P52639 (L_BDVV) 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

Borna disease virus (strain V) (BDV) [Reference proteome]

Taxonomic identifier

928296 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA negative-strand viruses › Mononegavirales › Bornaviridae › Bornavirus › Borna disease virus

Virus host

Bos taurus (Bovine) [TaxID: 9913]
Bradypodidae (three-fingered sloths) [TaxID: 9352]
Capra hircus (Goat) [TaxID: 9925]
Cervidae (deer) [TaxID: 9850]
Crocidura leucodon (Bicoloured white-toothed shrew) (Celebes shrew) [TaxID: 109474]
Equidae (horses) [TaxID: 9788]
Felis catus (Cat) (Felis silvestris catus) [TaxID: 9685]
Hexaprotodon liberiensis (Pygmy hippopotamus) (Choeropsis liberiensis) [TaxID: 56798]
Lama glama (Llama) [TaxID: 9844]
Lama guanicoe pacos (Alpaca) (Lama pacos) [TaxID: 30538]
Oryctolagus cuniculus (Rabbit) [TaxID: 9986]
Ovis aries (Sheep) [TaxID: 9940]
Struthio camelus (Ostrich) [TaxID: 8801]
Varecia variegata (Black-and-white ruffed lemur) (Lemur variegatus) [TaxID: 9455]

Protein attributes

Sequence length	1711 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

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 three subgenomic RNAs, assuring their capping and polyadenylation by a stuttering mechanism. In replicase 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. Ref.3
Subcellular location	Virion Potential. Host nucleus Ref.4.
Sequence similarities	Contains 1 RdRp catalytic domain.
Sequence caution	The sequence AAA20228.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Viral RNA replication mRNA capping mRNA processing
Cellular component	Host nucleus Virion
Coding sequence diversity	Alternative splicing
Ligand	ATP-binding Nucleotide-binding S-adenosyl-L-methionine
Molecular function	Methyltransferase Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Technical term	Complete proteome Multifunctional enzyme Reference proteome
Gene Ontology (GO)
Biological_process	RNA (guanine-N7)-methylation Inferred from electronic annotation. Source: GOC
Cellular_component	host cell cytoplasm Inferred from electronic annotation. Source: InterPro host cell nucleus 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...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform Large structural protein (identifier: P52639-1)

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 Matrix protein (identifier: P0C795-1)

The sequence of this isoform can be found in the external entry P0C795.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Isoform Envelope glycoprotein p57 precursor (identifier: P52638-1)

The sequence of this isoform can be found in the external entry P52638.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1711	1711	RNA-directed RNA polymerase L		PRO_0000079207
Regions
	Domain	543 – 715	173	RdRp catalytic
	Motif	844 – 852	9	Nuclear localization signal
Natural variations
	Natural variant	1526	1	A → G.

Sequences

	Sequence		Length	Mass (Da)
	Isoform Large structural protein [UniParc]. Last modified December 20, 2005. Version 2. Checksum: 554DF018E0E17877	FASTA	1,711	191,734
	10 20 30 40 50 60 MSFHASLLRE EETPRPVAGI NRTDQSLKNP LLGTEVSFCL KSSSLPHHVR ALGQIKARNL 70 80 90 100 110 120 ASCDYYLLFR QVVLPPEVYP IGVLIRAAEA ILTVIVSAWK LDHMTKTLYS SVRYALTNPR 130 140 150 160 170 180 VRAQLELHIA YQRIVGQVSY SREADIGPKR LGNMSLQFIQ SLVIATIDTT SCLMTYNHFL 190 200 210 220 230 240 AAADTAKSRC HLLIASVVQG ALWEQGSFLD HIINMIDIID SINLPHDDYF TIIKSIFPYS 250 260 270 280 290 300 QGLVMGRHNV SVSSDFASVF AIPELCPQLD SLLKKLLQLD PVLLLMVSSV QKSWYFPEIR 310 320 330 340 350 360 MVDGSREQLH KMRVELETPQ ALLSYGHTLL SIFRAEFIKG YVSKNAKWPP VHLLPGCDKS 370 380 390 400 410 420 IKNARELGRW SPAFDRRWQL FEKVVILRIA DLDMDPDFND IVSDKAIISS RRDWVFEYNA 430 440 450 460 470 480 AAFWKKYGER LERPPARSGP SRLVNALIDG RLDNIPALLE PFYRGAVEFE DRLTVLVPKE 490 500 510 520 530 540 KELKVKGRFF SKQTLAIRIY QVVAEAALKN EVMPYLKTHS MTMSSTALTH LLNRLSHTIT 550 560 570 580 590 600 KGDSFVINLD YSSWCNGFRP ELQAPICRQL DQMFNCGYFF RTGCTLPCFT TFIIQDRFNP 610 620 630 640 650 660 PYSLSGEPVE DGVTCAVGTK TMGEGMRQKL WTILTSCWEI IALREINVTF NILGQGDNQT 670 680 690 700 710 720 IIIHKSASQN NQLLAERALG ALYKHARLAG HNLKVEECWV SDCLYEYGKK LFFRGVPVPG 730 740 750 760 770 780 CLKQLSRVTD STGELFPNLY SKLACLTSSC LSAAMADTSP WVALATGVCL YLIELYVELP 790 800 810 820 830 840 PAIIQDESLL TTLCLVGPSI GGLPTPATLP SVFFRGMSDP LPFQLALLQT LIKTTGVTCS 850 860 870 880 890 900 LVNRVVKLRI APYPDWLSLV TDPTSLNIAQ VYRPERQIRR WIEEAIATSS HSSRIATFFQ 910 920 930 940 950 960 QPLTEMAQLL ARDLSTMMPL RPRDMSALFA LSNVAYGLSI IDLFQKSSTV VSASQAVHIE 970 980 990 1000 1010 1020 DVALESVRYK ESIIQGLLDT TEGYNMQPYL EGCTYLAAKQ LRRLTWGRDL VGVTMPFVAE 1030 1040 1050 1060 1070 1080 QFHPHSSVGA KAELYLDAII YCPQETLRSH HLTTRGDQPL YLGSNTAVKV QRGEITGLAK 1090 1100 1110 1120 1130 1140 SRAANLVKDT LVLHQWYKVR KVTDPHLNTL MARFLLEKGY TSDARPSIQG GTLTHRLPSR 1150 1160 1170 1180 1190 1200 GDSRQGLTGY VNILSTWLRF SSDYLHSFSK SSDDYTIHFQ HVFTYGCLYA DSVIRSGGVI 1210 1220 1230 1240 1250 1260 STPYLLSASC KTCFEKIDSE EFVLACEPQY RGAEWLISKP VTVPEQITDA EVEFDPCVSA 1270 1280 1290 1300 1310 1320 SYCLGILIGK SFLVDIRASG HDIMEQRTWA NLERFSVSDM QKLPWSIVIR SLWRFLIGAR 1330 1340 1350 1360 1370 1380 LLQFEKAGLI RMLYAATGPT FSFLMKVFQD SALLMDCAPL DRLSPRINFH SRGDLVAKLV 1390 1400 1410 1420 1430 1440 LLPFINPGIV EIEVSGINSK YHAVSEANMD LYIAAAKSVG VKPTQFVEET NDFTARGHHH 1450 1460 1470 1480 1490 1500 GCYSLSWSKS RNQSQVLKMV VRKLKLCVLY IYPTVDPAVA LDLCHLPALT IILVLGGDPA 1510 1520 1530 1540 1550 1560 YYERLLEMDL CGAVSSRVDI PHSLAARTHR GFAVGPDAGP GVIRLDRLES VCYAHPCLEE 1570 1580 1590 1600 1610 1620 LEFNAYLDSE LVDISDMCCL PLATPCKALF RPIYRSLQSF RLALMDNYSF VMDLIMIRGL 1630 1640 1650 1660 1670 1680 DIRPHLEEFD ELLVVGQHIL GQPVLVEVVY YVGVVRKRPV LARHPWSADL KRITVGGRAP 1690 1700 1710 CPSAARLRDE DCQGSLLVGL PAGLTQLLII D
	Isoform Matrix protein [UniParc]. See P0C795.		–	–
	Isoform Envelope glycoprotein p57 precursor [UniParc]. See P52638.		–	–

References

[1]	"Genomic organization of Borna disease virus." Briese T., Schneemann A., Lewis A.J., Park Y.-S., Kim S., Ludwig H., Lipkin W.I. Proc. Natl. Acad. Sci. U.S.A. 91:4362-4366(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Conservation of coding potential and terminal sequences in four different isolates of Borna disease virus." Pleschka S., Staeheli P., Kolodziejek J., Richt J.A., Nowotny N., Schwemmle M. J. Gen. Virol. 82:2681-2690(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: V/FR.
[3]	"Expression and characterization of the Borna disease virus polymerase." Walker M.P., Jordan I., Briese T., Fischer N., Lipkin W.I. J. Virol. 74:4425-4428(2000) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH P PROTEIN.
[4]	"Characterization of the nuclear localization signal of the borna disease virus polymerase." Walker M.P., Lipkin W.I. J. Virol. 76:8460-8467(2002) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION.
[5]	"Borna disease virus and infection in humans." Ikuta K., Ibrahim M.S., Kobayashi T., Tomonaga K. Front. Biosci. 7:470-495(2002) [PubMed] [Europe PMC] [Abstract] Cited for: REVIEW.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U04608 Genomic RNA. Translation: AAA20228.1. Different initiation. AJ311521 Genomic RNA. Translation: CAC70639.1.
RefSeq	NP_042024.2. NC_001607.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1494405.
Family and domain databases
InterPro	IPR026890. Mononeg_mRNAcap. IPR014023. Mononeg_RNA_pol_cat. IPR025786. RNA-direct_RNA_pol_L. [Graphical view]
Pfam	PF14318. Mononeg_mRNAcap. 1 hit. PF00946. Mononeg_RNA_pol. 1 hit. [Graphical view]
PROSITE	PS50526. RDRP_SSRNA_NEG_NONSEG. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

L_BDVV

Accession

Primary (citable) accession number: P52639
Secondary accession number(s): Q912Z6

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	December 20, 2005
Last modified:	May 1, 2013
This is version 77 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program