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Q805H4 (REP_PCV1C) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 62. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Replication-associated protein

EC=2.7.7.-
EC=3.1.21.-
EC=3.6.1.3
Alternative name(s):
ATP-dependent helicase Rep
RepP
Gene names
Name:Rep
ORF Names:ORF1
OrganismPorcine circovirus 1 (isolate China) (PCV1) [Reference proteome]
Taxonomic identifier654929 [NCBI]
Taxonomic lineageVirusesssDNA virusesCircoviridaeCircovirus
Virus hostSus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length312 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Essential for the replication of viral ssDNA. The closed circular ssDNA genome is first converted to a superhelical dsDNA. Rep and/or Rep' binds a specific hairpin at the genome origin of replication. Introduces an endonucleolytic nick within the conserved sequence 5'-AGTATTAC-3' in the intergenic region of the genome, thereby initiating the rolling circle replication (RCR). Following cleavage, binds covalently to the 5'-phosphate of DNA as a tyrosyl ester. The cleavage gives rise to a free 3'-OH that serves as a primer for the cellular DNA polymerase. The polymerase synthesizes the (+) strand DNA by rolling circle mechanism. After one round of replication, a Rep-catalyzed nucleotidyl transfer reaction releases a circular single-stranded virus genome, thereby terminating the replication. Displays origin-specific DNA cleavage, nucleotidyl transferase, ATPase and helicase activities. ATPase activity is probably carried by the isoform Rep By similarity. Ref.7

Catalytic activity

ATP + H2O = ADP + phosphate.

Cofactor

Divalent metal cations, possibly magnesium or manganese By similarity.

Subunit structure

Interacts with the capsid protein; this interaction relocates Rep into the nucleus By similarity.

Subcellular location

Host nucleus Potential.

Domain

There are 3 rolling circle replication (RCR) motifs. RCR-2 is probably involved in metal coordination. RCR-3 is required for phosphodiester bond cleavage for initiation of RCR.

Sequence similarities

Belongs to the nanoviruses/circoviruses replication-associated protein family.

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]
Isoform Rep (identifier: Q805H4-1)

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.
Isoform Rep' (identifier: Q805H4-2)

The sequence of this isoform differs from the canonical sequence as follows:
     120-168: VSTLLETGSL...QRDWKTAVHV → YFDYQQSGPP...TIHGGTRRPI
     169-312: Missing.
Isoform Rep3a (identifier: Q805H4-3)

The sequence of this isoform differs from the canonical sequence as follows:
     13-246: Missing.
Isoform Rep3b (identifier: Q805H4-4)

The sequence of this isoform differs from the canonical sequence as follows:
     13-251: Missing.
Isoform Rep3c-4a (identifier: Q805H4-5)

The sequence of this isoform differs from the canonical sequence as follows:
     13-247: RWVFTLNNPS...GGTVPFLARS → SGILVPAATS...RGSAATCLLL

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 312312Replication-associated protein
PRO_0000133088

Regions

Nucleotide binding171 – 1788ATP By similarity
Motif4 – 1512Nuclear localization signal Potential
Motif16 – 194RCR-1 By similarity
Motif54 – 596RCR-2 By similarity
Motif63 – 8422Nuclear localization signal Potential
Motif93 – 964RCR-3 By similarity

Sites

Active site931For DNA cleavage activity By similarity
Metal binding451Divalent metal cation Potential
Metal binding541Divalent metal cation Potential
Metal binding971Divalent metal cation Potential

Natural variations

Alternative sequence13 – 251239Missing in isoform Rep3b.
VSP_015878
Alternative sequence13 – 247235RWVFT…FLARS → SGILVPAATSRKRKEPTSRI KNTAVKKATYLSSVELRGTR GSAATCLLL in isoform Rep3c-4a.
VSP_015879
Alternative sequence13 – 246234Missing in isoform Rep3a.
VSP_015877
Alternative sequence120 – 16849VSTLL…TAVHV → YFDYQQSGPPGMVLLNCCPS CRSSLSEDYYFAILEDCWRT IHGGTRRPI in isoform Rep'.
VSP_015880
Alternative sequence169 – 312144Missing in isoform Rep'.
VSP_015881
Natural variant1791Q → R in strain: Isolate IBRS-2.

Experimental info

Sequence conflict1851A → T in AAC34819. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform Rep [UniParc].

Last modified June 1, 2003. Version 1.
Checksum: E3A5AFDD8BE0C3CF

FASTA31235,635
        10         20         30         40         50         60 
MPSKKSGPQP HKRWVFTLNN PSEEEKNKIR ELPISLFDYF VCGEEGLEEG RTPHLQGFAN 

        70         80         90        100        110        120 
FAKKQTFNKV KWYFGARCHI EKAKGTDQQN KEYCSKEGHI LIECGAPRNQ GKRSDLSTAV 

       130        140        150        160        170        180 
STLLETGSLV TVAEQFPVTY VRNFRGLAEL LKVSGKMQQR DWKTAVHVIV GPPGCGKSQW 

       190        200        210        220        230        240 
ARNFAEPSDT YWKPSRNKWW DGYHGEEVVV LDDFYGWLPW DDLLRLCDRY PLTVETKGGT 

       250        260        270        280        290        300 
VPFLARSILI TSNQAPQEWY SSTAVPAVEA LYRRITTLQF WKTAGEQSTE VPEGRFEAVD 

       310 
PPCALFPYKI NY 

« Hide

Isoform Rep' [UniParc].

Checksum: 7B6F8BD1A844A86E
Show »

FASTA16819,273
Isoform Rep3a [UniParc].

Checksum: EFDD5391CD903AC2
Show »

FASTA788,785
Isoform Rep3b [UniParc].

Checksum: EDC8D7895E4364A0
Show »

FASTA738,257
Isoform Rep3c-4a [UniParc].

Checksum: B9F35549EFBD9C26
Show »

FASTA12613,882

References

[1]"Beak and feather disease virus and porcine circovirus genomes: intermediates between the geminiviruses and plant circoviruses."
Niagro F.D., Forsthoefel A.N., Lawther R.P., Kamalanathan L., Ritchie B.W., Latimer K.S., Lukert P.D.
Arch. Virol. 143:1723-1744(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Comparative analysis of the transcriptional patterns of pathogenic and nonpathogenic porcine circoviruses."
Cheung A.K.
Virology 310:41-49(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORMS REP; REP'; REP3A; REP3B AND REP3C-4A).
[3]"Genomic sequence of Porcine circovirus type 1 isolated from IBRS-2 cell line."
Cao S., Chen H., Ju C.
Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: Isolate IBRS-2.
[4]"Detection of template strand switching during initiation and termination of DNA replication of porcine circovirus."
Cheung A.K.
J. Virol. 78:4268-4277(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: MODEL OF REPLICATION.
[5]"Palindrome regeneration by template strand-switching mechanism at the origin of DNA replication of porcine circovirus via the rolling-circle melting-pot replication model."
Cheung A.K.
J. Virol. 78:9016-9029(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: MODEL OF REPLICATION.
[6]"Detection of rampant nucleotide reversion at the origin of DNA replication of porcine circovirus type 1."
Cheung A.K.
Virology 333:22-30(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: MODEL OF REPLICATION.
[7]"Demonstration of nicking/joining activity at the origin of DNA replication associated with the rep and rep' proteins of porcine circovirus type 1."
Steinfeldt T., Finsterbusch T., Mankertz A.
J. Virol. 80:6225-6234(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF071879 Genomic DNA. Translation: AAC34819.1.
AY193712 Genomic DNA. Translation: AAO39666.1.
AY184287 Genomic DNA. Translation: AAN77859.1.
AY184287 Genomic DNA. Translation: AAN77860.1.
AY184287 Genomic DNA. Translation: AAN77861.1.
AY184287 Genomic DNA. Translation: AAN77862.1.
AY184287 Genomic DNA. Translation: AAN77863.1.
AY660574 Genomic DNA. Translation: AAT72755.1.
RefSeqNP_065678.1. NC_001792.2.

3D structure databases

ProteinModelPortalQ805H4.
SMRQ805H4. Positions 2-113.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID7693233.

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR000605. Helicase_SF3_ssDNA/RNA_vir.
IPR027417. P-loop_NTPase.
IPR003365. Viral_rep_N.
[Graphical view]
PfamPF00910. RNA_helicase. 1 hit.
PF02407. Viral_Rep. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 1 hit.
ProtoNetSearch...

Entry information

Entry nameREP_PCV1C
AccessionPrimary (citable) accession number: Q805H4
Secondary accession number(s): O90238 expand/collapse secondary AC list , Q6DMP3, Q80QL6, Q80QL7, Q80QL8, Q80QL9
Entry history
Integrated into UniProtKB/Swiss-Prot: October 25, 2005
Last sequence update: June 1, 2003
Last modified: April 16, 2014
This is version 62 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families