P18247 (POLG_PVYN) Reviewed, UniProtKB/Swiss-Prot
Last modified October 16, 2013. Version 126. History...
Names and origin
|Protein names||Recommended name:|
Cleaved into the following 10 chains:
|Organism||Potato virus Y (strain N) (PVY) [Reference proteome]|
|Taxonomic identifier||12219 [NCBI]|
|Taxonomic lineage||Viruses › ssRNA positive-strand viruses, no DNA stage › Potyviridae › Potyvirus ›|
|Virus host||Capsicum (peppers) [TaxID: 4071]|
Nicotiana [TaxID: 4085]
Solanum lycopersicum (Tomato) (Lycopersicon esculentum) [TaxID: 4081]
Solanum tuberosum (Potato) [TaxID: 4113]
|Sequence length||3063 AA.|
|Sequence processing||The displayed sequence is further processed into a mature form.|
|Protein existence||Inferred from homology|
General annotation (Comments)
Capsid protein: involved in aphid transmission, cell-to-cell and systemis movement, encapsidation of the viral RNA and in the regulation of viral RNA amplification. Ref.3
Nuclear inclusion protein B: a RNA-dependent RNA polymerase that plays an essential role in the virus replication. Ref.3
Helper component proteinase: required for aphid transmission and also has proteolytic activity. Only cleaves a Gly-Gly dipeptide at its own C-terminus. Interacts with virions and aphid stylets. Acts as a suppressor of RNA-mediated gene silencing, also known as post-transcriptional gene silencing (PTGS), a mechanism of plant viral defense that limits the accumulation of viral RNAs. May have RNA-binding activity. Ref.3
Cytoplasmic inclusion protein: has helicase activity. It may be involved in replication. Ref.3
Both 6K peptides are indispensable for virus replication By similarity. Ref.3
Nuclear inclusion protein A: has RNA-binding and proteolytic activities. Ref.3
Hydrolyzes glutaminyl bonds, and activity is further restricted by preferences for the amino acids in P6 - P1' that vary with the species of potyvirus, e.g. Glu-Xaa-Xaa-Tyr-Xaa-Gln-|-(Ser or Gly) for the enzyme from tobacco etch virus. The natural substrate is the viral polyprotein, but other proteins and oligopeptides containing the appropriate consensus sequence are also cleaved.
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Hydrolyzes a Gly-|-Gly bond at its own C-terminus, commonly in the sequence -Tyr-Xaa-Val-Gly-|-Gly, in the processing of the potyviral polyprotein.
The N-terminus of helper component proteinase is involved in interaction with stylets. The central part is involved in interaction with virions and the C-terminus is involved in cell-to cell movement of the virus.
VPg is uridylylated by the polymerase and is covalently attached to the 5'-end of the genomic RNA. This uridylylated form acts as a nucleotide-peptide primer for the polymerase By similarity.
Potyviral RNA is expressed as two polyproteins which undergo post-translational proteolytic processing. Genome polyprotein is processed by NIa-pro, P1 and HC-pro proteinases resulting in the production of at least ten individual proteins. P3N-PIPO polyprotein is cleaved by P1 and HC-pro proteinases resulting in the production of three individual proteins. The P1 proteinase and the HC-pro cleave only their respective C-termini autocatalytically. 6K1 is essential for proper proteolytic separation of P3 from CI By similarity.
Belongs to the potyviridae genome polyprotein family.
Contains 1 helicase ATP-binding domain.
Contains 1 helicase C-terminal domain.
Contains 1 peptidase C4 domain.
Contains 1 peptidase C6 domain.
Contains 1 peptidase S30 domain.
Contains 1 RdRp catalytic domain.
|This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]|
|Isoform Genome polyprotein (identifier: P18247-1) |
This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
|Note: Produced by conventional translation.|
|Isoform P3N-PIPO polyprotein (identifier: P0CJ93-1) |
The sequence of this isoform can be found in the external entry P0CJ93.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
|Note: Produced by -1 ribosomal frameshifting in P3 ORF.|
Sequence annotation (Features)
|Feature key||Position(s)||Length||Description||Graphical view||Feature identifier|
|Chain||1 – 3063||3063||Genome polyprotein||PRO_0000420017|
|Chain||1 – 284||284||P1 proteinase Potential||PRO_0000040407|
|Chain||285 – 740||456||Helper component proteinase Potential||PRO_0000040408|
|Chain||741 – 1105||365||Protein P3 By similarity||PRO_0000040409|
|Chain||1106 – 1157||52||6 kDa protein 1 By similarity||PRO_0000040410|
|Chain||1158 – 1791||634||Cytoplasmic inclusion protein By similarity||PRO_0000040411|
|Chain||1792 – 1843||52||6 kDa protein 2 By similarity||PRO_0000040412|
|Chain||1844 – 2031||188||Viral genome-linked protein By similarity||PRO_0000040413|
|Chain||2032 – 2275||244||Nuclear inclusion protein A By similarity||PRO_0000040414|
|Chain||2276 – 2796||521||Nuclear inclusion protein B By similarity||PRO_0000040415|
|Chain||2797 – 3063||267||Capsid protein By similarity||PRO_0000040416|
|Domain||1229 – 1381||153||Helicase ATP-binding|
|Domain||1400 – 1559||160||Helicase C-terminal|
|Domain||2032 – 2250||219||Peptidase C4|
|Domain||2519 – 2643||125||RdRp catalytic|
|Nucleotide binding||1242 – 1249||8||ATP Potential|
|Motif||334 – 337||4||Involved in interaction with stylet and aphid transmission By similarity|
|Motif||592 – 594||3||Involved in virions binding and aphid transmission By similarity|
|Motif||1331 – 1334||4||DECH box|
|Motif||1884 – 1892||9||Nuclear localization signal Potential|
|Active site||192||1||For P1 proteinase activity By similarity|
|Active site||201||1||For P1 proteinase activity Potential|
|Active site||235||1||For P1 proteinase activity By similarity|
|Active site||626||1||For helper component proteinase activity By similarity|
|Active site||699||1||For helper component proteinase activity By similarity|
|Active site||2077||1||For nuclear inclusion protein A activity By similarity|
|Active site||2112||1||For nuclear inclusion protein A activity By similarity|
|Active site||2182||1||For nuclear inclusion protein A activity By similarity|
|Site||284 – 285||2||Cleavage; by P1 proteinase Potential|
|Site||740 – 741||2||Cleavage; by HC-pro Potential|
|Site||1105 – 1106||2||Cleavage; by NIa-pro By similarity|
|Site||1157 – 1158||2||Cleavage; by NIa-pro By similarity|
|Site||1791 – 1792||2||Cleavage; by NIa-pro By similarity|
|Site||1843 – 1844||2||Cleavage; by NIa-pro By similarity|
|Site||2031 – 2032||2||Cleavage; by NIa-pro By similarity|
|Site||2275 – 2276||2||Cleavage; by NIa-pro By similarity|
|Site||2796 – 2797||2||Cleavage; by NIa-pro By similarity|
Amino acid modifications
|Modified residue||1907||1||O-(5'-phospho-RNA)-tyrosine By similarity|
|||"Nucleotide sequence of potato virus Y (N Strain) genomic RNA."|
Robaglia C., Durand-Tardif M., Tronchet M., Boudazin G., Astier-Manifacier S., Casse-Delbart F.
J. Gen. Virol. 70:935-947(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
Submitted (JAN-1994) to the EMBL/GenBank/DDBJ databases
Cited for: SEQUENCE REVISION.
|||"Suppression of gene silencing: a general strategy used by diverse DNA and RNA viruses of plants."|
Voinnet O., Pinto Y.M., Baulcombe D.C.
Proc. Natl. Acad. Sci. U.S.A. 96:14147-14152(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
|||"Potyvirus proteins: a wealth of functions."|
Urcuqui-Inchima S., Haenni A.L., Bernardi F.
Virus Res. 74:157-175(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
|+||Additional computationally mapped references.|
|X12456 Genomic RNA. Translation: CAA30988.1.|
D00441 Genomic RNA. Translation: BAA00342.1.
|RefSeq||NP_056759.1. NC_001616.1. |
3D structure databases
Protein family/group databases
Protocols and materials databases
Genome annotation databases
Enzyme and pathway databases
|BRENDA||188.8.131.52. 5005. |
Family and domain databases
|InterPro||IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. |
|Pfam||PF00270. DEAD. 1 hit. |
PF00271. Helicase_C. 1 hit.
PF00863. Peptidase_C4. 1 hit.
PF00851. Peptidase_C6. 1 hit.
PF01577. Peptidase_S30. 1 hit.
PF00767. Poty_coat. 1 hit.
PF08440. Poty_PP. 1 hit.
PF00680. RdRP_1. 1 hit.
|PRINTS||PR00966. NIAPOTYPTASE. |
|SMART||SM00487. DEXDc. 1 hit. |
SM00490. HELICc. 1 hit.
|SUPFAM||SSF50494. SSF50494. 1 hit. |
SSF52540. SSF52540. 2 hits.
|PROSITE||PS51192. HELICASE_ATP_BIND_1. 1 hit. |
PS51194. HELICASE_CTER. 1 hit.
PS51436. POTYVIRUS_NIA_PRO. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
|Accession||Primary (citable) accession number: P18247|
Secondary accession number(s): Q85266 Q85273
|Entry status||Reviewed (UniProtKB/Swiss-Prot)|
|Annotation program||Viral Protein Annotation Program|