Q997F0 (L_NIPAV) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
RNA-directed RNA polymerase L
Short name=Protein L

Alternative name(s):
Large structural protein
Replicase
Transcriptase

Including the following 3 domains:

1. RNA-directed RNA polymerase
   EC=2.7.7.48
2. mRNA (guanine-N(7)-)-methyltransferase
   EC=2.1.1.56
3. mRNA guanylyltransferase
   EC=2.7.7.-

Gene names

Name:

L

Organism

Nipah virus [Complete proteome]

Taxonomic identifier

121791 [NCBI]

Taxonomic lineage

Viruses › ssRNA negative-strand viruses › Mononegavirales › Paramyxoviridae › Paramyxovirinae › Henipavirus

Virus host

Pteropus hypomelanus (Island flying fox) (Variable flying fox) [TaxID: 9405]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
Cynopterus brachyotis (Lesser short-nosed fruit bat) (Pachysoma brachyotis) [TaxID: 58060]
Eonycteris spelaea (Lesser dawn bat) (Macroglossus spelaeus) [TaxID: 58065]
Pteropus vampyrus (Large flying fox) [TaxID: 132908]
Scotophilus kuhlii (Lesser asiatic yellow bat) [TaxID: 153297]

Protein attributes

Sequence length	2244 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Displays RNA-directed RNA polymerase, mRNA guanylyl transferase, mRNA (guanine-N(7)-)-methyltransferase and poly(A) synthetase activities. The viral mRNA guanylyl transferase displays a different biochemical reaction than the cellular enzyme. The template is composed of the viral RNA tightly encapsidated by the nucleoprotein (N). Functions either as transcriptase or as replicase. The transcriptase synthesizes subsequently the subgenomic RNAs, assuring their capping and polyadenylation by a stuttering mechanism. The transcriptase stutters on a specific sequence, resulting on a cotranscriptional editing of the phosphoprotein (P) mRNA. The replicase mode is dependent on intracellular N protein concentration. In this mode, the polymerase replicates the whole viral genome without recognizing the transcriptional signals By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). S-adenosyl-L-methionine + G(5')pppR-RNA = S-adenosyl-L-homocysteine + m7G(5')pppR-RNA.
Subunit structure	Interacts with the P protein By similarity.
Subcellular location	Virion Potential. Host cytoplasm By similarity.
Sequence similarities	Belongs to the paramyxovirus L protein family. Contains 1 RdRp catalytic domain.

Ontologies

Keywords
Biological process	RNA replication mRNA capping mRNA processing
Cellular component	Host cytoplasm Virion
Ligand	ATP-binding Nucleotide-binding S-adenosyl-L-methionine
Molecular function	Methyltransferase Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Technical term	Complete proteome Multifunctional enzyme
Gene Ontology (GO)
Biological process	RNA biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW mRNA capping Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: InterPro host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell virion Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW mRNA (guanine-N7-)-methyltransferase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 2244	2244	RNA-directed RNA polymerase L		PRO_0000236011
Regions
	Domain	715 – 899	185	RdRp catalytic
	Nucleotide binding	1840 – 1849	10	ATP Potential
Natural variations
	Natural variant	223	1	T → N in strain: Isolate NiV/MY/99/VRI-0626.
	Natural variant	1645	1	S → F in strain: Isolate NiV/MY/99/UM-0128, Isolate NiV/MY/99/VRI-2794, Isolate UMMC1 and Isolate NiV/MY/99/VRI-0626.
	Natural variant	1753	1	M → V in strain: Isolate NiV/MY/99/VRI-0626.
	Natural variant	2039	1	H → N in strain: Isolate NiV/MY/99/VRI-0626.

Sequences

	Sequence		Length	Mass (Da)
	Q997F0 [UniParc]. Last modified June 1, 2001. Version 1. Checksum: 1DE123E651A738C9	FASTA	2,244	257,233
	10 20 30 40 50 60 MADELSISDI IYPECHLDSP IVSGKLISAI EYAQLRHNQP SDDKRLSENI RLNLHGKRKS 70 80 90 100 110 120 LYILRQSKQG DYIRNNIKNL KEFMHIAYPE CNNILFSITS QGMTSKLDNI MKKSFKAYNI 130 140 150 160 170 180 ISKKVIGMLQ NITRNLITQD RRDEIINIHE CRRLGDLGKN MSQSKWYECF LFWFTIKTEM 190 200 210 220 230 240 RAVIKNSQKP KFRSDSCIIH MRDKSTEIIL NPNLICIFKS DKTGKKCYYL TPEMVLMYCD 250 260 270 280 290 300 VLEGRMMMET TVKSDIKYQP LISRSNALWG LIDPLFPVMG NRIYNIVSMI EPLVLALLQL 310 320 330 340 350 360 KDEARILRGA FLHHCIKEMH QELSECGFTD QKIRSMFIDD LLSILNIDNI HLLAEFFSFF 370 380 390 400 410 420 RTFGHPILEA KVAAEKVREH MLADKVLEYA PIMKAHAIFC GTIINGYRDR HGGAWPPLYL 430 440 450 460 470 480 PAHASKHIIR LKNSGESLTI DDCVKNWESF CGIQFDCFME LKLDSDLSMY MKDKALSPIK 490 500 510 520 530 540 DEWDSVYPRE VLSYTPPKST EPRRLVDVFV NDENFDPYNM LEYVLSGAYL EDEQFNVSYS 550 560 570 580 590 600 LKEKETKQAG RLFAKMTYKM RACQVIAEAL IASGVGKYFK ENGMVKDEHE LLKTLFQLSI 610 620 630 640 650 660 SSVPRGNSQG NDPQSINNIE RDFQYFKGVT TNVKDKKNNS FNKVKSALNN PCQADGVHHN 670 680 690 700 710 720 MSPNTRNRYK CSNTSKSFLD YHTEFNPHNH YKSDNTEAAV LSRYEDNTGT KFDTVSAFLT 730 740 750 760 770 780 TDLKKFCLNW RYESMAIFAE RLDEIYGLPG FFNWMHKRLE RSVIYVADPN CPPNIDKHME 790 800 810 820 830 840 LEKTPEDDIF IHYPKGGIEG YSQKTWTIAT IPFLFLSAYE TNTRIAAIVQ GDNESIAITQ 850 860 870 880 890 900 KVHPNLPYKV KKEICAKQAQ LYFERLRMNL RALGHNLKAT ETIISTHLFI YSKKIHYDGA 910 920 930 940 950 960 VLSQALKSMS RCCFWSETLV DETRSACSNI STTIAKAIEN GLSRNVGYCI NILKVIQQLL 970 980 990 1000 1010 1020 ISTEFSINET LTLDVTSPIS NNLDWLITAA LIPAPIGGFN YLNLSRIFVR NIGDPVTASL 1030 1040 1050 1060 1070 1080 ADLKRMIDHS IMTESVLQKV MNQEPGDASF LDWASDPYSG NLPDSQSITK TIKNITARTI 1090 1100 1110 1120 1130 1140 LRNSPNPMLK GLFHDKSFDE DLELASFLMD RRVILPRAAH EILDNSLTGA REEIAGLLDT 1150 1160 1170 1180 1190 1200 TKGLIRSGLR KSGLQPKLVS RLSHHDYNQF LILNKLLSNR RQNDLISSNT CSVDLARALR 1210 1220 1230 1240 1250 1260 SHMWRELALG RVIYGLEVPD ALEAMVGRYI TGSLECQICE QGNTMYGWFF VPRDSQLDQV 1270 1280 1290 1300 1310 1320 DREHSSIRVP YVGSSTDERS DIKLGNVKRP TKALRSAIRI ATVYTWAYGD NEECWYEAWY 1330 1340 1350 1360 1370 1380 LASQRVNIDL DVLKAITPVS TSNNLSHRLR DKSTQFKFAG SVLNRVSRYV NISNDNLDFR 1390 1400 1410 1420 1430 1440 IEGEKVDTNL IYQQAMLLGL SVLEGKFRLR LETDDYNGIY HLHVKDNCCV KEVADVGQVD 1450 1460 1470 1480 1490 1500 AELPIPEYTE VDNNHLIYDP DPVSEIDCSR LSNQESKSRE LDFPLWSTEE LHDVLAKTVA 1510 1520 1530 1540 1550 1560 QTVLEIITKA DKDVLKQHLA IDSDDNINSL ITEFLIVDPE LFALYLGQSI SIKWAFEIHH 1570 1580 1590 1600 1610 1620 RRPRGRHTMV DLLSDLVSNT SKHTYKVLSN ALSHPRVFKR FVNCGLLLPT QGPYLHQQDF 1630 1640 1650 1660 1670 1680 EKLSQNLLVT SYMIYLMNWC DFKKSPFLIA EQDETVISLR EDIITSKHLC VIIDLYANHH 1690 1700 1710 1720 1730 1740 KPPWIIDLNP QEKICVLRDF ISKSRHVDTS SRSWNTSDLD FVIFYASLTY LRRGIIKQLR 1750 1760 1770 1780 1790 1800 IRQVTEVIDT TTMLRDNIIV ENPPIKTGVL DIRGCIIYNL EEILSMNTKS ASKKIFNLNS 1810 1820 1830 1840 1850 1860 RPSVENHKYR RIGLNSSSCY KALNLSPLIQ RYLPSGAQRL FIGEGSGSMM LLYQSTLGQS 1870 1880 1890 1900 1910 1920 ISFYNSGIDG DYIPGQRELK LFPSEYSIAE EDPSLTGKLK GLVVPLFNGR PETTWIGNLD 1930 1940 1950 1960 1970 1980 SYEYIINRTA GRSIGLVHSD MESGIDKNVE EILVEHSHLI SIAINVMMED GLLVSKIAYT 1990 2000 2010 2020 2030 2040 PGFPISRLFN MYRSYFGLVL VCFPVYSNPD STEVYLLCLQ KTVKTIVPPQ KVLEHSNLHD 2050 2060 2070 2080 2090 2100 EVNDQGITSV IFKIKNSQSK QFHDDLKKYY QIDQPFFVPT KITSDEQVLL QAGLKLNGPE 2110 2120 2130 2140 2150 2160 ILKSEISYDI GSDINTLRDT IIIMLNEAMN YFDDNRSPSH HLEPYPVLER TRIKTIMNCV 2170 2180 2190 2200 2210 2220 TKKVIVYSLI KFKDTKSSEL YHIKNNIRRK VLILDFRSKL MTKTLPKGMQ ERREKNGFKE 2230 2240 VWIVDLSNRE VKIWWKIIGY ISII

References

[1]	"Nipah virus: a recently emergent deadly paramyxovirus." Chua K.B., Bellini W.J., Rota P.A., Harcourt B.H., Tamin A., Lam S.K., Ksiazek T.G., Rollin P.E., Zaki S.R., Shieh W., Goldsmith C.S., Gubler D.J., Roehrig J.T., Eaton B., Gould A.R., Olson J., Field H., Daniels P. , Ling A.E., Peters C.J., Anderson L.J., Mahy B.W. Science 288:1432-1435(2000) [PubMed: 10827955] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Molecular characterization of the polymerase gene and genomic termini of Nipah virus." Harcourt B.H., Tamin A., Halpin K., Ksiazek T.G., Rollin P.E., Bellini W.J., Rota P.A. Virology 287:192-201(2001) [PubMed: 11504554] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[3]	"Complete nucleotide sequences of Nipah virus isolates from Malaysia." Chan Y.P., Chua K.B., Koh C.L., Lim M.E., Lam S.K. J. Gen. Virol. 82:2151-2155(2001) [PubMed: 11514724] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate UMMC1 and Isolate UMMC2.
[4]	"Isolation and molecular identification of Nipah virus from pigs." Abubakar S., Chang L.Y., Mohdali A.R., Sharifah S.H., Yusoff K., Zamrod Z. Emerg. Infect. Dis. 10:2228-2230(2004) [PubMed: 15663869] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate NiV/MY/99/UM-0128 and Isolate NV/MY/99/VRI-1413,and Isolate NiV/MY/99/VRI-2794.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF212302 Genomic RNA. Translation: AAK29089.1. AY029768 Genomic RNA. Translation: AAK50555.1. AJ564622 Genomic RNA. Translation: CAD92358.1. AY029767 Genomic RNA. Translation: AAK50546.1. AJ564621 Genomic RNA. Translation: CAD92352.1. AJ564623 Genomic RNA. Translation: CAD92364.1. AJ627196 Genomic RNA. Translation: CAF25498.1.
RefSeq	NP_112028.1. NC_002728.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	920950.
Family and domain databases
InterPro	IPR014023. RNA-dir_pol_cat. IPR016269. RNA-dir_pol_paramyxovirus. IPR024352. RNA_pol_cap_MeTfrase. [Graphical view]
Pfam	PF12803. G-7-MTase. 1 hit. PF00946. Paramyx_RNA_pol. 1 hit. [Graphical view]
PIRSF	PIRSF000830. RNA_pol_ParamyxoV. 1 hit.
PROSITE	PS50526. RDRP_SSRNA_NEG_NONSEG. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

L_NIPAV

Accession

Primary (citable) accession number: Q997F0
Secondary accession number(s): Q5K4D7, Q914E5

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 16, 2006
Last sequence update:	June 1, 2001
Last modified:	January 25, 2012
This is version 53 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program