Reviewed, UniProtKB/Swiss-Prot Q04538 (POLG_POWVL)

Names and origin

Protein names	Recommended 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
Organism	Tick-borne powassan virus (strain LB) (POWV) (Powassan virus) [Complete proteome]
Taxonomic identifier	39008 [NCBI]
Taxonomic lineage	Viruses › ssRNA positive-strand viruses, no DNA stage › Flaviviridae › Flavivirus › tick-borne encephalitis virus group
Virus host	Ixodes scapularis (Black-legged tick) (Deer tick) [TaxID: 6945] Homo sapiens (Human) [TaxID: 9606] Marmota monax (Woodchuck) [TaxID: 9995] Ixodes spinipalpis [TaxID: 34614] Dermacentor andersoni (Rocky mountain wood tick) [TaxID: 34620] Ixodes cookei [TaxID: 35565] Lepus americanus (Snowshoe hare) [TaxID: 48086]

Protein attributes

Sequence length	3415 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology.

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.
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 process	RNA replication
Cellular component	Capsid protein Core protein Envelope protein Membrane Virion
Domain	Transmembrane
Ligand	ATP-binding Nucleotide-binding
Molecular function	Helicase Hydrolase Nucleotidyltransferase RNA-directed RNA polymerase Transferase
PTM	Cleavage on pair of basic residues Disulfide bond Glycoprotein
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	RNA 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 component	integral 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 function	ATP 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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 114	114	Protein C		PRO_0000037724
	Propeptide	115 – 203	89			PRO_0000037725
	Chain	204 – 278	75	Small envelope protein M		PRO_0000037726
	Chain	279 – 775	497	Envelope protein E		PRO_0000037727
	Chain	776 – 1128	353	Non-structural protein 1		PRO_0000037728
	Chain	1129 – 1358	230	Non-structural protein 2A		PRO_0000037729
	Chain	1359 – 1489	131	Flavivirin protease NS2B regulatory subunit		PRO_0000037730
	Chain	1490 – 2111	622	Flavivirin protease NS3 catalytic subunit		PRO_0000037731
	Chain	2112 – 2260	149	Non-structural protein 4A		PRO_0000037732
	Chain	2261 – 2512	252	Non-structural protein 4B		PRO_0000037733
	Chain	2513 – 3415	903	RNA-directed RNA polymerase		PRO_0000037734
Regions
	Transmembrane	101 – 114	14	Hydrophobic signal sequence Potential
	Transmembrane	244 – 262	19	Potential
	Transmembrane	264 – 278	15	Hydrophobic signal sequence Potential
	Transmembrane	727 – 748	22	Potential
	Transmembrane	754 – 775	22	Potential
	Transmembrane	1137 – 1153	17	Potential
	Transmembrane	1160 – 1179	20	Potential
	Transmembrane	1294 – 1313	20	Potential
	Transmembrane	1385 – 1403	19	Potential
	Transmembrane	1453 – 1473	21	Potential
	Transmembrane	2161 – 2184	24	Potential
	Transmembrane	2191 – 2211	21	Potential
	Transmembrane	2244 – 2260	17	Hydrophobic signal sequence Potential
	Transmembrane	2347 – 2367	21	Potential
	Transmembrane	2434 – 2454	21	Potential
	Domain	1496 – 1672	177	Peptidase S7
	Domain	1675 – 1832	158	Helicase ATP-binding
	Domain	1842 – 2001	160	Helicase C-terminal
	Domain	3041 – 3190	150	RdRp catalytic
	Nucleotide binding	1688 – 1695	8	ATP By similarity
	Motif	1780 – 1783	4	DEAH box
Sites
	Active site	1543	1	Charge relay system By similarity
	Active site	1567	1	Charge relay system By similarity
	Active site	1627	1	Charge relay system By similarity
Amino acid modifications
	Glycosylation	142	1	N-linked (GlcNAc...); by host Potential
	Glycosylation	432	1	N-linked (GlcNAc...); by host Potential
	Glycosylation	860	1	N-linked (GlcNAc...); by host Potential
	Glycosylation	983	1	N-linked (GlcNAc...); by host Potential
	Glycosylation	999	1	N-linked (GlcNAc...); by host Potential
	Disulfide bond	281 ↔ 308		By similarity
	Disulfide bond	338 ↔ 394		By similarity
	Disulfide bond	352 ↔ 383		By similarity
	Disulfide bond	370 ↔ 399		By similarity
	Disulfide bond	464 ↔ 568		By similarity
	Disulfide bond	585 ↔ 617		By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q04538-1 [UniParc]. Last modified February 1, 1995. Version 1. Checksum: E71092FE64049F46	FASTA	3,415	378,570
	10 20 30 40 50 60 MMTTSKGKGG GPPRRKLKVT ANKSRPATSP MPKGFVLSRM LGILWHAVTG TARPPVLKMF 70 80 90 100 110 120 WKTVPLRQAE AVLKKIKRVI GNLMQSLHMR GRRRSGVDWT WIFLTMALMT MAMATTIHRD 130 140 150 160 170 180 REGYMVMRAS GRDAASQVRV QNGTCVILAT DMGEWCEDSI TYSCVTIDQE EEPVDVDCFC 190 200 210 220 230 240 RGVDRVKLEY GRCGRQAGSR GKRSVVIPTH AQKDMVGRGH AWLKGDNIRD HVTRVEGWMW 250 260 270 280 290 300 KNKLLTAAIV ALAWLMVDSW MARVTVILLA LSLGPVYATR CTHLENRDFV TGTQGTTRVS 310 320 330 340 350 360 LVLELGGCVT ITAEGKPSID VWLEDIFQES PAETREYCLH AKLTNTKVEA RCPTTGPATL 370 380 390 400 410 420 PEEHQANMVC KRDQSDRGWG NHCGFFGKGS IVACAKFECE EAKKAVGHVY DSTKITYVVK 430 440 450 460 470 480 VEPHTGDYLA ANETNSNRKS AQFTVASEKV ILRLGDYGDV SLTCKVASGI DVAQTVVMSL 490 500 510 520 530 540 DSSKDHLPSA WQVHRDWFED LALPWKHKDN QDWNSVEKLV EFGPPHAVKM DVFNLGDQTA 550 560 570 580 590 600 VLLKSLAGVP LASVEGQKYH LKSGHVTCDV GLEKLKLKGT TYSMCDKAKF KWKRVPVDSG 610 620 630 640 650 660 HDTVVMEVSY TGSDKPCRIP VRAVAHGVPA VNVAMLITPN PTIETNGGGF IEMQLPPGDN 670 680 690 700 710 720 IIYVGDLSQQ WFQKGSTIGR MFEKTRRGLE RLSVVGEHAW DFGSVGGVLS SVGKAIHTVL 730 740 750 760 770 780 GGAFNTLFGG VGFIPKMLLG VALVWLGLNA RNPTMSMTFL AVGALTLMMT MGVGADYGCA 790 800 810 820 830 840 IDPERMEIRC GEGLVVWKEV SEWYDGYAYH PESPDTLAQA LREAFERGVC GVVPQNRLEM 850 860 870 880 890 900 AMWRSTAPEL NLVLSEGEAN LTIVVDKTDP ADYRGGTPMV LKKTGKESKV SWKSWGKSIL 910 920 930 940 950 960 WSVPDSPRRM MMGVDGVGEC PLYRRATGVF TVAEFGVGLR TKVFLDLRGE ASKECDTGVM 970 980 990 1000 1010 1020 GAAVKNGKAI HTDQSMWMSS FRNDTGTYIH ELILTDLRNC TWPASHTIDN DGVLDSHLFL 1030 1040 1050 1060 1070 1080 PVTLAGPRSK YNRIPGYSEQ VRGPWDQTPL RVVRDHCPGT SVRIDSHCDK RGASVRSTTE 1090 1100 1110 1120 1130 1140 SGKIIPEWCC RACELPPVTF RSGTDCWYAM EIRPVHSQGG LVRSMVVADN GALLSEGGVP 1150 1160 1170 1180 1190 1200 GLVAVFVLME FLLRRRPGSV TSILWGGILM LGLLVTGLVR VEEIVRYVIA VGVTFHLELG 1210 1220 1230 1240 1250 1260 PETMVLVMLQ AVFNMRTCYL MGFLVKRVIT TREVVTVYFL LLVLEMGIPE MNFGHLWEWA 1270 1280 1290 1300 1310 1320 DALAMGLLII KASAMEDRRG LGFLLAGLMT QRHLVAVHHG LMVFLTVALA VVGRNIYNGQ 1330 1340 1350 1360 1370 1380 KERKGLCFTV PLASLLGGSG SGLRMLALWE CLGGRGRRSL SEPLTVVGVM LAMASGLLRH 1390 1400 1410 1420 1430 1440 SSQEALLALS AGSFLILMLI LGTRRLQLTA EWAGVVEWNP ELVNEGGEVS LKVRQDAMGN 1450 1460 1470 1480 1490 1500 LHLTEVEREE RRLALWLVFG LLASAYHWSG ILVTMGAWTV YELFSSTRRT DLVFSGQLPD 1510 1520 1530 1540 1550 1560 QGEKRSFDIK EGVYRIYAPG LFWGYRQIGV GYGTKGVLHT MWHVTRGAAL SVEGATSGPY 1570 1580 1590 1600 1610 1620 WADVREDVVC YGGAWGLDKK WGGEVVQVHA FPPDSGHKIH QCQPGKLNLE GGRVLGAIPI 1630 1640 1650 1660 1670 1680 DLPRGTSGSP IINAQGDVLG LYGNGLKSND VYISSIAQGN VEKSRPEMPL AVQGGKWTSK 1690 1700 1710 1720 1730 1740 GSITVLDMHP GSGKTHRVLP ELIRECIDKR LRTVVLAPTR VVLKEMERAL QGKRVKFHSA 1750 1760 1770 1780 1790 1800 AVDNASSSSG AIVDVMCHAT YVNRRLLPQG RQNWEVAIMD EAHWTDPHSI AARGHLYSLA 1810 1820 1830 1840 1850 1860 KENRCALVLM TATPPGKSEA FPESKGAIVS EEKPIPEGEW RDGFDWITEF EGRTAWFVPS 1870 1880 1890 1900 1910 1920 IAKGGAIART LRQKGKSVIC LNSKTFDKDY GRVHEEKPDF VVTTDISEMG ANLDVNRVID 1930 1940 1950 1960 1970 1980 GRTNIKPEEI DGKVELIGTR RVTTASAAQR RGRVGRHEGR TDLYVYSGQC DDDDSSLVQW 1990 2000 2010 2020 2030 2040 KEAQILLDNI TTVRGPVATF YGPEQGKMLE VAGHFRLTEE KRKHFRHLLT NCDFTPWLAW 2050 2060 2070 2080 2090 2100 HVAANTACVT DRKWTWEGPD ENAIDGPGGE LVTFRSPNGA ERKLKPIWKD SRMFREGRDV 2110 2120 2130 2140 2150 2160 ADFIQYASGR RSAVDILTGL GGVPDLLRLR CTAAWDVVYT LLNETPGSRA MKMAERDAPE 2170 2180 2190 2200 2210 2220 AMLTLLEVAV LGIATLGVVW CFIVRTSVSR MVLGTLVLAV ALILLWLGGM DYGTMAGVAL 2230 2240 2250 2260 2270 2280 IFYLLLTVLQ PEPGKQRSGE DNRLAFLLIG LGSVVGLVAA NELGYLEQTK TDISGLFRRE 2290 2300 2310 2320 2330 2340 DQGGMVWDAW TNIDIQPARS WGTYVLIVSL FTPYMLHQLQ TKIQRLVNSS VAAGTQAMRD 2350 2360 2370 2380 2390 2400 LGGGTPFFGV AGHVVALGVT SLVGATPTSL ALGVALAALH LAVVTSGLEA ELTQRAHRAF 2410 2420 2430 2440 2450 2460 FSAMVKNPMV DGEIINPIPD GDPKPALYER KMSLFLAIGL CIAAVALNRT AAAMTEAGAV 2470 2480 2490 2500 2510 2520 AVAALGQLLR PEEESWWTMP MACGMAGLVR GSLWGLLPVL HRIWLRTQGA RRGGAEGSTL 2530 2540 2550 2560 2570 2580 GDIWKQRLNS CTKEEFFAYR RTGVMETNRD QARELLRRGE TNMGLAVSRG CAKLAWLEER 2590 2600 2610 2620 2630 2640 GYATLKGEVV DLGCGRGGWS YYAASRPSVM AVRAYTIGGK GHEAPRLVTS LGWNLIKFRS 2650 2660 2670 2680 2690 2700 GMDVFSMATT RADTILCDIG ESSPDPEKEG ARSRRVILLM EQWKARNPDA AAVFKVLAPY 2710 2720 2730 2740 2750 2760 RPEVLEALHR FQLQWGGGLV RVPFSRNSTH EMYYSTAVTG NLVNSVNVLS RKLLARFGET 2770 2780 2790 2800 2810 2820 RGPIQVPEID LGTGTRCVTL AEDKVKPRDV AERIGALREQ YSESWHEDKE HPYRTWQYWG 2830 2840 2850 2860 2870 2880 SYRTPATGSA ASLINGVVKL LSWPWNARED VTRMAMTDTT AFGQQRVFKE KVDTKAQEPQ 2890 2900 2910 2920 2930 2940 PGTRVIMRAV SDWLLEHLSR RAKVRMCTKD EFIAKVRSNA ALGAWSDEQN KWSSAKEAVE 2950 2960 2970 2980 2990 3000 DPEFWKLVDE ERSRHLKGQC RHCVYNMMGK REKKLGEFGV AKGSRAIWYM WLGSRFLEFE 3010 3020 3030 3040 3050 3060 VLGFLNEEHW ASREVSGAGV EGTSLNYLGW LLRELGMKDG GKLYADDTAG WDTRITNADL 3070 3080 3090 3100 3110 3120 EDEEQILRYM EGEHHVLAKT ILEKAYHAKV VKVARPSPQG GCVMDVITRR DQRGSGQVVT 3130 3140 3150 3160 3170 3180 YALNTITNMK VQLIRMMEGE GVIGPADSQD PRLKRVETWL KEHGVERLGR MLVSGDDCVV 3190 3200 3210 3220 3230 3240 KPIDDRFGKA LYFLNDMAKV RKDVGEWEPS MGFTEWEEVP FCSHHFHELV MKDGRSLIVP 3250 3260 3270 3280 3290 3300 CRDQDELVGR ARVSPGCGWS VRETACLSKA YGQMWLLNYF HRRDLRTLGF AICSAVPVSW 3310 3320 3330 3340 3350 3360 VPMGRTTWSI HASGEWMTTE DMLRIWNKVW ILDNPHMEDK QTVDEWRDIP YLPKTQDLVC 3370 3380 3390 3400 3410 SSLVGRKERA EWAKNIWGSV EKVRKLIGPE DYRDYLSSMD RHDLHWELKL ESSII

References

[1]	"Complete genomic sequence of Powassan virus: evaluation of genetic elements in tick-borne versus mosquito-borne flaviviruses." Mandl C.W., Holzmann H., Kunz C., Heinz F.X. Virology 194:173-184(1993) [PubMed: 8097605] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	L06436 Genomic RNA. Translation: AAA02739.1.
PIR	A46105.
RefSeq	NP_620099.1.
3D structure databases
HSSP	HSSP built from PDB template 1SVB based on UniProtKB P14336.
SMR	Q04538. Positions 279-674.
ModBase	Search...
Protein family/group databases
MEROPS	S07.001.
Genome annotation databases
GeneID	940442.
Family and domain databases
InterPro	IPR014001. 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]
Gene3D	G3DSA:2.60.98.10. Flav_glyE_dim. 1 hit. G3DSA:2.60.40.350. Flv_glyE_Ig-like. 1 hit.
Pfam	PF01003. 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]
PIRSF	PIRSF003817. Gen_Poly_FLV. 1 hit.
ProDom	PD001496. Flavi_NS1. 1 hit. [Graphical view] [Entries sharing at least one domain]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
PROSITE	PS00690. 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]
ProtoNet	Search...

Entry information

Entry name

POLG_POWVL

Accession

Primary (citable) accession number: Q04538

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	June 16, 2009
This is version 79 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Virus (Virus annotation project)