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A7J390

- RDRP_ROTHS

UniProt

A7J390 - RDRP_ROTHS

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Protein

RNA-directed RNA polymerase

Gene
N/A
Organism
Rotavirus A (strain Human/Japan/S2/1980 G2-P1B[4]-I2-R2-C2-M2-Ax-Nx-T2-E2-Hx) (RV-A)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

RNA-directed RNA polymerase that is involved in both transcription and genome replication. Together with VP3 capping enzyme, forms an enzyme complex positioned near the channels situated at each of the five-fold vertices of the core. Following infection, the outermost layer of the virus is lost, leaving a double-layered particle (DLP) made up of the core and VP6 shell. VP1 then catalyzes the transcription of fully conservative plus-strand genomic RNAs that are extruded through the DLP's channels into the cytoplasm where they function as mRNAs for translation of viral proteins. One copy of each of the viral (+)RNAs is also recruited during core assembly, together with newly synthesized polymerase complexes and VP2. The polymerase of these novo-formed particles catalyzes the synthesis of complementary minus-strands leading to dsRNA formation. To do so, the polymerase specifically recognizes and binds 4 bases 5'-UGUG-3' in the conserved 3'-sequence of plus-strand RNA templates. VP2 presumably activates the autoinhibited VP1-RNA complex to coordinate packaging and genome replication. Once dsRNA synthesis is complete, the polymerase switches to the transcriptional mode, thus providing secondary transcription By similarity.

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

Cofactori

Magnesium Reviewed prediction.

GO - Molecular functioni

  1. nucleotide binding Source: UniProtKB-KW
  2. RNA binding Source: UniProtKB-KW
  3. RNA-directed RNA polymerase activity Source: UniProtKB-KW

GO - Biological processi

  1. transcription, DNA-templated Source: InterPro
  2. viral genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

Magnesium, Nucleotide-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
Protein VP1
OrganismiRotavirus A (strain Human/Japan/S2/1980 G2-P1B[4]-I2-R2-C2-M2-Ax-Nx-T2-E2-Hx) (RV-A)
Taxonomic identifieri10959 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostiHomo sapiens (Human) [TaxID: 9606]

Subcellular locationi

Virion Reviewed prediction
Note: Attached inside the inner capsid as a minor component. Also found in spherical cytoplasmic structures, called virus factories, that appear early after infection and are the site of viral replication and packaging By similarity.

GO - Cellular componenti

  1. virion Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10881088RNA-directed RNA polymerasePRO_0000368041Add
BLAST

Interactioni

Subunit structurei

Interacts with VP3 Reviewed prediction. Interacts with VP2; this interaction activates VP1. Interacts with NSP5; this interaction is probably necessary for the formation of functional virus factories. Interacts with NSP2; this interaction is weak By similarity.

Structurei

3D structure databases

ProteinModelPortaliA7J390.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini501 – 687187RdRp catalyticAdd
BLAST

Sequence similaritiesi

Family and domain databases

InterProiIPR001795. RNA-dir_pol_luteovirus.
IPR007097. RNA-dir_pol_reovirus.
IPR022071. Rotavirus_VP1.
[Graphical view]
PfamiPF02123. RdRP_4. 1 hit.
PF12289. Rotavirus_VP1. 1 hit.
[Graphical view]
PROSITEiPS50523. RDRP_DSRNA_REO. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A7J390-1 [UniParc]FASTAAdd to Basket

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MGKYNLILSE YLSFIYNSQS AVQIPIYYSS NSELENRCIE FHAKCLENSK     50
NGLSLKKLFS EYSDVIQNAT LLSILSYSYD KYNAVERKLV KYARSKPLEA 100
DLTVNELDYE NNKITSELFP TEEEYTDSLM DPAILTSLSS NLNAVMFWLE 150
KHENDTAEKL KIYKRRLDLF IIVASTVNKY GVPRHNAKYR YEYDVMKDKP 200
YYLVTWANSS IEMLMSVFSH EDYLIAKELI VLSYSNRSTL AKLVSSPMSI 250
LVALVDINGT FITNEELELE FSNKYVRAIV PDQTFDELKQ MLDNMRKAGL 300
VDIPKMIQDW LIDCSIEKFS LMAKIYSWSF HVGFRKQKML DAALDQLKTE 350
YTEDVDDEMY REYTMLIRDE VVKMLEESVK HDDHLLQDSE LAGLLSMSSA 400
SNGESRQLKF GRKTIFSTKK NMHVMDDMAN GRYTPGIIPP VNADKPIPLG 450
RRDVPGRRTR IIFILPYEYF IAQHAVVEKM LIYAKHTREY AEFYSQSNQL 500
LSYGDVTRFL SNNAMVLYTD VSQWDSSQHN TQPFRKGIIM GLDILANMTN 550
DAKVVQTLNL YKQTQINLMD SYVQIPDGNV IKKIQYGAVA SGEKQTKAAN 600
SIANLALIKT VLSRISNKYS FATKIIRVDG DDNYAVLQFN TEVTKQMVQD 650
VSNDVRETYA RMNAKVKALV STVGIEIAKR YIAGGKIFFR AGINLLNNEK 700
RGQSTQWDQA AVLYSNYIVN RLRGFETDRE FILTKIMQMT SVAITGSLRL 750
FPSERVLTTN STFKVFDSED FIIEYGTTDD EVYIQRAFMS LSSQKSGIAD 800
EISASSTFKN YVSKLSEQLL FSKNNIVSRG IALTEKAKLN SYAPISLEKR 850
RAQISALLTM LQKPVTFKSN KITINDILKD IKPFFTLSEA HLPMQYQKFM 900
PTLPENVQYI IQCIGSRTYQ IEDDGSKSAI SRLISKYSVY KPSIEELYKV 950
ISLHENEIQL YLISLGIPKI DADTYVGSKI YSQDKYRILE SYVYNLLSIN 1000
YGCYQLFDFN SPDLEKLIRI PFKGKIPAVT FILHLYAKLE VINYAIKNGS 1050
WISLFCNYPK SEMIKLWKKM WNITSLRSPY TNANFFQD 1088
Length:1,088
Mass (Da):125,083
Last modified:September 11, 2007 - v1
Checksum:i489F6E8F6D08A246
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti146 – 1461M → W in AAD47317. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
DQ870485 Genomic RNA. Translation: ABI60844.1.
AF044361 Genomic RNA. Translation: AAF19588.1.
AF106303 Genomic RNA. Translation: AAD47317.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
DQ870485 Genomic RNA. Translation: ABI60844.1 .
AF044361 Genomic RNA. Translation: AAF19588.1 .
AF106303 Genomic RNA. Translation: AAD47317.1 .

3D structure databases

ProteinModelPortali A7J390.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

InterProi IPR001795. RNA-dir_pol_luteovirus.
IPR007097. RNA-dir_pol_reovirus.
IPR022071. Rotavirus_VP1.
[Graphical view ]
Pfami PF02123. RdRP_4. 1 hit.
PF12289. Rotavirus_VP1. 1 hit.
[Graphical view ]
PROSITEi PS50523. RDRP_DSRNA_REO. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Full genome-based classification of rotaviruses reveals a common origin between human Wa-Like and porcine rotavirus strains and human DS-1-like and bovine rotavirus strains."
    Matthijnssens J., Ciarlet M., Heiman E.M., Arijs I., Delbeke T., McDonald S.M., Palombo E.A., Iturriza-Gomara M., Maes P., Patton J.T., Rahman M., Van Ranst M.
    J. Virol. 82:3204-3219(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. Lee C.N., Zao C.L.
    Submitted (JAN-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 8-178.
  3. "Sequence analysis of VP1 and VP7 genes suggests occurrence of a reassortant of G2 rotavirus responsible for an epidemic of gastroenteritis."
    Zao C.L., Yu W.N., Kao C.L., Taniguchi K., Lee C.Y., Lee C.N.
    J. Gen. Virol. 80:1407-1415(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 10-150.

Entry informationi

Entry nameiRDRP_ROTHS
AccessioniPrimary (citable) accession number: A7J390
Secondary accession number(s): Q9QAU6, Q9QRZ8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: September 11, 2007
Last modified: April 16, 2014
This is version 27 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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