Reviewed, UniProtKB/Swiss-Prot A9JR23 (L_TAMVU)

Names and origin

Protein names

Recommended name:
    RNA-directed RNA polymerase
    EC=2.7.7.48
Alternative name(s):
    Protein L

Gene names

Name:

L

Organism

Tamiami virus (isolate Rat/United States/W 10777/1964) (TAMV)

Taxonomic identifier

45223 [NCBI]

Taxonomic lineage

Viruses › ssRNA negative-strand viruses › Arenaviridae › Arenavirus › New world arenaviruses

Virus host

Sigmodon hispidus (Hispid cotton rat) [TaxID: 42415]

Protein attributes

Sequence length	2221 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	RNA-dependent RNA polymerase which is responsible for replication and transcription of the viral RNA genome. During transcription, synthesizes 4 subgenomic RNAs, and assures their capping by a cap-snatching mechanism, in which cellular capped pre-mRNA are used to generate primers for viral transcription. The 3'-end of subgenomic mRNAs molecules are heterogeneous and not polyadenylated. The replicase function is to direct synthesis of antigenomic and genomic RNA which are encapsidated and non capped. As a consequence of the use of the same enzyme for both transcription and replication, these mechanisms need to be well coordinated. These processes may be regulated by proteins N and Z in a dose-dependent manner By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Subunit structure	Homomultimerizes; the oligomeric structure is essential for the polymerase activity. Interacts with the nucleocapsid protein N By similarity. Interacts with protein Z; this interaction inhibits viral transcription and replication By similarity.
Subcellular location	Virion. Host cytoplasm.
Sequence similarities	Belongs to the arenaviridae RNA polymerase family. Contains 1 RdRp catalytic domain.

Ontologies

Keywords
Biological process	RNA replication
Cellular component	Host cytoplasm Virion
Ligand	Nucleotide-binding
Molecular function	Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Gene Ontology (GO)
Biological process	transcription, RNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW viral genome replication Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-KW host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell virion Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 2221	2221	RNA-directed RNA polymerase		PRO_0000361647
Regions
	Domain	1171 – 1369	199	RdRp catalytic
Natural variations
	Natural variant	402	1	K → R
	Natural variant	549	1	R → G
	Natural variant	555 – 556	2	LM → KV

Sequences

	Sequence		Length	Mass (Da)
	A9JR23-1 [UniParc]. Last modified February 5, 2008. Version 1. Checksum: DACEAA7C0EBF280F	FASTA	2,221	254,530
	10 20 30 40 50 60 MSECLTYFNE LKDLVRKWVP DEDTYVEQKT VLLSQVNFSS IVTEGLKLLS TLIEVDSCVK 70 80 90 100 110 120 HGCIHNRSKT VNQILYDHRI VGPTLPDVVP DGYRVSGSTL ILLETFVRVN QESFECKYRH 130 140 150 160 170 180 DFEKLMQLSK DLAKCGLTLV PVIDGRSSYY IERLPDWVIE RMRWLLLRIM SNLRDSGEKI 190 200 210 220 230 240 EEMEYERLVH SLSNMENQNL GLESLASLRE EGLDYKTRLT KTLKEGIYSN MTTSECRVGI 250 260 270 280 290 300 AKLYDHFCLL RDSGQYEDVY TTTSRSEMIT WLKTHELVQM SSSERETLIE AETCKFCQIH 310 320 330 340 350 360 MYAVLKDLVL LRKGWKGSRC RDANEILAHK SLLSDCNKIK GLKVLNTRRN TLLCLDIIVL 370 380 390 400 410 420 NSLINLIKLQ YTDLQYLINN HFKSVNDRLV SVDLIINKLD KKLTSDPNWL CKLRTKIGHK 430 440 450 460 470 480 LKIYDLDHVI SWLRPIEVSH WYEFKLERDN SGECVKPTIK YKKSGVGDCQ GEDCNKDVIT 490 500 510 520 530 540 DDSTFSDYLD ALSTLSMGLM NSMKTSSATK LVVNDERNYF GTVQCDECYF QDLDINYGTT 550 560 570 580 590 600 LIYQKTGERT RCYGLMSKEG GGPDVYKVGK SFYADPKRYF LPIMSSEVIL KMCREMLSWL 610 620 630 640 650 660 DWLSEKEMMD VRTKLYTLVI SILTVPSKRV QIYLQGFRYF IMAYVNEFHV KELVCKLKVK 670 680 690 700 710 720 PLTRAELSVF TQMDDLVALL LTGTSEEHMT KSFKFILNLS YLCHLITKET PDRLTDQIKC 730 740 750 760 770 780 FEKFLEPKLT FNSVILNLDS SPQLTEGTEE KIIGDLKKLF SKDLGVLDLK EPGVSKEVLS 790 800 810 820 830 840 LCSSCFNNGM LSLPKVLSRD PQSPSFTSTA LDISSNKSVV VPKLNEVGET ITQYDYQSLL 850 860 870 880 890 900 SSVVVEMAQS FKDKLRFKLD RRSLQYAIYK RLTNMVSKNE FRSKDDPNDS GILEDIEDLV 910 920 930 940 950 960 DEGTHKLINE IEANVSDCLS KMSSGCNKSN QSSKGLKKFE KVDLLQKLWS REYMSLILSE 970 980 990 1000 1010 1020 TSFHEVKDFD PSLLPSESYQ EMCDAVYDSV YRNEFFTEKF LKLCPLELLI KNLATKHYEE 1030 1040 1050 1060 1070 1080 GDYFECFKYL LIGAGCDNRV GRFDHRSRAR LGFKDTATLV KEESRISSRE SNSEAISKRL 1090 1100 1110 1120 1130 1140 DKSFFTNSSL RNLCFYSEES PTYRSSVSSS VGKLKFGLSY KEQVGSNREL YIGDLNTKLT 1150 1160 1170 1180 1190 1200 SRLIEDYFES LTSECRFSCL NNDSEFERAL LDMKSVVRLS GLAVSLDHSK WGPYMSPAIF 1210 1220 1230 1240 1250 1260 NALFSNLDLQ LKDGGLIDKS PIENLLNWHL HKIVEVPYNV VEAYLKGYTK RSLGLMDRSS 1270 1280 1290 1300 1310 1320 SSMTEDYFFR QFAKGVVPSH ITSVLDMGQG ILHNASDYYG LLTEQFITLC LELCFDVKMT 1330 1340 1350 1360 1370 1380 AYTSSDDEIM LSNSYSLKRE SDDDLLDMEK CKEILEFHYY LSSKLNKFIS PKTVAGSFAS 1390 1400 1410 1420 1430 1440 EFKSRFFIWS QEVPLLTKFV AAALHNVKAK SPHQLAETID TILDQCAANG VSIEIINELS 1450 1460 1470 1480 1490 1500 KRTNRLISYS GHPVDPFLCV FTTDLKDWVD GSRGYRLQRS IESIINSEEI LSTIRDSCRQ 1510 1520 1530 1540 1550 1560 LFYMIRSGRI QEEYLISALQ SSPDDCLRQM LKITGTNDSL IEEALTTRWL NLRAFGDLRL 1570 1580 1590 1600 1610 1620 VLRTKIMTGT RILDKEEVPS LIKSVQSKLS KNFVRGAKKI ITDAINKSAF QSSICSGFIG 1630 1640 1650 1660 1670 1680 LCKSMGSKCV RDGSGGFIYI KDLLKKIDRH TNCEVCCPLL SVFCEHSLRQ VAPYSRPLLW 1690 1700 1710 1720 1730 1740 DYFSLTFSNA CELGNWVFSK VELPRPPLGS MNPNFFWPVK PGSHSELEDK VNMNHVLYSI 1750 1760 1770 1780 1790 1800 KRNFPDLFDE HIAPFLSDLN SLKVSWVQRI KFLDLCVAMD MSSECLGIIS HIMRKRREEL 1810 1820 1830 1840 1850 1860 YIVKQEELSV CHIRESCSLE KGLQLNSVEI CQNFLTQLLF ESMLNPVLLS TSQFKKYFWY 1870 1880 1890 1900 1910 1920 GEVEFLPNDA DHDLGQLTQF IMDCKLLNIS RCMCLDDLDV GYVHSKIELS QVFINLSTFI 1930 1940 1950 1960 1970 1980 NLVDWENRES YQSFDEVLIH SNADHIPLEI GIILSHTRKS FKFRYERKTN YYVKCGITIQ 1990 2000 2010 2020 2030 2040 KSEISSFSTT LSDGFELHVE EIDCYVSGSE GDHISLDGVG LVPLHPLFSG KEALDLNKLL 2050 2060 2070 2080 2090 2100 SDQDIEFKQI SLVFSKVKLD FKDHVKDLKN KFSYKLQGPE QGLEPLHLDK GQIMERNTVV 2110 2120 2130 2140 2150 2160 SRLEVPVTSR SLFLALEALD PGNRPRFLSS LHEYMRKRPG KKDPCFVRMT QQDLCLLVEL 2170 2180 2190 2200 2210 2220 YEAAFMQVLS AVSDWIEFGC FALCFSKTLN CIMIADDGGD YRLKGRPCKT LSAQKTLTDI E

References

[1]	"Principal host relationships and evolutionary history of the North American arenaviruses." Cajimat M.N., Milazzo M.L., Hess B.D., Rood M.P., Fulhorst C.F. Virology 367:235-243(2007) [PubMed: 17624390] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Phylogeny of the genus Arenavirus." Charrel R.N., de Lamballerie X., Emonet S. Curr. Opin. Microbiol. 11:362-368(2008) [PubMed: 18602020] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AY924393 Genomic RNA. Translation: AAX99349.1. EU627614 Genomic RNA. Translation: ACC94304.1.
RefSeq	YP_001911118.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	6301275.
Family and domain databases
InterPro	IPR014386. RNA-dir_pol_arenavirus. IPR007099. RNA-dir_pol_NSvirus. IPR010453. RNA_pol_arenavir. [Graphical view]
Pfam	PF06317. Arena_RNA_pol. 1 hit. [Graphical view]
PIRSF	PIRSF000836. L_ArenaV. 1 hit.
PROSITE	PS50525. RDRP_SSRNA_NEG_SEG. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

L_TAMVU

Accession

Primary (citable) accession number: A9JR23
Secondary accession number(s): B2MW53

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 20, 2009
Last sequence update:	February 5, 2008
Last modified:	November 3, 2009
This is version 13 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Virus (Virus annotation project)