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UniProtKB - Q02792 (XRN2_YEAST)
Protein
5'-3' exoribonuclease 2
Gene
RAT1
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Functioni
Possesses 5'->3' exoribonuclease activity. Required for the processing of nuclear mRNA, rRNA and small nucleolar RNA (snoRNA) precursors. May promote termination of transcription by RNA polymerase II via the recruitment of 3'-end processing factors to the poly(A) site and by the degradation of nascent RNA downstream of the poly(A) site.
16 PublicationsMiscellaneous
Present with 623 molecules/cell in log phase SD medium.1 Publication
Cofactori
Activity regulationi
Inhibited by nucleoside 3', 5'-bisphosphates.1 Publication
pH dependencei
Optimum pH is 8.0-8.8.1 Publication
GO - Molecular functioni
- 5'-3' exoribonuclease activity Source: SGD
- mRNA binding Source: SGD
- RNA binding Source: GO_Central
- rRNA binding Source: GO_Central
GO - Biological processi
- cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
- mRNA processing Source: UniProtKB-KW
- negative regulation of phosphorylation of RNA polymerase II C-terminal domain Source: SGD
- negative regulation of transcription elongation from RNA polymerase II promoter Source: SGD
- nuclear mRNA surveillance Source: SGD
- nuclear polyadenylation-dependent rRNA catabolic process Source: SGD
- nuclear-transcribed mRNA catabolic process Source: GO_Central
- positive regulation of termination of RNA polymerase II transcription Source: ComplexPortal
- rRNA processing Source: SGD
- sno(s)RNA processing Source: SGD
- termination of RNA polymerase II transcription, exosome-dependent Source: SGD
- termination of RNA polymerase II transcription, poly(A)-coupled Source: SGD
Keywordsi
Molecular function | Exonuclease, Hydrolase, Nuclease |
Biological process | mRNA processing, rRNA processing, Transcription, Transcription regulation, Transcription termination |
Enzyme and pathway databases
BRENDAi | 3.1.13.B1, 984 |
Names & Taxonomyi
Protein namesi | Recommended name: 5'-3' exoribonuclease 2 (EC:3.1.13.-)Alternative name(s): Ribonucleic acid-trafficking protein 1 p116 |
Gene namesi | Name:RAT1 Synonyms:HKE1, TAP1 Ordered Locus Names:YOR048C |
Organismi | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
Taxonomic identifieri | 559292 [NCBI] |
Taxonomic lineagei | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › |
Proteomesi |
|
Organism-specific databases
SGDi | S000005574, RAT1 |
VEuPathDBi | FungiDB:YOR048C |
Subcellular locationi
Nucleus
- Nucleus 3 Publications
Cytosol
- Las1 complex Source: ComplexPortal
Mitochondrion
- mitochondrion Source: SGD
Nucleus
- nucleus Source: SGD
- RNA polymerase II termination complex Source: ComplexPortal
Keywords - Cellular componenti
NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 235 | D → A: Abrogates exonuclease activity and impairs termination of transcription by RNA polymerase II. 1 Publication | 1 | |
Mutagenesisi | 518 | H → Y: Causes mislocalization to the cytoplasm and suppresses the requirement for XRN1 function. 1 Publication | 1 | |
Mutagenesisi | 520 | L → P: Suppresses the requirement for XRN1 function. 1 Publication | 1 | |
Mutagenesisi | 534 | K → A: Causes mislocalization to the cytoplasm; when associated with A-535 and A-537. 1 Publication | 1 | |
Mutagenesisi | 535 | K → A: Causes mislocalization to the cytoplasm; when associated with A-534 and A-537. 1 Publication | 1 | |
Mutagenesisi | 535 | K → N: Causes mislocalization to the cytoplasm and suppresses the requirement for XRN1 function. 1 Publication | 1 | |
Mutagenesisi | 537 | K → A: Causes mislocalization to the cytoplasm; when associated with A-534 and A-535. 1 Publication | 1 | |
Mutagenesisi | 537 | K → E: Causes mislocalization to the cytoplasm and suppresses the requirement for XRN1 function. 1 Publication | 1 | |
Mutagenesisi | 683 | Y → H in allele TAP1-1; activates transcription of the promoter-defective yeast SUP4 tRNA(Tyr) allele SUP4A53T61. | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed1 Publication | |||
ChainiPRO_0000071399 | 2 – 1006 | 5'-3' exoribonuclease 2Add BLAST | 1005 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 574 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
MaxQBi | Q02792 |
PaxDbi | Q02792 |
PRIDEi | Q02792 |
PTM databases
iPTMneti | Q02792 |
Interactioni
Subunit structurei
Interacts with RAI1 and RTT103.
3 PublicationsBinary interactionsi
Q02792
With | #Exp. | IntAct |
---|---|---|
RAI1 [P53063] | 4 | EBI-14845,EBI-24206 |
Protein-protein interaction databases
BioGRIDi | 34449, 526 interactors |
ComplexPortali | CPX-1332, RAT1-RAI1 RNA polymerase II termination complex |
DIPi | DIP-6692N |
IntActi | Q02792, 4 interactors |
MINTi | Q02792 |
STRINGi | 4932.YOR048C |
Miscellaneous databases
RNActi | Q02792, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Repeati | 955 – 958 | 1-1 | 4 | |
Repeati | 961 – 964 | 2-1 | 4 | |
Repeati | 972 – 974 | 2-2 | 3 | |
Repeati | 975 – 978 | 3-1 | 4 | |
Repeati | 984 – 986 | 3-2 | 3 | |
Repeati | 996 – 999 | 1-2 | 4 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 492 – 529 | Required for retention in the nucleusAdd BLAST | 38 | |
Regioni | 561 – 584 | DisorderedSequence analysisAdd BLAST | 24 | |
Regioni | 939 – 1006 | DisorderedSequence analysisAdd BLAST | 68 | |
Regioni | 955 – 999 | 2 X 4 AA repeats of S-R-Y-D, N-N-N-Y, Y-S-G-NAdd BLAST | 45 |
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 256 – 287 | Sequence analysisAdd BLAST | 32 | |
Coiled coili | 453 – 544 | Sequence analysisAdd BLAST | 92 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 939 – 997 | Polar residuesSequence analysisAdd BLAST | 59 |
Sequence similaritiesi
Keywords - Domaini
Coiled coil, RepeatPhylogenomic databases
eggNOGi | KOG2044, Eukaryota |
GeneTreei | ENSGT00670000098098 |
HOGENOMi | CLU_006038_1_1_1 |
OMAi | CLHYYVH |
Family and domain databases
InterProi | View protein in InterPro IPR027073, 5_3_exoribonuclease IPR004859, Put_53exo IPR041412, Xrn1_helical IPR017151, Xrn2/3/4 |
PANTHERi | PTHR12341, PTHR12341, 1 hit |
Pfami | View protein in Pfam PF17846, XRN_M, 2 hits PF03159, XRN_N, 1 hit |
PIRSFi | PIRSF037239, Exonuclease_Xrn2, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
Q02792-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MGVPSFFRWL SRKYPKIISP VLEEQPQIVD GVILPLDYSA SNPNGELDNL
60 70 80 90 100
YLDMNGIVHP CSHPENKPPP ETEDEMLLAV FEYTNRVLNM ARPRKVLVMA
110 120 130 140 150
VDGVAPRAKM NQQRARRFRS ARDAQIENEA REEIMRQREE VGEIIDDAVR
160 170 180 190 200
NKKTWDSNAI TPGTPFMDKL AAALRYWTAF KLATDPGWKN LQVIISDATV
210 220 230 240 250
PGEGEHKIMN FIRSQRADPE YNPNTTHCIY GLDADLIFLG LATHEPHFKI
260 270 280 290 300
LREDVFAQDN RKRNNLKDTI NMTEEEKQFL QKQNSEQPFL WLHINVLREY
310 320 330 340 350
LSAELWVPGL PFTFDLERAI DDWVFMCFFC GNDFLPHLPC LDVRENSIDI
360 370 380 390 400
LLDIWKVVLP KLKTYMTCDG VLNLPSVETL LQHLGSREGD IFKTRHIQEA
410 420 430 440 450
RKKEAFERRK AQKNMSKGQD RHPTVATEQL QMYDTQGNLA KGSWNLTTSD
460 470 480 490 500
MVRLKKELML ANEGNEEAIA KVKQQSDKNN ELMKDISKEE IDDAVSKANK
510 520 530 540 550
TNFNLAEVMK QKIINKKHRL EKDNEEEEIA KDSKKVKTEK AESECDLDAE
560 570 580 590 600
IKDEIVADVN DRENSETTEV SRDSPVHSTV NVSEGPKNGV FDTDEFVKLF
610 620 630 640 650
EPGYHERYYT AKFHVTPQDI EQLRKDMVKC YIEGVAWVLM YYYQGCASWN
660 670 680 690 700
WFYPYHYAPL ATDFHGFSHL EIKFEEGTPF LPYEQLMSVL PAASGHALPK
710 720 730 740 750
IFRSLMSEPD SEIIDFYPEE FPIDMNGKKM SWQGIALLPF IDQDRLLTAV
760 770 780 790 800
RAQYPLLSDA ERARNIRGEP VLLISNKNAN YERFSKKLYS KENNNNNVVV
810 820 830 840 850
KFQHFKSGLS GIVSKDVEGF ELNGKIVCPI QGGSLPNLST TLILKMSYRL
860 870 880 890 900
IPLPSRNKSI ILNGFIPSEP VLTAYDLDSI MYKYNNQNYS RRWNFGNDLK
910 920 930 940 950
QNIVPVGPKG ITQYKPRTGG YRAFFYFAEL SRNNVQPAHN YGRNSYNSQP
960 970 980 990 1000
GFNNSRYDGG NNNYRQNSNY RNNNYSGNRN SGQYSGNSYS RNNKQSRYDN
SRANRR
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M95626 Genomic DNA Translation: AAA34960.1 Z11746 Genomic DNA No translation available. S61567 Genomic DNA Translation: AAB26818.1 Z74956 Genomic DNA Translation: CAA99240.1 L06011 Unassigned DNA Translation: AAA16950.1 BK006948 Genomic DNA Translation: DAA10830.1 |
PIRi | S20126 |
RefSeqi | NP_014691.1, NM_001183467.1 |
Genome annotation databases
EnsemblFungii | YOR048C_mRNA; YOR048C; YOR048C |
GeneIDi | 854213 |
KEGGi | sce:YOR048C |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M95626 Genomic DNA Translation: AAA34960.1 Z11746 Genomic DNA No translation available. S61567 Genomic DNA Translation: AAB26818.1 Z74956 Genomic DNA Translation: CAA99240.1 L06011 Unassigned DNA Translation: AAA16950.1 BK006948 Genomic DNA Translation: DAA10830.1 |
PIRi | S20126 |
RefSeqi | NP_014691.1, NM_001183467.1 |
3D structure databases
SMRi | Q02792 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 34449, 526 interactors |
ComplexPortali | CPX-1332, RAT1-RAI1 RNA polymerase II termination complex |
DIPi | DIP-6692N |
IntActi | Q02792, 4 interactors |
MINTi | Q02792 |
STRINGi | 4932.YOR048C |
PTM databases
iPTMneti | Q02792 |
Proteomic databases
MaxQBi | Q02792 |
PaxDbi | Q02792 |
PRIDEi | Q02792 |
Genome annotation databases
EnsemblFungii | YOR048C_mRNA; YOR048C; YOR048C |
GeneIDi | 854213 |
KEGGi | sce:YOR048C |
Organism-specific databases
SGDi | S000005574, RAT1 |
VEuPathDBi | FungiDB:YOR048C |
Phylogenomic databases
eggNOGi | KOG2044, Eukaryota |
GeneTreei | ENSGT00670000098098 |
HOGENOMi | CLU_006038_1_1_1 |
OMAi | CLHYYVH |
Enzyme and pathway databases
BRENDAi | 3.1.13.B1, 984 |
Miscellaneous databases
PROi | PR:Q02792 |
RNActi | Q02792, protein |
Family and domain databases
InterProi | View protein in InterPro IPR027073, 5_3_exoribonuclease IPR004859, Put_53exo IPR041412, Xrn1_helical IPR017151, Xrn2/3/4 |
PANTHERi | PTHR12341, PTHR12341, 1 hit |
Pfami | View protein in Pfam PF17846, XRN_M, 2 hits PF03159, XRN_N, 1 hit |
PIRSFi | PIRSF037239, Exonuclease_Xrn2, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | XRN2_YEAST | |
Accessioni | Q02792Primary (citable) accession number: Q02792 Secondary accession number(s): D6W2B4 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1993 |
Last sequence update: | January 23, 2007 | |
Last modified: | February 23, 2022 | |
This is version 181 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Fungal Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Direct protein sequencing, Reference proteomeDocuments
- Yeast
Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD - Yeast chromosome XV
Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names - SIMILARITY comments
Index of protein domains and families