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P54634

- POLG_LORDV

UniProt

P54634 - POLG_LORDV

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Protein

Genome polyprotein

Gene

ORF1

Organism
Lordsdale virus (strain GII/Human/United Kingdom/Lordsdale/1993) (Human enteric calicivirus) (Hu/NV/LD/1993/UK)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi

Functioni

Protein p37 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 P20 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

NTP + H2O = NDP + phosphate.
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
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei330 – 3312Cleavage; by 3CLproBy similarity
Sitei696 – 6972Cleavage; by 3CLproBy similarity
Sitei875 – 8762Cleavage; by 3CLproBy similarity
Sitei1008 – 10092Cleavage; by 3CLproBy similarity
Active sitei1038 – 10381For 3CLpro activityPROSITE-ProRule annotation
Active sitei1062 – 10621For 3CLpro activityPROSITE-ProRule annotation
Active sitei1147 – 11471For 3CLpro activityPROSITE-ProRule annotation
Sitei1189 – 11902Cleavage; by 3CLproBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi495 – 5028ATPPROSITE-ProRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. RNA binding Source: InterPro
  4. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  5. RNA helicase activity Source: InterPro

GO - Biological processi

  1. RNA-protein covalent cross-linking Source: UniProtKB-KW
  2. transcription, DNA-templated Source: InterPro
  3. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

Host-virus interaction, Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Protein family/group databases

MEROPSiC37.001.

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 6 chains:
Alternative name(s):
p40
Alternative name(s):
VPG
3C-like protease (EC:3.4.22.66)
Short name:
3CLpro
Alternative name(s):
Calicivirin
Gene namesi
ORF Names:ORF1
OrganismiLordsdale virus (strain GII/Human/United Kingdom/Lordsdale/1993) (Human enteric calicivirus) (Hu/NV/LD/1993/UK)
Taxonomic identifieri82658 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeNorovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
ProteomesiUP000007767: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 16991699Genome polyproteinPRO_0000341998Add
BLAST
Chaini1 – 330330Protein p37PRO_0000036914Add
BLAST
Chaini331 – 696366NTPasePRO_0000036915Add
BLAST
Chaini697 – 875179Protein p20PRO_0000036916Add
BLAST
Chaini876 – 1007132Viral genome-linked proteinPRO_0000036917Add
BLAST
Chaini1008 – 11891823C-like proteasePRO_0000036918Add
BLAST
Chaini1190 – 1699510RNA-directed RNA polymerasePRO_0000036919Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei902 – 9021O-(5'-phospho-RNA)-tyrosineBy similarity

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

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Interactioni

Subunit structurei

Protein p37 interacts with human VAPA.By similarity

Structurei

3D structure databases

ProteinModelPortaliP54634.
SMRiP54634. Positions 1009-1188, 1195-1695.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini465 – 632168SF3 helicasePROSITE-ProRule annotationAdd
BLAST
Domaini1009 – 1189181Peptidase C37PROSITE-ProRule annotationAdd
BLAST
Domaini1425 – 1546122RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi69 – 735Poly-Pro
Compositional biasi944 – 9474Poly-Glu

Sequence similaritiesi

Contains 1 peptidase C37 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation
Contains 1 SF3 helicase domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR001665. Norovirus_pept_C37.
IPR027417. P-loop_NTPase.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
IPR013614. Viral_PP_Calicivir_N.
[Graphical view]
PfamiPF08405. Calici_PP_N. 1 hit.
PF05416. Peptidase_C37. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view]
PRINTSiPR00917. SRSVCYSPTASE.
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51537. NV_3CL_PRO. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P54634-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKMASNDASA AAVVNSNNDT AKSSSDGVLS SMAVTFKRAL GGRAKQPPPR
60 70 80 90 100
ETPQRPPRPP TPELVKKIPP PPPNGEDELV VSYSVKDGVS GLPELSTVRQ
110 120 130 140 150
PDEANTAFSV PPLNQRENRD AKEPLTGTIL EMWDGEIYHY GLYVERGLVL
160 170 180 190 200
GVHKPPAAIS LAKVELTPLS LFWRPVYTPQ YLISPDTLKR LHGESFPYTA
210 220 230 240 250
FDNNCYAFCC WVLDLNDSWL SRRMIQRTTG FFRPYQDWNR KPLPTMDDSK
260 270 280 290 300
LKKVANVFLC ALSSLFTRPI KDIIGKLRPL NILNILASCD WTFAGIVESL
310 320 330 340 350
ILLAELFGVF WTPPDVSAMI APLLGDYELQ GPEDLAVELV PIVMGGIGLV
360 370 380 390 400
LGFTKEKIGK MLSSAASTLR ACKDLGAYGL EILKLVMKWF FPKKEEANEL
410 420 430 440 450
AMVRSIEDAV LDLEAIENNH MTTLLKDKDS LATYMRTLDL EEEKARKLST
460 470 480 490 500
KSASPDIVGT INALLARIAA ARSLVHRAKE ELSSRLRPVV VMISGKPGIG
510 520 530 540 550
KTHLARELAK RIAASLTGDQ RVGLIPRNGV DHWDAYKGER VVLWDDYGMS
560 570 580 590 600
NPIHDALRLQ ELADTCPLTL NCDRIENKGK VFDSDAIIIT TNLANPAPLD
610 620 630 640 650
YVNFEACSRR IDFLVYAEAP EVEKAKRDFP GQPDMWKNAF SPDFSHIKLA
660 670 680 690 700
LAPQGGFDKN GNTPHGKGVM KTLTTGSLIA RASGLLHERL DEYELQGPAL
710 720 730 740 750
TTFNFDRNKV LAFRQLAAEN KYGLMDTMKV GRQLKDVRTM PELKQALKNI
760 770 780 790 800
SIKRCQIVYS GCTYTLESDG KGNVKVDRVQ SATVQTNHEL AGALHHLRCA
810 820 830 840 850
RIRYYVKCVQ EALYSIIQIA GAAFVTTRIV KRMNIQDLWS KPQVEDTEDT
860 870 880 890 900
ANKDGCPKPK DDEEFVVSSD DIKTEGKKGK NKTGRGKKHT AFSSKGLSDE
910 920 930 940 950
EYDEYKRIRE ERNGKYSIEE YLQDRDKYYE EVAIARATEE DFCEEEEAKI
960 970 980 990 1000
RQRIFRPTRK QRKEERASLG LVTGSEIRKR NPDDFKPKGK LWADDDRSVD
1010 1020 1030 1040 1050
YNEKLDFEAP PSIWSRIVNF GSGWGFWVSP SLFITSTHVI PQGAQEFFGV
1060 1070 1080 1090 1100
PVKQIQIHKS GEFCRLRFPK PIRTDVTGMI LEEGAPEGTV VTLLIKRSTG
1110 1120 1130 1140 1150
ELMPLAARMG THATMKIQGR TVGGQMGMLL TGSNAKSMDL GTTPGDCGCP
1160 1170 1180 1190 1200
YIYKRENDYV VIGVHTAAAR GGNTVICATQ GSEGEATLEG GDNKGTYCGA
1210 1220 1230 1240 1250
PILGPGSAPK LSTKTKFWRS STAPLPPGTY EPAYLGGKDP RVKGGPSLQQ
1260 1270 1280 1290 1300
VMRDQLKPFT EPRGKPPKPS VLEAAKRTII NVLEQTIDPP QKWSFTQACA
1310 1320 1330 1340 1350
SLDKTTSSGH PHHMRKNDCW NGESFTGKLA DQASKANLMF EEGKNMTPVY
1360 1370 1380 1390 1400
TGALKDELVK TDKIYGKIKK RLLWGSDLAT MIRCARAFGG LMDELKAHCV
1410 1420 1430 1440 1450
TLPIRVGMNM NEDGPIIFER HSRYKYHYDA DYSRWDSTQQ RAVLAAALEI
1460 1470 1480 1490 1500
MVKFSPEPHL AQIVAEDLLS PSVMDVGDFK ISINEGLPSG VPCTSQWNSI
1510 1520 1530 1540 1550
AHWLLTLCAL SEVTNLSPDI IQANSLFSFY GDDEIVSTDI NLNPEKLTAK
1560 1570 1580 1590 1600
LKEYGLKPTR PDKTEGPLII SEDLNGLTFL RRTVTRDPAG WFGKLDQSSI
1610 1620 1630 1640 1650
LRQMYWTRGP NHEDPSETMI PHSQRPIQLM SLLGEAALHG PAFYSKISKL
1660 1670 1680 1690
VIAELKEGGM DFYVPRQEPM FRWMRFSDLS TWEGDRNLAP SFVNEDGVE
Length:1,699
Mass (Da):189,201
Last modified:October 1, 1996 - v1
Checksum:iFA00B3B67FF3A0B6
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X86557 Genomic RNA. Translation: CAA60254.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X86557 Genomic RNA. Translation: CAA60254.1 .

3D structure databases

ProteinModelPortali P54634.
SMRi P54634. Positions 1009-1188, 1195-1695.
ModBasei Search...
MobiDBi Search...

Protein family/group databases

MEROPSi C37.001.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 3.40.50.300. 1 hit.
InterProi IPR003593. AAA+_ATPase.
IPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR001665. Norovirus_pept_C37.
IPR027417. P-loop_NTPase.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
IPR013614. Viral_PP_Calicivir_N.
[Graphical view ]
Pfami PF08405. Calici_PP_N. 1 hit.
PF05416. Peptidase_C37. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00910. RNA_helicase. 1 hit.
[Graphical view ]
PRINTSi PR00917. SRSVCYSPTASE.
SMARTi SM00382. AAA. 1 hit.
[Graphical view ]
SUPFAMi SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEi PS51537. NV_3CL_PRO. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Human enteric Caliciviridae: the complete genome sequence and expression of virus-like particles from a genetic group II small round structured virus."
    Dingle K.E., Lambden P.R., Caul E.O., Clarke I.N.
    J. Gen. Virol. 76:2349-2355(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiPOLG_LORDV
AccessioniPrimary (citable) accession number: P54634
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: October 1, 2014
This is version 90 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3