ASFVdb The African Swine Fever Virus Database
Strain
South_Africa_1985 (Region: South Africa;  Strain: SPEC_57;  Date: 1985)
Gene
RNA polymerase subunit 2
Description
Annoated by sequence mapping,  Gene expression: late
GenBank Accession
Full name
DNA-directed RNA polymerase subunit beta       + More
DNA-directed RNA polymerase subunit 2      
 

Sequence

CDS
ATGGAACCCTTGCGGCCGCAAATAACATACGGCCCCATTGAAACCGTGGATAATGAGGAGCATACAGAGGCTGATATGCTGAGCTGTATCTCCGCTGCAGTAAACTGTACCGGATTGATAGGGTATAACAACAAAAGCTTCGACGATCGTATGGACAATGGAATCCCGCAAATTGTAAAACAAATGTATAACGTGGATAATACATATAAAGACCAACGCGACCATACTGAAATAGATAAGCTTCGAGAATCGGTACAGATCCAATGTAACTGTACAGATGTGAACATTGAACGCCCGCAACATCGAAAATATACACAGGGAAACAAGATAAATATAGTACCCAATAAGGCACGCCTGTGTGGCCTTTCGTATTCGGGCCCTGATAATCTGGCCGCCGAGGATATTGTAACGGCGCAGTACAGCAATGGACGGCAGGAGGTAAAACGAGCAAGTATTCCTCCTTTGCAGGTATGTACATTTCCCAACATGCGGGGCAGCAACCGCTGCCACACACAACACGTAACAAAAACCGCAAAAAAAGAAATAGGAGAAGACCGTAATGAACCCGGAGGGTACTGTATAGCCCGAGGCGGGGAATGGGTCGTAGACCTTGTAGAAAACATCCGCTGTAACACGCTGCACATCCAATACCATACCATGCAACAAGGGAATAATGAAAACATTCGCGGCGAGTATATCTCCCAACCAGGAGGTGCCTTCGAAAATAGCTCGCAAAATAATATACGGTACATGACCACCGGCGCCAATACCATTGAAAACAATAGCACCAAATTCGCAAAACTTCGCATACCTTGGTATCGCATCTTTCGCATGTTTGGGATGACAGGCGATGACAGCAACATTGAGCAAGTAGTATTTGATGTAGAATCCAACTCCCTTGTGAACACCTGCATGATAGAAATTCTGGAAAAATCCATGCATGTTGTAGACCCCATATTGCAACCGGTCCAACACGAGCTGAACCGAGAAAAAAATATCCAGTTTGTATCCGAGAAGGTTTCCAAATTTGTCGCAAACCCATCTGCATACAAAAGCGATGAAAATGCGGTACAATACATAAATGAAAGACAACATAGTATTGTAGACAAAATATTGCTGCCACACATGGGCCAAACCGCAGATACACGTGTACGAAAGCTGCGCTTTGTAGGCCTGCATATACATAAAATACTTCTTGACAATATGAATGTGTTTCCACCCACGGACCGTGATAGGTACCGCACCAAGCGGGTGCACGGCACAGGGGTCTCGCTCGCCAAGGCCTGTAAGGGTATTTGTAATACATCCGTGATAGCACCCAACAACAATGGGTACAAAGAACTTCGTAAACAAACAGCCTTTGAGGAGCACACCCAGCGAAACAACATCGAGGCATTTTCTGCTGCTGTAACAAAAAACACCGCCTCCGATCGCAATCGCAGTATGGAACAGTGTAACATTGCAGGAAATAAAACCAACATGGTGCGACAGCGCCCCATTGTAAACAGAGTATGTACACAAAGTTTGGAAAGAAAAAATATAATAAATACCATTGCAGCATTGCGTACGGTAAATACACATAACACCACCAATGCATGTAAACAAACAGAAAGGGCTGACATGATGCGTCGCGTGCACGCATCGTATCCTGGATACATCTGCGTAGCCCAGACAGCCGATACTGGTGAAAAAGTAGGCATGTGTAAACAGATAGCCAACACTGCCAATGTCTGCACCGCCGGAGAAGTACTTTCGATAAAACAACGCCTTGTAACAGATCCGGCCATACAACAGATAGCCGATGTTTCCAACAAGGACATTGTACGAAAGGGCGTAGCGCGCGTATATAACAACGGAGAATGGATCGGCTGCTGCACCAATGCCTTTGAGCTTGCACAGCGGTATAGAATGCTTCGCCGTGAGGGCAAGGTTGTGCATCCCCATACCACCATGTACTGGGATAGCATGGTAGACGAAGTAGAATTCTGGTTGGACGTCGGCAGGCTGACCCGCCCCCTGCACATTGTAGATAATAATATTGAAAAATACAAACAAGCCTGGTACAAGGCCGCAGAGGCCAGAAAAAAAGGCGATAAAGACTGGGAAAAACATAAAATCCCTTGCATACAAAATACGCGATATACGTCGCAAATGGCAAAAGATATTGTAGCCGGAACGCATACACTTGAAGATCTCGTAGCGCAGGGCATCTGTGAGTACAATACTCCTGAGGAAGCAGAAAACTGCCTTGTTGCCTTCTCCAACACCGAGCTGCGCAAGTACAAACATGATGTAACGCGTCGCTGCACACACGTGGACGTGCCCCAAGCAATCCTGGGTCTTGCCGCCGTAGTGTCCCCGTACGCAAACTGCACCCAACCTGCTCGTGATACATATGAAACAAACCAGGGCAGGCAGACGGGGGGCTGGTATTGCTGTAGCTGGCCATATCGTGTAGACATGAATCGTTTCTTCCAGTTGTACAATGAAATGCCGCTTGTAAAGACCATAGCACATAAGTACGACATACCCAACGGGCATAATACCATTGTGGCGTATATGATGTATGGTGGGTACAAACAGGAGGACTCTGTGATTGTGACACAGTCCTGTATTGATAGGGGCGGCTTTGCCGGCACCTTGTACCGAGAAGAAAAGGTAGAAATAGAAAGCGATATAGAGTCGTTTGGGAAGCCCGACCCTGTAAACACCAAAAATCGTAAGCCTGGTGGTAAATACGAAAAGCTTGTAGATGGGTTTGTGCCCGTGGGAACAGTGGACAAAAAGGGCGACAACAATATAGGAAAAGTGGCCAAAATACGGGGCGAAAAAGACGAACACAACAAATACATCGACCGGTCTGACATGTACGGCTTCGATGAGCCGGCCGTCGTGGATGCTGTGATGCGCCCCCATGGACCCAATGACGAGATCTTCGGCCACATGCGCCTGCGGTATGAAAGAAATCGCAATATAGGCGACAAGATGAGTTCCCGCAGCGGGAACAAGGGCATTGCGGCGCTGGCCCTGCCCACTGCAGACATGCCCTGCACAGAGGACGGACTGCAGCCCGACCACATTGTAAACCCCCACACACATCCCTCCCGAATGACCAACGGACAAATGATAGAAACCACGGTTGGTGTAGCAAATGCCGTACAGGGGGTGGTAACAGACGGCACCGCATTCCTGCGTAATAACGTGCAGCTTCTTGCAGAAAGACTGGCGCAAGAAGGTGTACGCTGCAATGGATGCCAAAAAATGTACAACGGCCAGACCGGCGAGTATTTTGATGCAGCCATCTGCATAGGACCGACGTAA
Protein
MEPLRPQITYGPIETVDNEEHTEADMLSCISAAVNCTGLIGYNNKSFDDRMDNGIPQIVKQMYNVDNTYKDQRDHTEIDKLRESVQIQCNCTDVNIERPQHRKYTQGNKINIVPNKARLCGLSYSGPDNLAAEDIVTAQYSNGRQEVKRASIPPLQVCTFPNMRGSNRCHTQHVTKTAKKEIGEDRNEPGGYCIARGGEWVVDLVENIRCNTLHIQYHTMQQGNNENIRGEYISQPGGAFENSSQNNIRYMTTGANTIENNSTKFAKLRIPWYRIFRMFGMTGDDSNIEQVVFDVESNSLVNTCMIEILEKSMHVVDPILQPVQHELNREKNIQFVSEKVSKFVANPSAYKSDENAVQYINERQHSIVDKILLPHMGQTADTRVRKLRFVGLHIHKILLDNMNVFPPTDRDRYRTKRVHGTGVSLAKACKGICNTSVIAPNNNGYKELRKQTAFEEHTQRNNIEAFSAAVTKNTASDRNRSMEQCNIAGNKTNMVRQRPIVNRVCTQSLERKNIINTIAALRTVNTHNTTNACKQTERADMMRRVHASYPGYICVAQTADTGEKVGMCKQIANTANVCTAGEVLSIKQRLVTDPAIQQIADVSNKDIVRKGVARVYNNGEWIGCCTNAFELAQRYRMLRREGKVVHPHTTMYWDSMVDEVEFWLDVGRLTRPLHIVDNNIEKYKQAWYKAAEARKKGDKDWEKHKIPCIQNTRYTSQMAKDIVAGTHTLEDLVAQGICEYNTPEEAENCLVAFSNTELRKYKHDVTRRCTHVDVPQAILGLAAVVSPYANCTQPARDTYETNQGRQTGGWYCCSWPYRVDMNRFFQLYNEMPLVKTIAHKYDIPNGHNTIVAYMMYGGYKQEDSVIVTQSCIDRGGFAGTLYREEKVEIESDIESFGKPDPVNTKNRKPGGKYEKLVDGFVPVGTVDKKGDNNIGKVAKIRGEKDEHNKYIDRSDMYGFDEPAVVDAVMRPHGPNDEIFGHMRLRYERNRNIGDKMSSRSGNKGIAALALPTADMPCTEDGLQPDHIVNPHTHPSRMTNGQMIETTVGVANAVQGVVTDGTAFLRNNVQLLAERLAQEGVRCNGCQKMYNGQTGEYFDAAICIGPT

Summary

Function
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
Component of the DNA-dependent RNA polymerase that catalyzes the transcription in the cytoplasm of viral DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit 2 is the second largest component of RNA polymerase. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. DNA-dependent RNA polymerase is composed of mobile elements that move relative to each other. RPB2 is part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template (By similarity).
Catalytic Activity
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1)
Subunit
Component of the RNA polymerase that consists of at least 6 subunits.
Miscellaneous
The binding of ribonucleoside triphosphate to the RNA polymerase transcribing complex probably involves a two-step mechanism. The initial binding seems to occur at the entry (E) site and involves a magnesium ion coordinated by three conserved aspartate residues of the two largest RNA Pol subunits (By similarity).
Similarity
Belongs to the RNA polymerase beta chain family.
Keywords
Complete proteome   DNA-directed RNA polymerase   Host cytoplasm   Metal-binding   Nucleotidyltransferase   Transcription   Transferase   Zinc   Zinc-finger   Reference proteome  
Feature
chain  DNA-directed RNA polymerase subunit 2
EC Number
2.7.7.6
Pfam
PF04560   RNA_pol_Rpb2_7
PF04563   RNA_pol_Rpb2_1
PF04565   RNA_pol_Rpb2_3
PF04566   RNA_pol_Rpb2_4
PF04561   RNA_pol_Rpb2_2
PF00562   RNA_pol_Rpb2_6
Interpro
IPR007641   RNA_pol_Rpb2_7
IPR007644   RNA_pol_bsu_protrusion
IPR007121   RNA_pol_bsu_CS
IPR007642   RNA_pol_Rpb2_2
IPR037034   RNA_pol_Rpb2_2_sf
IPR014724   RNA_pol_RPB2_OB-fold
IPR007646   RNA_pol_Rpb2_4
IPR007645   RNA_pol_Rpb2_3
IPR015712   DNA-dir_RNA_pol_su2
IPR037033   DNA-dir_RNAP_su2_hyb_sf
IPR007120   DNA-dir_RNAP_su2_dom
Gene 3D
PDB
6EXV     E-value=4.96956e-125,     Score=1151

Ontologies

KEGG

Subcellular Location

From MSLVP
Capsid
From Uniprot
Host cytoplasm  

Topology

Length:
1106
Number of predicted TMHs:
0
Exp number of AAs in TMHs:
0.00904
Exp number, first 60 AAs:
0.00238
Total prob of N-in:
0.00014
outside
1  -  1106
 
 

Population Genetic Test Statistics

Pi
0.0366451
Theta
0.047786
Tajima's D
-0.9542122
CLR
0.180381
Interpretation
No evidence of Selection

Multiple alignment of Orthologues

 
 

Gene Tree

 
 

Orthologous in Strains

Strain Availability Status Gene
Spain_BA71_1971 Protein
Protein
QED21615.1
AKO62735.1
China_AnhuiXCGQ_2018 Protein
Protein
QED21615.1
AYW34025.1
China_ASFV-SY18_2018 Protein
AKO62735.1
Poland_Pol16_20186_o7_2016-2017 Protein
Protein
QED21615.1
AXZ95829.1
Poland_Pol16_20538_o9_2016-2017 Protein
Protein
CAN10153.1
QED21615.1
Poland_Pol16_20540_o10_2016-2017 Protein
Protein
CAN10153.1
QED21615.1
Poland_Pol16_29413_o23_2016-2017 Protein
Protein
CAN10153.1
QED21615.1
Poland_Pol17_03029_C201_2016-2017 Protein
Protein
QED21615.1
AXZ96017.1
Poland_Pol17_04461_C210_2016-2017 Protein
Protein
QED21615.1
AXZ96112.1
Poland_Pol17_05838_C220_2016-2017 Protein
Protein
CAN10153.1
QED21615.1
Poland_ASFV_POL_Podlaskie_2015 Protein
Protein
CAN10153.1
QED21615.1
Uganda_R8_2015 Protein
Protein
QED21615.1
AXB49282.1
Uganda_R7_2015 Protein
Protein
QED21615.1
AXB49456.1
Uganda_R25_2015 Protein
Protein
QED21615.1
AXB49628.1
Uganda_N10_2015 Protein
Protein
QED21615.1
AXB49799.1
Uganda_R35_2015 Protein
Protein
QED21615.1
AXB49972.1
Estonia_2014 Protein
Protein
QED21615.1
SPS73476.1
Italy_26544_OG10_2010 Protein
Protein
QED21615.1
AJZ77042.1
Italy_47_Ss_2008_2008 Protein
Protein
QED21615.1
AOO54384.1
Portugal_OURT_88.3_1988 Protein
Protein
QED21615.1
CAN10401.1
Spain_E75_1975 Protein
Protein
QED21615.1
CBH29154.1
Russia_Georgia_2007 Protein
Protein
QED21615.1
CBW46719.1
Kenya_Tk1_2005 Protein
Protein
QED21615.1
AJL34067.1
Kenya_Bus_2006 Protein
Protein
QED21615.1
AJL34232.1
Russia_Odintsovo_2014 Protein
Protein
CAN10153.1
QED21615.1
Portugal_L60_1960 Protein
Protein
QED21615.1
AIY22244.1
Portugal_NHV_1968 Protein
Protein
QED21615.1
AIY22403.1
Russia_Kashino_2013 Protein
Protein
CAN10153.1
QED21615.1
Benin_1997 Protein
Protein
Protein
CAN10153.1
QED21615.1
CAN10153.1
South_Africa_KNP_Pretorisuskop_1996 Protein
Protein
CAN10153.1
QED21615.1
South_Africa_MGR_Mkuzi_1979 Protein
Protein
CAN10153.1
QED21615.1
Malawi_Lil_1983 Genetic Remain
Protein
CAN10153.1
QED21615.1
Kenya_1950 Protein
Protein
CAN10153.1
QED21615.1
Namibia_Warthog_1980 Protein
Protein
CAN10153.1
QED21615.1
South_Africa_Warmbaths_1987 Protein
Protein
CAN10153.1
QED21615.1
Malawi_Tengani_1962 Protein
Protein
CAN10153.1
QED21615.1
China_HLJ_2018 Protein
Protein
QED21615.1
QBH90541.1
China_LN_2018 Protein
Protein
QED21615.1
QBH90726.1
China_wbBS01_2018 Protein
Protein
QED21615.1
QDL88084.1
Ukraine_Kyiv_2014 Protein
QED21614.1
Belgium_Etalle_wb_2018 Protein
Protein
QED21615.1
QED90496.1
Lithuania_LT14_2014 Protein
Protein
QED21615.1
QEY87859.1
South_Africa_1985 Protein
Genetic Remain
CAN10153.1
QED21615.1
South_Africa_2_2008 Protein
Genetic Remain
CAN10153.1
QED21615.1
Zambia_LIV_1983 Protein
Protein
CAN10153.1
QED21615.1
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