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Protein

RNA-directed RNA polymerase

Gene

VP1

Organism
Infectious pancreatic necrosis virus (strain Jasper) (IPNV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

RNA-dependent RNA polymerase which is found both free and covalently attached to the genomic RNA. May also contain guanylyl and methyl transferase activities (By similarity).By similarity

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi248 – 255GTPSequence analysis8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, RNA-directed RNA polymerase, Transferase

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
RDRP
Alternative name(s):
Protein VP1
Gene namesi
Name:VP1
OrganismiInfectious pancreatic necrosis virus (strain Jasper) (IPNV)
Taxonomic identifieri11003 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesBirnaviridaeAquabirnavirus
Virus hostiOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri) [TaxID: 8022]
Salmo [TaxID: 8028]
Proteomesi
  • UP000007248 Componenti: Genome

Subcellular locationi

  • Virion By similarity

  • Note: Minor amounts are incorporated in the virion.By similarity

GO - Cellular componenti

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

Keywords - Cellular componenti

Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002219631 – 845RNA-directed RNA polymeraseAdd BLAST845

Post-translational modificationi

Exists in multiple phosphorylated forms.

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Proteomic databases

PRIDEiP22173.

Interactioni

Subunit structurei

Interacts with VP3 in the cytoplasm.By similarity

Structurei

Secondary structure

1845
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi14 – 18Combined sources5
Beta strandi23 – 25Combined sources3
Turni28 – 30Combined sources3
Helixi45 – 54Combined sources10
Beta strandi65 – 72Combined sources8
Helixi73 – 76Combined sources4
Helixi78 – 80Combined sources3
Helixi81 – 85Combined sources5
Beta strandi91 – 102Combined sources12
Beta strandi111 – 113Combined sources3
Helixi125 – 137Combined sources13
Helixi143 – 156Combined sources14
Beta strandi157 – 160Combined sources4
Helixi164 – 179Combined sources16
Beta strandi180 – 182Combined sources3
Helixi187 – 190Combined sources4
Helixi194 – 204Combined sources11
Helixi221 – 224Combined sources4
Turni231 – 233Combined sources3
Helixi256 – 278Combined sources23
Helixi283 – 293Combined sources11
Helixi295 – 298Combined sources4
Beta strandi299 – 304Combined sources6
Beta strandi307 – 310Combined sources4
Helixi311 – 313Combined sources3
Turni314 – 316Combined sources3
Beta strandi320 – 323Combined sources4
Helixi326 – 340Combined sources15
Turni347 – 349Combined sources3
Beta strandi350 – 354Combined sources5
Turni361 – 363Combined sources3
Helixi364 – 377Combined sources14
Beta strandi382 – 386Combined sources5
Beta strandi389 – 394Combined sources6
Beta strandi397 – 403Combined sources7
Helixi406 – 409Combined sources4
Helixi412 – 425Combined sources14
Beta strandi434 – 436Combined sources3
Helixi438 – 446Combined sources9
Helixi448 – 452Combined sources5
Beta strandi456 – 460Combined sources5
Beta strandi462 – 465Combined sources4
Helixi476 – 493Combined sources18
Helixi502 – 505Combined sources4
Helixi507 – 511Combined sources5
Beta strandi515 – 521Combined sources7
Helixi524 – 533Combined sources10
Beta strandi537 – 539Combined sources3
Turni540 – 543Combined sources4
Beta strandi556 – 560Combined sources5
Beta strandi563 – 568Combined sources6
Turni569 – 572Combined sources4
Beta strandi573 – 578Combined sources6
Helixi580 – 588Combined sources9
Helixi596 – 599Combined sources4
Helixi604 – 618Combined sources15
Helixi621 – 623Combined sources3
Helixi625 – 645Combined sources21
Helixi650 – 654Combined sources5
Helixi656 – 659Combined sources4
Turni661 – 665Combined sources5
Helixi677 – 684Combined sources8
Helixi692 – 694Combined sources3
Beta strandi699 – 701Combined sources3
Helixi706 – 714Combined sources9
Turni715 – 718Combined sources4
Helixi724 – 732Combined sources9
Helixi737 – 739Combined sources3
Helixi740 – 751Combined sources12
Helixi757 – 771Combined sources15
Helixi775 – 777Combined sources3
Helixi781 – 790Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2YI8X-ray2.30A/B/C/D/E1-790[»]
2YI9X-ray2.20A/B/C/D/E1-790[»]
2YIAX-ray3.02A/B/C/D/E/F/G/H1-790[»]
2YIBX-ray3.80A/B/C1-845[»]
D1-687[»]
3ZEDX-ray2.20A/B/C1-845[»]
ProteinModelPortaliP22173.
SMRiP22173.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP22173.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini384 – 588RdRp catalyticPROSITE-ProRule annotationAdd BLAST205

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi766 – 769Poly-Gln4

Sequence similaritiesi

Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

InterProiIPR007100. RNA-dir_pol_birnavirus.
IPR007098. RNA-dir_pol_mononegavirus.
[Graphical view]
PfamiPF04197. Birna_RdRp. 1 hit.
[Graphical view]
PROSITEiPS50524. RDRP_DSRNA_BIR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P22173-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDIFNSPQN KASILTALMK STTGDVEDVL IPKRFRPAKD PLDSPQAAAQ
60 70 80 90 100
FLKDNKYRIL RPRAIPTMVE LETDAALPRL RQMVEDGKLK DTVSVPEGTT
110 120 130 140 150
AFYPKYYPFH KPDHDEVGTF GAPDITLLKQ LTFFLLENDF PTGPETLRQV
160 170 180 190 200
REAIATLQYG SGSYSGQLNR LLAMKGVATG RNPNKTPKTV GYTNEQLAKL
210 220 230 240 250
LEQTLPINTP KHEDPDLRWA PSWLINYTGD LSTDKSYLPH VTIKSSAGLP
260 270 280 290 300
YIGKTKGDTT AEALVLADSF IRDLGRAATS ADPEAGVKKT ITDFWYLSCG
310 320 330 340 350
LLFPKGERYT QVDWDKKTRN IWSAPYPTHL LLSMVSTPVM NESKLNITNT
360 370 380 390 400
QTPSLYGFSP FHGGMDRIMT IIRDSLDNDE DLVMIYADNI YILQDNTWYS
410 420 430 440 450
IDLEKGEANC TPQHMQAMMY YLLTRGWTNE DGSPRYNPTW ATFAMNVAPS
460 470 480 490 500
MVVDSSCLLM NLQLKTYGQG SGNAFTFLNN HLMSTIVVAE WVKAGKPNPM
510 520 530 540 550
TKEFMDLEEK TGINFKIERE LKNLRETIVE AVETAPQDGY LADGSDLPPI
560 570 580 590 600
RPGKAVELDL LGWSAIYSRQ MEMFVPVLEN ERLIASAAYP KGLENKALAR
610 620 630 640 650
KPGAEIAYQI VRYEAIRLVG GWNNPLLETA AKHMSLDKRK RLEVKGIDVT
660 670 680 690 700
GFLDDWNNMS EFGGDLEGIT LSEPLTNQTL VDINTPLDSF DPKARPQTPR
710 720 730 740 750
SPKKTLDEVT TAITSGTYKD PKSAVWRLLD QRTKLRVSTL RDQALALKPA
760 770 780 790 800
SSSVDNWAEA TEELAQQQQL LMKANNLLKS SLTETREALE TIQSDKIIAG
810 820 830 840
KSNPEKNPGT AANPVVGYGE FSEKIPLTPT QKKNAKRREK QRRNQ
Length:845
Mass (Da):94,467
Last modified:August 1, 1991 - v1
Checksum:i45C392DF3AAF767A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M58756 Genomic RNA. Translation: AAA46243.1.
PIRiA37946. RRXSJA.
RefSeqiNP_047197.1. NC_001916.1.

Genome annotation databases

GeneIDi956514.
KEGGivg:956514.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M58756 Genomic RNA. Translation: AAA46243.1.
PIRiA37946. RRXSJA.
RefSeqiNP_047197.1. NC_001916.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2YI8X-ray2.30A/B/C/D/E1-790[»]
2YI9X-ray2.20A/B/C/D/E1-790[»]
2YIAX-ray3.02A/B/C/D/E/F/G/H1-790[»]
2YIBX-ray3.80A/B/C1-845[»]
D1-687[»]
3ZEDX-ray2.20A/B/C1-845[»]
ProteinModelPortaliP22173.
SMRiP22173.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiP22173.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi956514.
KEGGivg:956514.

Miscellaneous databases

EvolutionaryTraceiP22173.

Family and domain databases

InterProiIPR007100. RNA-dir_pol_birnavirus.
IPR007098. RNA-dir_pol_mononegavirus.
[Graphical view]
PfamiPF04197. Birna_RdRp. 1 hit.
[Graphical view]
PROSITEiPS50524. RDRP_DSRNA_BIR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRDRP_IPNVJ
AccessioniPrimary (citable) accession number: P22173
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1991
Last sequence update: August 1, 1991
Last modified: November 2, 2016
This is version 84 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.