UniProtKB - Q04544 (POLG_SOUV3)
Protein
Genome polyprotein
Gene
ORF1
Organism
Southampton virus (strain GI/Human/United Kingdom/Southampton/1991) (SHV) (Hu/NV/SHV/1991/UK)
Status
Functioni
Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes (By similarity).By similarity
NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity (By similarity).By similarity
Protein P22 may play a role in targeting replication complex to intracellular membranes.By similarity
Viral 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 similarity
3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave polyadenylate-binding protein thereby inhibiting cellular translation.PROSITE-ProRule annotation
RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA codes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).PROSITE-ProRule annotation
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 | 1129 | For 3CLpro activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1153 | For 3CLpro activityPROSITE-ProRule annotation | 1 | |
Active sitei | 1238 | For 3CLpro activityPROSITE-ProRule annotation | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 561 – 568 | ATPPROSITE-ProRule annotation | 8 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-KW
- cysteine-type endopeptidase activity Source: InterPro
- RNA binding Source: InterPro
- RNA-directed 5'-3' RNA polymerase activity Source: UniProtKB-KW
- RNA helicase activity Source: InterPro
GO - Biological processi
- 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 | Host-virus interaction, Viral RNA replication |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
BRENDAi | 3.4.22.28, 5774 3.4.22.66, 5774 3.6.1.15, 5774 3.6.1.3, 5774 |
Protein family/group databases
MEROPSi | C37.001 |
Names & Taxonomyi
Protein namesi | Recommended name: Genome polyproteinCleaved into the following 6 chains: Alternative name(s): p41 Alternative name(s): VPG Alternative name(s): Calicivirin |
Gene namesi | ORF Names:ORF1 |
Organismi | Southampton virus (strain GI/Human/United Kingdom/Southampton/1991) (SHV) (Hu/NV/SHV/1991/UK) |
Taxonomic identifieri | 37129 [NCBI] |
Taxonomic lineagei | Viruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Picornavirales › Caliciviridae › Norovirus › |
Virus hosti | Homo sapiens (Human) [TaxID: 9606] |
Proteomesi |
|
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000342021 | 1 – 1788 | Genome polyproteinAdd BLAST | 1788 | |
ChainiPRO_0000036935 | 1 – 399 | Protein p48Add BLAST | 399 | |
ChainiPRO_0000036936 | 400 – 762 | NTPaseAdd BLAST | 363 | |
ChainiPRO_0000036937 | 763 – 961 | Protein p22Add BLAST | 199 | |
ChainiPRO_0000036938 | 962 – 1099 | Viral genome-linked proteinAdd BLAST | 138 | |
ChainiPRO_0000036939 | 1100 – 1280 | 3C-like proteaseAdd BLAST | 181 | |
ChainiPRO_0000036940 | 1281 – 1788 | RNA-directed RNA polymeraseAdd BLAST | 508 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 991 | O-(5'-phospho-RNA)-tyrosineBy similarity | 1 |
Post-translational modificationi
Specific enzymatic cleavages in vivo yield mature proteins. 3CLpro is first autocatalytically cleaved, then processes the whole polyprotein.PROSITE-ProRule annotation
VPg is uridylylated by the polymerase and is covalently attached to the 5'-end of the polyadenylated genomic and subgenomic RNAs. This uridylylated form acts as a nucleotide-peptide primer for the polymerase (By similarity).By similarity
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 399 – 400 | Cleavage; by 3CLproBy similarity | 2 | |
Sitei | 762 – 763 | Cleavage; by 3CLproBy similarity | 2 | |
Sitei | 961 – 962 | Cleavage; by 3CLproBy similarity | 2 | |
Sitei | 1099 – 1100 | Cleavage; by 3CLproBy similarity | 2 | |
Sitei | 1280 – 1281 | Cleavage; by 3CLproBy similarity | 2 |
Keywords - PTMi
Covalent protein-RNA linkage, PhosphoproteinProteomic databases
PRIDEi | Q04544 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | Q04544 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q04544 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 533 – 698 | SF3 helicasePROSITE-ProRule annotationAdd BLAST | 166 | |
Domaini | 1100 – 1280 | Peptidase C37PROSITE-ProRule annotationAdd BLAST | 181 | |
Domaini | 1515 – 1636 | RdRp catalyticPROSITE-ProRule annotationAdd BLAST | 122 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 847 – 850 | Poly-Gln | 4 |
Family and domain databases
Gene3Di | 2.40.10.10, 2 hits 3.30.70.270, 2 hits |
InterProi | View protein in InterPro IPR043502, DNA/RNA_pol_sf IPR000605, Helicase_SF3_ssDNA/RNA_vir IPR014759, Helicase_SF3_ssRNA_vir IPR001665, Norovirus_pept_C37 IPR027417, P-loop_NTPase IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR043128, Rev_trsase/Diguanyl_cyclase IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR013614, Viral_PP_Calicivir_N |
Pfami | View protein in Pfam PF08405, Calici_PP_N, 1 hit PF05416, Peptidase_C37, 1 hit PF00680, RdRP_1, 1 hit PF00910, RNA_helicase, 1 hit |
PRINTSi | PR00917, SRSVCYSPTASE |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS51537, NV_3CL_PRO, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit PS51218, SF3_HELICASE_2, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
Q04544-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MMMASKDVVA TNVASNNNAN NTSATSRFLS RFKGLGGGAS PPSPIKIKST
60 70 80 90 100
EMALGLIGRT TPEPTGTAGP PPKQQRDRPP RTQEEVQYGM GWSDRPIDQN
110 120 130 140 150
VKSWEELDTT VKEEILDNHK EWFDAGGLGP CTMPPTYERV KDDSPPGEQV
160 170 180 190 200
KWSARDGVNI GVERLTTVSG PEWNLCPLPP IDLRNMEPAS EPTIGDMIEF
210 220 230 240 250
YEGHIYHYSI YIGQGKTVGV HSPQAAFSVA RVTIQPIAAW WRVCYIPQPK
260 270 280 290 300
HRLSYDQLKE LENEPWPYAA ITNNCFEFCC QVMNLEDTWL QRRLVTSGRF
310 320 330 340 350
HHPTQSWSQQ TPEFQQDSKL ELVRDAILAA VNGLVSQPFK NFLGKLKPLN
360 370 380 390 400
VLNILSNCDW TFMGVVEMVI LLLELFGVFW NPPDVSNFIA SLLPDFHLQG
410 420 430 440 450
PEDLARDLVP VILGGIGLAI GFTRDKVTKV MKSAVDGLRA ATQLGQYGLE
460 470 480 490 500
IFSLLKKYFF GGDQTERTLK GIEAAVIDME VLSSTSVTQL VRDKQAAKAY
510 520 530 540 550
MNILDNEEEK ARKLSAKNAD PHVISSTNAL ISRISMARSA LAKAQAEMTS
560 570 580 590 600
RMRPVVIMMC GPPGIGKTKA AEHLAKRLAN EIRPGGKVGL VPREAVDHWD
610 620 630 640 650
GYHGEEVMLW DDYGMTKILD DCNKLQAIAD SAPLTLNCDR IENKGMQFVS
660 670 680 690 700
DAIVITTNAP GPAPVDFVNL GPVCRRVDFL VYCSAPEVEQ IRRVSPGDTS
710 720 730 740 750
ALKDCFKLDF SHLKMELAPQ GGFDNQGNTP FGKGTMKPTT INRLLIQAVA
760 770 780 790 800
LTMERQDEFQ LQGKMYDFDD DRVSAFTTMA RDNGLGILSM AGLGKKLRGV
810 820 830 840 850
TTMEGLKNAL KGYKISACTI KWQAKVYSLE SDGNSVNIKE ERNILTQQQQ
860 870 880 890 900
SVCTASVALT RLRAARAVAY ASCIQSAITS ILQIAGSALV VNRAVKRMFG
910 920 930 940 950
TRTATLSLEG PPREHKCRVH MAKAAGKGPI GHDDVVEKYG LCETEEDEEV
960 970 980 990 1000
AHTEIPSATM EGKNKGKNKK GRGRRNNYNA FSRRGLNDEE YEEYKKIREE
1010 1020 1030 1040 1050
KGGNYSIQEY LEDRQRYEEE LAEVQAGGDG GIGETEMEIR HRVFYKSKSR
1060 1070 1080 1090 1100
KHHQEERRQL GLVTGSDIRK RKPIDWTPPK SAWADDEREV DYNEKISFEA
1110 1120 1130 1140 1150
PPTLWSRVTK FGSGWGFWVS PTVFITTTHV IPTSAKEFFG EPLTSIAIHR
1160 1170 1180 1190 1200
AGEFTLFRFS KKIRPDLTGM ILEEGCPEGT VCSVLIKRDS GELLPLAVRM
1210 1220 1230 1240 1250
GAIASMRIQG RLVHGQSGML LTGANAKGMD LGTIPGDCGA PYVYKRANDW
1260 1270 1280 1290 1300
VVCGVHAAAT KSGNTVVCAV QASEGETTLE GGDKGHYAGH EIIKHGCGPA
1310 1320 1330 1340 1350
LSTKTKFWKS SPEPLPPGVY EPAYLGGRDP RVTVGPSLQQ VLRDQLKPFA
1360 1370 1380 1390 1400
EPRGRMPEPG LLEAAVETVT SSLEQVMDTP VPWSYSDACQ SLDKTTSSGF
1410 1420 1430 1440 1450
PYHRRKNDDW NGTTFVRELG EQAAHANNMY EQAKSMKPMY TGALKDELVK
1460 1470 1480 1490 1500
PEKVYQKVKK RLLWGADLGT VVRAARAFGP FCDAIKSHTI KLPIKVGMNS
1510 1520 1530 1540 1550
IEDGPLIYAE HSKYKYHFDA DYTAWDSTQN RQIMTESFSI MCRLTASPEL
1560 1570 1580 1590 1600
ASVVAQDLLA PSEMDVGDYV IRVKEGLPSG FPCTSQVNSI NHWLITLCAL
1610 1620 1630 1640 1650
SEVTGLSPDV IQSMSYFSFY GDDEIVSTDI EFDPAKLTQV LREYGLRPTR
1660 1670 1680 1690 1700
PDKSEGPIIV RKSVDGLVFL RRTISRDAAG FQGRLDRASI ERQIYWTRGP
1710 1720 1730 1740 1750
NHSDPFETLV PHQQRKVQLI SLLGEASLHG EKFYRKISSK VIQEIKTGGL
1760 1770 1780
EMYVPGWQAM FRWMRFHDLG LWTGDRNLLP EFVNDDGV
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L07418 Genomic RNA Translation: AAA92983.1 |
PIRi | A37491 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L07418 Genomic RNA Translation: AAA92983.1 |
PIRi | A37491 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2IPH | X-ray | 1.75 | A/B | 1100-1280 | [»] | |
SMRi | Q04544 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein family/group databases
MEROPSi | C37.001 |
Proteomic databases
PRIDEi | Q04544 |
Enzyme and pathway databases
BRENDAi | 3.4.22.28, 5774 3.4.22.66, 5774 3.6.1.15, 5774 3.6.1.3, 5774 |
Miscellaneous databases
EvolutionaryTracei | Q04544 |
Family and domain databases
Gene3Di | 2.40.10.10, 2 hits 3.30.70.270, 2 hits |
InterProi | View protein in InterPro IPR043502, DNA/RNA_pol_sf IPR000605, Helicase_SF3_ssDNA/RNA_vir IPR014759, Helicase_SF3_ssRNA_vir IPR001665, Norovirus_pept_C37 IPR027417, P-loop_NTPase IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR043128, Rev_trsase/Diguanyl_cyclase IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR013614, Viral_PP_Calicivir_N |
Pfami | View protein in Pfam PF08405, Calici_PP_N, 1 hit PF05416, Peptidase_C37, 1 hit PF00680, RdRP_1, 1 hit PF00910, RNA_helicase, 1 hit |
PRINTSi | PR00917, SRSVCYSPTASE |
SUPFAMi | SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS51537, NV_3CL_PRO, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit PS51218, SF3_HELICASE_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | POLG_SOUV3 | |
Accessioni | Q04544Primary (citable) accession number: Q04544 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1994 |
Last sequence update: | October 1, 1996 | |
Last modified: | October 7, 2020 | |
This is version 115 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structureDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references