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Protein

Replicase polyprotein 1ab

Gene
N/A
Organism
Porcine reproductive and respiratory syndrome virus (isolate Pig/United States/SD 01-08/2001) (PRRSV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Replicase polyprotein 1ab: contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.
Nsp1: essential for viral subgenomic mRNA synthesis.By similarity
Nsp1-alpha papain-like cysteine proteinase: inhibits host IFN-beta production. Plays a role in the degradation of the host transcriptional activator CREBBP protein. The degradation of host CREBBP which is a key component of the IFN enhanceosome is likely responsible for the inhibition of interferon mediated by Nsp1-alpha. Participates also in the inhibition of host NF-kappa-B activation.By similarity
Nsp2 cysteine proteinase: multifunctional protein that acts as a viral protease and as a viral antagonist of host immune response. Cleaves the nsp2/nsp3 site in the viral polyprotein. Displays deubiquitinating activity that cleaves both ubiquitinated and ISGylated products and therefore inhibits ubiquitin and ISG15-dependent host innate immunity. Deubiquitinates also host NFKBIA, thereby interfering with NFKBIA degradation and impairing subsequent NF-kappa-B activation.2 Publications
Non-structural protein 3: plays a role in the inhibition of the immune response by interacting with host IFITM1. This interaction leads to the proteasomal degradation of the IFN-induced antiviral protein IFITM1.By similarity
3C-like serine proteinase: Cleaves the majority of cleavage sites present in the C-terminus of the polyprotein. Triggers host apoptosis through caspase-3, -8, and -9 activations.By similarity
Non-structural protein 5-6-7: Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic.By similarity
RNA-directed RNA polymerase: Responsible for replication and transcription of the viral RNA genome.By similarity
Helicase: Displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity.By similarity
Non-structural protein 11: Plays a role in the inhibition of the secretion of host IL-1beta by the NLRP3 inflammasome through its endonuclease activity.By similarity

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation
ATP + H2O = ADP + phosphate.
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei76For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei146For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei276For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei345For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei429For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei498For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei1715Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Active sitei1740Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Active sitei1793Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Metal bindingi3027Zinc 1PROSITE-ProRule annotation1
Metal bindingi3030Zinc 1PROSITE-ProRule annotation1
Metal bindingi3040Zinc 2PROSITE-ProRule annotation1
Metal bindingi3045Zinc 1PROSITE-ProRule annotation1
Metal bindingi3048Zinc 1PROSITE-ProRule annotation1
Metal bindingi3050Zinc 2PROSITE-ProRule annotation1
Metal bindingi3052Zinc 2PROSITE-ProRule annotation1
Metal bindingi3054Zinc 2PROSITE-ProRule annotation1
Metal bindingi3061Zinc 3PROSITE-ProRule annotation1
Metal bindingi3063Zinc 3PROSITE-ProRule annotation1
Metal bindingi3070Zinc 3PROSITE-ProRule annotation1
Sitei3071Involved in mRNA transcription processBy similarity1
Metal bindingi3073Zinc 3PROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri8 – 28C4-type; atypicalAdd BLAST21
Nucleotide bindingi3168 – 3175ATPBy similarity8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Serine protease, Thiol protease, Transferase

Keywords - Biological processi

Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host ISG15 by virus, Inhibition of host NF-kappa-B by virus, Inhibition of host STAT1 by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Viral immunoevasion, Viral RNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Replicase polyprotein 1ab
Alternative name(s):
ORF1ab polyprotein
Cleaved into the following 16 chains:
Alternative name(s):
PCP1-alpha
Alternative name(s):
PCP1-beta
Alternative name(s):
CP2
Short name:
CP
Non-structural protein 3
Short name:
Nsp3
3C-like serine proteinase (EC:3.4.21.-)
Short name:
3CLSP
Alternative name(s):
Nsp4
Non-structural protein 5-6-7
Short name:
Nsp5-6-7
Non-structural protein 5
Short name:
Nsp5
Non-structural protein 6
Short name:
Nsp6
Non-structural protein 7-alpha
Short name:
Nsp7-alpha
Non-structural protein 7-beta
Short name:
Nsp7-beta
Non-structural protein 8
Short name:
Nsp8
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
Nsp9
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
Nsp10
Non-structural protein 11
Short name:
Nsp11
Non-structural protein 12
Short name:
Nsp12
OrganismiPorcine reproductive and respiratory syndrome virus (isolate Pig/United States/SD 01-08/2001) (PRRSV)
Taxonomic identifieri857306 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]
Proteomesi
  • UP000000937 Componenti: Genome

Subcellular locationi

Nsp1 :
  • Host nucleus By similarity
  • Host cytoplasm By similarity
Nsp1-alpha papain-like cysteine proteinase :
  • Host nucleus By similarity
  • Host cytoplasm By similarity
Nsp1-beta papain-like cysteine proteinase :
  • Host nucleus By similarity
Non-structural protein 5-6-7 :
RNA-directed RNA polymerase :

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei1094 – 1114HelicalSequence analysisAdd BLAST21
Transmembranei1117 – 1137HelicalSequence analysisAdd BLAST21
Transmembranei1162 – 1182HelicalSequence analysisAdd BLAST21
Transmembranei1211 – 1231HelicalSequence analysisAdd BLAST21
Transmembranei1235 – 1255HelicalSequence analysisAdd BLAST21
Transmembranei1450 – 1470HelicalSequence analysisAdd BLAST21
Transmembranei1526 – 1546HelicalSequence analysisAdd BLAST21
Transmembranei1556 – 1576HelicalSequence analysisAdd BLAST21
Transmembranei1592 – 1612HelicalSequence analysisAdd BLAST21
Transmembranei1875 – 1895HelicalSequence analysisAdd BLAST21
Transmembranei1916 – 1936HelicalSequence analysisAdd BLAST21
Transmembranei1960 – 1980HelicalSequence analysisAdd BLAST21
Transmembranei2003 – 2023HelicalSequence analysisAdd BLAST21
Transmembranei2029 – 2048HelicalSequence analysisAdd BLAST20

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host endoplasmic reticulum, Host membrane, Host nucleus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi429C → A: Lethal. 1 Publication1
Mutagenesisi458D → A: Slight reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication1
Mutagenesisi462S → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication1
Mutagenesisi463D → A: Lethal. 1 Publication1
Mutagenesisi465D → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication1
Mutagenesisi498H → A: Lethal. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003970841 – 3838Replicase polyprotein 1abBy similarityAdd BLAST3838
ChainiPRO_00004108301 – 385Nsp1Add BLAST385
ChainiPRO_00003970851 – 180Nsp1-alpha papain-like cysteine proteinaseSequence analysisAdd BLAST180
ChainiPRO_0000397086181 – 385Nsp1-beta papain-like cysteine proteinaseSequence analysisAdd BLAST205
ChainiPRO_0000397087386 – 1446Nsp2 cysteine proteinaseAdd BLAST1061
ChainiPRO_00003970881447 – 1676Non-structural protein 3Add BLAST230
ChainiPRO_00003970891677 – 18793C-like serine proteinaseAdd BLAST203
ChainiPRO_00003970901880 – 2334Non-structural protein 5-6-7By similarityAdd BLAST455
ChainiPRO_00004231341880 – 2049Non-structural protein 5Add BLAST170
ChainiPRO_00004231352050 – 2065Non-structural protein 6Add BLAST16
ChainiPRO_00004231362066 – 2214Non-structural protein 7-alphaAdd BLAST149
ChainiPRO_00004231372215 – 2334Non-structural protein 7-betaAdd BLAST120
ChainiPRO_00003970912335 – 3020RNA-directed RNA polymeraseBy similarityAdd BLAST686
ChainiPRO_00003970922335 – 2379Non-structural protein 8By similarityAdd BLAST45
ChainiPRO_00003970933021 – 3462HelicaseBy similarityAdd BLAST442
ChainiPRO_00003970943463 – 3686Non-structural protein 11By similarityAdd BLAST224
ChainiPRO_00003970953687 – 3838Non-structural protein 12By similarityAdd BLAST152

Post-translational modificationi

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. Nsp1 is autocleaved into two subunits, Nsp1-alpha and Nsp1-beta. There are two alternative pathways for processing. Either nsp4-5 is cleaved, which represents the major pathway or the nsp5-6 and nsp6-7 are processed, which represents the minor pathway. The major pathway occurs when nsp2 acts as cofactor for nsp4 (By similarity). Many long-lived processing intermediates exist such as nsp3-4, nsp5-7, nsp5-8 and nsp3-8.By similarity1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei180 – 181Cleavage; by autolysisSequence analysis2
Sitei385 – 386Cleavage; by autolysis2
Sitei1446 – 1447Cleavage; by CP2Sequence analysis2
Sitei1676 – 1677Cleavage; by 3CLSP2
Sitei1879 – 1880Cleavage; by 3CLSP2
Sitei2049 – 2050Cleavage; by 3CLSP2
Sitei2065 – 2066Cleavage; by 3CLSP2
Sitei2214 – 2215Cleavage; by 3CLSP2
Sitei2334 – 2335Cleavage; by 3CLSP2
Sitei3020 – 3021Cleavage; by 3CLSP2
Sitei3462 – 3463Cleavage; by 3CLSPBy similarity2
Sitei3686 – 3687Cleavage; by 3CLSPBy similarity2

Interactioni

Subunit structurei

Nsp3 interacts with host IFITM1. Nsp9 interacts with host DDX5.By similarity

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini69 – 180Peptidase C31PROSITE-ProRule annotationAdd BLAST112
Domaini269 – 385Peptidase C32PROSITE-ProRule annotationAdd BLAST117
Domaini420 – 527Peptidase C33PROSITE-ProRule annotationAdd BLAST108
Domaini1677 – 1879Peptidase S32PROSITE-ProRule annotationAdd BLAST203
Domaini2765 – 2899RdRp catalyticPROSITE-ProRule annotationAdd BLAST135
Domaini3021 – 3084AV ZBDPROSITE-ProRule annotationAdd BLAST64
Domaini3134 – 3293(+)RNA virus helicase ATP-bindingAdd BLAST160
Domaini3294 – 3423(+)RNA virus helicase C-terminalAdd BLAST130

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni69 – 182PCP1-alphaBy similarityAdd BLAST114
Regioni269 – 384PCP1-betaBy similarityAdd BLAST116
Regioni418 – 505OTU-likeAdd BLAST88
Regioni1132 – 1255HD1By similarityAdd BLAST124
Regioni1310 – 1334WCCHBy similarityAdd BLAST25
Regioni1451 – 1612HD2By similarityAdd BLAST162
Regioni1902 – 2023HD3By similarityAdd BLAST122

Domaini

The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.By similarity
The OTU-like region is responsible for the deubiquitinating and deISGylation activities of Nsp2.Curated

Sequence similaritiesi

Belongs to the arteriviridae polyprotein family.Curated
Contains 1 AV ZBD (arterivirus zinc-binding) domain.PROSITE-ProRule annotation
Contains 1 peptidase C31 domain.PROSITE-ProRule annotation
Contains 1 peptidase C32 domain.PROSITE-ProRule annotation
Contains 1 peptidase C33 domain.PROSITE-ProRule annotation
Contains 1 peptidase S32 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri8 – 28C4-type; atypicalAdd BLAST21

Keywords - Domaini

Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR032855. NSP2-B_epitope.
IPR032841. NSP2_assoc.
IPR027417. P-loop_NTPase.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF14757. NSP2-B_epitope. 1 hit.
PF14758. NSP2_assoc. 1 hit.
PF05410. Peptidase_C31. 1 hit.
PF05411. Peptidase_C32. 1 hit.
PF05412. Peptidase_C33. 1 hit.
PF05579. Peptidase_S32. 1 hit.
PF00680. RdRP_1. 1 hit.
PF01443. Viral_helicase1. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by ribosomal frameshifting. AlignAdd to basket

Isoform Replicase polyprotein 1ab (identifier: A0MD28-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARPLLSPELQ DTDLGVVGLF
60 70 80 90 100
YKPKDKIHWK VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK
110 120 130 140 150
VADVLYRDGC LAPRHLRELQ VYERGCSWYP ITGPVPGMGL FANSMHVSDQ
160 170 180 190 200
PFPGATHVLT NSPLPQRACR QPFCPFEEAH SDVYRWKKFV IFTDSSPNGR
210 220 230 240 250
FRMMWTPESD DSAALEVLPP ELERQVEILT RSFPAHHPIN LADWELTESP
260 270 280 290 300
ENGFSFGTSH SCGHIVQNPN VFDGKCWLTC FLGQSAEVCY HEEHLANALG
310 320 330 340 350
YQTKWGVHGK YLQRRLQVRG MRAVVDPDGP IHVEALSCSQ SWVRHLTLNN
360 370 380 390 400
DVTPGFVRLT SIRIVSNTEP TAFRIFRFGA HKWYGAAGKR ARAKRATKSG
410 420 430 440 450
KDSALAPKIA PPVPTCGITT YSPPTDGSCG WHVLAAIVNR MINGDFTSPL
460 470 480 490 500
PQYNRPEDDW ASDYDLAQAI QCLQLPATVV RNRACPNAKY LIKLNGVHWE
510 520 530 540 550
VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL EALASAYRLP
560 570 580 590 600
SDCVSSGIAD FLADPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ
610 620 630 640 650
KCGATEGAFV YAVERMLKDC PSPEQAMALL AKIKVPSSKA PSVSLDECFP
660 670 680 690 700
AGVPADFEPA FQERPRSPGA AVALCSPDAK GFEGTASEEA QESGHKAVHA
710 720 730 740 750
VPLAEGPNNE QVQVVAGEQL ELGGCGLAIG SAQSSSDSKR ENMHNSREDE
760 770 780 790 800
PLDLSHPAPA ATTTLVGEQT PDNPGSDASA LPIAVRGFVP TGPILRHVEH
810 820 830 840 850
CGTESGDSSS PLDLSFAQTL DQPLDLSLAA WPVKATASDP GWVRGRCEPV
860 870 880 890 900
FLKPRKAFSD GDSALQFGEL SESSSVIEFD QTKDTLVADA PVDLTTSNEA
910 920 930 940 950
LSAVDPSEFV ELRRPRHSAQ ALIDRGGPLA DVHAKIKNRV YEQCLQACEP
960 970 980 990 1000
GSRATPATRE WLDKMWDRVD MKTWRCTSQF QAGRILASLK FLPDMIQDTP
1010 1020 1030 1040 1050
PPVPRKNRAS DNAGLKQLVA RWDKKLSVTP PPKSAGLVLD QTVPPPTDIQ
1060 1070 1080 1090 1100
QEDATPSDGL SHASDFSSRV STSWSWKGLM LSGTRLAGSA GQRLMTWVFE
1110 1120 1130 1140 1150
VYSHLPAFIL TLFSPRGSMA PGDWLFAGVV LLALLLCRSY PILGCLPLLG
1160 1170 1180 1190 1200
VFSGSLRRVR LGVFGSWMAF AVFLFSTPSN PVGSSCDHDS PECHAELLAL
1210 1220 1230 1240 1250
EQRQLWEPVR GLVVGPSGLL CVILGKLLGG SRHLWHVILR LCMLTDLALS
1260 1270 1280 1290 1300
LVYVVSQGRC HKCWGKCIRT APAEVALNVF PFSRATRNSL TSLCDRFQTP
1310 1320 1330 1340 1350
KGVDPVHLAT GWRGCWRGES PIHQPHQKPI AYANLDEKKI SAQTVVAVPY
1360 1370 1380 1390 1400
DPSQAIKCLK VLQAGGAIVD QPTPEVVRVS EIPFSAPFFP KVPVNPDCRI
1410 1420 1430 1440 1450
VVDSDTFVAA VRCGYSTAQL VLGRGNFAKL NQTPLRDSAS TKTTGGASYT
1460 1470 1480 1490 1500
LAVAQVSVWT LVHFILGLWF TSPQVCGRGT ADPWCSNPFS YPAYGPGVVC
1510 1520 1530 1540 1550
SSRLCVSADG VTLPLFSAVA QLSGREVGIF ILVLVSLTAL AHRLALKADM
1560 1570 1580 1590 1600
LVVFSAFCAY AWPMSSWLIC FFPILLKWVT LHPLTMLWVH SFLVFCMPAA
1610 1620 1630 1640 1650
GILSLGITGL LWAVGRFTQV AGIITPYDIH QYTSGPRGAA AVATAPEGTY
1660 1670 1680 1690 1700
MAAVRRAALT GRTLIFTPSA VGSLLEGAFR THKPCLNTVN VVGSSLGSGG
1710 1720 1730 1740 1750
VFTIDGRKTV VTAAHVLNGD TARVTGDSYN RMHTFKTSGD YAWSHADDWQ
1760 1770 1780 1790 1800
GVAPVVKVAK GYRGRAYWQT STGVEPGVIG EGFAFCFTNC GDSGSPVISE
1810 1820 1830 1840 1850
SGDLIGIHTG SNKLGSGLVT TPEGETCAIK ETKLSDLSRH FAGPSVPLGD
1860 1870 1880 1890 1900
IKLSPAIVPD VTSIPSDLAS LLASVPVMEG GLSTVQLLCV FFLLWRMMGH
1910 1920 1930 1940 1950
AWTPIVAVGF FLLNEILPAV LVRAVFSFAL FILAWATPWS AQVLMIRLLT
1960 1970 1980 1990 2000
ASLNRNKLSL AFYALGGVVG LAAEIGAFAG RLPELSQALS TYCFLPRVLA
2010 2020 2030 2040 2050
MASYVPIIII GGLHALGVIL WLFKYRCLHN MLVGDGSFSS AFFLRYFAEG
2060 2070 2080 2090 2100
NLRKGVSQSC GMSNESLTAA LACKLSQADL DFLSSLTNFK CFVSASNMKN
2110 2120 2130 2140 2150
AAGQYIEAAY AKALRQELAS LVQVDKMKGI LSKLEAFAET ATPSLDAGDV
2160 2170 2180 2190 2200
VVLLGQHPHG SILDINVGTE RKTVSVQETR SLGGSKFSVC TVVSNTPVDA
2210 2220 2230 2240 2250
LTGIPLQTPT PLFENGPRHR GEEDDLRVER MKKHCVSLGF HNINGKVYCK
2260 2270 2280 2290 2300
IWDKSTGDTF YTDDSRYTQD LAFQDRSADY RDRDYEGVQT APQQGFDPKS
2310 2320 2330 2340 2350
ETPIGTVVIG GITYNRYLIK GKEVLVPKPD NCLEAAKLSL EQALAGMGQT
2360 2370 2380 2390 2400
CDLTAAEVEK LRRIISQLQG LTTEQALNCL LAASGLTRCG RGGLVVTETA
2410 2420 2430 2440 2450
VKIVKYHSRT FTLGPLDLKV TSEAEVKKST EQGHAVVANL CSGVILMRPH
2460 2470 2480 2490 2500
PPSLVDVLLK PGLDTKPGIQ PGHGAGNMGV DGSTWDFETA PTKAELELSK
2510 2520 2530 2540 2550
QIIQACEVRR GDAPNLQLPY KLYPVRGDPE RHGGRLINTR FGDLSYKTPQ
2560 2570 2580 2590 2600
DTKSAIHAAC CLHPNGAPVS DGKSTLGTTL QHGFELYVPT VPYSVMEYLD
2610 2620 2630 2640 2650
SRPDTPFMCT KHGTSKAAAE DLQKYDLSTQ GFVLPGVLRL VRRFIFGHIG
2660 2670 2680 2690 2700
KAPPLFLPST YPAKNSMAGI NGQRFPTKDV QSIPEIDEMC ARAVKENWQT
2710 2720 2730 2740 2750
VTPCTLKKQY CSKPKTRTIL GTNNFIALAH RSALSGVTQA FMKKAWKSPI
2760 2770 2780 2790 2800
ALGKNKFKEL HCTVAGRCLE ADLASCDRST PAIVRWFVAN LLYELAGCEE
2810 2820 2830 2840 2850
YLPSYVLNCC HDLVATQDGA FTKRGGLSSG DPVTSVSNTV YSLIIYAQHM
2860 2870 2880 2890 2900
VLSALKMGHE IGLKFLEEQL KFEDLLEIQP MLVYSDDLVL YAERPTFPNY
2910 2920 2930 2940 2950
HWWVEHLDLM LGFRTDPKKT VITDKPSFLG CRIEAGRQLV PNRDRILAAL
2960 2970 2980 2990 3000
AYHMKAQNAS EYYASAAAIL MDSCACIDHD PEWYEDLICG IARCARQDGY
3010 3020 3030 3040 3050
SFPGPAFFMS MWEKLRSHNE GKKFRHCGIC DAKADHASAC GLDLCLFHSH
3060 3070 3080 3090 3100
FHQHCPVTLS CGHHAGSREC SQCQSPVGAG RSPLDAVLKQ IPYKPPRTVI
3110 3120 3130 3140 3150
MKVGNKTTAL DPGRYQSRRG LVAVKRGIAG NEVDLPDGDY QVVPLLPTCK
3160 3170 3180 3190 3200
DINMVKVACN VLLSKFIVGP PGSGKTTWLL SQVQDDDVIY TPTHQTMFDI
3210 3220 3230 3240 3250
VSALKVCRYS IPGASGLPFP PPARSGPWVR LVASGHVPGR TSYLDEAGYC
3260 3270 3280 3290 3300
NHLDILRLLS KTPLVCLGDL QQLHPVGFDS YCYVFDQMPQ KQLTTIYRFG
3310 3320 3330 3340 3350
PNICAAIQPC YREKLESKAR NTRVVFTTWP VAFGQVLTPY HKDRIGSAIT
3360 3370 3380 3390 3400
IDSSQGATFD IVTLHLPSPK SLNKSRALVA ITRARHGLFI YDPHNQLQEF
3410 3420 3430 3440 3450
FNLIPERTDC NLVFSRGDDL VVLSADNAVT TVAKALGTGP SRFRVSDPRC
3460 3470 3480 3490 3500
KSLLAACSAS LEGSCMPLPQ VAHNLGFYFS PDSPAFAPLP KELAPHWPVV
3510 3520 3530 3540 3550
THQNNRAWPD RLVASMRPID ARYSKPMVGA GYVVGPSTFL GTPGVVSYYL
3560 3570 3580 3590 3600
TLYIRGEPQA LPETLVSTGR IATDCREYLD AAEEEAAKEL PHAFIGDVKG
3610 3620 3630 3640 3650
TTVGGCHHIT SKYLPRTLPK DSVAVVGVSS PGRAAKAMCT LTDVYLPELR
3660 3670 3680 3690 3700
PYLQPETASK CWKLKLDFRD VRLMVWKGAT AYFQLEGLTW SALPDYARFI
3710 3720 3730 3740 3750
QLPKDAVVYI DPCIGPATAN RKVVRTTDWR ADLAVTPYDY GAQNILTTAW
3760 3770 3780 3790 3800
FEDLGPQWKI LGLQPFRRAF GFENTEDWAI LARRMSDGKD YTDYNWDCVR
3810 3820 3830
ERPHAIYGRA RDHTYHFAPG TELQVELGKP RLPPGREP
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Length:3,838
Mass (Da):418,948
Last modified:August 10, 2010 - v2
Checksum:i07ADB34E6578FFC9
GO
Isoform Replicase polyprotein 1a (identifier: A0MD28-2) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform differs from the canonical sequence as follows:
     2380-3838: Missing.

Note: Produced by conventional translation.
Show »
Length:2,379
Mass (Da):257,784
Checksum:i6CAC6C94BDABDF8D
GO
Isoform Truncated polyprotein 1aTF (identifier: P0DJY0-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P0DJY0.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -2 ribosomal frameshifting in the nsp2 gene.
Length:1,268
Mass (Da):139,092
GO

Sequence cautioni

The sequence AAR37017 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti666R → Q in strain: Infectious clone SD 01-08. 1
Natural varianti1005R → K in strain: Infectious clone SD 01-08. 1
Natural varianti1012N → S in strain: Infectious clone SD 01-08. 1
Natural varianti3092P → L in strain: Infectious clone SD 01-08. 1
Natural varianti3682Y → H in strain: Infectious clone SD 01-08. 1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0396342380 – 3838Missing in isoform Replicase polyprotein 1a. CuratedAdd BLAST1459

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY375474 Genomic RNA. Translation: AAR37016.1.
AY375474 Genomic RNA. Translation: AAR37017.1. Different initiation.
DQ489311 Genomic RNA. Translation: ABF66340.1.
DQ489311 Genomic RNA. Translation: ABF66341.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY375474 Genomic RNA. Translation: AAR37016.1.
AY375474 Genomic RNA. Translation: AAR37017.1. Different initiation.
DQ489311 Genomic RNA. Translation: ABF66340.1.
DQ489311 Genomic RNA. Translation: ABF66341.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR032855. NSP2-B_epitope.
IPR032841. NSP2_assoc.
IPR027417. P-loop_NTPase.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF14757. NSP2-B_epitope. 1 hit.
PF14758. NSP2_assoc. 1 hit.
PF05410. Peptidase_C31. 1 hit.
PF05411. Peptidase_C32. 1 hit.
PF05412. Peptidase_C33. 1 hit.
PF05579. Peptidase_S32. 1 hit.
PF00680. RdRP_1. 1 hit.
PF01443. Viral_helicase1. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPOA_PRRSS
AccessioniPrimary (citable) accession number: A0MD28
Secondary accession number(s): A0MD29, Q6U9W7, Q6U9W8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: August 10, 2010
Last modified: June 8, 2016
This is version 46 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzyme

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. 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.