UniProtKB - Q6XDK8 (POLG_SVM10)
Genome polyprotein
ORF1
Functioni
NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity (By similarity).
By similarityViral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation (By similarity).
By similarityProtease-polymerase p70 processes the polyprotein: Pro-Pol is first released by autocleavage, then all other proteins are cleaved (By similarity).
It is also an RNA-directed RNA polymerase which replicates genomic and antigenomic viral RNA by recognizing specific signals. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).
By similarityCapsid protein self assembles to form an icosahedral capsid with a T=3 symmetry, about 38 nm in diameter, and consisting of 180 capsid proteins. The capsid encapsulate the genomic RNA and VP2 proteins. Attaches virion to target cells, inducing endocytosis of the viral particle. Acidification of the endosome induces conformational change of capsid protein thereby injecting virus genomic RNA into host cytoplasm (By similarity).
By similarityMiscellaneous
Catalytic activityi
- Endopeptidase with a preference for cleavage when the P1 position is occupied by Glu-|-Xaa and the P1' position is occupied by Gly-|-Yaa.PROSITE-ProRule annotation EC:3.4.22.66
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 1086 | For 3CLpro activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1107 | For 3CLpro activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1171 | For 3CLpro activityPROSITE-ProRule annotation | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 481 – 488 | ATPPROSITE-ProRule annotation | 8 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-KW
- cysteine-type endopeptidase activity Source: InterPro
- nucleoside-triphosphatase activity Source: RHEA
- RNA binding Source: InterPro
- RNA-directed 5'-3' RNA polymerase activity Source: UniProtKB-KW
- RNA helicase activity Source: InterPro
GO - Biological processi
- DNA replication Source: UniProtKB-KW
- RNA-protein covalent cross-linking Source: UniProtKB-KW
- transcription, DNA-templated Source: InterPro
- viral RNA genome replication Source: InterPro
Keywordsi
Molecular function | Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase |
Biological process | DNA replication, Viral RNA replication |
Ligand | ATP-binding, Nucleotide-binding |
Protein family/group databases
MEROPSi | C24.003 |
Names & Taxonomyi
Protein namesi | Recommended name: Genome polyproteinCleaved into the following 7 chains: Alternative name(s): p35 Alternative name(s): VPg p14 Alternative name(s): VP1 p60 |
Gene namesi | ORF Names:ORF1 |
Organismi | Sapporo virus (isolate GII/Human/Thailand/Mc10/2000) (Hu/SaV/Mc10/2000/Thailand) |
Taxonomic identifieri | 234601 [NCBI] |
Taxonomic lineagei | Viruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Picornavirales › Caliciviridae › Sapovirus › |
Virus hosti | Homo sapiens (Human) [TaxID: 9606] |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 1069 | H → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1075 | H → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1086 | H → A: Complete loss of protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1107 | E → A: Complete loss of protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1120 | H → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1136 | H → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1143 | E → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1147 | E → A: No effect on protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1171 | C → A: Complete loss of protease activity in vitro. 1 Publication | 1 | |
Mutagenesisi | 1186 | H → A: No effect on protease activity in vitro. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000342101 | 1 – 2278 | Genome polyproteinAdd BLAST | 2278 | |
ChainiPRO_0000342102 | 1 – 69 | Protein p11Add BLAST | 69 | |
ChainiPRO_0000342103 | 70 – 325 | Protein p28Add BLAST | 256 | |
ChainiPRO_0000342104 | 326 – 666 | NTPaseAdd BLAST | 341 | |
ChainiPRO_0000342105 | 667 – 940 | Protein p32Add BLAST | 274 | |
ChainiPRO_0000342106 | 941 – 1055 | Viral genome-linked proteinAdd BLAST | 115 | |
ChainiPRO_0000342107 | 1056 – 1722 | Protease-polymerase p70Add BLAST | 667 | |
ChainiPRO_5000090469 | 1723 – 2278 | Capsid proteinAdd BLAST | 556 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 966 | O-(5'-phospho-RNA)-tyrosineBy similarity | 1 |
Post-translational modificationi
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 69 – 70 | Cleavage; by Pro-Pol | 2 | |
Sitei | 325 – 326 | Cleavage; by Pro-Pol | 2 | |
Sitei | 666 – 667 | Cleavage; by Pro-Pol | 2 | |
Sitei | 940 – 941 | Cleavage; by Pro-Pol | 2 | |
Sitei | 1055 – 1056 | Cleavage; by Pro-Pol | 2 | |
Sitei | 1722 – 1723 | Cleavage; by Pro-Pol | 2 |
Keywords - PTMi
Covalent protein-RNA linkage, PhosphoproteinFamily & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 454 – 609 | SF3 helicasePROSITE-ProRule annotationAdd BLAST | 156 | |
Domaini | 1056 – 1204 | Peptidase C24PROSITE-ProRule annotationAdd BLAST | 149 | |
Domaini | 1443 – 1568 | RdRp catalyticPROSITE-ProRule annotationAdd BLAST | 126 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 939 – 958 | DisorderedSequence analysisAdd BLAST | 20 |
Domaini
Family and domain databases
CDDi | cd00205, rhv_like, 1 hit |
Gene3Di | 2.60.120.20, 1 hit 3.30.70.270, 2 hits 3.40.50.300, 1 hit |
InterProi | View protein in InterPro IPR004005, Calicivirus_coat IPR043502, DNA/RNA_pol_sf IPR004004, Helic/Pol/Pept_Calicivir-typ IPR000605, Helicase_SF3_ssDNA/RNA_vir IPR014759, Helicase_SF3_ssRNA_vir IPR027417, P-loop_NTPase IPR000317, Peptidase_C24 IPR009003, Peptidase_S1_PA IPR043128, Rev_trsase/Diguanyl_cyclase IPR033703, Rhv-like IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR029053, Viral_coat |
Pfami | View protein in Pfam PF00915, Calici_coat, 1 hit PF03510, Peptidase_C24, 1 hit PF00680, RdRP_1, 1 hit PF00910, RNA_helicase, 1 hit |
PRINTSi | PR00916, 2CENDOPTASE PR00918, CALICVIRUSNS |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS51894, CV_3CL_PRO, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit PS51218, SF3_HELICASE_2, 1 hit |
s (2)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 2 produced by isoformsialternative promoter usage. AlignAdd to basketThis isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MASKPFYPIE FNPSVELQVL RSAHLRVGGR EQMFETINDL NDHVRGVVAK
60 70 80 90 100
LWCKHLHRSL AAAPTFTEEG LLDSFLSKPP VDINPDTTFR ELFGINPHEQ
110 120 130 140 150
FPLSIHDLAK LQGELVDAAR NPGHVLRRHY STDSLTALIN KITKFVPVHA
160 170 180 190 200
TLQEMQARRA FERERAELFR ELPHADLDVS RQQKSYFYAM WRQVVKKSKE
210 220 230 240 250
FFIPLVKCTS WRKKFTEPAE IVRQVLVHFC EGMRSQFSTN ANYINLSLIA
260 270 280 290 300
KLRPTVLTMI LQQHKNTYRG WLATVTALVE VYSNLFQDMR DTAVSAVSAI
310 320 330 340 350
TLVFETIKDF VVNVIDLVKS TFQSQGPTSC GWAAIIAGAL LILMKLSGCS
360 370 380 390 400
NTTSYWHRLL KVCGGVTTIA AAARAVVWVR DIIAEADGKA RLKKYMARTA
410 420 430 440 450
ALLELAASRD VTGTDELKRL LDCFTQLIEE GTELIQEFGT SPLAGLTRSY
460 470 480 490 500
VSELESTANS IRSTILLDTP RKTPVAIILT GPPGIGKTRL AQHLAAGFGK
510 520 530 540 550
VSNFSVTLDH HDSYTGNEVA IWDEFDVDTQ GKFVETMIGV VNTAPYPLNC
560 570 580 590 600
DRVENKGKVF TSDYIICTSN YPTSVLPDNP RAGAFYRRVT TIDVSSPTIE
610 620 630 640 650
DWKKKNPGKK PPPDLYKNDF THLRLSVRPF LGYNPEGDTL DGVRVKPVLT
660 670 680 690 700
SVDGLSRLME TKFKEQGNEH RNLWITCPRD LVAPAASGLK AYMAANRALA
710 720 730 740 750
QVFQEPSSQD IGETCTSRVY VSCNNPPPTY SGRVVKITAI NPWDASLANS
760 770 780 790 800
MLSMFETTSH IPASIQREIM YRVWDPLVHL QTREPNTQML PYINRVVPVS
810 820 830 840 850
SAFDFIRGLR HHLGLCSVKG MWRAYQGWNS SSSILEFLSK HMADVAFPHN
860 870 880 890 900
PECTVFRAPD GDVIFYTFGS YACFVSPARV PFVGEPPKNV HSNITRNMTW
910 920 930 940 950
AETLRLLAET ITESLVHFGP FLLMMHNVSY LATRSGREEE AKGKTKHGRG
960 970 980 990 1000
AKHARRGGVS LSDDEYDEWR DLVRDWRQDM TVGEFVELRE RYALGMDSED
1010 1020 1030 1040 1050
VQRYRAWLEL RAMRMGAGAY QHATIIGRGG VQDTIIRTQP MRAPRAPRNQ
1060 1070 1080 1090 1100
GYDEEAPTPI VTFTSGGDHI GYGCHMGNGV VVTVTHVASA SDQVEGQDFA
1110 1120 1130 1140 1150
IRKTEGETTW VNTNLGHLPH YQIGDGAPVY YSARLHPVTT LAEGTYETPN
1160 1170 1180 1190 1200
ITVQGYHLRI INGYPTKRGD CGTPYFDSCR RLVGLHAATS TNGETKLAQR
1210 1220 1230 1240 1250
VTKTSKVENA FAWKGLPVVR GPDCGGMPTG TRYHRSPAWP NPVEGETHAP
1260 1270 1280 1290 1300
APFGSGDERY KFSQVEMLVN GLKPYSEPTP GIPPALLQRA ATHTRTYLET
1310 1320 1330 1340 1350
IIGTHRSPNL SFSEACSLLE KSTSCGPFVA GQKGDYWDED KQCYTGVLAE
1360 1370 1380 1390 1400
HLAKAWDAAN RGVAPQNAYK LALKDELRPI EKNAQGKRRL LWGCDAGATL
1410 1420 1430 1440 1450
VATAAFKGVA TRLQAVAPMT PVSVGINMDS YQVEVLNESL KGGVLYCLDY
1460 1470 1480 1490 1500
SKWDSTQHPA VTAASLGILE RLSEATPITT SAVELLSSPA RGHLNDIVFI
1510 1520 1530 1540 1550
TKSGLPSGMP FTSVINSLNH MTYFAAAVLK AYEQHGAPYT GNVFQVETVH
1560 1570 1580 1590 1600
TYGDDCLYSV CPATASIFQT VLANLTSFGL KPTAADKSET IAPTHTPVFL
1610 1620 1630 1640 1650
KRTLTCTPRG VRGLLDITSI KRQFLWIKAN RTVDINSPPA YDRDARGIQL
1660 1670 1680 1690 1700
ENALAYASQH GHAVFEEVAE LARHTAKAEG LVLTNVNYDQ ALATYESWFI
1710 1720 1730 1740 1750
GGTGLVQGSP SEETTKLVFE MEGLGQPQPQ GGEKTSPQPV TPQDTIGPTA
1760 1770 1780 1790 1800
ALLLPTQIET PNASAQRLEL AMATGAVTSN VPNCIRECFA SVTTIPWTTR
1810 1820 1830 1840 1850
QAANTFLGAI HLGPRINPYT AHLSAMFAGW GGGFQVRVTI SGSGLFAGRA
1860 1870 1880 1890 1900
VTAILPPGVN PASVQNPGVF PHAFIDARTT EPILINLPDI RPVDFHRVDG
1910 1920 1930 1940 1950
DDATASVGLW VAQPLINPFQ TGPVSTCWLS FETRPGPDFD FCLLKAPEQQ
1960 1970 1980 1990 2000
MDNGISPASL LPRRLGRSRG NRMGGRIVGL VVVAAAEQVN HHFDARSTTL
2010 2020 2030 2040 2050
GWSTLPVEPI AGDISWYGDA GNKSIRGLVS AQGKGIIFPN IVNHWTDVAL
2060 2070 2080 2090 2100
SSKTSNTTTI PTDTSTLGNL PGASGPLVTF ADNGDVNESS AQNAILTAAN
2110 2120 2130 2140 2150
QNFTSFSPTF DAAGIWVWMP WATDRPGASD SNIYISPTWV NGNPSHPIHE
2160 2170 2180 2190 2200
KCTNMIGTNF QFGGTGTNNI MLWQEQHFTS WPGAAEVYCS QLESTAEIFQ
2210 2220 2230 2240 2250
NNIVNIPMNQ MAVFNVETAG NSFQIAILPN GYCVTNAPVG THQLLDYETS
2260 2270
FKFVGLFPQS TSLQGPHGNS GRAVRFLE
The sequence of this isoform differs from the canonical sequence as follows:
1-1720: Missing.
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_034390 | 1 – 1720 | Missing in isoform Subgenomic capsid protein. CuratedAdd BLAST | 1720 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY237420 mRNA Translation: AAQ17058.2 |
RefSeqi | YP_022762.1, NC_010624.1 [Q6XDK8-1] |
Genome annotation databases
GeneIDi | 2943313 |
KEGGi | vg:2943313 |
Keywords - Coding sequence diversityi
Alternative promoter usageSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY237420 mRNA Translation: AAQ17058.2 |
RefSeqi | YP_022762.1, NC_010624.1 [Q6XDK8-1] |
3D structure databases
SMRi | Q6XDK8 |
ModBasei | Search... |
Protein family/group databases
MEROPSi | C24.003 |
Genome annotation databases
GeneIDi | 2943313 |
KEGGi | vg:2943313 |
Family and domain databases
CDDi | cd00205, rhv_like, 1 hit |
Gene3Di | 2.60.120.20, 1 hit 3.30.70.270, 2 hits 3.40.50.300, 1 hit |
InterProi | View protein in InterPro IPR004005, Calicivirus_coat IPR043502, DNA/RNA_pol_sf IPR004004, Helic/Pol/Pept_Calicivir-typ IPR000605, Helicase_SF3_ssDNA/RNA_vir IPR014759, Helicase_SF3_ssRNA_vir IPR027417, P-loop_NTPase IPR000317, Peptidase_C24 IPR009003, Peptidase_S1_PA IPR043128, Rev_trsase/Diguanyl_cyclase IPR033703, Rhv-like IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR029053, Viral_coat |
Pfami | View protein in Pfam PF00915, Calici_coat, 1 hit PF03510, Peptidase_C24, 1 hit PF00680, RdRP_1, 1 hit PF00910, RNA_helicase, 1 hit |
PRINTSi | PR00916, 2CENDOPTASE PR00918, CALICVIRUSNS |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS51894, CV_3CL_PRO, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit PS51218, SF3_HELICASE_2, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | POLG_SVM10 | |
Accessioni | Q6XDK8Primary (citable) accession number: Q6XDK8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 1, 2008 |
Last sequence update: | July 5, 2004 | |
Last modified: | February 23, 2022 | |
This is version 90 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |