Q91TW9 (POLG_MRFVC) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Genome polyprotein

Cleaved into the following 2 chains:

1. RNA replication protein
2. Capsid protein CP1
   Short name=CP1
   Alternative name(s):
   Coat protein

Including the following 3 domains:

1. RNA-directed RNA polymerase
   EC=2.7.7.48
2. Helicase
   EC=3.6.4.13
3. Methyltransferase
   EC=2.1.1.-

Gene names

ORF Names:

ORF1

Organism

Maize rayado fino virus (isolate Costa Rica/Guapiles) (MRFV) [Reference proteome]

Taxonomic identifier

652669 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Tymovirales › Tymoviridae › Marafivirus › Maize rayado fino virus

Virus host

Zea mays (Maize) [TaxID: 4577]

Protein attributes

Sequence length	2027 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Predicted

General annotation (Comments)

Function	RNA replication protein replicates the viral genomic RNA. The central part of this protein possibly functions as an ATP-binding helicase and/or methyltransferase Probable. Ref.2 Capsid protein CP1 and CP2 assemble to form an icosahedral capsid, about 30 nm in diameter, and consisting of capsid proteins CP1 and CP2 in a 1:3 ratio. The capsid encapsulates the single-stranded RNA genome. While CP1 is produced as a C-terminal fusion of the replication protein, CP2 may be expressed from a 3'-co-terminal subgenomic RNA. Ref.2
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). ATP + H2O = ADP + phosphate.
Subcellular location	Capsid protein CP1: Virion Potential.
Sequence similarities	Contains 1 (+)RNA virus helicase ATP-binding domain. Contains 1 (+)RNA virus helicase C-terminal domain. Contains 1 RdRp catalytic domain.

Ontologies

Keywords
Biological process	Viral RNA replication
Cellular component	Virion
Coding sequence diversity	Alternative promoter usage
Ligand	ATP-binding Nucleotide-binding
Molecular function	Capsid protein Methyltransferase Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Technical term	Complete proteome Multifunctional enzyme Reference proteome
Gene Ontology (GO)
Biological_process	RNA processing Inferred from electronic annotation. Source: InterPro transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro
Cellular_component	viral capsid Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW mRNA methyltransferase activity Inferred from electronic annotation. Source: InterPro structural molecule activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

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

Isoform Genome polyprotein (identifier: Q91TW9-1)

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 Subgenomic capsid protein CP2 (identifier: Q91TW9-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1827: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 2027	2027	Genome polyprotein		PRO_0000402496
	Chain	1 – 1799	1799	RNA replication protein		PRO_0000402497
	Chain	1800 – 2027	228	Capsid protein CP1		PRO_0000402498
Regions
	Domain	881 – 1038	158	(+)RNA virus helicase ATP-binding
	Domain	1039 – 1171	133	(+)RNA virus helicase C-terminal
	Domain	1507 – 1613	107	RdRp catalytic
	Compositional bias	546 – 603	58	Pro-rich
	Compositional bias	605 – 612	8	Poly-Arg
Natural variations
	Alternative sequence	1 – 1827	1827	Missing in isoform Subgenomic capsid protein CP2.		VSP_040286

Sequences

	Sequence		Length	Mass (Da)
	Isoform Genome polyprotein [UniParc]. Last modified December 1, 2001. Version 1. Checksum: 77B46DC9950B0BF7	FASTA	2,027	223,738
	10 20 30 40 50 60 MSSFLRGGHL LSGVESLTPT THRDTITAPI VESLATPLRR SLERYPWSIP KEFHSFLHTC 70 80 90 100 110 120 GVDISGFGHA AHPHPVHKTI ETHLLLDVWP NYARGPSDVM FIKPEKFAKL QSRQPNFAHL 130 140 150 160 170 180 INYRLVPKDT TRYPSTSTNL PDCETVFMHD ALMYYTPGQI ADLFFLCPQL QKIYASVVVP 190 200 210 220 230 240 AESSFTHLSL HPEIYRFRFQ GSDLVYEPEG NPAANYTQPR SALDWLQTTG FTVGHEFFSV 250 260 270 280 290 300 TLLDSFGPVH SLLIQRGRPP VFQAEDIASF RVPDAVALPA PASLHQDLRH RLVPRKVYDA 310 320 330 340 350 360 LFNYVRAVRL RVTDPAGFVR TQVGKPEYSW VTSSAWDNLQ HFALQTAAVR PNTSHPLFQS 370 380 390 400 410 420 PFARLSHWLR THTWALWCLA SPSASVSAWA TASALGRLLP LHTDRLRLFG FDIIGRRFWP 430 440 450 460 470 480 RLPFHGPEPR FLWETHPACR PPVLFADSAF ECQILAGLAN RCSPSPFWSR LFPTASPPSW 490 500 510 520 530 540 VAYSALALAA VPLAALALRW FYGPDSPQAL HDQYHATFHP DPWTLDLPRR LRRFERESFM 550 560 570 580 590 600 RTGSAPLPQS LPPPEGSLLP VEPPPVPSDP EPALEPSPPA ASVPAPAPAL ASEPPPSPES 610 620 630 640 650 660 VAPSRRRRRA RRAAARAPSP SPALLGADLR FGDLPPVSAW DSDPEISKLG ESTQGTVFAV 670 680 690 700 710 720 TPGPRAPEPD TARLDADPSA SGPVMEFREL QKGAYIEPTG AFLTRARNSV SSSIPYPTRA 730 740 750 760 770 780 ACLLVAVSQA TGLPTRTLWA ALCANLPDSV LDDGSLATLG LTTDHFAVLA RIFSLRCRFV 790 800 810 820 830 840 SEHGDVELGL HDATSRFTIR HTPGHFELVA DNFSLPALVG ASSVPGADLA EACKRFVAPD 850 860 870 880 890 900 RTVLPFRDVH IHRTDVRRAK NLISNMKNGF DGVMAQANPL DPKSARERFL MLDSCLDIAA 910 920 930 940 950 960 PRRVRLIHIA GFAGCGKSWP ISHLLRTPAF RVFKLAVPTT ELRDEWKALM DPRDQDKWRF 970 980 990 1000 1010 1020 GTWESSLLKT ARVLVIDEVY KMPRGYLDLA IHADAAIQFV ILLGDPIQGE YHSTHPSSSN 1030 1040 1050 1060 1070 1080 ARLSPEHRYL RPYVDFYCFW SRRIPQNVAR VLDVPTTSTE MGFARYSQQF PFSGKILISA 1090 1100 1110 1120 1130 1140 RDSAKSLADC GYHAVTIASS QGSTIAGPAY VHLDNHSRRL SHQHSLVAIT RSKSGIVFTG 1150 1160 1170 1180 1190 1200 DKAAADGTSS ANLLFSAVLL DRRLSVRSLF SALLPCCPFV TEPPTSRAVL LRGAGYGIAR 1210 1220 1230 1240 1250 1260 PLRARDAPPL GPDYVGDVIL DSSAPILGDG SANAPQVSTH FLPETRRPLH FDIPSARHQV 1270 1280 1290 1300 1310 1320 ADHPLAPDHS ACAIEPVYPG ESFESLASLF LPPTDAESKE TYFRGEMSNQ FPHLDKPFEL 1330 1340 1350 1360 1370 1380 GAQTSSLLAP LHNSKHDPTL LPASIGKRLR FRHSEAPYVI APRDEILGSL LYEAWCRAYH 1390 1400 1410 1420 1430 1440 RSPRDVEPFD PDLYAECINL NEFAQLSSKT QATIMANANR SDPDWRWSAV RIFAKTQHKV 1450 1460 1470 1480 1490 1500 NEGSLFGSWK ACQTLALMHD AVVLLLGPVK KYQRFFDQRD RPSTLYVHAG HTPFEMADWC 1510 1520 1530 1540 1550 1560 RAHLTPAVKL ANDYTAFDQS QHGEAVVFER YKMNRLSIPA ELVDLHVYLK TNVSTQFGPL 1570 1580 1590 1600 1610 1620 TCMRLTGEPG TYDDNTDYNI AVLHLEYAVG STPLMVSGDD SLLDSEPPVR DQWSAIAPML 1630 1640 1650 1660 1670 1680 ALTFKKERGR YATFCGYYVG FTGAVRSPPA LFAKLMIAVD DGSISDKLIA YLTEFTVGHS 1690 1700 1710 1720 1730 1740 SGDAFWTILP VEAVPYQSAC FDFFCRRAPA QAKVMLRLGE APESLLSLAF EGLKWASHSV 1750 1760 1770 1780 1790 1800 YALMNSSHRR QLLHSSRRPR SLPEDPEVSQ LQGELLHQFQ SLHLPLRGGH MPNPLAAPFR 1810 1820 1830 1840 1850 1860 LLQQSSSLGP TYAVAPIARA PQVPPPSMAD NATQVGPVPP RDDRVDRQPP LPDPPRVLET 1870 1880 1890 1900 1910 1920 APSHFLDLPF QWKVTDFTGY AAYHGTDDLV ASAVLTTLCA PYRHAELLYV EISVAPCPPS 1930 1940 1950 1960 1970 1980 FSKPIMFTVV WTPATLSPRD GKETDYYGGR QITVGGPVML SSTTAVPADL ARMNPFIKSS 1990 2000 2010 2020 VSYNDTPRWT MSVPAVTGGD TKIPLATAFV RGIVRVRAPS GAATPSA
	Isoform Subgenomic capsid protein CP2 [UniParc]. Checksum: C931BF8A03D7DD46	FASTA	200	21,500
	10 20 30 40 50 60 MADNATQVGP VPPRDDRVDR QPPLPDPPRV LETAPSHFLD LPFQWKVTDF TGYAAYHGTD 70 80 90 100 110 120 DLVASAVLTT LCAPYRHAEL LYVEISVAPC PPSFSKPIMF TVVWTPATLS PRDGKETDYY 130 140 150 160 170 180 GGRQITVGGP VMLSSTTAVP ADLARMNPFI KSSVSYNDTP RWTMSVPAVT GGDTKIPLAT 190 200 AFVRGIVRVR APSGAATPSA

References

[1]	"Molecular characterization of the genome of Maize rayado fino virus, the type member of the genus Marafivirus." Hammond R.W., Ramirez P. Virology 282:338-347(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"The two capsid proteins of maize rayado fino virus contain common peptide sequences." Falk B.W., Tsai J.H. Intervirology 25:111-116(1986) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION OF CAPSID PROTEINS, IDENTIFICATION OF SUBGENOMIC CAPSID PROTEIN CP2.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF265566 Genomic RNA. Translation: AAK52838.1.
RefSeq	NP_115454.1. NC_002786.1.
3D structure databases
HSSP	HSSP built from PDB template 1E57 based on UniProtKB P36351.
ProteinModelPortal	Q91TW9.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR027351. (+)RNA_virus_helicase_core_dom. IPR008043. Peptidase_C21. IPR007094. RNA-dir_pol_PSvirus. IPR000574. Tymo_coat. IPR002588. Tymovirus_MeTrfase. IPR001788. Tymovirus_RNA-dep_RNA_pol. [Graphical view]
Pfam	PF05381. Peptidase_C21. 1 hit. PF00978. RdRP_2. 1 hit. PF00983. Tymo_coat. 1 hit. PF01443. Viral_helicase1. 1 hit. PF01660. Vmethyltransf. 1 hit. [Graphical view]
ProDom	PD003886. Tymo_coat. 1 hit. [Graphical view] [Entries sharing at least one domain]
PROSITE	PS51657. PSRV_HELICASE. 1 hit. PS50507. RDRP_SSRNA_POS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

POLG_MRFVC

Accession

Primary (citable) accession number: Q91TW9

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 30, 2010
Last sequence update:	December 1, 2001
Last modified:	May 1, 2013
This is version 57 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program