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Protein

Antiviral helicase SKI2

Gene

SKI2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

RNA helicase component of the SKI complex involved in 3'-mRNA degradation pathway. Represses dsRNA virus propagation by specifically blocking translation of viral mRNAs, perhaps recognizing the absence of CAP or poly(A). Essential for cell growth only in the presence of M1 replicon.13 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi351 – 358ATPPROSITE-ProRule annotation8

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • DNA binding Source: UniProtKB-KW
  • RNA binding Source: UniProtKB-KW
  • RNA helicase activity Source: SGD

GO - Biological processi

  • defense response to virus Source: UniProtKB-KW
  • nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay Source: SGD
  • nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' Source: SGD
  • nuclear-transcribed mRNA catabolic process, non-stop decay Source: SGD
  • regulation of translation Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Antiviral defense, Translation regulation

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-32462-MONOMER.
ReactomeiR-SCE-429958. mRNA decay by 3' to 5' exoribonuclease.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
Antiviral helicase SKI2 (EC:3.6.4.13)
Alternative name(s):
Superkiller protein 2
Gene namesi
Name:SKI2
Ordered Locus Names:YLR398C
ORF Names:L8084.17
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR398C.
SGDiS000004390. SKI2.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: SGD
  • Ski complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001020841 – 1287Antiviral helicase SKI2Add BLAST1287

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei209PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP35207.
PRIDEiP35207.

PTM databases

iPTMnetiP35207.

Interactioni

Subunit structurei

Component of the SKI complex composed of at least SKI2, SKI3 and SKI8. The SKI complex interacts with SKI7, which makes the link between the SKI complex and the exosome in order to perform mRNA degradation.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
SKI3P1788310EBI-1851,EBI-1861
SKI8Q0279310EBI-1851,EBI-17260

Protein-protein interaction databases

BioGridi31657. 134 interactors.
DIPiDIP-5887N.
IntActiP35207. 14 interactors.
MINTiMINT-662639.

Structurei

Secondary structure

11287
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi302 – 305Combined sources4
Helixi315 – 318Combined sources4
Helixi332 – 342Combined sources11
Beta strandi346 – 350Combined sources5
Helixi358 – 370Combined sources13
Beta strandi374 – 380Combined sources7
Helixi382 – 384Combined sources3
Helixi385 – 393Combined sources9
Beta strandi401 – 404Combined sources4
Beta strandi414 – 420Combined sources7
Helixi421 – 430Combined sources10
Helixi434 – 437Combined sources4
Beta strandi438 – 443Combined sources6
Helixi458 – 464Combined sources7
Beta strandi470 – 475Combined sources6
Helixi481 – 492Combined sources12
Beta strandi496 – 500Combined sources5
Beta strandi508 – 514Combined sources7
Beta strandi517 – 522Combined sources6
Helixi530 – 540Combined sources11
Helixi613 – 623Combined sources11
Beta strandi628 – 632Combined sources5
Helixi636 – 644Combined sources9
Turni645 – 648Combined sources4
Helixi654 – 668Combined sources15
Helixi673 – 676Combined sources4
Helixi679 – 688Combined sources10
Turni689 – 691Combined sources3
Beta strandi692 – 695Combined sources4
Helixi701 – 712Combined sources12
Beta strandi717 – 721Combined sources5
Helixi724 – 727Combined sources4
Beta strandi734 – 739Combined sources6
Beta strandi741 – 745Combined sources5
Beta strandi748 – 751Combined sources4
Helixi754 – 761Combined sources8
Helixi762 – 764Combined sources3
Turni767 – 769Combined sources3
Beta strandi771 – 778Combined sources8
Helixi786 – 794Combined sources9
Helixi808 – 817Combined sources10
Helixi821 – 827Combined sources7
Helixi830 – 854Combined sources25
Turni862 – 864Combined sources3
Beta strandi865 – 868Combined sources4
Helixi871 – 889Combined sources19
Helixi895 – 898Combined sources4
Beta strandi903 – 908Combined sources6
Beta strandi914 – 923Combined sources10
Turni924 – 927Combined sources4
Beta strandi928 – 933Combined sources6
Beta strandi943 – 945Combined sources3
Helixi955 – 961Combined sources7
Beta strandi971 – 976Combined sources6
Helixi977 – 979Combined sources3
Beta strandi982 – 987Combined sources6
Helixi992 – 997Combined sources6
Helixi1000 – 1015Combined sources16
Helixi1031 – 1044Combined sources14
Helixi1051 – 1053Combined sources3
Helixi1061 – 1079Combined sources19
Turni1080 – 1082Combined sources3
Helixi1088 – 1101Combined sources14
Helixi1113 – 1118Combined sources6
Helixi1126 – 1134Combined sources9
Helixi1137 – 1140Combined sources4
Helixi1143 – 1150Combined sources8
Helixi1151 – 1153Combined sources3
Helixi1169 – 1191Combined sources23
Helixi1198 – 1202Combined sources5
Helixi1203 – 1205Combined sources3
Turni1208 – 1211Combined sources4
Helixi1212 – 1220Combined sources9
Helixi1224 – 1229Combined sources6
Helixi1235 – 1259Combined sources25
Helixi1262 – 1275Combined sources14
Helixi1278 – 1281Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4A4KX-ray3.25A/C/E/G/I835-1085[»]
4A4ZX-ray2.40A296-1287[»]
4BUJX-ray3.70A/E1-208[»]
A/E301-834[»]
A/E1086-1287[»]
ProteinModelPortaliP35207.
SMRiP35207.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini338 – 496Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST159
Domaini638 – 815Helicase C-terminalPROSITE-ProRule annotationAdd BLAST178

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni556 – 577RNA-binding RGG-boxBy similarityAdd BLAST22

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi444 – 447DEVH box4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi555 – 597Arg/Gly-richAdd BLAST43

Sequence similaritiesi

Belongs to the helicase family. SKI2 subfamily.Curated
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00860000133973.
HOGENOMiHOG000163048.
InParanoidiP35207.
KOiK12599.
OMAiHMTIEKS.
OrthoDBiEOG092C0MRM.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR025696. rRNA_proc-arch_dom.
IPR016438. Ski2.
IPR012961. Ski2_C.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF08148. DSHCT. 1 hit.
PF00271. Helicase_C. 1 hit.
PF13234. rRNA_proc-arch. 1 hit.
[Graphical view]
PIRSFiPIRSF005198. Antiviral_helicase_SKI2. 1 hit.
SMARTiSM00487. DEXDc. 1 hit.
SM01142. DSHCT. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P35207-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEGFSSSSI QELYQSLKEI TNNADVELFE DRITKLDFES TDEPKHANDI
60 70 80 90 100
IKDRFLRPSN ALPWSLLDMV QDVPHTSSPE DCSGKLDYKE LLKVPDPINR
110 120 130 140 150
TSYQFKRTGL EGKISGYKEE VDLKEVANAN ASNSLSITRS INHNQNSVRG
160 170 180 190 200
STAQLPFTPG GIPMKSVKTD SEQNGSSTMA NATKLLHKDG QGLFDIPEGM
210 220 230 240 250
NRGIKPMDSP AENEDQNGQF KELKQLNEID NELDIRIEAN EAKLKEEEKS
260 270 280 290 300
AKSISEEIME EATEETTADN ADDAEIDELL PIGIDFGRTK PVSKSVPVKK
310 320 330 340 350
EWAHVVDLNH KIENFDELIP NPARSWPFEL DTFQKEAVYH LEQGDSVFVA
360 370 380 390 400
AHTSAGKTVV AEYAIAMAHR NMTKTIYTSP IKALSNQKFR DFKETFDDVN
410 420 430 440 450
IGLITGDVQI NPDANCLIMT TEILRSMLYR GADLIRDVEF VIFDEVHYVN
460 470 480 490 500
DQDRGVVWEE VIIMLPQHVK FILLSATVPN TYEFANWIGR TKQKNIYVIS
510 520 530 540 550
TPKRPVPLEI NIWAKKELIP VINQNSEFLE ANFRKHKEIL NGESAKGAPS
560 570 580 590 600
KTDNGRGGST ARGGRGGSNT RDGRGGRGNS TRGGANRGGS RGAGAIGSNK
610 620 630 640 650
RKFFTQDGPS KKTWPEIVNY LRKRELLPMV VFVFSKKRCE EYADWLEGIN
660 670 680 690 700
FCNNKEKSQI HMFIEKSITR LKKEDRDLPQ ILKTRSLLER GIAVHHGGLL
710 720 730 740 750
PIVKELIEIL FSKGFIKVLF ATETFAMGLN LPTRTVIFSS IRKHDGNGLR
760 770 780 790 800
ELTPGEFTQM AGRAGRRGLD STGTVIVMAY NSPLSIATFK EVTMGVPTRL
810 820 830 840 850
QSQFRLTYNM ILNLLRIEAL RVEEMIKYSF SENAKETLQP EHEKQIKVLQ
860 870 880 890 900
EELQTIEYKS CEICDNDIEK FLELMLAYKE ATVNLMQEMV KSPSILHILK
910 920 930 940 950
EGRLVAFRDP NDCLKLGFVF KVSLKDAVCV IMTFTKPYKL PNGEPNHLIY
960 970 980 990 1000
FPKADGYRRR NFPKFQKTDF YMEEVPVTAI EVITKRKFAA PLGKVIKKDV
1010 1020 1030 1040 1050
AALNEFNAET NNILDGKTLK EAINIEKQGL KIHQILLDRT NIRDEIFKLK
1060 1070 1080 1090 1100
SIKCPNLSQH IVPKFKAHVI KKKIEELYHL MSDQNLSLLP DYEKRLAVLK
1110 1120 1130 1140 1150
DTEFIDQNHN VLLKGRVACE INSGYELVLT ELILDNFLGS FEPEEIVALL
1160 1170 1180 1190 1200
SVFVYEGKTR EEEPPIVTPR LAKGKQRIEE IYKKMLCVFN THQIPLTQDE
1210 1220 1230 1240 1250
AEFLDRKRFA MMNVVYEWAR GLSFKEIMEM SPEAEGTVVR VITWLDEICR
1260 1270 1280
EVKTASIIIG NSTLHMKMSR AQELIKRDIV FAASLYL
Length:1,287
Mass (Da):146,059
Last modified:May 30, 2000 - v2
Checksum:i7CCD36CFC0DF8C32
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti326W → C in AAA35049 (PubMed:8321235).Curated1
Sequence conflicti759 – 760QM → L in AAA35049 (PubMed:8321235).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L13469 mRNA. Translation: AAA35049.1.
U19729 Genomic DNA. Translation: AAB82356.1.
Z18944 Genomic DNA. Translation: CAA79378.1.
BK006945 Genomic DNA. Translation: DAA09699.1.
PIRiS55954.
RefSeqiNP_013502.3. NM_001182286.3.

Genome annotation databases

EnsemblFungiiYLR398C; YLR398C; YLR398C.
GeneIDi851114.
KEGGisce:YLR398C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L13469 mRNA. Translation: AAA35049.1.
U19729 Genomic DNA. Translation: AAB82356.1.
Z18944 Genomic DNA. Translation: CAA79378.1.
BK006945 Genomic DNA. Translation: DAA09699.1.
PIRiS55954.
RefSeqiNP_013502.3. NM_001182286.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4A4KX-ray3.25A/C/E/G/I835-1085[»]
4A4ZX-ray2.40A296-1287[»]
4BUJX-ray3.70A/E1-208[»]
A/E301-834[»]
A/E1086-1287[»]
ProteinModelPortaliP35207.
SMRiP35207.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31657. 134 interactors.
DIPiDIP-5887N.
IntActiP35207. 14 interactors.
MINTiMINT-662639.

PTM databases

iPTMnetiP35207.

Proteomic databases

MaxQBiP35207.
PRIDEiP35207.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR398C; YLR398C; YLR398C.
GeneIDi851114.
KEGGisce:YLR398C.

Organism-specific databases

EuPathDBiFungiDB:YLR398C.
SGDiS000004390. SKI2.

Phylogenomic databases

GeneTreeiENSGT00860000133973.
HOGENOMiHOG000163048.
InParanoidiP35207.
KOiK12599.
OMAiHMTIEKS.
OrthoDBiEOG092C0MRM.

Enzyme and pathway databases

BioCyciYEAST:G3O-32462-MONOMER.
ReactomeiR-SCE-429958. mRNA decay by 3' to 5' exoribonuclease.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.

Miscellaneous databases

PROiP35207.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR025696. rRNA_proc-arch_dom.
IPR016438. Ski2.
IPR012961. Ski2_C.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF08148. DSHCT. 1 hit.
PF00271. Helicase_C. 1 hit.
PF13234. rRNA_proc-arch. 1 hit.
[Graphical view]
PIRSFiPIRSF005198. Antiviral_helicase_SKI2. 1 hit.
SMARTiSM00487. DEXDc. 1 hit.
SM01142. DSHCT. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSKI2_YEAST
AccessioniPrimary (citable) accession number: P35207
Secondary accession number(s): D6VZ33, Q06047
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: May 30, 2000
Last modified: November 30, 2016
This is version 161 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 5770 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

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.