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Reviewed, UniProtKB/Swiss-Prot P07720 (POLG_TBEVS)

Last modified June 16, 2009. Version 100. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Web resources · Cross-references · Entry information · Relevant documents

Names and origin

Protein namesRecommended name:
    Genome polyprotein
Cleaved into the following 10 chains:
    1- Recommended name:
            Protein C
        Alternative name(s):
            Core protein
            Capsid protein
    2- Recommended name:
            Small envelope protein M
        Alternative name(s):
            Matrix protein
    3- Recommended name:
            Envelope protein E
    4- Recommended name:
            Non-structural protein 1
                Short name=NS1
    5- Recommended name:
            Non-structural protein 2A
                Short name=NS2A
    6- Recommended name:
            Flavivirin protease NS2B regulatory subunit
    7- Recommended name:
            Flavivirin protease NS3 catalytic subunit
              EC=3.4.21.91
    8- Recommended name:
            Non-structural protein 4A
                Short name=NS4A
    9- Recommended name:
            Non-structural protein 4B
                Short name=NS4B
    10- Recommended name:
            RNA-directed RNA polymerase
              EC=2.7.7.48
        Alternative name(s):
            NS5
OrganismTick-borne encephalitis virus Far Eastern subtype (strain Sofjin) (SOFV) (Sofjin virus) [Complete proteome]
Taxonomic identifier11087 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageFlaviviridaeFlavivirustick-borne encephalitis virus group
Virus hostIxodes ricinus (Sheep tick) [TaxID: 34613]
Ixodes persulcatus (Taiga tick) [TaxID: 34615]

Protein attributes

Sequence length3412 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level.

General annotation (Comments)

Function

The small proteins NS2A, NS4A and NS4B are hydrophobic, suggesting a possible membrane-related function. NS5 may play a role in the viral RNA replication. The NS2B/NS3 protease complex processes the viral polyprotein.

Catalytic activity

Selective hydrolysis of -Xaa-Xaa-|-Yaa- bonds in which each of the Xaa can be either Arg or Lys and Yaa can be either Ser or Ala.

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

Subunit structure

NS3 and NS2B form a heterodimer. NS3 is the catalytic subunit, whereas NS2B strongly stimulates the latter By similarity.

Subcellular location

Protein C: Virion Potential. Host membrane; Single-pass membrane protein Potential.

Small envelope protein M: Virion Potential. Host membrane; Single-pass membrane protein Potential.

Envelope protein E: Virion Potential. Host membrane; Multi-pass membrane protein Potential.

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

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

Post-translational modification

Specific enzymatic cleavages in vivo yield mature proteins By similarity.

Miscellaneous

The virion of this virus is a nucleocapsid covered by a lipoprotein envelope. The envelope contains two proteins: the protein M and glycoprotein E. The nucleocapsid is a complex of protein C and mRNA. In immature particles, there are 60 icosaedrally organized trimeric spikes on the surface. Each spike consists of three heterodimers of envelope protein M precursor (prM) and envelope protein E By similarity.

The nonstructural protein NS1 presents 2 alternative cleavage sites for its C-terminus (either at position 1128 or at 1190), which may define a soluble or a membrane-bound form of NS1.

Sequence similarities

Contains 1 helicase ATP-binding domain.

Contains 1 helicase C-terminal domain.

Contains 1 peptidase S7 domain.

Contains 1 RdRp catalytic domain.

Ontologies

Keywords
   Biological processRNA replication
   Cellular componentCapsid protein
Core protein
Envelope protein
Membrane
Virion
   DomainTransmembrane
   LigandATP-binding
Nucleotide-binding
   Molecular functionHelicase
Hydrolase
Nucleotidyltransferase
RNA-directed RNA polymerase
Transferase
   PTMCleavage on pair of basic residues
Disulfide bond
Glycoprotein
   Technical term3D-structure
Complete proteome
Gene Ontology (GO)
   Biological processRNA metabolic process

Inferred from electronic annotation. Source: InterPro

methylation

Inferred from electronic annotation. Source: InterPro

transcription, RNA-dependent

Inferred from electronic annotation. Source: UniProtKB-KW

viral genome replication

Inferred from electronic annotation. Source: InterPro

   Cellular componentintegral to membrane

Inferred from electronic annotation. Source: UniProtKB-KW

viral envelope

Inferred from electronic annotation. Source: UniProtKB-KW

viral nucleocapsid

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

ATP-dependent helicase activity

Inferred from electronic annotation. Source: InterPro

RNA helicase activity

Inferred from electronic annotation. Source: InterPro

RNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-KW

double-stranded RNA binding

Inferred from electronic annotation. Source: InterPro

methyltransferase activity

Inferred from electronic annotation. Source: InterPro

serine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

structural molecule activity

Inferred from electronic annotation. Source: UniProtKB-KW

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed; by host
Chain2 – 112111Protein C
PRO_0000037804
Propeptide113 – 20593
PRO_0000037805
Chain206 – 28075Small envelope protein M
PRO_0000037806
Chain281 – 776496Envelope protein E
PRO_0000037807
Chain777 – ?1128352Non-structural protein 1
PRO_0000037808
Chain?1129 – 1358230Non-structural protein 2A
PRO_0000037809
Chain1359 – 1489131Flavivirin protease NS2B regulatory subunit
PRO_0000037810
Chain1490 – 2110621Flavivirin protease NS3 catalytic subunit
PRO_0000037811
Chain2111 – 2259149Non-structural protein 4A
PRO_0000037812
Chain2260 – 2510251Non-structural protein 4B
PRO_0000037813
Chain2511 – 3412902RNA-directed RNA polymerase
PRO_0000037814

Regions

Transmembrane101 – 11212Hydrophobic signal sequence Potential
Transmembrane247 – 25913 Potential
Transmembrane266 – 28015 Potential
Transmembrane738 – 75114 Potential
Domain1675 – 1831157Helicase ATP-binding
Domain1841 – 2000160Helicase C-terminal
Domain3038 – 3187150RdRp catalytic
Nucleotide binding1688 – 16958ATP Potential
Motif1779 – 17824DEAH box

Sites

Active site15431Charge relay system By similarity
Active site15671Charge relay system By similarity
Active site16271Charge relay system By similarity

Amino acid modifications

Glycosylation1441N-linked (GlcNAc...); by host Potential
Glycosylation4341N-linked (GlcNAc...); by host
Glycosylation8611N-linked (GlcNAc...); by host Potential
Glycosylation9831N-linked (GlcNAc...); by host Potential
Glycosylation9991N-linked (GlcNAc...); by host Potential
Glycosylation12281N-linked (GlcNAc...); by host Potential
Glycosylation24471N-linked (GlcNAc...); by host Potential
Glycosylation24661N-linked (GlcNAc...); by host Potential
Disulfide bond283 ↔ 310 By similarity
Disulfide bond340 ↔ 396 By similarity
Disulfide bond354 ↔ 385 By similarity
Disulfide bond372 ↔ 401 By similarity
Disulfide bond466 ↔ 570 By similarity
Disulfide bond587 ↔ 618 By similarity

Experimental info

Sequence conflict3811W → S Ref.3
Sequence conflict8501E → D Ref.3

Secondary structure

......................................................................... 3412
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P07720-1 [UniParc].

Last modified May 1, 1991. Version 3.
Checksum: 0F61CE6DCCDC5965

FASTA3,412377,981
        10         20         30         40         50         60 
MAGKAILKGK GGGPPRRVSK ETAKKTRQSR VQMPNGLVLM RMMGILWHAV AGTARSPVLK 

        70         80         90        100        110        120 
SFWKSVPLKQ ATAALRKIKK AVSTLMVGLQ RRGKRRSAVD WTGWLLVVVL LGVTLAATVR 

       130        140        150        160        170        180 
KERDGTTVIR AEGKDAATQV RVENGTCVIL ATDMGSWCDD SLTYECVTID QGEEPVDVDC 

       190        200        210        220        230        240 
SCRNVDGVYL EYGRCGKQEG SRTRRSVLIP SHAQGDLTGR GHKWLEGDSL RTHLTRVEGW 

       250        260        270        280        290        300 
VWKNKVLTLA VIAVVWLTVE SVVTRVAVVV VLLCLAPVYA SRCTHLENRD FVTGTQGTTR 

       310        320        330        340        350        360 
VTLVLELGGC VTITAEGKPS MDVWLDSIYQ ENPAKTREYC LHAKLSDTKV AARCPTMGPA 

       370        380        390        400        410        420 
TLAEEHQSGT VCKRDQSDRG WGNHCGLFGK GSIVTCVKAS CEAKKKATGH VYDANKIVYT 

       430        440        450        460        470        480 
VKVEPHTGDY VAANETHSGR KTASFTVSSE RTILTMGDYG DVSLLCRVAS GVDLAQTVIL 

       490        500        510        520        530        540 
ELDKTSEHLP TAWQVHRDWF NDLALPWKHE GAQNWNNAER LVEFGAPHAV KMDVYNLGDQ 

       550        560        570        580        590        600 
TGVLLKSLAG VPVAHIDGTK YHLKSGHVTC EVGLEKLKMK GLTYTMCDKT KFTWKRIPTD 

       610        620        630        640        650        660 
SGHDTVVMEV AFSGTKPCRI PVRAVAHGSP DVNVAMLMTP NPTIENNGGG FIEMQLPPGD 

       670        680        690        700        710        720 
NIIYVGELSH QWFQKGSSIG RVFQKTRKGI ERLTVIGEHA WDFGSTGGFL TSVGKALHTV 

       730        740        750        760        770        780 
LGGAFNSLFG GVGFLPKILV GVVLAWLGLN MRNPTMSMSF LLAGGLVLAM TLGVGADVGC 

       790        800        810        820        830        840 
AVDTERMELR CGEGLVVWRE VSEWYDNYAY YPETLGALAS AIKETFEEGT CGIVPQNRLE 

       850        860        870        880        890        900 
MAMWRSSATE LNLALVEGDA NLTVVVDKLD PTDYRGGIPS LLKKGKDIKV SWKSWGHSMI 

       910        920        930        940        950        960 
WSVPEAPRLF MVGTEGSSEC PLERRKTGVF TVAEFGVGLR TKVFLDFRQE STHECDTGVM 

       970        980        990       1000       1010       1020 
GAAVKNGMAV HTDQSLWMKS VRNDTGTYIV ELLVTDLRNC SWPASHTIDN AEVVDSELFL 

      1030       1040       1050       1060       1070       1080 
PASLAGPRSW YNRIPGYSEQ VKGPWKYSPI RVTREECPGT RVTINADCDK RGASVRSTTE 

      1090       1100       1110       1120       1130       1140 
SGKVIPEWCC RTCTLPPVTF RTGTDCWYAM EIRPVHDQGG LVRSMVVADN GELLSEGGIP 

      1150       1160       1170       1180       1190       1200 
GIVALFVVLE YVIRRRPATG TTAMWGGIVV LALLVTGLVK IESLVRYVVA VGITFHLELG 

      1210       1220       1230       1240       1250       1260 
PEIVALTLLQ AVFELRVGLL SAFALRSNLT VREMVTIYFL LLVLELGLPS EGLGALWKWG 

      1270       1280       1290       1300       1310       1320 
DALAMGALIF RACTAEEKTG VGLLLMALMT QQDLATVHYG LMLFLGVASC CSIWKLIRGH 

      1330       1340       1350       1360       1370       1380 
REQKGLTWIV PLAGLLGGEG SGVRLVAFWE LTVHGRRRSF SEPLTVVGVM LTLASGMIRH 

      1390       1400       1410       1420       1430       1440 
TSQEALCALA VASFLLLMLV LGTRKMQLVA EWSGCVEWHP ELMNEGGEVS LRVRQDSMGN 

      1450       1460       1470       1480       1490       1500 
FHLTELEKEE RVMAFWLLAG LAASAFHWSG ILGVMGLWTL SEMLRTARRS GLVFSGQGGR 

      1510       1520       1530       1540       1550       1560 
ERGDRPFEVK DGVYRIFSPG LLWGQRQVGV GYGSKGVLHT MWHVTRGAAL SIDDAVAGPY 

      1570       1580       1590       1600       1610       1620 
WADVKEDVVC YGGAWSLEEK WKGETVQVHA FPPGRAHEVH QCQPGELLLD TGRRIGAVPI 

      1630       1640       1650       1660       1670       1680 
DLAKGTSGSP ILNSQGVVVG LYGNGLKTNE TYVSSIAQGE AEKSRPNLPP AVTGTGWTAK 

      1690       1700       1710       1720       1730       1740 
GQITVLDMHP GSGKTHRVLP ELIRQCIDRR LRTLVLAPTR VVLKEMERAL NGKRVRFHSP 

      1750       1760       1770       1780       1790       1800 
AVGDQQVGGS IVDVMCHATY VNRRLLPQGR QNWEVAIMDE AHWTDPHSIA ARGHLYTLAK 

      1810       1820       1830       1840       1850       1860 
ENKCALVLMT ATPPGKSEPF PESNGAISSE EKQIPDGEWR DGFDWITEYE GRTAWFVPSS 

      1870       1880       1890       1900       1910       1920 
AKGGIIARTL IQKGKSVICL NSKTFEKDYS RVRDEKPDFV VTTDISEMGA NLDVSRVIDG 

      1930       1940       1950       1960       1970       1980 
RTNIKPEEVD GRVELTGTRR VTTASAAQRR GRVGRQEGRT DEYIYSGQCD DDDSGLVQWK 

      1990       2000       2010       2020       2030       2040 
EAQILLDNIT TLRGPVATFY GPEQDKMPEV AGHFRLTEEK RKHFRHLLTH CDFTPWLAWH 

      2050       2060       2070       2080       2090       2100 
VAANVSSVTS RNWTWEGPEE NTVDEANGDL VTFRSPNGAE RTLRPVWRDA RMFREGRDIR 

      2110       2120       2130       2140       2150       2160 
EFVAYASGRR SFGDVLSGMS GVPELLRHRC VSAMDVFYTL MHEEPGSRAM KMAERDAPEA 

      2170       2180       2190       2200       2210       2220 
FLTVVEMMVL GLATLGVVWC FVVRTSISRM MLGTLVLLAS LALLWAGGVS YGNMAGVALI 

      2230       2240       2250       2260       2270       2280 
FYTLLTVLQP EAGKQRSSDD NKLAYFLLTL CSLAGLVAAN EMGFLEKTKA DLSTVLWSEH 

      2290       2300       2310       2320       2330       2340 
EELRSWEEWT NIDIQPARSW GTYVLVVSLF TPYIIHQLQT KIQQLVNSAV ATGAQAMRDL 

      2350       2360       2370       2380       2390       2400 
GGGAPFFGVA GHVMALGVVS LVGATPTSLV VGVGLAAFHL AIVVSGLEAE LTQRAHKVFF 

      2410       2420       2430       2440       2450       2460 
SAMVRNPMVD GDVINPFGEG EAKPALYERK MSLVLAIVLC LMSVVMNRTV PSTPRLLLWD 

      2470       2480       2490       2500       2510       2520 
WRQRDNCSNQ RRTPFGRCQA CGLSGVVRGS LWGFCPLGHR LWLRASGSRR GGSEGDTLGD 

      2530       2540       2550       2560       2570       2580 
LWKRKLNGCT KEEFFAYRRT GILETERDKA RELLKRGETN MGLAVSRGTA KLAWLEERGY 

      2590       2600       2610       2620       2630       2640 
ATLKGEVVDL GCGRGGWSYY AASRPAVMSV KACAIAGKGH ETPKMVTSLG WNLIKFRAGM 

      2650       2660       2670       2680       2690       2700 
DVFSMQPHRA DTIMCDIGES NPDAVVEGER TRKVILLMEQ WKNRNPTATC VFKALAPYRP 

      2710       2720       2730       2740       2750       2760 
EVTEALHRFQ LQWGGGLVRT PFSRNSTHEM YYSTAITGNI VNSVNIQSRK LLARFGDQRG 

      2770       2780       2790       2800       2810       2820 
PTRVPELDLG VGTRCVVLAE DKVKEKDVQE RISALREQYG ETWHMDREHP YRTWQYWAAT 

      2830       2840       2850       2860       2870       2880 
ACANRVGGAL INGVVKLLSW PWNAREDVVR MAMTDTTAFG QQRVFKEKVD TKAQEPQPGT 

      2890       2900       2910       2920       2930       2940 
KVIMRAVNDW ILERLARKSK PRMCSREEFI AKVKSNAALG AWSDEQNRWS SAKEAVEDPA 

      2950       2960       2970       2980       2990       3000 
FWQLVDEERE RHLAGRCAHC VYNMMGKREK KLGEFGVAKG SRAIWYMWLG SRFLEFEALG 

      3010       3020       3030       3040       3050       3060 
FLNEDHWASR GSSGSGVEGI SLNYLGWHLK GLSTLEGGLF YADDTAGWDT KVTNADLEDE 

      3070       3080       3090       3100       3110       3120 
EQLLRYMEGE HKQLAATIMQ KAYHAKVVKV ARPSRDGGCI MDVITRRDQR GSGQVVTYAL 

      3130       3140       3150       3160       3170       3180 
NTLTNIKVQL IRMMEGEGVI EASDAHNPRL LRVERWLRDH GEERLGRMLV SGDDCVVRPV 

      3190       3200       3210       3220       3230       3240 
DDRFSGALYF LNDMAKTRKD IGEWDHSVGF SNWEEVPFCS HHFHELVMKD GRTLIVPCRD 

      3250       3260       3270       3280       3290       3300 
QDELVGRARV SPGCGRSVRE TACLSKAYGQ MWLLSYFHRR DLRTLGLAIC SAVPVDWVPA 

      3310       3320       3330       3340       3350       3360 
GRTTWSIHAS GAWMTTEDML DVWNRVWILD NPFMHSKEKI AEWRDVPYLP KSHDMLCSSL 

      3370       3380       3390       3400       3410 
VGRKERAEWA KNIWGAVEKV RKMIGQEKFK DYLSCMDRHD LHWESKLESS II 

« Hide

References

[1]"Nucleotide sequence of the genome and complete amino acid sequence of the polyprotein of tick-borne encephalitis virus."
Pletnev A.G., Yamshchikov V.F., Blinov V.M.
Virology 174:250-263(1990) [PubMed: 2136778] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]"Nucleotide sequence of the genome region encoding the structural proteins and the NS1 protein of the tick borne encephalitis virus."
Yamshchikov V.F., Pletnev A.G.
Nucleic Acids Res. 16:7750-7750(1988) [PubMed: 2970626] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 1-1190.
[3]"Tick-borne encephalitis virus genome. The nucleotide sequence coding for virion structural proteins."
Pletnev A.G., Yamshchikov V.F., Blinov V.M.
FEBS Lett. 200:317-321(1986) [PubMed: 3709796] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 1-683 AND 777-1002.
+Additional computationally mapped references.

Web resources

Virus Particle ExploreR db

Icosahedral capsid structure

Cross-references

Sequence databases

X07755 Genomic RNA. Translation: CAA30581.1.
X03870 Genomic RNA. Translation: CAA27500.1.
X03870 Genomic RNA. Translation: CAA27501.1. Sequence problems.
X03870 Genomic RNA. Translation: CAA27502.1. Sequence problems.
X03870 Genomic RNA. Translation: CAA27503.1. Sequence problems.
X03871 Genomic RNA. Translation: CAA27505.1.
PIRGNWVTB. A33776.

3D structure databases

EntryMethodResolution (Å)ChainPositionsPDBsum
1K4Relectron microscopy24.00A/B/C281-675[»]
SMRP07720. Positions 281-675.
ModBaseSearch...

Family and domain databases

InterProIPR014001. DEAD-like_N.
IPR011492. DEAD_Flavivir.
IPR001650. DNA/RNA_helicase_C.
IPR002464. DNA/RNA_helicase_DEAH_CS.
IPR000069. Env_glycoprot_M_flavivir.
IPR011999. Flav_glyE_cen_dm.
IPR013754. Flav_glyE_dim.
IPR001122. Flavi_capsidC.
IPR001157. Flavi_NS1.
IPR000752. Flavi_NS2A.
IPR000487. Flavi_NS2B.
IPR000404. Flavi_NS4A.
IPR001528. Flavi_NS4B.
IPR002535. Flavi_propep.
IPR000336. Flv_glyE_Ig-like.
IPR014412. Gen_Poly_FLV.
IPR014021. Helicase_SF1/SF2_ATP-bd.
IPR001850. Peptidase_S7.
IPR000208. RNA_pol_flaviviral.
IPR007094. RNA_pol_PSvir.
IPR002877. rRNA_MeTrfase_RrmJ/FtsJ.
[Graphical view]
Gene3DG3DSA:2.60.98.10. Flav_glyE_dim. 1 hit.
G3DSA:2.60.40.350. Flv_glyE_Ig-like. 1 hit.
PfamPF01003. Flavi_capsid. 1 hit.
PF07652. Flavi_DEAD. 1 hit.
PF02832. Flavi_glycop_C. 1 hit.
PF00869. Flavi_glycoprot. 1 hit.
PF01004. Flavi_M. 1 hit.
PF00948. Flavi_NS1. 1 hit.
PF01005. Flavi_NS2A. 1 hit.
PF01002. Flavi_NS2B. 1 hit.
PF01350. Flavi_NS4A. 1 hit.
PF01349. Flavi_NS4B. 1 hit.
PF00972. Flavi_NS5. 1 hit.
PF01570. Flavi_propep. 1 hit.
PF01728. FtsJ. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00949. Peptidase_S7. 1 hit.
[Graphical view]
PIRSFPIRSF003817. Gen_Poly_FLV. 1 hit.
ProDomPD001496. Flavi_NS1. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
PROSITEPS00690. DEAH_ATP_HELICASE. False negative.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePOLG_TBEVS
AccessionPrimary (citable) accession number: P07720
Secondary accession number(s): P07721 expand/collapse secondary AC list , Q88475, Q88476, Q88477, Q88478, Q88479, Q88877, Q88878, Q88879
Entry history
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: May 1, 1991
Last modified: June 16, 2009
This is version 100 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectVirus (Virus annotation project)

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Peptidase families

Classification of peptidase families and list of entries

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Web resources · Cross-references · Entry information · Relevant documents