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Q98VG9 (R1AB_FIPV) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 93. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Replicase polyprotein 1ab

Short name=pp1ab
Alternative name(s):
ORF1ab polyprotein

Cleaved into the following 16 chains:

  1. Non-structural protein 1
    Short name=nsp1
  2. Non-structural protein 2
    Short name=nsp2
  3. Non-structural protein 3
    Short name=nsp3
    EC=3.4.19.12
    EC=3.4.22.-
    Alternative name(s):
    PL1-PRO/PL2-PRO
    PLP1/PLP2
    Papain-like proteinases 1/2
    p195
  4. Non-structural protein 4
    Short name=nsp4
    Alternative name(s):
    Peptide HD2
  5. 3C-like proteinase
    Short name=3CL-PRO
    Short name=3CLp
    EC=3.4.22.-
    Alternative name(s):
    M-PRO
    nsp5
  6. Non-structural protein 6
    Short name=nsp6
  7. Non-structural protein 7
    Short name=nsp7
  8. Non-structural protein 8
    Short name=nsp8
  9. Non-structural protein 9
    Short name=nsp9
  10. Non-structural protein 10
    Short name=nsp10
  11. Non-structural protein 11
    Short name=nsp11
  12. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    nsp12
  13. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    nsp13
  14. Exoribonuclease
    Short name=ExoN
    EC=3.1.13.-
    Alternative name(s):
    nsp14
  15. Uridylate-specific endoribonuclease
    EC=3.1.-.-
    Alternative name(s):
    NendoU
    nsp15
  16. Putative 2'-O-methyl transferase
    EC=2.1.1.-
    Alternative name(s):
    nsp16
Gene names
Name:rep
ORF Names:1a-1b
OrganismFeline coronavirus (strain FIPV WSU-79/1146) (FCoV) [Reference proteome]
Taxonomic identifier33734 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeAlphacoronavirus
Virus hostFelidae (cat family) [TaxID: 9681]

Protein attributes

Sequence length6709 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

The replicase polyprotein of coronaviruses 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.

The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 By similarity.

The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function By similarity.

The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) By similarity.

The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction By similarity.

Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter By similarity.

Nsp9 is a ssRNA-binding protein By similarity.

NendoU is a Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond By similarity.

Catalytic activity

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).

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

ATP + H2O = ADP + phosphate.

Subunit structure

3CL-PRO exists as monomer and homodimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp9 is a dimer. Nsp10 forms a dodecamer By similarity.

Subcellular location

Non-structural protein 3: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 4: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 6: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 7: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 8: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 9: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 10: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Helicase: Host endoplasmic reticulum-Golgi intermediate compartment Potential. Note: The helicase interacts with the N protein in membranous complexes and colocalizes with sites of synthesis of new viral RNA By similarity.

Uridylate-specific endoribonuclease: Host cytoplasmhost perinuclear region By similarity.

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.

Post-translational modification

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. 3CL-PRO and PL-PRO proteinases are autocatalytically processed By similarity.

Sequence similarities

Belongs to the coronaviruses polyprotein 1ab family.

Contains 1 (+)RNA virus helicase ATP-binding domain.

Contains 1 (+)RNA virus helicase C-terminal domain.

Contains 1 CV MBD (coronavirus metal-binding) domain.

Contains 1 Macro domain.

Contains 2 peptidase C16 domains.

Contains 1 peptidase C30 domain.

Contains 1 RdRp catalytic domain.

Sequence caution

The sequence AAY16374.1 differs from that shown. Reason: Frameshift at position 4033.

Ontologies

Keywords
   Biological processActivation of host autophagy by virus
Host-virus interaction
Inhibition of host innate immune response by virus
Inhibition of host IRF3 by virus
Inhibition of host RLR pathway by virus
Modulation of host ubiquitin pathway by viral deubiquitinase
Modulation of host ubiquitin pathway by virus
Ubl conjugation pathway
Viral immunoevasion
Viral RNA replication
   Cellular componentHost cytoplasm
Host membrane
Membrane
   Coding sequence diversityRibosomal frameshifting
   DomainRepeat
Transmembrane
Transmembrane helix
Zinc-finger
   LigandATP-binding
Metal-binding
Nucleotide-binding
RNA-binding
Zinc
   Molecular functionEndonuclease
Exonuclease
Helicase
Hydrolase
Nuclease
Nucleotidyltransferase
Protease
RNA-directed RNA polymerase
Thiol protease
Transferase
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processinduction by virus of host autophagy

Inferred from electronic annotation. Source: UniProtKB-KW

modulation by virus of host protein ubiquitination

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host IRF3 activity

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

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_componenthost cell endoplasmic reticulum-Golgi intermediate compartment

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell perinuclear region of cytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-KW

cysteine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

endonuclease activity

Inferred from electronic annotation. Source: UniProtKB-KW

exoribonuclease activity, producing 5'-phosphomonoesters

Inferred from electronic annotation. Source: InterPro

helicase activity

Inferred from electronic annotation. Source: UniProtKB-KW

methyltransferase activity

Inferred from electronic annotation. Source: InterPro

omega peptidase activity

Inferred from electronic annotation. Source: InterPro

zinc ion binding

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: Q98VG9-1)

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: Q98VG9-2)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform differs from the canonical sequence as follows:
     4043-6709: Missing.
Note: Produced by conventional translation.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 67096709Replicase polyprotein 1ab
PRO_0000283825
Chain1 – 110110Non-structural protein 1 By similarity
PRO_5000140208
Chain111 – 879769Non-structural protein 2 By similarity
PRO_5000140209
Chain880 – 24131534Non-structural protein 3 By similarity
PRO_5000140210
Chain2414 – 2903490Non-structural protein 4 By similarity
PRO_5000140211
Chain2904 – 32053023C-like proteinase By similarity
PRO_5000140212
Chain3206 – 3499294Non-structural protein 6 By similarity
PRO_5000140213
Chain3500 – 358283Non-structural protein 7 By similarity
PRO_5000140214
Chain3583 – 3777195Non-structural protein 8 By similarity
PRO_5000140215
Chain3778 – 3888111Non-structural protein 9 By similarity
PRO_5000140216
Chain3889 – 4023135Non-structural protein 10 By similarity
PRO_5000140217
Chain4024 – 4952929RNA-directed RNA polymerase By similarity
PRO_5000140219
Chain4024 – 404219Non-structural protein 11 By similarity
PRO_5000140218
Chain4953 – 5551599Helicase By similarity
PRO_5000140220
Chain5552 – 6070519Exoribonuclease Potential
PRO_5000140221
Chain6071 – 6409339Uridylate-specific endoribonuclease Potential
PRO_5000140222
Chain6410 – 6709300Putative 2'-O-methyl transferase Potential
PRO_5000140223

Regions

Transmembrane1860 – 187819Helical; Potential
Transmembrane1921 – 194121Helical; Potential
Transmembrane2006 – 202621Helical; Potential
Transmembrane2043 – 206523Helical; Potential
Transmembrane2426 – 244621Helical; Potential
Transmembrane2691 – 271121Helical; Potential
Transmembrane2720 – 274021Helical; Potential
Transmembrane2771 – 279121Helical; Potential
Transmembrane3212 – 323221Helical; Potential
Transmembrane3242 – 326221Helical; Potential
Transmembrane3267 – 328721Helical; Potential
Transmembrane3306 – 332621Helical; Potential
Transmembrane3339 – 335921Helical; Potential
Transmembrane3396 – 341621Helical; Potential
Transmembrane3419 – 343921Helical; Potential
Domain1079 – 1330252Peptidase C16 1
Domain1329 – 1500172Macro
Domain1561 – 1814254Peptidase C16 2
Domain2904 – 3205302Peptidase C30
Domain4632 – 4794163RdRp catalytic
Domain4953 – 503684CV MBD
Domain5200 – 5391192(+)RNA virus helicase ATP-binding
Domain5392 – 5561170(+)RNA virus helicase C-terminal
Zinc finger1188 – 121932C4-type 1 By similarity
Zinc finger1678 – 170730C4-type 2; atypical By similarity
Zinc finger3962 – 397817 By similarity
Zinc finger4004 – 401714 By similarity
Nucleotide binding5235 – 52428ATP By similarity
Region1860 – 2065206HD1 By similarity
Region2426 – 2791366HD2 By similarity
Region3212 – 3439228HD3 By similarity

Sites

Active site11171For PL1-PRO activity By similarity
Active site12681For PL1-PRO activity By similarity
Active site15991For PL2-PRO activity By similarity
Active site17521For PL2-PRO activity By similarity
Active site29441For 3CL-PRO activity
Active site30471For 3CL-PRO activity
Site110 – 1112Cleavage; by PL1-PRO By similarity
Site879 – 8802Cleavage; by PL1-PRO By similarity
Site2413 – 24142Cleavage; by PL2-PRO By similarity
Site2903 – 29042Cleavage; by 3CL-PRO By similarity
Site30531Important for substrate recognition
Site3205 – 32062Cleavage; by 3CL-PRO By similarity
Site3499 – 35002Cleavage; by 3CL-PRO By similarity
Site3582 – 35832Cleavage; by 3CL-PRO By similarity
Site3777 – 37782Cleavage; by 3CL-PRO By similarity
Site3888 – 38892Cleavage; by 3CL-PRO By similarity
Site4023 – 40242Cleavage; by 3CL-PRO By similarity
Site4952 – 49532Cleavage; by 3CL-PRO By similarity
Site5551 – 55522Cleavage; by 3CL-PRO By similarity
Site6070 – 60712Cleavage; by 3CL-PRO By similarity
Site6409 – 64102Cleavage; by 3CL-PRO By similarity

Natural variations

Alternative sequence4043 – 67092667Missing in isoform Replicase polyprotein 1a.
VSP_032885
Natural variant1621W → C.
Natural variant1771D → G.
Natural variant3881W → C.
Natural variant8081K → T.
Natural variant17841A → V.
Natural variant28891M → K.
Natural variant32801A → V.
Natural variant39921Q → R.
Natural variant43041H → Q.
Natural variant58461Y → H.

Experimental info

Mutagenesis29441H → Y or R: Complete loss of 3CL-PRO activity. Ref.3
Mutagenesis29671N → A or D: Increase of 3CL-PRO activity. Ref.3
Mutagenesis29861G → A: 5% loss of 3CL-PRO activity. Ref.3
Mutagenesis29861G → D: Increase of 3CL-PRO activity. Ref.3
Mutagenesis29861G → E: 50% loss of 3CL-PRO activity. Ref.3
Mutagenesis29861G → P or V: 95% loss of 3CL-PRO activity. Ref.3
Mutagenesis29861G → R, T or W: 70% loss of 3CL-PRO activity. Ref.3
Mutagenesis30411S → A: 80% loss of 3CL-PRO activity. Ref.3
Mutagenesis30411S → T: 40% loss of 3CL-PRO activity. Ref.3
Mutagenesis30471C → A or S: Complete loss of 3CL-PRO activity. Ref.3
Mutagenesis30631Y → A, F, G or T: Almost complete loss of 3CL-PRO activity. Ref.3
Mutagenesis30641M → A: Increase of 3CL-PRO activity. Ref.3
Mutagenesis30651H → A: Complete loss of 3CL-PRO activity. Ref.3
Sequence conflict1016 – 109277Missing in AAY32594. Ref.1

Secondary structure

.................................................................................. 6709
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform Replicase polyprotein 1ab (pp1ab) [UniParc].

Last modified April 17, 2007. Version 2.
Checksum: F26AC0FFF5FE27F9

FASTA6,709751,196
        10         20         30         40         50         60 
MSSKQFKILV NEDYQVNVPS LPFRDALQEI KYCYRNGFDG YVFVPEYRRD LVDCNRKDHY 

        70         80         90        100        110        120 
VIGVLGNGIS DLKPVLLTEP SVMLQGFIVR ANCNGVLEDF DLKFARTGNG AIYVDQYMCG 

       130        140        150        160        170        180 
ADGKPVIEGE FKDYFGDEDV IIYEGEEYHC AWLTVRDEKP LWQQTLLTIR EIQYNLDIPH 

       190        200        210        220        230        240 
KLPNCAIREV APPVKKNSKV VLSEEYRKLY DIFGSPFMGN GDSLNTCFDS LHFIAATLKC 

       250        260        270        280        290        300 
PCGAESSGVG DWTGFKTACC GLHGKVKGVT LGAVKPGDAI VTSMSAGKGV KFFANSVLQY 

       310        320        330        340        350        360 
AGDVENVSVW KVIKTFTVNE TVCTTDFEGE LNDFIRPEST SPVSCSIKRA FITGEVDDAV 

       370        380        390        400        410        420 
HDCIIAGKLD LSTNLFGSAN LLFKKMPWFV QKCGAIFADA WKVVEELLCS LKLTYKQIYD 

       430        440        450        460        470        480 
VVASLCTSAF TIMDYKPVFV VSSNSVKDLV DKCVKILVKA FDVFTQTITI AGVEAKCFVL 

       490        500        510        520        530        540 
GSKYLLFNNA LVKLVSVKIL GKRQKGLDSA FFATNLIGAT VNVTPQRTES AYISLNKVDD 

       550        560        570        580        590        600 
VVTPGGGHIV IIGDMAFYKS EEYYFMMASP DSVLVNNVFK AARVPSYNIV YDVNDDTKSK 

       610        620        630        640        650        660 
MVVKIGTSFD FDGDLDAAIA KVNDLLIEFR QEKLCFRALK DGENILVEAY LKKYKMPVCL 

       670        680        690        700        710        720 
KNHVGLWDII RQDSGKKGFL DTFNHLNELE DVKDIKIQTI KNIICPDLLL ELDFGAIWYR 

       730        740        750        760        770        780 
CMPACSDKSI LGNVKIMLGN GVKVVCDGCH SFANRLTINY NKLCDTARKD IEIGGIPFST 

       790        800        810        820        830        840 
FKTPSSSFID MKDAIYSVVE YGEALSFKTA SVPVTNSGII TTDDWSDPIL LEPADYVEPK 

       850        860        870        880        890        900 
DNGDVIVIAG YTFYKDEDDH FYPYGSGMVV QKMYNKMGGG DKSVSFSDNV NVREIEPVTR 

       910        920        930        940        950        960 
VRLEFEFDNE VVTQVLEKVI GTKYKFIGTT WEEFEDSISE KLDKIFDTLA EQGVELEGYF 

       970        980        990       1000       1010       1020 
IYDTCGGFDI NNPDGVMISQ YDLNTAADDK SDSDASVEDI SLISDNEDVE QIEEDNTSTD 

      1030       1040       1050       1060       1070       1080 
DAEDVSSVEG ETVSVVDVED FVEQVSLVEE NNVLTPAVNP DEQLSSVEKK DEVSAKNDPW 

      1090       1100       1110       1120       1130       1140 
AAAVDEQEAE QPKPSLTPFK TTNLNGKIIL KQQDNNCWIN ACCYQLQAFD FFNHDLWDGF 

      1150       1160       1170       1180       1190       1200 
KKDDVMPFVD FCYAALTLKQ GDSGDAEYLL ETMLNDYSTA KVTLSAKCGC GVKEIVLERT 

      1210       1220       1230       1240       1250       1260 
VFKLTPLRNE FKYGVCGDCK QINMCKFASV EGSGVFVHDR IEKQTPVSQF IVTPTMHAVY 

      1270       1280       1290       1300       1310       1320 
TGTTQSGHYM IEDCIHDYCV DGMGIKPRKH KFYTSTLFLN ANVMTAKSKT MVEPPVPVED 

      1330       1340       1350       1360       1370       1380 
KCVEDCQSPK DLILPFYKAG KVSFYQGDLD VLINFLEPDV LVNAANGDLR HVGGVARAID 

      1390       1400       1410       1420       1430       1440 
VFTGGKLTKR SKEYLKSSKA IAPGNAVLFE NVLEHLSVLN AVGPRNGDSR VEGKLCNVYK 

      1450       1460       1470       1480       1490       1500 
AIAKCDGKIL TPLISVGIFK VKLEVSLQCL LKTVTDRDLN VFVYTDQERV TIENFFNGTI 

      1510       1520       1530       1540       1550       1560 
PIKVTEDTVN QKRVSVALDK TYGEQLKGTV VIKDKDVTNQ LPSVSDVGEK VVKALDVDWN 

      1570       1580       1590       1600       1610       1620 
AYYGFPNAAA FSASSHDAYE FDVVTHNNFI VHKQTDNNCW VNAICLALQR LKPTWKFPGV 

      1630       1640       1650       1660       1670       1680 
KSLWDAFLTR KTAGFVHMLY HISGLTKGQP GDAELTLHKL VDLMSSDSAV TVTHTTACDK 

      1690       1700       1710       1720       1730       1740 
CAKVETFTGP VVAAPLLVCG TDEICVHGVH VNVKVTSIRG TVAITSLIGP VVGDVIDATG 

      1750       1760       1770       1780       1790       1800 
YICYTGLNSR GHYTYYDNRN GLMVDADKAY HFEKNLLQVT TAIASNFVAN TPKKEIMPKT 

      1810       1820       1830       1840       1850       1860 
QAKESKAKES NTARVFSEVE ENPKNIVRKE KLLAIESGVD YTITTLGKYA DVFFMAGDKI 

      1870       1880       1890       1900       1910       1920 
LRFLLEVFKY LLVVFMCLRK SKMPKVKVKP PHVFRNLGAK VRTLNYVRQL NKPALWRYIK 

      1930       1940       1950       1960       1970       1980 
LVLLLIALYH FFYLFVSIPV VHKLACSGSV QAYSNSSFVK SEVCGNSILC KACLASYDEL 

      1990       2000       2010       2020       2030       2040 
ADFDHLQVSW DYKSDPLWNR VIQLSYFIFL AVFGNNYVRC LLMYFVSQYL NLWLSYFGYV 

      2050       2060       2070       2080       2090       2100 
KYSWFLHVVN FESISVEFVI IVVVFKAVLA LKHIFLPCNN PSCKTCSKIA RQTRIPIQVV 

      2110       2120       2130       2140       2150       2160 
VNGSMKTVYV HANGTGKLCK KHNFYCKNCD SYGFDHTFIC DEIVRDLSNS IKQTVYATDR 

      2170       2180       2190       2200       2210       2220 
SYQEVTKVEC TDGFYRFYVG EEFTAYDYDV KHKKYSSQEV LKTMFLLDDF IVYNPSGSSL 

      2230       2240       2250       2260       2270       2280 
ASVRNVCVYF SQLIGRPIKI VNSELLEDLS VDFKGALFNA KKNVIKNSFN VDVSECKNLE 

      2290       2300       2310       2320       2330       2340 
ECYKLCNLDV TFSTFEMAIN NAHRFGILIT DRSFNNFWPS KIKPGSSGVS AMDIGKCMTF 

      2350       2360       2370       2380       2390       2400 
DAKIVNAKVL TQRGKSVVWL SQDFSTLSST AQKVLVKTFV EEGVNFSLTF NAVGSDEDLP 

      2410       2420       2430       2440       2450       2460 
YERFTESVSA KSGSGFFDVL KQLKQLFWCL VLFITLYGLC SVYSVATQSY IDSAEGYDYM 

      2470       2480       2490       2500       2510       2520 
VIKNGVVQSF DDSINCVHNT YKGFAVWFKA KHGFVPTFDK SCPIVLGTVF DLGNMRPIPD 

      2530       2540       2550       2560       2570       2580 
VPAYVALVGR SLVFAINAAF GVTNVCYDHT GAAVSKNSYF DTCVFNSACT TLTGIGGTVV 

      2590       2600       2610       2620       2630       2640 
YCAKQGLVEG AKLYSELLPD YYYEHASGNM VKIPAIIRSF GLRFVKTQAT TYCRVGECTE 

      2650       2660       2670       2680       2690       2700 
SQAGFCFGGD NWFVYDKEFG DGYICGSSTL GFFKNVFALF NSNMSVVATS GAMLANIVIA 

      2710       2720       2730       2740       2750       2760 
CLAIAVCYGV LKFKKIFGDC TLLVVMIIVT LVVNNVSYFV TQNTFFMIVY AIIYYFTTRK 

      2770       2780       2790       2800       2810       2820 
LAYPGVLDAG FIIAYLNMAP WYVLVLYIMV FLYDSLPSLF KLKVTTNLFE GDKFVGSFES 

      2830       2840       2850       2860       2870       2880 
AAMGTFVIDM RSYETLVNST SLDRIKSYAN SFNKYKYYTG SMGEADYRMA CYAHLGKALM 

      2890       2900       2910       2920       2930       2940 
DYSVSRNDML YTPPTVSVNS TLQSGLRKMA QPSGVVEPCI VRVAYGNNVL NGLWLGDEVI 

      2950       2960       2970       2980       2990       3000 
CPRHVIASDT SRVINYENEL SSVRLHNFSI AKNNAFLGVV SAKYKGVNLV LKVNQVNPNT 

      3010       3020       3030       3040       3050       3060 
PEHKFKSVRP GESFNILACY EGCPGSVYGV NMRSQGTIKG SFIAGTCGSV GYVLENGTLY 

      3070       3080       3090       3100       3110       3120 
FVYMHHLELG NGSHVGSNLE GEMYGGYEDQ PSMQLEGTNV MSSDNVVAFL YAALINGERW 

      3130       3140       3150       3160       3170       3180 
FVTNTSMTLE SYNAWAKTNS FTEIVSTDAF NMLAAKTGYS VEKLLECIVR LNKGFGGRTI 

      3190       3200       3210       3220       3230       3240 
LSYGSLCDEF TPTEVIRQMY GVNLQSGKVK SIFYPMMTAI AILFAFWLEF FMYTPFTWIN 

      3250       3260       3270       3280       3290       3300 
PTFVSVVLAI TTLVSVLLVA GIKHKMLFFM SFVMPSVILA TAHNVVWDMT YYESLQVLVE 

      3310       3320       3330       3340       3350       3360 
NVNTTFLPVD MQGVMLALFC VVVFVICTIR FFTCKQSWFS LFATTIFVMF NIVKLLGMIG 

      3370       3380       3390       3400       3410       3420 
EPWTDDHFLL CLVNMLTMLI SLTTKDWFVV FASYKVAYYI VVYVMQPAFV QDFGFVKCVS 

      3430       3440       3450       3460       3470       3480 
IIYMACGYLF CCYYGILYWV NRFTCMTCGV YQFTVSPAEL KYMTANNLSA PKTAYDAMIL 

      3490       3500       3510       3520       3530       3540 
SFKLMGIGGG RNIKISTVQS KLTEMKCTNV VLLGLLSKMH VESNSKEWNY CVGLHNEINL 

      3550       3560       3570       3580       3590       3600 
CDDPDAVLEK LLALIAFFLS KHNTCDLSDL IESYFENTTI LQSVASAYAA LPSWIAYEKA 

      3610       3620       3630       3640       3650       3660 
RADLEEAKKN DVSPQLLKQL TKACNIAKSE FEREASVQKK LDKMAEQAAA SMYKEARAVD 

      3670       3680       3690       3700       3710       3720 
RKSKIVSAMH SLLFGMLKKL DMSSVNTIIE QARNGVLPLS IIPAASATRL IVVTPNLEVL 

      3730       3740       3750       3760       3770       3780 
SKVRQENNVH YAGAIWSIVE VKDANGAQVH LKEVTAANEL NITWPLSITC ERTTKLQNNE 

      3790       3800       3810       3820       3830       3840 
ILPGKLKEKA VKASATIDGD AYGSGKALMA SEGGKSFIYA FIASDSNLKY VKWESNNDVI 

      3850       3860       3870       3880       3890       3900 
PIELEAPLRF YVDGVNGPEV KYLYFVKSLN TLRRGAVLGY IGATVRLQAG KPTEHPSNSG 

      3910       3920       3930       3940       3950       3960 
LLTLCAFAPD PAKAYVDAVK RGMQPVTNCV KMLSNGAGNG MAITNGVESN TQQDSYGGAS 

      3970       3980       3990       4000       4010       4020 
VCIYCRCHVE HPAIDGLCRF KGKFVQVPTG TQDPIRFCIE NEVCVVCGCW LTNGCMCDRT 

      4030       4040       4050       4060       4070       4080 
SIQGTTIDQS YLNECGVLVQ LDLEPCNGTD PDHVSRAFDI YNKDVACIGK FLKTNCSRFR 

      4090       4100       4110       4120       4130       4140 
NLDKHDAYYV VKRCTKSVMD HEQVCYNDLK DSGVVAEHDF FLYKEGRCEF GNVARKDLTK 

      4150       4160       4170       4180       4190       4200 
YTMMDLCYAI RNFDEKNCEV LKEILVTLGA CNESFFENKD WFDPVENEAI HEVYARLGPI 

      4210       4220       4230       4240       4250       4260 
VANAMLKCVA FCDAIVEKGY IGIITLDNQD LNGNFYDFGD FVKTTPGFGC ACVTSYYSYM 

      4270       4280       4290       4300       4310       4320 
MPLMGMTSCL ESENFVKSDI YGADYKQYDL LAYDFTDHKE KLFHKYFKHW DRTYHPNCSD 

      4330       4340       4350       4360       4370       4380 
CTSDECIIHC ANFNTLFSMT IPSTAFGPLV RKVHIDGVPV VVTAGYHFKQ LGIVWNLDVK 

      4390       4400       4410       4420       4430       4440 
LDTMKLSMTD LLRFVTDPTL LVASSPALLD QRTVCFSIAA LSTGVTYQTV KPGHFNKDFY 

      4450       4460       4470       4480       4490       4500 
DFITERGFFE EGSELTLKHF FFAQGGEAAM TDFNYYRYNR VTVLDICQAQ FVYKIVGKYF 

      4510       4520       4530       4540       4550       4560 
ECYDGGCINA REVVVTNYDK SAGYPLNKFG KARLYYETLS YEEQDALFAL TKRNVLPTMT 

      4570       4580       4590       4600       4610       4620 
QMNLKYAISG KARARTVGGV SLLSTMTTRQ YHQKHLKSIA ATRNATVVIG STKFYGGWDN 

      4630       4640       4650       4660       4670       4680 
MLKNLMRDVD NGCLMGWDYP KCDRALPNMI RMASAMILGS KHVGCCTHSD RFYRLSNELA 

      4690       4700       4710       4720       4730       4740 
QVLTEVVHCT GGFYFKPGGT TSGDGTTAYA NSAFNIFQAV SANVNKLLGV DSNACNNVTV 

      4750       4760       4770       4780       4790       4800 
KSIQRKIYDN CYRSSSIDEE FVVEYFSYLR KHFSMMILSD DGVVCYNKDY ADLGYVADIN 

      4810       4820       4830       4840       4850       4860 
AFKATLYYQN NVFMSTSKCW VEPDLSVGPH EFCSQHTLQI VGPDGDYYLP YPDPSRILSA 

      4870       4880       4890       4900       4910       4920 
GVFVDDIVKT DNVIMLERYV SLAIDAYPLT KHPKPAYQKV FYTLLDWVKH LQKNLNAGVL 

      4930       4940       4950       4960       4970       4980 
DSFSVTMLEE GQDKFWSEEF YASLYEKSTV LQAAGMCVVC GSQTVLRCGD CLRRPLLCTK 

      4990       5000       5010       5020       5030       5040 
CAYDHVMGTK HKFIMSITPY VCSFNGCNVN DVTKLFLGGL SYYCMDHKPQ LSFPLCANGN 

      5050       5060       5070       5080       5090       5100 
VFGLYKSSAV GSEDVEDFNK LAVSDWTNVE DYKLANNVKE SLKIFAAETV KAKEESVKSE 

      5110       5120       5130       5140       5150       5160 
YAYAILKEVI GPKEIVLQWE ASKTKPPLNR NSVFTCFQIS KDTKIQLGEF VFEQSEYGSD 

      5170       5180       5190       5200       5210       5220 
SVYYKSTSTY KLTPGMIFVL TSHNVSPLKA TILVNQEKYN TISKLYPVFN IAEAYNTLVP 

      5230       5240       5250       5260       5270       5280 
YYQMIGKQKF TTIQGPPGSG KSHCVIGLGL YYPQARIVYT ACSHAAVDAL CEKAAKNFNV 

      5290       5300       5310       5320       5330       5340 
DRCSRIIPQR IRVDCYTGFK PNNTNAQYLF CTVNALPEAS CDIVVVDEVS MCTNYDLSVI 

      5350       5360       5370       5380       5390       5400 
NSRLSYKHIV YVGDPQQLPA PRTLINKGVL QPQDYNVVTQ RVCTLGPDVF LHKCYRCPAE 

      5410       5420       5430       5440       5450       5460 
IVKTVSALVY ENKFVPVNPE SKQCFKMFVK GQVQIESNSS INNKQLEVVK AFLAHNPKWR 

      5470       5480       5490       5500       5510       5520 
KAVFISPYNS QNYVARRLLG LQTQTVDSAQ GSEYDYVIYT QTSDTQHATN VNRFNVAITR 

      5530       5540       5550       5560       5570       5580 
AKVGILCIMC DRTMYENLDF YELKDSKIGL QAKPETCGLF KDCSKSEQYI PPAYATTYMS 

      5590       5600       5610       5620       5630       5640 
LSDNFKTSDG LAVNIGTKDV KYANVISYMG FRFEANIPGY HTLFCTRDFA MRNVRAWLGF 

      5650       5660       5670       5680       5690       5700 
DVEGAHVCGD NVGTNVPLQL GFSNGVDFVV QTEGCVVTEK GNSIEVVKAR APPGEQFAHL 

      5710       5720       5730       5740       5750       5760 
IPLMRKGQPW HIVRRRIVQM VCDYFDGLSD ILIFVLWAGG LELTTMRYFV KIGRPQKCEC 

      5770       5780       5790       5800       5810       5820 
GKSATCYSSS QCVYACFKHA LGCDYLYNPY CIDIQQWGYT GSLSMNHHEV CNIHRNEHVA 

      5830       5840       5850       5860       5870       5880 
SGDAIMTRCL AIHDCFVKRV DWSIVYPFID NEEKINKAGR IVQSHVMKAA LKIFNPAAIH 

      5890       5900       5910       5920       5930       5940 
DVGNPKGIRC ATTPIPWFCY DRDPINNNVR CLEYDYMVHG QMNGLMLFWN CNVDMYPEFS 

      5950       5960       5970       5980       5990       6000 
IVCRFDTRTR SKLSLEGCNG GALYVNNHAF HTPAYDRRAF AKLKPMPFFY YDDSNCELVD 

      6010       6020       6030       6040       6050       6060 
GQPNYVPLKS NVCITKCNIG GAVCKKHAAL YRAYVEDYNM FMQAGFTIWC PQNFDTYMLW 

      6070       6080       6090       6100       6110       6120 
HGFVNSKALQ SLENVAFNVV KKGAFTGLKG DLPTAVIADK IMVRDGPTDK CIFTNKTSLP 

      6130       6140       6150       6160       6170       6180 
TNVAFELYAK RKLGLTPPLT ILRNLGVVAT YKFVLWDYEA ECPFSNFTKQ VCSYTDLDSE 

      6190       6200       6210       6220       6230       6240 
VVTCFDNSIA GSFERFTTTK DAVLISNNAV KGLSAIKLQY GFLNDLPVST VGNKPVTWYI 

      6250       6260       6270       6280       6290       6300 
YVRKNGEYVE QIDSYYTHGR TFETFKPRST MEEDFLSMDT TLFIQKYGLE DYGFEHVVFG 

      6310       6320       6330       6340       6350       6360 
DVSKTTIGGM HLLISQVRLA KMGLFSVQEF MTNSDSTLKS CCITYADDPS SKNVCTYMDI 

      6370       6380       6390       6400       6410       6420 
LLDDFVTIIK SLDLNVVSKV VDVIVDCKAW RWMLWCENSQ IKTFYPQLQS AEWNPGYSMP 

      6430       6440       6450       6460       6470       6480 
TLYKIQRMCL ERCNLYNYGA QVRLPDGITT NVVKYTQLCQ YLNTTTVCVP HKMRVLHLGA 

      6490       6500       6510       6520       6530       6540 
AGASGVAPGS TVLRRWLPDD AILVDNDLRD YVSDADFSVT GDCTSLYIED KFDLLISDLY 

      6550       6560       6570       6580       6590       6600 
DGSTKSIDGE NTSKDGFFTY INGFIKEKLS LGGSAAIKIT EFSWNKDLYE LIQRFEYWTV 

      6610       6620       6630       6640       6650       6660 
FCTSVNTSSS EGFLIGINYL GPYCDKAIVD GNIMHANYIF WRNSTIMALS HNSVLDTPKF 

      6670       6680       6690       6700 
KCRCNNALIV NLKEKELNEM VVGLLRKGKL LIRNNGKLLN FGNHLVNVP 

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Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc].

Checksum: 34663B2576D09550
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FASTA4,042449,790

References

[1]"Genomic RNA sequence of Feline coronavirus strain FIPV WSU-79/1146."
Dye C., Siddell S.G.
J. Gen. Virol. 86:2249-2253(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]Haijema B.J., de Groot-Mijnes J.D.F., Vennema H., Raamsman M.J., Rottier P.J.M., de Groot R.J.
Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[3]"Mutational analysis of the active centre of coronavirus 3C-like proteases."
Hegyi A., Friebe A., Gorbalenya A.E., Ziebuhr J.
J. Gen. Virol. 83:581-593(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 2894-3215, MUTAGENESIS OF HIS-2944; ASN-2967; GLY-2986; SER-3041; CYS-3047; TYR-3063; MET-3064 AND HIS-3065.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
DQ010921 Genomic RNA. Translation: AAY32594.1.
DQ010921 Genomic RNA. Translation: AAY32595.1.
AY994055 Genomic RNA. Translation: AAY16374.1. Frameshift.
AF326575 Genomic RNA. Translation: AAK09095.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
3ETIX-ray2.20A/B/C/D/E/F/G/H1331-1498[»]
3EW5X-ray3.10A/B/C1331-1498[»]
3GZFX-ray2.76A/B/C/D/E2808-2902[»]
3JZTX-ray3.91A/B/C/D/E/F/G/H1331-1498[»]
3UB0X-ray2.60A/D3583-3777[»]
B/C/E/F3500-3582[»]
ProteinModelPortalQ98VG9.
SMRQ98VG9. Positions 2904-3204, 3894-4019.
ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSC30.004.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D3.40.50.300. 2 hits.
InterProIPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view]
PfamPF06478. Corona_RPol_N. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 2 hits.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF08715. Viral_protease. 2 hits.
[Graphical view]
SMARTSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 2 hits.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 2 hits.
PS51657. PSRV_HELICASE. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ98VG9.

Entry information

Entry nameR1AB_FIPV
AccessionPrimary (citable) accession number: Q98VG9
Secondary accession number(s): Q4U5G1, Q4U5G2, Q52PA4
Entry history
Integrated into UniProtKB/Swiss-Prot: October 10, 2003
Last sequence update: April 17, 2007
Last modified: June 11, 2014
This is version 93 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references