Q04561 (RPOA_PRRSL) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Replicase polyprotein 1ab

Alternative name(s):
ORF1ab polyprotein

Cleaved into the following 12 chains:

1. Nsp1
   EC=3.4.22.-
2. Nsp1-alpha papain-like cysteine proteinase
   EC=3.4.22.-
   Alternative name(s):
   PCP1-alpha
3. Nsp1-beta papain-like cysteine proteinase
   EC=3.4.22.-
   Alternative name(s):
   PCP1-beta
4. Nsp2 cysteine proteinase
   EC=3.4.19.12
   EC=3.4.22.-
   Alternative name(s):
   CP2
   Short name=CP
5. Non-structural protein 3
   Short name=Nsp3
6. 3C-like serine proteinase
   Short name=3CLSP
   EC=3.4.21.-
   Alternative name(s):
   Nsp4
7. Non-structural protein 5-6-7
   Short name=Nsp5-6-7
8. Non-structural protein 8
   Short name=Nsp8
9. RNA-directed RNA polymerase
   Short name=Pol
   Short name=RdRp
   EC=2.7.7.48
   Alternative name(s):
   Nsp9
10. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    Nsp10
11. Non-structural protein 11
    Short name=Nsp11
12. Non-structural protein 12
    Short name=Nsp12

Gene names

Name:	rep
ORF Names:	1a-1b

Organism

Porcine reproductive and respiratory syndrome virus (strain Lelystad) (PRRSV) [Complete proteome]

Taxonomic identifier

11049 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Nidovirales › Arteriviridae › Arterivirus › Porcine reproductive and respiratory syndrome virus

Virus host

Sus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length	3855 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	The replicase polyprotein 1ab is a multifunctional protein: it 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 is essential for viral subgenomic mRNA synthesis By similarity. Nsp1-alpha inhibits IFN-beta production. Counteracts the action of NF-kappaB by decreasing the phosphorylation of IkappaB-alpha, such that the degradation of IkappaB-alpha is suppressed. This leads to the blockage of NF-kappaB nuclear translocation and thus interference of NF-kappaB activation. Also seems to inhibit IRF3-dependent pathways By similarity. Nsp2 cysteine proteinase which cleaves the nsp2/nsp3 site in the polyprotein. Also displays deubiquitinating and deISGylase activities. The deubiquitinating activity cleaves both ubiquitinated and ISGylated products and may therefore regulate ubiquitin and ISG15 dependent host innate immunity. Deubiquitinates host NFKBIA, thereby interfering with NFKBIA degradation and impairing subsequent NF-kappa-B activation By similarity. The 3C-like serine proteinase chain is responsible for the majority of cleavages as it cleaves the C-terminus of the polyprotein By similarity. The helicase chain, which contains a zinc finger structure, displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). 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).
Subcellular location	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 cytoplasm By similarity. Nsp2 cysteine proteinase: Host membrane; Multi-pass membrane protein Potential. Non-structural protein 3: Host membrane; Multi-pass membrane protein Potential. Non-structural protein 5-6-7: Host membrane; Multi-pass membrane protein Potential. 3C-like serine proteinase: Host cytoplasm Potential. RNA-directed RNA polymerase: Host cytoplasm › host perinuclear region Potential. Helicase: Host cytoplasm › host perinuclear region Potential.
Domain	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 By similarity.
Post-translational modification	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.
Sequence similarities	Belongs to the arteriviridae polyprotein family. Contains 1 (+)RNA virus helicase ATP-binding domain. Contains 1 (+)RNA virus helicase C-terminal domain. Contains 1 AV MBD (arterivirus metal-binding) domain. Contains 1 peptidase C31 domain. Contains 1 peptidase C32 domain. Contains 1 peptidase C33 domain. Contains 1 peptidase S32 domain. Contains 1 RdRp catalytic domain.
Sequence caution	The sequence AAA46273.2 differs from that shown. Reason: Erroneous initiation. The sequence AAA46274.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Host-virus interaction Inhibition of host ISG15 by virus Inhibition of host NF-kappa-B by virus Inhibition of host STAT1 by virus Inhibition of host innate immune response by virus Inhibition of host interferon signaling pathway by virus Modulation of host ubiquitin pathway by viral deubiquitinase Modulation of host ubiquitin pathway by virus Viral RNA replication Viral immunoevasion
Cellular component	Host cytoplasm Host membrane Host nucleus Membrane
Coding sequence diversity	Ribosomal frameshifting
Domain	Transmembrane Transmembrane helix Zinc-finger
Ligand	ATP-binding Metal-binding Nucleotide-binding Zinc
Molecular function	Helicase Hydrolase Nucleotidyltransferase Protease RNA-directed RNA polymerase Serine protease Thiol protease Transferase
Technical term	Complete proteome Multifunctional enzyme
Gene Ontology (GO)
Biological_process	modulation by virus of host protein ubiquitination Inferred from electronic annotation. Source: UniProtKB-KW proteolysis Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host ISG15 activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host NF-kappaB transcription factor activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host STAT1 activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host type I interferon-mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro viral protein processing Inferred from electronic annotation. Source: InterPro
Cellular_component	host cell membrane Inferred from electronic annotation. Source: UniProtKB-SubCell host cell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell host cell perinuclear region of cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW cysteine-type endopeptidase activity Inferred from electronic annotation. Source: InterPro helicase activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW serine-type endopeptidase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]

Isoform Replicase polyprotein 1ab (identifier: Q04561-1)

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.

Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.

Isoform Replicase polyprotein 1a (identifier: Q04561-2)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform differs from the canonical sequence as follows:
     2397-3855: Missing.

Note: Produced by conventional translation.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 3855	3855	Replicase polyprotein 1ab		PRO_0000036683
	Chain	1 – 384	384	Nsp1 By similarity		PRO_0000410828
	Chain	1 – 180	180	Nsp1-alpha papain-like cysteine proteinase Potential		PRO_0000036685
	Chain	181 – 385	205	Nsp1-beta papain-like cysteine proteinase Potential		PRO_0000036686
	Chain	386 – 1463	1078	Nsp2 cysteine proteinase Potential		PRO_0000036687
	Chain	1464 – 1693	230	Non-structural protein 3 By similarity		PRO_0000036688
	Chain	1694 – 1896	203	3C-like serine proteinase By similarity		PRO_0000036689
	Chain	1897 – 2351	455	Non-structural protein 5-6-7 By similarity		PRO_0000036690
	Chain	2352 – 3037	686	RNA-directed RNA polymerase By similarity		PRO_0000036691
	Chain	2352 – 2396	45	Non-structural protein 8 By similarity		PRO_0000036692
	Chain	3038 – 3479	442	Helicase By similarity		PRO_0000036693
	Chain	3480 – 3703	224	Non-structural protein 11 By similarity		PRO_0000036694
	Chain	3704 – 3855	152	Non-structural protein 12 By similarity		PRO_0000036695
Regions
	Transmembrane	1134 – 1154	21	Helical; Potential
	Transmembrane	1179 – 1199	21	Helical; Potential
	Transmembrane	1252 – 1272	21	Helical; Potential
	Transmembrane	1468 – 1488	21	Helical; Potential
	Transmembrane	1521 – 1541	21	Helical; Potential
	Transmembrane	1543 – 1563	21	Helical; Potential
	Transmembrane	1573 – 1593	21	Helical; Potential
	Transmembrane	1609 – 1629	21	Helical; Potential
	Transmembrane	1919 – 1939	21	Helical; Potential
	Transmembrane	1943 – 1963	21	Helical; Potential
	Transmembrane	1977 – 1997	21	Helical; Potential
	Transmembrane	2020 – 2040	21	Helical; Potential
	Domain	69 – 180	112	Peptidase C31
	Domain	269 – 385	117	Peptidase C32
	Domain	420 – 527	108	Peptidase C33
	Domain	1694 – 1896	203	Peptidase S32
	Domain	2783 – 2917	135	RdRp catalytic
	Domain	3038 – 3101	64	AV MBD
	Domain	3151 – 3310	160	(+)RNA virus helicase ATP-binding
	Domain	3311 – 3440	130	(+)RNA virus helicase C-terminal
	Zinc finger	8 – 28	21	C4-type; atypical
	Nucleotide binding	3186 – 3193	8	ATP By similarity
	Region	69 – 182	114	PCP1-alpha
	Region	269 – 384	116	PCP1-beta
	Region	418 – 505	88	OTU-like
	Region	1149 – 1272	124	HD1
	Region	1327 – 1351	25	WCCH
	Region	1468 – 1629	162	HD2
	Region	1919 – 2040	122	HD3
Sites
	Active site	76	1	For Nsp1-alpha papain-like cysteine proteinase activity Ref.4
	Active site	146	1	For Nsp1-alpha papain-like cysteine proteinase activity Ref.4
	Active site	276	1	For Nsp1-beta papain-like cysteine proteinase activity Ref.4
	Active site	345	1	For Nsp1-beta papain-like cysteine proteinase activity Ref.4
	Active site	429	1	For Nsp2 cysteine proteinase activity By similarity
	Active site	498	1	For Nsp2 cysteine proteinase activity By similarity
	Active site	1732	1	Charge relay system; for 3C-like serine proteinase activity By similarity
	Active site	1757	1	Charge relay system; for 3C-like serine proteinase activity By similarity
	Active site	1810	1	Charge relay system; for 3C-like serine proteinase activity By similarity
	Site	180 – 181	2	Cleavage; by autolysis Potential
	Site	385 – 386	2	Cleavage; by autolysis By similarity
	Site	1463 – 1464	2	Cleavage; by CP2 Potential
	Site	1693 – 1694	2	Cleavage; by 3CLSP By similarity
	Site	1896 – 1897	2	Cleavage; by 3CLSP By similarity
	Site	2066 – 2067	2	Cleavage; by 3CLSP By similarity
	Site	2082 – 2083	2	Cleavage; by 3CLSP By similarity
	Site	2351 – 2352	2	Cleavage; by 3CLSP By similarity
	Site	3037 – 3038	2	Cleavage; by 3CLSP By similarity
	Site	3088	1	Involved in mRNA transcription process By similarity
	Site	3479 – 3480	2	Cleavage; by 3CLSP By similarity
	Site	3703 – 3704	2	Cleavage; by 3CLSP By similarity
Natural variations
	Alternative sequence	2397 – 3855	1459	Missing in isoform Replicase polyprotein 1a.		VSP_032892
Experimental info
	Mutagenesis	76	1	C → G or S: Complete loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	92	1	H → F or Y: No effect. Ref.4
	Mutagenesis	115	1	H → A: No effect. Ref.4
	Mutagenesis	115	1	H → Y: 50% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	146	1	H → D, F, I, N or Y: Complete loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	157	1	H → D: 20% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	157	1	H → I: 90% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	157	1	H → N: 50% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
	Mutagenesis	157	1	H → Y: No effect. Ref.4
	Mutagenesis	276	1	C → I, L, R or S: Complete loss of cleavage between nsp1-beta and nsp2. Ref.4
	Mutagenesis	345	1	H → D or Y: Complete loss of cleavage between nsp1-beta and nsp2. Ref.4
	Sequence conflict	3502	1	T → V in AAA47101. Ref.3
	Sequence conflict	3740	1	V → I in AAA47101. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Isoform Replicase polyprotein 1ab (pp1ab) [UniParc]. Last modified August 10, 2010. Version 3. Checksum: 421F613ED2E4858F	FASTA	3,855	421,332
	10 20 30 40 50 60 MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF YKPRDKLHWK 70 80 90 100 110 120 VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK VADVLYRDGC LAPRHLRELQ 130 140 150 160 170 180 VYERGCNWYP ITGPVPGMGL FANSMHVSDQ PFPGATHVLT NSPLPQQACR QPFCPFEEAH 190 200 210 220 230 240 SSVYRWKKFV VFTDSSLNGR SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD 250 260 270 280 290 300 LADWELTESP ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG 310 320 330 340 350 360 YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD DVTPGFVRLT 370 380 390 400 410 420 SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE KDSAPTPKVA LPVPTCGITT 430 440 450 460 470 480 YSPPTDGSCG WHVLAAIMNR MINGDFTSPL TQYNRPEDDW ASDYDLVQAI QCLRLPATVV 490 500 510 520 530 540 RNRACPNAKY LIKLNGVHWE VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL 550 560 570 580 590 600 EALASAYRLP SDCVSSGIAD FLANPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 610 620 630 640 650 660 KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP TDVLADFEPA 670 680 690 700 710 720 SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS ALLAEGPNNE QVQVVAGEQL 730 740 750 760 770 780 KLGGCGLAVG NAHEGALVSA GLINLVGGNL SPSDPMKENM LNSREDEPLD LSQPAPASTT 790 800 810 820 830 840 TLVREQTPDN PGSDAGALPV TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP 850 860 870 880 890 900 LNLSLAAWPV RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK 910 920 930 940 950 960 DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH AKIKNRVYEQ 970 980 990 1000 1010 1020 CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG RILASLKFLP DMIQDTPPPV 1030 1040 1050 1060 1070 1080 PRKNRASDNA GLKQLVAQWD RKLSVTPPPK PVGPVLDQIV PPPTDIQQED VTPSDGPPHA 1090 1100 1110 1120 1130 1140 PDFPSRVSTG GSWKGLMLSG TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD 1150 1160 1170 1180 1190 1200 WLFAGVVLLA LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG 1210 1220 1230 1240 1250 1260 SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY LWHVLLRLCM 1270 1280 1290 1300 1310 1320 LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS RATRVSLVSL CDRFQTPKGV 1330 1340 1350 1360 1370 1380 DPVHLATGWR GCWRGESPIH QPHQKPIAYA NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ 1390 1400 1410 1420 1430 1440 AGGAIVDQPT PEVVRVSEIP FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG 1450 1460 1470 1480 1490 1500 RGNFAKLNQT PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP 1510 1520 1530 1540 1550 1560 WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV LVSLTALAHR 1570 1580 1590 1600 1610 1620 MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP LTMLWVHSFL VFCLPAAGIL 1630 1640 1650 1660 1670 1680 SLGITGLLWA IGRFTQVAGI ITPYDIHQYT SGPRGAAAVA TAPEGTYMAA VRRAALTGRT 1690 1700 1710 1720 1730 1740 LIFTPSAVGS LLEGAFRTHK PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR 1750 1760 1770 1780 1790 1800 VTGDSYNRMH TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF 1810 1820 1830 1840 1850 1860 AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK LSDLSRHFAG 1870 1880 1890 1900 1910 1920 PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS TVQLLCVFFL LWRMMGHAWT 1930 1940 1950 1960 1970 1980 PIVAVGFFLL NEILPAVLVR AVFSFALFVL AWATPWSAQV LMIRLLTASL NRNKLSLAFY 1990 2000 2010 2020 2030 2040 ALGGVVGLAA EIGTFAGRLS ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF 2050 2060 2070 2080 2090 2100 KYRCLHNMLV GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL 2110 2120 2130 2140 2150 2160 SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK LEAFAETATP 2170 2180 2190 2200 2210 2220 SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG GSKFSVCTVV SNTPVDALTG 2230 2240 2250 2260 2270 2280 IPLQTPTPLF ENGPRHRSEE DDLKVERMKK HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD 2290 2300 2310 2320 2330 2340 DSRYTQDHAF QDRSADYRDR DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE 2350 2360 2370 2380 2390 2400 VLVPKPDNCL EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNCLLAA 2410 2420 2430 2440 2450 2460 SGLTRCGRGG LVVTETAVKI IKYHSRTFTL GPLDLKVTSE VEVKKSTEQG HAVVANLCSG 2470 2480 2490 2500 2510 2520 VILMRPHPPS LVDVLLKPGL DTIPGIQPGH GAGNMGVDGS IWDFETAPTK AELELSKQII 2530 2540 2550 2560 2570 2580 QACEVRRGDA PNLQLPYKLY PVRGDPERHK GRLINTRFGD LPYKTPQDTK SAIHAACCLH 2590 2600 2610 2620 2630 2640 PNGAPVSDGK STLGTTLQHG FELYVPTVPY SVMEYLDSRP DTPFMCTKHG TSKAAAEDLQ 2650 2660 2670 2680 2690 2700 KYDLSTQGFV LPGVLRLVRR FIFGHIGKAP PLFLPSTYPA KNSMAGINGQ RFPTKDVQSI 2710 2720 2730 2740 2750 2760 PEIDEMCARA VKENWQTVTP CTLKKQYCSK PKTRTILGTN NFIALAHRSA LSGVTQAFMK 2770 2780 2790 2800 2810 2820 KAWKSPIALG KNKFKELHCT VAGRCLEADL ASCDRSTPAI VRWFVANLLY ELAGCEEYLP 2830 2840 2850 2860 2870 2880 SYVLNCCHDL VATQDGAFTK RGGLSSGDPV TSVSNTVYSL VIYAQHMVLS ALKMGHEIGL 2890 2900 2910 2920 2930 2940 KFLEEQLKFE DLLEIQPMLV YSDDLVLYAE RPTFPNYHWW VEHLDLMLGF RTDPKKTVIT 2950 2960 2970 2980 2990 3000 DKPSFLGCRI EAGRQLVPNR DRILAALAYH MKAQNASEYY ASAAAILMDS CACIDHDPEW 3010 3020 3030 3040 3050 3060 YEDLICGIAR CARQDGYSFP GPAFFMSMWE KLRSHNEGKK FRHCGICDAK ADYASACGLD 3070 3080 3090 3100 3110 3120 LCLFHSHFHQ HCPVTLSCGH HAGSKECSQC QSPVGAGRSP LDAVLKQIPY KPPRTVIMKV 3130 3140 3150 3160 3170 3180 GNKTTALDPG RYQSRRGLVA VKRGIAGNEV DLSDGDYQVV PLLPTCKDIN MVKVACNVLL 3190 3200 3210 3220 3230 3240 SKFIVGPPGS GKTTWLLSQV QDDDVIYTPT HQTMFDIVSA LKVCRYSIPG ASGLPFPPPA 3250 3260 3270 3280 3290 3300 RSGPWVRLIA SGHVPGRVSY LDEAGYCNHL DILRLLSKTP LVCLGDLQQL HPVGFDSYCY 3310 3320 3330 3340 3350 3360 VFDQMPQKQL TTIYRFGPNI CAAIQPCYRE KLESKARNTR VVFTTRPVAF GQVLTPYHKD 3370 3380 3390 3400 3410 3420 RIGSAITIDS SQGATFDIVT LHLPSPKSLN KSRALVAITR ARHGLFIYDP HNQLQEFFNL 3430 3440 3450 3460 3470 3480 TPERTDCNLV FSRGDELVVL NADNAVTTVA KALETGPSRF RVSDPRCKSL LAACSASLEG 3490 3500 3510 3520 3530 3540 SCMPLPQVAH NLGFYFSPDS PTFAPLPKEL APHWPVVTHQ NNRAWPDRLV ASMRPIDARY 3550 3560 3570 3580 3590 3600 SKPMVGAGYV VGPSTFLGTP GVVSYYLTLY IRGEPQALPE TLVSTGRIAT DCREYLDAAE 3610 3620 3630 3640 3650 3660 EEAAKELPHA FIGDVKGTTV GGCHHITSKY LPRSLPKDSV AVVGVSSPGR AAKAVCTLTD 3670 3680 3690 3700 3710 3720 VYLPELRPYL QPETASKCWK LKLDFRDVRL MVWKGATAYF QLEGLTWSAL PDYARFIQLP 3730 3740 3750 3760 3770 3780 KDAVVYIDPC IGPATANRKV VRTTDWRADL AVTPYDYGAQ NILTTAWFED LGPQWKILGL 3790 3800 3810 3820 3830 3840 QPFRRAFGFE NTEDWAILAR RMNDGKDYTD YNWNCVRERP HAIYGRARDH TYHFAPGTEL 3850 QVELGKPRLP PGQVP
	Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc]. Checksum: 570868D98DA3DE84	FASTA	2,396	260,039
	10 20 30 40 50 60 MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF YKPRDKLHWK 70 80 90 100 110 120 VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK VADVLYRDGC LAPRHLRELQ 130 140 150 160 170 180 VYERGCNWYP ITGPVPGMGL FANSMHVSDQ PFPGATHVLT NSPLPQQACR QPFCPFEEAH 190 200 210 220 230 240 SSVYRWKKFV VFTDSSLNGR SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD 250 260 270 280 290 300 LADWELTESP ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG 310 320 330 340 350 360 YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD DVTPGFVRLT 370 380 390 400 410 420 SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE KDSAPTPKVA LPVPTCGITT 430 440 450 460 470 480 YSPPTDGSCG WHVLAAIMNR MINGDFTSPL TQYNRPEDDW ASDYDLVQAI QCLRLPATVV 490 500 510 520 530 540 RNRACPNAKY LIKLNGVHWE VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL 550 560 570 580 590 600 EALASAYRLP SDCVSSGIAD FLANPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 610 620 630 640 650 660 KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP TDVLADFEPA 670 680 690 700 710 720 SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS ALLAEGPNNE QVQVVAGEQL 730 740 750 760 770 780 KLGGCGLAVG NAHEGALVSA GLINLVGGNL SPSDPMKENM LNSREDEPLD LSQPAPASTT 790 800 810 820 830 840 TLVREQTPDN PGSDAGALPV TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP 850 860 870 880 890 900 LNLSLAAWPV RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK 910 920 930 940 950 960 DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH AKIKNRVYEQ 970 980 990 1000 1010 1020 CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG RILASLKFLP DMIQDTPPPV 1030 1040 1050 1060 1070 1080 PRKNRASDNA GLKQLVAQWD RKLSVTPPPK PVGPVLDQIV PPPTDIQQED VTPSDGPPHA 1090 1100 1110 1120 1130 1140 PDFPSRVSTG GSWKGLMLSG TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD 1150 1160 1170 1180 1190 1200 WLFAGVVLLA LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG 1210 1220 1230 1240 1250 1260 SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY LWHVLLRLCM 1270 1280 1290 1300 1310 1320 LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS RATRVSLVSL CDRFQTPKGV 1330 1340 1350 1360 1370 1380 DPVHLATGWR GCWRGESPIH QPHQKPIAYA NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ 1390 1400 1410 1420 1430 1440 AGGAIVDQPT PEVVRVSEIP FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG 1450 1460 1470 1480 1490 1500 RGNFAKLNQT PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP 1510 1520 1530 1540 1550 1560 WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV LVSLTALAHR 1570 1580 1590 1600 1610 1620 MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP LTMLWVHSFL VFCLPAAGIL 1630 1640 1650 1660 1670 1680 SLGITGLLWA IGRFTQVAGI ITPYDIHQYT SGPRGAAAVA TAPEGTYMAA VRRAALTGRT 1690 1700 1710 1720 1730 1740 LIFTPSAVGS LLEGAFRTHK PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR 1750 1760 1770 1780 1790 1800 VTGDSYNRMH TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF 1810 1820 1830 1840 1850 1860 AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK LSDLSRHFAG 1870 1880 1890 1900 1910 1920 PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS TVQLLCVFFL LWRMMGHAWT 1930 1940 1950 1960 1970 1980 PIVAVGFFLL NEILPAVLVR AVFSFALFVL AWATPWSAQV LMIRLLTASL NRNKLSLAFY 1990 2000 2010 2020 2030 2040 ALGGVVGLAA EIGTFAGRLS ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF 2050 2060 2070 2080 2090 2100 KYRCLHNMLV GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL 2110 2120 2130 2140 2150 2160 SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK LEAFAETATP 2170 2180 2190 2200 2210 2220 SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG GSKFSVCTVV SNTPVDALTG 2230 2240 2250 2260 2270 2280 IPLQTPTPLF ENGPRHRSEE DDLKVERMKK HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD 2290 2300 2310 2320 2330 2340 DSRYTQDHAF QDRSADYRDR DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE 2350 2360 2370 2380 2390 VLVPKPDNCL EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNC

References

[1]	"Lelystad virus, the causative agent of porcine epidemic abortion and respiratory syndrome (PEARS), is related to LDV and EAV." Meulenberg J.J.M., Hulst M.M., de Meijer E.J., Moonen P.L.J.M., den Besten A., de Kluyver E.P., Wensvoort G., Moormann R.J.M. Virology 192:62-72(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	Kroese M.V., Moormann R.J.M. Submitted (NOV-2000) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION TO 3327.
[3]	"Molecular characterization of porcine reproductive and respiratory syndrome virus, a member of the arterivirus group." Conzelmann K.K., Visser N., van Woensel P., Thiel H.J. Virology 193:329-339(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 3323-3855. Strain: Isolate Boxmeer 10.
[4]	"Processing and evolution of the N-terminal region of the arterivirus replicase ORF1a protein: identification of two papainlike cysteine proteases." den Boon J.A., Faaberg K.S., Meulenberg J.J.M., Wassenaar A.L.M., Plagemann P.G.W., Gorbalenya A.E., Snijder E.J. J. Virol. 69:4500-4505(1995) [PubMed] [Europe PMC] [Abstract] Cited for: ACTIVE SITES OF PCP1-ALPHA AND PCP1-BETA, MUTAGENESIS OF CYS-76; HIS-92; HIS-115; HIS-146; HIS-157; HIS-157; CYS-276 AND HIS-345.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M96262 Genomic RNA. Translation: AAA46273.2. Different initiation. M96262 Genomic RNA. Translation: AAA46274.1. Different initiation. L04493 Genomic RNA. Translation: AAA47101.1.
PIR	A36861. A45392. B36861.
3D structure databases
ModBase	Search...
Protein family/group databases
MEROPS	C32.001.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR027351. (+)RNA_virus_helicase_core_dom. IPR008743. Arterivirus_Nsp2_C33. IPR023338. Arterivirus_NSP4_peptidase. IPR027355. AV_MBD_dom. IPR008741. AV_PCPalpha. IPR025773. AV_PCPbeta. IPR008760. EAV_peptidase_S32. IPR001205. RNA-dir_pol_C. IPR007094. RNA-dir_pol_PSvirus. IPR009003. Trypsin-like_Pept_dom. [Graphical view]
Pfam	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]
SUPFAM	SSF50494. Pept_Ser_Cys. 1 hit.
PROSITE	PS51538. AV_CP. 1 hit. PS51652. AV_MBD. 1 hit. PS51493. AV_NSP4_PRO. 1 hit. PS51539. AV_PCP_ALPHA. 1 hit. PS51540. AV_PCP_BETA. 1 hit. PS51657. PSRV_HELICASE. 1 hit. PS50507. RDRP_SSRNA_POS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RPOA_PRRSL

Accession

Primary (citable) accession number: Q04561

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1993
Last sequence update:	August 10, 2010
Last modified:	May 1, 2013
This is version 105 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program