Q9IMM4 (RDRP_NODAM) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names	Recommended name: RNA-directed RNA polymerase Short name=RdRp EC=2.7.7.48 Alternative name(s): RNA replicase Short name=Protein A
Organism	Nodamura virus (strain Mag115) (NoV) [Reference proteome]
Taxonomic identifier	914672 [NCBI]
Taxonomic lineage	Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Nodaviridae › Alphanodavirus › Nodamura virus
Virus host	Aedes [TaxID: 7158] Lepidoptera (butterflies and moths) [TaxID: 7088] Sus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length	1043 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	RNA-dependent RNA polymerase which replicates the viral genome composed of 2 RNA segments, RNA1 AND RNA2 Potential.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Sequence similarities	Belongs to the nodaviridae RNA polymerase family. Contains 1 RdRp catalytic domain.

Ontologies

Keywords
Biological process	Viral RNA replication
Coding sequence diversity	Alternative initiation
Ligand	Nucleotide-binding
Molecular function	Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro
Molecular_function	RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative initiation. [Align] [Select]

Isoform RNA-directed RNA polymerase (identifier: Q9IMM4-1)

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 B1 (identifier: Q9IMM4-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-912: Missing.

Note: Produced by alternative initiation at Met-913 of isoform 1.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1043	1043	RNA-directed RNA polymerase		PRO_0000222448
Regions
	Domain	588 – 713	126	RdRp catalytic
Natural variations
	Alternative sequence	1 – 912	912	Missing in isoform B1.		VSP_040283

Sequences

	Sequence		Length	Mass (Da)
	Isoform RNA-directed RNA polymerase [UniParc]. Last modified October 1, 2000. Version 1. Checksum: 0DF0CBDB5DBF3EBB	FASTA	1,043	115,774
	10 20 30 40 50 60 MLNYETIING ASSALNIVSR ALGYRVPLAK SLALVAGSCV VYKIIVHRRT LVAFLVIGPY 70 80 90 100 110 120 ATVVQHRLPM ALQRAIIEYT REDREISLFP QNSIVSAEHA RKADNGHPIS GGTRDVARET 130 140 150 160 170 180 ISLAIRAAGF RHYEISPARQ SPAEAASHQH YAAADLVRAA TEDKIQDGDV VVAIDIDYYL 190 200 210 220 230 240 RDIDRYLGRG VPFMAYTFNP VEVAGRDGDS FFRITNNQVT FDVSGGGSWS HEVWDWCAFG 250 260 270 280 290 300 EFIETRDASW LAWFARAVGL TKSQIHKVHY CRPWPQSPHR ALVWCLPVAS YWRFTFIPTD 310 320 330 340 350 360 LHTRTLRRVR YQDTSRPGWN SIVSTGSEGL NISLGREGAD HCVTIPKVHY DMLMGLSSAQ 370 380 390 400 410 420 SLSSRMIGLK YTDPSVLATV AQYYQGKNVE VADADRIGRA INPKVHWPAH VEVDEAEVSA 430 440 450 460 470 480 RVYASPLVSD ENMMPMIKRW ETLSLSLDRR VTFQRNPKVP GKRLRAYAIE FVDLVVPERG 490 500 510 520 530 540 VGVPYSLEDT AAMLDKPSQT LAIQQVWETV DMPPRRLIEA FVKNEPTMKA GRIISSFADM 550 560 570 580 590 600 RFLLRFSSYT LAFRDQVLHA EHNRHWFCPG LTPEQIATKV VDYVSGVEEP SEGDFSNFDG 610 620 630 640 650 660 TVSEWLQRHV MNAVYLRYFN HRAQRDLRSY TDMLVSCPAR AKRFGFAYDA GVGVKSGSPT 670 680 690 700 710 720 TCDLNTVCNG FLQYCSIRMT HPELTPIDAF RLIGLAFGDD SLFERRFAKN YAKVSAEVGM 730 740 750 760 770 780 VLKIERFDPA QGITFLARVY PDPYTSTTSF QDPLRTWRKL HLTTRDPTIP LATAAIDRVE 790 800 810 820 830 840 GYLVTDGLSP LTGAYCRMVK RVYEAGGAED AAKRRSRKSH SREKPYWLTV GGAWPQDVKD 850 860 870 880 890 900 VDLMFQCAAA RTGVDLETLR SLDQRLGEIT DVWADITINR DNEPNPYKDT LDLEGPADGR 910 920 930 940 950 960 VDDRVFQNDK HVMRLRANQV TSSQAGAAGS GDASNDPNAH DRGSQRQQGS ASVLRVPDRA 970 980 990 1000 1010 1020 APAGVSSDEQ PAHQTASRSS ASRGGAGPGR GGRRRPGPPA KTTAGGARDG NQARAPTSGP 1030 1040 SKRQAEGRSR SSRGPAGSRG RGK
	Isoform B1 [UniParc]. Checksum: 5A2F43D064CAEE53	FASTA	131	13,089
	10 20 30 40 50 60 MRLRANQVTS SQAGAAGSGD ASNDPNAHDR GSQRQQGSAS VLRVPDRAAP AGVSSDEQPA 70 80 90 100 110 120 HQTASRSSAS RGGAGPGRGG RRRPGPPAKT TAGGARDGNQ ARAPTSGPSK RQAEGRSRSS 130 RGPAGSRGRG K

References

[1]	"Comparisons among the larger genome segments of six nodaviruses and their encoded RNA replicases." Johnson K.N., Johnson K.L., Dasgupta R., Gratsch T., Ball L.A. J. Gen. Virol. 82:1855-1866(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Recovery of infectivity from cDNA clones of nodamura virus and identification of small nonstructural proteins." Johnson K.L., Price B.D., Ball L.A. Virology 305:436-451(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 917-942; 947-955; 960-978 AND 994-1001, ALTERNATIVE INITIATION.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF174533 Genomic RNA. Translation: AAF97860.1.
RefSeq	NP_077730.1. NC_002690.1.
3D structure databases
ProteinModelPortal	Q9IMM4.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	962117.
Family and domain databases
InterPro	IPR001205. RNA-dir_pol_C. IPR007094. RNA-dir_pol_PSvirus. [Graphical view]
Pfam	PF00680. RdRP_1. 1 hit. [Graphical view]
PROSITE	PS50507. RDRP_SSRNA_POS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RDRP_NODAM

Accession

Primary (citable) accession number: Q9IMM4

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 16, 2002
Last sequence update:	October 1, 2000
Last modified:	May 1, 2013
This is version 45 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program