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P17593

- POLG_EMCVB

UniProt

P17593 - POLG_EMCVB

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Protein

Genome polyprotein

Gene
N/A
Organism
Encephalomyocarditis virus (strain emc-b nondiabetogenic)
Status
Reviewed - Annotation score: 5 out of 5 - Protein inferred from homologyi

Functioni

Leader protein: promotes host NUP62, NUP153, and NUP214 phosphorylation and induces cessation of active nucleocytoplasmic transport. Proteins with NLS signals fail to import, cellular mRNAs fail to export, and some proteins small enough for diffusion are not retained anymore. The resulting inhibition of cellular protein synthesis serves to ensure maximal viral gene expression and to evade host immune response By similarity.
Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function By similarity.
Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes. The capsid interacts with host VCAM1 to provide virion attachment on murine vascular endothelial cells By similarity.
Protein VP0: VP0 precursor is a component of immature procapsids By similarity.
Protein 2B: Affects membrane integrity and cause an increase in membrane permeability By similarity.
Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities By similarity.
Protein 3A, via its hydrophobic domain, serves as membrane anchor By similarity.
Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease By similarity.
RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals By similarity.

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
NTP + H2O = NDP + phosphate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei137 – 1382Cleavage Reviewed prediction
Sitei393 – 3942Cleavage; by protease 3C Reviewed prediction
Sitei624 – 6252Cleavage; by protease 3C Reviewed prediction
Sitei901 – 9022Cleavage; by protease 3C Reviewed prediction
Sitei1044 – 10452Cleavage; by ribosomal skip Reviewed prediction
Sitei1194 – 11952Cleavage; by protease 3C Reviewed prediction
Sitei1519 – 15202Cleavage; by protease 3C Reviewed prediction
Sitei1607 – 16082Cleavage; by protease 3C Reviewed prediction
Sitei1627 – 16282Cleavage; by protease 3C Reviewed prediction
Active sitei1673 – 16731For protease 3C activity Reviewed prediction
Active sitei1705 – 17051For protease 3C activity Reviewed prediction
Active sitei1786 – 17861For protease 3C activity Reviewed prediction
Sitei1832 – 18332Cleavage; by protease 3C Reviewed prediction

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri10 – 2213 Reviewed predictionAdd
BLAST
Nucleotide bindingi1313 – 13208ATP Reviewed prediction

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. ion channel activity Source: UniProtKB-KW
  4. metal ion binding Source: UniProtKB-KW
  5. RNA binding Source: UniProtKB-KW
  6. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  7. RNA helicase activity Source: InterPro
  8. structural molecule activity Source: InterPro

GO - Biological processi

  1. induction by virus of host autophagy Source: UniProtKB
  2. pore formation by virus in membrane of host cell Source: UniProtKB-KW
  3. protein oligomerization Source: UniProtKB-KW
  4. RNA-protein covalent cross-linking Source: UniProtKB-KW
  5. suppression by virus of host mRNA export from nucleus Source: UniProtKB-KW
  6. suppression by virus of host RIG-I activity by RIG-I proteolysis Source: UniProtKB
  7. suppression by virus of host translation Source: UniProtKB-KW
  8. transcription, DNA-templated Source: InterPro
  9. viral entry into host cell Source: UniProtKB-KW
  10. viral RNA genome replication Source: InterPro
  11. virion attachment to host cell Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Ion channel, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase, Viral ion channel

Keywords - Biological processi

Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host mRNA suppression by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host mRNA nuclear export by virus, Inhibition of host RIG-I by virus, Inhibition of host RLR pathway by virus, Ion transport, Transport, Viral attachment to host cell, Viral immunoevasion, Viral RNA replication, Virus entry into host cell

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 13 chains:
Alternative name(s):
VP4-VP2
Alternative name(s):
P1A
Rho
Virion protein 4
Alternative name(s):
Beta
P1B
Virion protein 2
Alternative name(s):
Gamma
P1C
Virion protein 3
Alternative name(s):
Alpha
P1D
Virion protein 1
Protein 2A
Short name:
P2A
Alternative name(s):
G
Protein 2B
Short name:
I
Short name:
P2B
Protein 2C (EC:3.6.1.15)
Short name:
C
Short name:
P2C
Protein 3A
Short name:
P3A
Protein 3B
Short name:
P3B
Alternative name(s):
H
VPg
Protease 3C (EC:3.4.22.28)
Short name:
P3C
Alternative name(s):
Picornain 3C
p22
RNA-directed RNA polymerase 3D-POL (EC:2.7.7.48)
Short name:
E
Short name:
P3D-POL
OrganismiEncephalomyocarditis virus (strain emc-b nondiabetogenic)
Taxonomic identifieri12105 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stagePicornaviralesPicornaviridaeCardiovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Mus musculus (Mouse) [TaxID: 10090]
Sigmodon hispidus (Hispid cotton rat) [TaxID: 42415]
Sus scrofa (Pig) [TaxID: 9823]
ProteomesiUP000008661: Genome

Subcellular locationi

Chain Protein VP2 : Virion. Host cytoplasm Reviewed prediction
Chain Protein VP3 : Virion. Host cytoplasm Reviewed prediction
Chain Protein VP1 : Virion. Host cytoplasm Reviewed prediction
Chain Protein 2B : Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side Reviewed prediction
Note: Probably localizes to the surface of intracellular membrane vesicles that are induced after virus infection as the site for viral RNA replication. These vesicles are derived from the endoplasmic reticulum By similarity.
Chain Protein 2C : Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side Reviewed prediction
Note: Probably localizes to the surface of intracellular membrane vesicles that are induced after virus infection as the site for viral RNA replication. These vesicles are derived from the endoplasmic reticulum By similarity.
Chain Protein 3A : Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side Reviewed prediction
Note: Probably localizes to the surface of intracellular membrane vesicles that are induced after virus infection as the site for viral RNA replication. These vesicles are derived from the endoplasmic reticulum By similarity.
Chain Protein 3B : Virion Reviewed prediction
Chain Protease 3C : Host cytoplasm Reviewed prediction
Chain RNA-directed RNA polymerase 3D-POL : Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side Reviewed prediction
Note: Probably localizes to the surface of intracellular membrane vesicles that are induced after virus infection as the site for viral RNA replication. These vesicles are derived from the endoplasmic reticulum By similarity.

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 15641564Cytoplasmic Reviewed predictionAdd
BLAST
Intramembranei1565 – 158319 Reviewed predictionAdd
BLAST
Topological domaini1584 – 2292709Cytoplasmic Reviewed predictionAdd
BLAST

GO - Cellular componenti

  1. host cell cytoplasmic vesicle membrane Source: UniProtKB-SubCell
  2. host cell nucleus Source: UniProtKB-SubCell
  3. icosahedral viral capsid Source: InterPro
  4. integral to membrane of host cell Source: UniProtKB-KW
  5. membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Host cytoplasm, Host cytoplasmic vesicle, Host membrane, Host nucleus, Membrane, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 6767Leader proteinPRO_0000039792Add
BLAST
Chaini68 – 393326Protein VP0 Reviewed predictionPRO_0000310968Add
BLAST
Chaini68 – 13770Protein VP4 Reviewed predictionPRO_0000039793Add
BLAST
Chaini138 – 393256Protein VP2 Reviewed predictionPRO_0000039794Add
BLAST
Chaini394 – 624231Protein VP3 Reviewed predictionPRO_0000039795Add
BLAST
Chaini625 – 901277Protein VP1 Reviewed predictionPRO_0000039796Add
BLAST
Chaini902 – 1044143Protein 2A Reviewed predictionPRO_0000039797Add
BLAST
Chaini1045 – 1194150Protein 2B Reviewed predictionPRO_0000039798Add
BLAST
Chaini1195 – 1519325Protein 2C Reviewed predictionPRO_0000039799Add
BLAST
Chaini1520 – 160788Protein 3A Reviewed predictionPRO_0000039800Add
BLAST
Chaini1608 – 162720Protein 3B Reviewed predictionPRO_0000039801Add
BLAST
Chaini1628 – 1832205Protease 3C Reviewed predictionPRO_0000039802Add
BLAST
Chaini1833 – 2292460RNA-directed RNA polymerase 3D-POL Reviewed predictionPRO_0000039803Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi68 – 681N-myristoyl glycine; by host By similarity
Modified residuei1610 – 16101O-(5'-phospho-RNA)-tyrosine By similarity

Post-translational modificationi

Specific enzymatic cleavages by the viral protease in vivo yield a variety of precursors and mature proteins. Polyprotein processing intermediates such as VP0 which is a VP4-VP2 precursor are produced. During virion maturation, non-infectious particles are rendered infectious following cleavage of VP0. This maturation cleavage is followed by a conformational change of the particle. The polyprotein seems to be cotranslationally cleaved at the 2A/2B junction by a ribosomal skip from one codon to the next without formation of a peptide bond. This process would release the L-P1-2A peptide from the translational complex By similarity.
VPg is uridylylated by the polymerase and is covalently linked to the 5'-end of genomic RNA. This uridylylated form acts as a nucleotide-peptide primer for the polymerase By similarity.
Myristoylation of VP4 is required during RNA encapsidation and formation of the mature virus particle By similarity.

Keywords - PTMi

Covalent protein-RNA linkage, Lipoprotein, Myristate, Phosphoprotein

Interactioni

Subunit structurei

Protease 3C interacts with host TRIM22; this interaction leads to the ubiquitination of protease 3C and may restrict the virus replication. Protein 2A interacts with host EIF4E By similarity.

Structurei

3D structure databases

ProteinModelPortaliP17593.
SMRiP17593. Positions 1-32, 76-898.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1281 – 1447167SF3 helicaseAdd
BLAST
Domaini2061 – 2179119RdRp catalyticAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni37 – 6125Acidic By similarityAdd
BLAST

Sequence similaritiesi

Contains 2 peptidase C3 domains.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri10 – 2213 Reviewed predictionAdd
BLAST

Keywords - Domaini

Zinc-finger

Family and domain databases

Gene3Di2.60.120.20. 3 hits.
4.10.90.10. 1 hit.
InterProiIPR015031. Capsid_VP4_Picornavir.
IPR004004. Helic/Pol/Pept_Calicivir-typ.
IPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR021573. Leader_pept_picornaV.
IPR000199. Peptidase_C3A/C3B_picornavir.
IPR001676. Picornavirus_capsid.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00548. Peptidase_C3. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00073. Rhv. 2 hits.
PF00910. RNA_helicase. 1 hit.
PF08935. VP4_2. 1 hit.
PF11475. VP_N-CPKC. 1 hit.
[Graphical view]
PRINTSiPR00918. CALICVIRUSNS.
SUPFAMiSSF50494. SSF50494. 1 hit.
PROSITEiPS50507. 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.

P17593-1 [UniParc]FASTAAdd to Basket

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MATTMEQEIC AHSLTLKGCP KCSALQYRNG FYLLKYDEEW YPEELLTDGE     50
DDVFDPELDM EVVFELQGNS TSSDKNNSSS DGNEGVIINN FYSNQYQNSI 100
DLSANATGSD PPRTYGQFSN LLSGAVNAFS NMIPLLADQN TEEMENLSDR 150
VLQDTAGNTV TNTQSTVGRL VGYGAVHDGE HPASCADTAS EKILAVERYY 200
TFKVNDWTST QKPFEYIRIP LPHVLSGEDG GVFGAALRRH YLVKTGWRVQ 250
VQCNASQFHA GSLLVFMAPE YPTLDAFAMD NRWSKDNLPN GTKTQTNRKG 300
PFAMDHQNFW QWTLYPHQFL NLRTNTTVDL EVPYVNIAPT SSWTQHASWT 350
LVIAVVAPLT YSTGASTSLD ITASIQPVRP VFNGLRHETL SRQSPIPVTI 400
REHAGTWYST LPDSTVPIYG KTPVAPANYM VGEYKDFLEI AQIPTFIGNK 450
IPNAVPYIEA SNTAVKTQPL ATYQVTLSCS CLANTFLAAL SRNFAQYRGS 500
LVYTFVFTGT AMMKGKFLIA YTPPGAGKPT SRDQAMQATY AIWDLGLNSS 550
YSFTVPFISP THFRMVGTDQ VNITNVDGWV TVWQLTPLTY PPGCPTSAKI 600
LTMVSAGKDF SLKMPISPAP WSPQGVENAE RGVTEDTDAT ADFVAQPVYL 650
PENQTKVAFF YDRSSPIGAF TVKSGSLESG FTPFSNQTCP NSVILTPGPQ 700
FDPAYDQLRP QRLTEIWGNG NEETSKVFPL KSKQDYSFCL FSPFVYYKCD 750
LEVTLSPHTS GNHGLLVRWC PTGTPTKPTT QVLHEVSSLS EGRTPQVYSA 800
GPGITNQISF VVPYNSPLSV LPAVWYNGHK RFDNTGSLGI APNSDFGTLF 850
FAGTKPDIKF TVYLRYKNMR VFCPRPTVFF PWPSSGDKID MTPRAGVLML 900
ESPNALDISR TYPTLHILIQ FNHGGLEIRL FRHGMFWAEA HADVILRSRT 950
KQISFLNNGS FPSMDARAPW NPWKNTYHAV LRAEPYRVTM DVYHKRIRPF 1000
RLPLVQKEWN VREENVFGLY GIFNAHYAGY FADLLIHDIE TNPGPFMAKP 1050
KKQVFQTQGA AVSSMAQTLL PNDLASKVMG SAFTALLDAN EDAQKAMRII 1100
KTLSSLSDAW ENVKETLNNP EFWKQLLSRC VQLIAGMTIA VMHPDPLTLL 1150
CLGTLTAAEI TSQTSLCEEI VAKFKKIFTT PPPRFPTISL FQQQSPLKQV 1200
NDVFSLAKNL DWAVKTVEKV VDWFGTWVVQ EEKEQTLDQL LQRFPEHAKR 1250
ISDLRNGMSA YVECKESFDF FEKLYNQAVK EKRTGIAAVC EKFRQKHDHA 1300
TARCEPVVIV LRGDAGQGKS LSSQVIAQAV SKTIFGRQSV YSLPPDSDFF 1350
DGYENQFAAI MDDLGQNPDG SDFTTFCQMV STTNFLPNMA SLERNGTPFT 1400
SQIVVATTNL PEFRPVTIAH YPAVERRITF DYSVSAGPVC SKTEAGYKVL 1450
DVERAFRPTG DAPLPCFQNN CLFLEKAGLQ FRDNRTKEIL SLVDVIERAV 1500
ARIERKKKVL TTVQTLVAQA PVDEVSFHSV VQQLKARQEA TDEQLEELQE 1550
AFAKTQERSS VFSDWMKISA MLCAATLALS QVVKMAKTVK QMVRPDLVRV 1600
QLDEQEQGPY NEAVRAKPKT LQLLDIQGPN PVMDFEKYVA KFVTAPIDFV 1650
YPTGVSTQTC LLVKGRTLAV NRHMAESDWS SIVVRGVTHA RSTVRILAIA 1700
KAGKETDVSF IRLSSGPLFR DNTSKFVKAD DVLPATSAPV IGIMNTDIPM 1750
MFTGTFLKAG VSVPVETGQT FNHCIHYKAN TRKGWCGSAL LADLGGKKKI 1800
LGMHSAGSMG RTAASIVSQE MICAVVSAFE PQGALERLPD GPRIHVPRKT 1850
ALRPTVARRV FQPAYAPAVL SKFDPRTEAD VDEVAFSKHT SNQESLPPVF 1900
RMVAKEYANR VFTLLGRDNG RLTVKQALEG LEGMDPMDKN TSPGLPYTAL 1950
GMRRTDVVDW ESATLIPYAA DRLKKMNEGD FSDIVYQTFL KDELRPVEKV 2000
QAAKTRIVDV PPFEHCILGR QLLGRFASKF QTQPGLELGS AIGCDPDVHW 2050
TAFGVAMQGF ERVYDVDYSN FDSTHSVAMF RLLAEEFFTP ENGFDPLVKE 2100
YLESLAISTH AFEEKRYLIT GGLPSGCAAT SMLNTIMNNI IIRAGLYLTY 2150
KNFEFDDVKV LSYGDDLLVA TNYQLNFDKV RASLAKTGYK ITPANKTSTF 2200
PLDSTLEDVV FLKRKFKKEG PLYRPVMNRE ALEAMLSYYR PGTLSEKLTS 2250
ITMLAVHSGK PEYDRLFAPF REVGVVVPSF ESVEYRWRSL FW 2292
Length:2,292
Mass (Da):255,497
Last modified:August 1, 1990 - v1
Checksum:i8540D0EB1437E8D4
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M22457 Genomic RNA. Translation: AAA43033.1. Sequence problems.
PIRiB31473. GNNYEB.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M22457 Genomic RNA. Translation: AAA43033.1 . Sequence problems.
PIRi B31473. GNNYEB.

3D structure databases

ProteinModelPortali P17593.
SMRi P17593. Positions 1-32, 76-898.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 2.60.120.20. 3 hits.
4.10.90.10. 1 hit.
InterProi IPR015031. Capsid_VP4_Picornavir.
IPR004004. Helic/Pol/Pept_Calicivir-typ.
IPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR014759. Helicase_SF3_ssRNA_vir.
IPR021573. Leader_pept_picornaV.
IPR000199. Peptidase_C3A/C3B_picornavir.
IPR001676. Picornavirus_capsid.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
IPR029053. Viral_coat.
[Graphical view ]
Pfami PF00548. Peptidase_C3. 1 hit.
PF00680. RdRP_1. 1 hit.
PF00073. Rhv. 2 hits.
PF00910. RNA_helicase. 1 hit.
PF08935. VP4_2. 1 hit.
PF11475. VP_N-CPKC. 1 hit.
[Graphical view ]
PRINTSi PR00918. CALICVIRUSNS.
SUPFAMi SSF50494. SSF50494. 1 hit.
PROSITEi PS50507. RDRP_SSRNA_POS. 1 hit.
PS51218. SF3_HELICASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Genomic differences between the diabetogenic and nondiabetogenic variants of encephalomyocarditis virus."
    Bae Y.S., Eun H.M., Yoon J.W.
    Virology 170:282-287(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Molecular identification of diabetogenic viral gene."
    Bae Y.S., Eun H.M., Yoon J.W.
    Diabetes 38:316-320(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiPOLG_EMCVB
AccessioniPrimary (citable) accession number: P17593
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: July 9, 2014
This is version 123 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

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