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Protein

RNA-directed RNA polymerase

Gene

VP1

Organism
Avian infectious bursal disease virus (IBDV) (Gumboro disease virus)
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 bindingi259 – 266GTPSequence 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
OrganismiAvian infectious bursal disease virus (IBDV) (Gumboro disease virus)
Taxonomic identifieri10995 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesBirnaviridaeAvibirnavirus
Virus hostiGallus gallus (Chicken) [TaxID: 9031]
Meleagris gallopavo (Common turkey) [TaxID: 9103]

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi401 – 403ADN → GDD: Increases polymerase activity. 1 Publication3

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002278801 – 881RNA-directed RNA polymeraseAdd BLAST881

Post-translational modificationi

May exist in multiple phosphorylated forms.

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Interactioni

Subunit structurei

Interacts with VP3 in the cytoplasm.1 Publication

Structurei

Secondary structure

1881
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi47 – 56Combined sources10
Beta strandi67 – 74Combined sources8
Helixi75 – 78Combined sources4
Helixi80 – 82Combined sources3
Turni83 – 86Combined sources4
Beta strandi96 – 106Combined sources11
Beta strandi118 – 120Combined sources3
Helixi128 – 139Combined sources12
Beta strandi141 – 143Combined sources3
Helixi146 – 161Combined sources16
Beta strandi162 – 165Combined sources4
Helixi169 – 184Combined sources16
Beta strandi185 – 187Combined sources3
Helixi192 – 194Combined sources3
Helixi199 – 209Combined sources11
Beta strandi218 – 220Combined sources3
Beta strandi225 – 227Combined sources3
Helixi229 – 232Combined sources4
Beta strandi233 – 237Combined sources5
Beta strandi239 – 241Combined sources3
Beta strandi244 – 247Combined sources4
Beta strandi256 – 259Combined sources4
Helixi260 – 262Combined sources3
Helixi267 – 269Combined sources3
Helixi271 – 291Combined sources21
Helixi295 – 297Combined sources3
Helixi300 – 309Combined sources10
Helixi311 – 314Combined sources4
Beta strandi315 – 320Combined sources6
Beta strandi323 – 326Combined sources4
Helixi327 – 329Combined sources3
Turni330 – 332Combined sources3
Beta strandi336 – 339Combined sources4
Helixi342 – 356Combined sources15
Turni363 – 365Combined sources3
Turni378 – 380Combined sources3
Helixi381 – 390Combined sources10
Beta strandi395 – 400Combined sources6
Beta strandi403 – 408Combined sources6
Beta strandi411 – 417Combined sources7
Helixi420 – 423Combined sources4
Helixi426 – 439Combined sources14
Beta strandi441 – 443Combined sources3
Beta strandi446 – 449Combined sources4
Helixi451 – 459Combined sources9
Helixi461 – 465Combined sources5
Beta strandi469 – 473Combined sources5
Beta strandi475 – 478Combined sources4
Helixi486 – 506Combined sources21
Helixi515 – 518Combined sources4
Helixi520 – 524Combined sources5
Beta strandi528 – 536Combined sources9
Helixi537 – 546Combined sources10
Turni552 – 554Combined sources3
Beta strandi555 – 557Combined sources3
Beta strandi566 – 570Combined sources5
Beta strandi573 – 578Combined sources6
Turni579 – 582Combined sources4
Beta strandi583 – 588Combined sources6
Helixi590 – 598Combined sources9
Helixi613 – 629Combined sources17
Helixi631 – 633Combined sources3
Helixi635 – 655Combined sources21
Helixi659 – 662Combined sources4
Turni663 – 665Combined sources3
Helixi666 – 668Combined sources3
Helixi673 – 675Combined sources3
Turni676 – 678Combined sources3
Helixi687 – 694Combined sources8
Helixi713 – 720Combined sources8
Turni721 – 723Combined sources3
Turni728 – 730Combined sources3
Helixi731 – 741Combined sources11
Helixi744 – 746Combined sources3
Helixi747 – 760Combined sources14
Helixi771 – 782Combined sources12
Helixi793 – 801Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PGGX-ray2.50A31-804[»]
2PUSX-ray2.40A1-845[»]
2QJ1X-ray3.48A5-845[»]
2R70X-ray2.70A1-845[»]
2R72X-ray3.15A1-845[»]
ProteinModelPortaliQ9Q6Q5.
SMRiQ9Q6Q5.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Q6Q5.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini398 – 598RdRp catalyticPROSITE-ProRule annotationAdd BLAST201

Sequence similaritiesi

Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di1.10.287.540. 1 hit.
InterProiIPR007100. RNA-dir_pol_birnavirus.
IPR007098. RNA-dir_pol_mononegavirus.
IPR023218. UPF0291_struct_dom.
[Graphical view]
PfamiPF04197. Birna_RdRp. 1 hit.
[Graphical view]
PROSITEiPS50524. RDRP_DSRNA_BIR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9Q6Q5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDIFNSPQA RSTISAAFGI KPTAGQDVEE LLIPKVWVPP EDPLASPSRL
60 70 80 90 100
AKFLRENGYK VLQPRSLPEN EEYETDQILP DLAWMRQIEG AVLKPTLSLP
110 120 130 140 150
IGDQEYFPKY YPTHRPSKEK PNAYPPDIAL LKQMIYLFLQ VPEANEGLKD
160 170 180 190 200
EVTLLTQNIR DKAYGSGTYM GQATRLVAMK EVATGRNPNK DPLKLGYTFE
210 220 230 240 250
SIAQLLDITL PVGPPGEDDK PWVPLTRVPS RMLVLTGDVD GDFEVEDYLP
260 270 280 290 300
KINLKSSSGL PYVGRTKGET IGEMIAISNQ FLRELSTLLK QGAGTKGSNK
310 320 330 340 350
KKLLSMLSDY WYLSCGLLFP KAERYDKSTW LTKTRNIWSA PSPTHLMISM
360 370 380 390 400
ITWPVMSNSP NNVLNIEGCP SLYKFNPFRG GLNRIVEWIL APEEPKALVY
410 420 430 440 450
ADNIYIVHSN TWYSIDLEKG EANCTRQHMQ AAMYYILTRG WSDNGDPMFN
460 470 480 490 500
QTWATFAMNI APALVVDSSC LIMNLQIKTY GQGSGNAATF INNHLLSTLV
510 520 530 540 550
LDQWNLMRQP RPDSEEFKSI EDKLGINFKI ERSIDDIRGK LRQLVLLAQP
560 570 580 590 600
GYLSGGVEPE QSSPTVELDL LGWSATYSKD LGIYVPVLDK ERLFCSAAYP
610 620 630 640 650
KGVENKSLKS KVGIEQAYKV VRYEALRLVG GWNYPLLNKA CKNNAGAARR
660 670 680 690 700
HLEAKGFPLD EFLAEWSELS EFGEAFEGFN IKLTVTSESL AELNKPVPPK
710 720 730 740 750
PPNVNRPVNT GGLKAVSNAL KTGRYRNEAG LSGLVLLATA RSRLQDAVKA
760 770 780 790 800
KAEAEKLHKS KPDDPDADWF ERSETLSDLL EKADIASKVA HSALVETSDA
810 820 830 840 850
LEAVQSTSVY TPKYPEVKNP QTASNPVVGL HLPAKRATGV QAALLGAGTS
860 870 880
RPMGMEAPTR SKNAVKMAKR RQRQKESRQQ P
Length:881
Mass (Da):97,911
Last modified:May 1, 2000 - v1
Checksum:i3FBB3EDB3B744D7B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF194429 mRNA. Translation: AAF16083.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF194429 mRNA. Translation: AAF16083.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PGGX-ray2.50A31-804[»]
2PUSX-ray2.40A1-845[»]
2QJ1X-ray3.48A5-845[»]
2R70X-ray2.70A1-845[»]
2R72X-ray3.15A1-845[»]
ProteinModelPortaliQ9Q6Q5.
SMRiQ9Q6Q5.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Q6Q5.

Family and domain databases

Gene3Di1.10.287.540. 1 hit.
InterProiIPR007100. RNA-dir_pol_birnavirus.
IPR007098. RNA-dir_pol_mononegavirus.
IPR023218. UPF0291_struct_dom.
[Graphical view]
PfamiPF04197. Birna_RdRp. 1 hit.
[Graphical view]
PROSITEiPS50524. RDRP_DSRNA_BIR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRDRP_IBDV
AccessioniPrimary (citable) accession number: Q9Q6Q5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 21, 2006
Last sequence update: May 1, 2000
Last modified: November 2, 2016
This is version 54 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, Direct protein sequencing

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.