota.
ENOG4111KT5. LUCA.
GeneTreeiENSGT00390000004596.
HOGENOMiHOG000047515.
HOVERGENiHBG081315.
InParanoidiQ5I0I5.
OMAiRCRTGNK.
OrthoDBiEOG79W972.
PhylomeDBiQ5I0I5.
TreeFamiTF324364.

Family and domain databases

HAMAPiMF_03040. USB1.
InterProiIPR009097. RNA_ligase/cNuc_Pdiesterase.
IPR027521. Usb1.
[Graphical view]
PANTHERiPTHR13522. PTHR13522. 1 hit.
PfamiPF09749. HVSL. 1 hit.
[Graphical view]
SUPFAMiSSF55144. SSF55144. 1 hit.

Sequencei

Sequence statusi: Complete.

Q5I0I5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNAAPLVGYS SSGSEDEAEA VAAGRSKPGS GLHRCGQNPL PSQRFPVPDS
60 70 80 90 100
VLNMFPSTEE GPEDDSARHG GRIRTFPHER GNWATHIYIP YEANEEFQDL
110 120 130 140 150
LDVLLPRAQM FAPRLVQMEE FHLSLSQSVV LRHHWILPFV QVLKDRMASF
160 170 180 190 200
QRFFFTANRV KIYTNQEKTR TFIGLEVSSG HAQFLDMVSE VDRVMKEFDL
210 220 230 240 250
TTFYQDPSFH VSLAWCVGDA RLQLEGQCQQ ELQEIVDEFE DSEMLLRVLA
260
EQVRCKSGNK FFSMPLK
Length:267
Mass (Da):30,475
Last modified:February 15, 2005 - v1
Checksum:iB678B7E0F6AD3B50
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC088280 mRNA. Translation: AAH88280.1.
RefSeqiNP_001014035.1. NM_001014013.1.
UniGeneiRn.95149.

Genome annotation databases

EnsembliENSRNOT00000017960; ENSRNOP00000017960; ENSRNOG00000013216.
GeneIDi307643.
KEGGirno:307643.
UCSCiRGD:1305215. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC088280 mRNA. Translation: AAH88280.1.
RefSeqiNP_001014035.1. NM_001014013.1.
UniGeneiRn.95149.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000017960.

Proteomic databases

PaxDbiQ5I0I5.
PRIDEiQ5I0I5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000017960; ENSRNOP00000017960; ENSRNOG00000013216.
GeneIDi307643.
KEGGirno:307643.
UCSCiRGD:1305215. rat.

Organism-specific databases

CTDi79650.
RGDi1305215. Usb1.

Phylogenomic databases

eggNOGiKOG3102. Eukaryota.
ENOG4111KT5. LUCA.
GeneTreeiENSGT00390000004596.
HOGENOMiHOG000047515.
HOVERGENiHBG081315.
InParanoidiQ5I0I5.
OMAiRCRTGNK.
OrthoDBiEOG79W972.
PhylomeDBiQ5I0I5.
TreeFamiTF324364.

Miscellaneous databases

NextBioi657695.
PROiQ5I0I5.

Gene expression databases

GenevisibleiQ5I0I5. RN.

Family and domain databases

HAMAPiMF_03040. USB1.
InterProiIPR009097. RNA_ligase/cNuc_Pdiesterase.
IPR027521. Usb1.
[Graphical view]
PANTHERiPTHR13522. PTHR13522. 1 hit.
PfamiPF09749. HVSL. 1 hit.
[Graphical view]
SUPFAMiSSF55144. SSF55144. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "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].
    Tissue: Thymus.

Entry informationi

Entry nameiUSB1_RAT
AccessioniPrimary (citable) accession number: Q5I0I5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 6, 2007
Last sequence update: February 15, 2005
Last modified: May 11, 2016
This is version 70 of the entry and version 1 of the sequence. [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

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.