Protein : Qrob_P0014280.2 Q. robur
Protein Identifier  ? Qrob_P0014280.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=1) K03014 - DNA-directed RNA polymerases I, II, and III subunit RPABC2 Code Enzyme  EC:2.7.7.6
Gene Prediction Quality  validated Protein length 

Sequence

Length: 144  
Kegg Orthology  K03014
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0 Synonyms

5 GO Terms

Identifier Name Description
GO:0003677 DNA binding Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
GO:0005634 nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
GO:0006351 transcription, DNA-templated The cellular synthesis of RNA on a template of DNA.
GO:0003899 DNA-directed RNA polymerase activity Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
GO:0005665 DNA-directed RNA polymerase II, core complex RNA polymerase II, one of three nuclear DNA-directed RNA polymerases found in all eukaryotes, is a multisubunit complex; typically it produces mRNAs, snoRNAs, and some of the snRNAs. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The largest subunit of RNA polymerase II contains an essential carboxyl-terminal domain (CTD) composed of a variable number of heptapeptide repeats (YSPTSPS). The remainder of the complex is composed of smaller subunits (generally ten or more), some of which are also found in RNA polymerases I and III. Although the core is competent to mediate ribonucleic acid synthesis, it requires additional factors to select the appropriate template.

35 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pop:POPTR_0015s13600g 1 143 + 143 none 100.00 143 87.41 7e-83 POPTRDRAFT_824910 DNA-directed RNA polymerase II family protein
blastp_kegg lcl|brp:103863944 1 143 + 143 Gaps:1 100.00 144 81.25 5e-76 DNA-directed RNA polymerases II IV and V subunit 6A
blastp_kegg lcl|eus:EUTSA_v10005087mg 1 143 + 143 Gaps:1 100.00 144 81.25 8e-76 hypothetical protein
blastp_kegg lcl|pxb:103947899 1 142 + 142 Gaps:1 99.31 144 84.62 2e-72 DNA-directed RNA polymerases II and V subunit 6B-like
blastp_kegg lcl|ath:AT5G51940 1 143 + 143 Gaps:1 100.00 144 84.72 3e-72 NRPB6A RNA polymerase Rpb6
blastp_kegg lcl|pper:PRUPE_ppa013037mg 1 143 + 143 none 100.00 143 88.11 3e-72 hypothetical protein
blastp_kegg lcl|pxb:103945450 1 142 + 142 Gaps:1 99.31 144 85.31 4e-72 DNA-directed RNA polymerases II IV and V subunit 6A-like
blastp_kegg lcl|mdm:103405637 1 142 + 142 Gaps:1 99.31 144 85.31 4e-72 DNA-directed RNA polymerases II IV and V subunit 6A-like
blastp_kegg lcl|pmum:103328403 1 143 + 143 Gaps:1 100.00 144 84.03 8e-72 DNA-directed RNA polymerases II IV and V subunit 6A-like
blastp_kegg lcl|pper:PRUPE_ppa013019mg 1 143 + 143 Gaps:1 100.00 144 84.03 8e-72 hypothetical protein
blastp_pdb 1qkl_A 44 134 + 91 Gaps:6 76.38 127 72.16 8e-40 mol:protein length:127 DNA-DIRECTED RNA POLYMERASE II 14.4 KD POLYPE
blastp_pdb 3h0g_R 58 131 + 74 none 52.11 142 81.08 2e-38 mol:protein length:142 DNA-directed RNA polymerases I II and III s
blastp_pdb 3h0g_F 58 131 + 74 none 52.11 142 81.08 2e-38 mol:protein length:142 DNA-directed RNA polymerases I II and III s
blastp_pdb 3j0k_F 58 133 + 76 none 90.48 84 78.95 7e-38 mol:protein length:84 DNA-directed RNA polymerases I II and III 2
blastp_pdb 4a93_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_pdb 4a3m_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_pdb 4a3l_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_pdb 4a3k_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_pdb 4a3j_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_pdb 4a3i_F 58 133 + 76 none 49.03 155 78.95 1e-37 mol:protein length:155 DNA-DIRECTED RNA POLYMERASES I II AND III S
blastp_uniprot_sprot sp|Q9FJ98|RPD6A_ARATH 1 143 + 143 Gaps:1 100.00 144 84.72 9e-74 DNA-directed RNA polymerases II IV and V subunit 6A OS Arabidopsis thaliana GN NRPB6A PE 1 SV 1
blastp_uniprot_sprot sp|Q9SJ96|RPB6B_ARATH 1 143 + 143 Gaps:1 100.00 144 82.64 7e-70 DNA-directed RNA polymerases II and V subunit 6B OS Arabidopsis thaliana GN NRPB6B PE 1 SV 1
blastp_uniprot_sprot sp|O88828|RPAB2_RAT 44 134 + 91 Gaps:6 76.38 127 72.16 2e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Rattus norvegicus GN Polr2f PE 1 SV 1
blastp_uniprot_sprot sp|P61219|RPAB2_MOUSE 44 134 + 91 Gaps:6 76.38 127 72.16 2e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Mus musculus GN Polr2f PE 2 SV 1
blastp_uniprot_sprot sp|Q5R592|RPAB2_PONAB 44 134 + 91 Gaps:6 76.38 127 72.16 3e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Pongo abelii GN POLR2F PE 2 SV 1
blastp_uniprot_sprot sp|P61218|RPAB2_HUMAN 44 134 + 91 Gaps:6 76.38 127 72.16 3e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Homo sapiens GN POLR2F PE 1 SV 1
blastp_uniprot_sprot sp|P61217|RPAB2_CRIGR 44 134 + 91 Gaps:6 76.38 127 72.16 3e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Cricetulus griseus GN POLR2F PE 2 SV 1
blastp_uniprot_sprot sp|Q32PE0|RPAB2_BOVIN 58 134 + 77 none 60.63 127 81.82 4e-39 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Bos taurus GN POLR2F PE 2 SV 1
blastp_uniprot_sprot sp|Q24320|RPAB2_DROME 58 135 + 78 none 59.54 131 75.64 3e-38 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Drosophila melanogaster GN RpII18 PE 2 SV 1
blastp_uniprot_sprot sp|P36595|RPAB2_SCHPO 58 131 + 74 none 52.11 142 81.08 6e-38 DNA-directed RNA polymerases I II and III subunit RPABC2 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN rpb6 PE 1 SV 1

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
SUPERFAMILY 2 133 132 SSF63562 "KEGG:00230+2.7.7.6","KEGG:00240+2.7.7.6" none IPR006110
Pfam 58 113 56 PF01192 "KEGG:00230+2.7.7.6","KEGG:00240+2.7.7.6" RNA polymerase Rpb6 IPR006110
PANTHER 3 143 141 PTHR10773 none none IPR006111
PIRSF 1 134 134 PIRSF000778 none none IPR006111
PIRSF 1 134 134 PIRSF500154 none none IPR028363
ProSitePatterns 65 79 15 PS01111 none RNA polymerases K / 14 to 18 Kd subunits signature. IPR020708
Gene3D 13 133 121 G3DSA:3.90.940.10 "KEGG:00230+2.7.7.6","KEGG:00240+2.7.7.6" none IPR012293

0 Localization

9 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran1_2004_QTL4_peak_Bud_burst_A4 Qrob_Chr09 9 s_1BY6BQ_440 s_1AOIKO_756 16,45 0 27,45 lod 4,5 10,6
Bourran_2000_2002_QTL7_Delta.F Qrob_Chr09 9 v_5944_442 s_1BA1PC_866 23.51 10,96 35,74 lod 4.1466 0.041
Bourran2_2003_QTL11_peak_Bud_burst_3P Qrob_Chr09 9 s_1CGP2H_273 v_15801_330 27,16 4,16 48,16 lod 2,3 5,1
Bourran2_2003_QTL13_peak_Bud_burst_A4 Qrob_Chr09 9 s_1AP8MN_635 s_1A3QQ_692 18,18 10,88 25,88 lod 3,4 7,2
Bourran2_2004_QTL12_peak_Bud_burst_3P Qrob_Chr09 9 s_1BDO6G_250 s_1A83AM_496 34,31 9,31 44,31 lod 3,6 7,6
Bourran2_2004_QTL14_peak_Bud_burst_A4 Qrob_Chr09 9 s_1BY6BQ_440 s_1AOIKO_756 16,83 10,33 22,33 lod 3,8 9
Bourran2_2015_nEpis_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 34,94 34,88 37,45 lod 3.1 7
Bourran2_2015_nSecLBD_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 35,81 34,88 37,45 lod 4.4 10.4
PM_1999_QTL15_peak_Bud_burst_3P Qrob_Chr09 9 s_1CGP2H_273 v_15801_330 27,16 9,16 47,16 lod 3,6 6,5

0 Targeting