Probable DNA-directed RNA polymerase II subunit RPB1 homolog - Invertebrate iridescent virus 6 (IIV-6)

Preferred order of sections

Names and origin

Protein names

Recommended name:
Probable DNA-directed RNA polymerase II subunit RPB1 homolog
EC=2.7.7.6

Gene names

ORF Names:

IIV6-176R

Organism

Invertebrate iridescent virus 6 (IIV-6) (Chilo iridescent virus) [Reference proteome]

Taxonomic identifier

176652 [NCBI]

Taxonomic lineage

Viruses › dsDNA viruses, no RNA stage › Iridoviridae › Iridovirus

Virus host

Acheta domesticus (House cricket) [TaxID: 6997]
Chilo suppressalis (striped riceborer) [TaxID: 168631]
Gryllus bimaculatus (Two-spotted cricket) [TaxID: 6999]
Gryllus campestris [TaxID: 58607]
Spodoptera frugiperda (Fall armyworm) [TaxID: 7108]

Protein attributes

Sequence length	1026 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Component of the DNA-dependent RNA polymerase that catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Forms the polymerase active center together with the second largest subunit By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Sequence similarities	Belongs to the RNA polymerase beta' chain family.
Sequence caution	The sequence AAB33907.1 differs from that shown. Reason: Frameshift at position 39.

Ontologies

Keywords
Biological process	Transcription
Cellular component	DNA-directed RNA polymerase
Ligand	Magnesium Metal-binding Zinc
Molecular function	Nucleotidyltransferase Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion 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 – 1026

1026

Probable DNA-directed RNA polymerase II subunit RPB1 homolog

PRO_0000377495

Sites

Metal binding

62

1

Zinc 1 By similarity

Metal binding

65

1

Zinc 1 By similarity

Metal binding

72

1

Zinc 1 By similarity

Metal binding

75

1

Zinc 1 By similarity

Metal binding

102

1

Zinc 2 By similarity

Metal binding

105

1

Zinc 2 By similarity

Metal binding

142

1

Zinc 2 By similarity

Metal binding

588

1

Magnesium; catalytic By similarity

Metal binding

590

1

Magnesium; catalytic By similarity

Metal binding

592

1

Magnesium; catalytic By similarity

Experimental info

Sequence conflict

452

1

I → N Ref.1

Sequence conflict

452

1

I → N in AAB33907. Ref.2

Sequence conflict

651 – 652

2

LT → N Ref.1

Sequence conflict

651 – 652

2

LT → N in AAB33907. Ref.2

Sequences

Sequence

Length

Mass (Da)

Tools

O55766 [UniParc].

Last modified June 1, 1998. Version 1.
Checksum: C66698CBCE18BC7B
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FASTA

1,026

116,963

        10         20         30         40         50         60 
MSANNNMESE IKEIESISFG MMSSEDIRQM SSFEVKTAKI SSTNLLETVH DPKSGPIGSA 

        70         80         90        100        110        120 
PCETCHQNEW DCPGHFGHIE LNVPIIHPLF INHVVNILKI FCWKCNEFLL TKDHLELNNI 

       130        140        150        160        170        180 
LKLEKEKKFN AVLEKIKKCD RCVHCTTPRA DYKLVLNDIT YKTIYRTFSY QGGAVKTARD 

       190        200        210        220        230        240 
KKLNESREIV SAEMVKKIFD NIKLEYVEML GISHPKDFCL EVFPVIPSCC RPHEVQDGNI 

       250        260        270        280        290        300 
NDDDLTYQLM EIVKNNSMIG AIKLEKESME KQYPECLKVK EILLLSNVEK QKKEIDDFLK 

       310        320        330        340        350        360 
KPIKNGLKTK KKINKEEITP LDQYLKLHDK YVKYVNNLKF RIETYCNNSQ GKATHATTGR 

       370        380        390        400        410        420 
AIKGLRERLT GKEGQIRNNL LGKRCEMSAR TVIGPDPTLK IDEVIVPKEI AQSLTFPDFV 

       430        440        450        460        470        480 
NKHNIDRLTK LVNSGNAIRL VKKNESGQEI KINLAAAINN HGTPLQHDDI IKRPKITNNH 

       490        500        510        520        530        540 
EEKHNYEEKH NFDTFETIVI KDPKNFVLKE GDILFRNNFQ QKVVLPSKKF IKLEEGWIVH 

       550        560        570        580        590        600 
RYLQNGDILV LNRQPTLHKA SMMALRVKIM DVKTFKFNLA CTKPYNADFD GDEMNAHAPQ 

       610        620        630        640        650        660 
SEESKAELFT LSTPKQCIMS CQSGKPNLTI VQDSLTGAYL MSKENNNDAT LTNGEFNDIL 

       670        680        690        700        710        720 
MVLTQNDEYN GDVVDYFLKR KEDVSNTLKK LGFSGTVLNG KGLLSLLFPN DLYINEEDLK 

       730        740        750        760        770        780 
INRGVIYDGC LTKKYLSSTE SSLIKILYKE YGVETCATFL NNIQFLTNRW LMISSFSIHA 

       790        800        810        820        830        840 
GDCIKQKEVL GTVEQCLMES EKIKMTTQNP FIREQKIMQT LSNAKDVGMK IAKDALKRDN 

       850        860        870        880        890        900 
VNLHAQNNFL TTVESGSKGD HLNIAQITSL LGQQITEGQR VKPLLSNGKR TLPHYILKEE 

       910        920        930        940        950        960 
NNDTEHFHDL LEEYESQGFI SSSFAQGLNP KEFFFHCMAG RQGVCDTAMS TATSGYIMRR 

       970        980        990       1000       1010       1020 
NVKLTEDIKV AYDGTVQDTR GRRFQMAYGE LGYDPSKLVK VNGKPEVCNI ARLVNKLNCN 


FEDNIK

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification of the primary structure and the coding capacity of the genome of insect iridescent virus type 6 between the genome coordinates 0.310 and 0.347 (7990 bp)." Sonntag K.-C., Schnitzler P., Janssen W., Darai G. Intervirology 37:287-297(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Insect iridescent virus type 6 encodes a polypeptide related to the largest subunit of eukaryotic RNA polymerase II." Schnitzler P., Sonntag K.-C., Muller M., Janssen W., Bugert J.J., Koonin E.V., Darai G. J. Gen. Virol. 75:1557-1567(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Analysis of the first complete DNA sequence of an invertebrate iridovirus: coding strategy of the genome of Chilo iridescent virus." Jakob N.J., Mueller K., Bahr U., Darai G. Virology 286:182-196(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"Comparative genomic analysis of the family Iridoviridae: re-annotating and defining the core set of iridovirus genes." Eaton H.E., Metcalf J., Penny E., Tcherepanov V., Upton C., Brunetti C.R. Virol. J. 4:11-11(2007) [PubMed] [Europe PMC] [Abstract] Cited for: GENOME REANNOTATION.

Cross-references

Sequence databases
EMBL GenBank DDBJ	S75674 Genomic DNA. Translation: AAB33907.1. Frameshift. AF303741 Genomic DNA. Translation: AAB94477.1.
PIR	T03179.
RefSeq	NP_149639.1. NC_003038.1.
3D structure databases
HSSP	HSSP built from PDB template 1I6H based on UniProtKB P04050.
ProteinModelPortal	O55766.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1733004.
Family and domain databases
Gene3D	2.40.40.20. 2 hits.
InterPro	IPR009010. Asp_de-COase-like_dom. IPR000722. RNA_pol_asu. IPR006592. RNA_pol_N. IPR007080. RNA_pol_Rpb1_1. IPR007066. RNA_pol_Rpb1_3. IPR007083. RNA_pol_Rpb1_4. IPR007081. RNA_pol_Rpb1_5. [Graphical view]
Pfam	PF04997. RNA_pol_Rpb1_1. 2 hits. PF00623. RNA_pol_Rpb1_2. 2 hits. PF04983. RNA_pol_Rpb1_3. 1 hit. PF05000. RNA_pol_Rpb1_4. 1 hit. PF04998. RNA_pol_Rpb1_5. 1 hit. [Graphical view]
SMART	SM00663. RPOLA_N. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RPB1_IIV6

Accession

Primary (citable) accession number: O55766
Secondary accession number(s): Q89506

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 16, 2009
Last sequence update:	June 1, 1998
Last modified:	May 1, 2013
This is version 65 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Sites

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protocols and materials databases

Genome annotation databases

Family and domain databases

Entry information

Relevant documents