Protein : Qrob_P0328830.2 Q. robur
Protein Identifier  ? Qrob_P0328830.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=1) PTHR30603:SF9 - RNA POLYMERASE SIGMA FACTOR SIGF, CHLOROPLASTIC (PTHR30603:SF9) Gene Prediction Quality  validated
Protein length 

Sequence

Length: 593  
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0 Synonyms

5 GO Terms

Identifier Name Description
GO:0003700 sequence-specific DNA binding transcription factor activity Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
GO:0006355 regulation of transcription, DNA-templated Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
GO:0003677 DNA binding Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
GO:0006352 DNA-templated transcription, initiation Any process involved in the assembly of the RNA polymerase preinitiation complex (PIC) at the core promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. The initiation phase ends just before and does not include promoter clearance, or release, which is the transition between the initiation and elongation phases of transcription.
GO:0016987 sigma factor activity A sigma factor is the promoter specificity subunit of eubacterial-type multisubunit RNA polymerases, those whose core subunit composition is often described as alpha(2)-beta-beta-prime. (This type of multisubunit RNA polymerase complex is known to be found in eubacteria and plant plastids). Although sigma does not bind DNA on its own, when combined with the core to form the holoenzyme, this binds specifically to promoter sequences, with the sigma factor making sequence specific contacts with the promoter elements. The sigma subunit is released from the elongating form of the polymerase and is thus free to act catalytically for multiple RNA polymerase core enzymes.

40 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|cit:102608402 1 569 + 569 Gaps:10 99.82 570 67.14 0.0 RNA polymerase sigma factor sigF chloroplastic-like
blastp_kegg lcl|pmum:103342155 1 569 + 569 Gaps:5 99.83 573 68.53 0.0 RNA polymerase sigma factor sigF chloroplastic
blastp_kegg lcl|pper:PRUPE_ppa003513mg 1 569 + 569 Gaps:10 99.82 568 69.14 0.0 hypothetical protein
blastp_kegg lcl|vvi:100267110 1 569 + 569 Gaps:12 99.83 572 66.90 0.0 RNA polymerase sigma factor rpoD-like
blastp_kegg lcl|tcc:TCM_022198 1 569 + 569 Gaps:10 99.82 568 68.08 0.0 RNA polymerase sigma factor rpoD putative
blastp_kegg lcl|cic:CICLE_v10011376mg 1 569 + 569 Gaps:12 99.82 558 66.79 0.0 hypothetical protein
blastp_kegg lcl|mdm:103423352 1 569 + 569 Gaps:13 99.82 571 65.96 0.0 RNA polymerase sigma factor sigF chloroplastic-like
blastp_kegg lcl|pop:POPTR_0006s12760g 1 569 + 569 Gaps:35 99.81 535 68.73 0.0 RNA POLYMERASE SIGMA-70 FACTOR family protein
blastp_kegg lcl|rcu:RCOM_1355260 1 569 + 569 Gaps:28 99.82 548 66.18 0.0 RNA polymerase sigma factor rpoD putative
blastp_kegg lcl|pxb:103965469 32 569 + 538 Gaps:8 87.87 610 68.10 0.0 RNA polymerase sigma factor sigF chloroplastic
blastp_pdb 3iyd_F 330 567 + 238 none 38.83 613 38.66 5e-53 mol:protein length:613 RNA polymerase sigma factor rpoD
blastp_pdb 1l9u_Q 255 554 + 300 Gaps:19 95.48 332 36.28 5e-50 mol:protein length:332 SIGMA FACTOR SIGA
blastp_pdb 1l9u_H 255 554 + 300 Gaps:19 95.48 332 36.28 5e-50 mol:protein length:332 SIGMA FACTOR SIGA
blastp_pdb 1l9z_H 303 554 + 252 Gaps:6 58.90 438 38.37 2e-49 mol:protein length:438 SIGMA FACTOR SIGA
blastp_pdb 3eql_P 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 3eql_F 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 3dxj_P 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase pricipal sigma factor (RpoD)
blastp_pdb 3dxj_F 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase pricipal sigma factor (RpoD)
blastp_pdb 2cw0_P 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 2cw0_F 328 554 + 227 Gaps:2 54.14 423 39.74 2e-48 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_uniprot_sprot sp|Q9LD95|SIGF_ARATH 1 569 + 569 Gaps:25 99.82 547 60.07 0.0 RNA polymerase sigma factor sigF chloroplastic OS Arabidopsis thaliana GN SIGF PE 1 SV 1
blastp_uniprot_sprot sp|P26683|SIGA_NOSS1 256 554 + 299 Gaps:1 76.41 390 40.60 1e-76 RNA polymerase sigma factor SigA OS Nostoc sp. (strain PCC 7120 / UTEX 2576) GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|O22056|SIGB_ARATH 211 554 + 344 Gaps:1 60.31 572 37.39 4e-73 RNA polymerase sigma factor sigB OS Arabidopsis thaliana GN SIGB PE 2 SV 2
blastp_uniprot_sprot sp|P38023|SIGA1_SYNE7 256 554 + 299 Gaps:1 74.69 399 39.93 4e-73 RNA polymerase sigma factor SigA1 OS Synechococcus elongatus (strain PCC 7942) GN sigA1 PE 3 SV 2
blastp_uniprot_sprot sp|P52322|SIGA_MICAE 256 554 + 299 Gaps:40 81.01 416 34.42 8e-66 RNA polymerase sigma factor SigA OS Microcystis aeruginosa GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|P74565|SIGA_SYNY3 256 554 + 299 Gaps:45 80.47 425 33.63 8e-64 RNA polymerase sigma factor SigA OS Synechocystis sp. (strain PCC 6803 / Kazusa) GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|Q31QG5|SIGA3_SYNE7 255 556 + 302 Gaps:2 94.38 320 40.40 1e-61 RNA polymerase sigma factor SigA3 OS Synechococcus elongatus (strain PCC 7942) GN sigA3 PE 3 SV 1
blastp_uniprot_sprot sp|Q31ME3|SIGA2_SYNE7 252 566 + 315 Gaps:4 97.19 320 38.59 3e-61 RNA polymerase sigma factor SigA2 OS Synechococcus elongatus (strain PCC 7942) GN sigA2 PE 1 SV 1
blastp_uniprot_sprot sp|Q03066|RPSC_NOSS1 255 555 + 301 Gaps:44 82.45 416 37.32 5e-58 RNA polymerase sigma-C factor OS Nostoc sp. (strain PCC 7120 / UTEX 2576) GN sigC PE 3 SV 2
blastp_uniprot_sprot sp|Q03065|RPSB_NOSS1 244 554 + 311 Gaps:1 93.37 332 37.42 2e-57 RNA polymerase sigma-B factor OS Nostoc sp. (strain PCC 7120 / UTEX 2576) GN sigB PE 3 SV 1

21 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
SUPERFAMILY 254 404 151 SSF88946 none none IPR013325
Gene3D 326 403 78 G3DSA:1.10.601.10 none none none
Gene3D 236 288 53 G3DSA:1.10.601.10 none none none
Pfam 414 488 75 PF04539 none Sigma-70 region 3 IPR007624
Gene3D 496 566 71 G3DSA:1.10.10.10 none none IPR011991
SUPERFAMILY 465 563 99 SSF88659 none none IPR013324
TIGRFAM 330 557 228 TIGR02937 none sigma70-ECF: RNA polymerase sigma factor, sigma-70 family IPR014284
PIRSF 5 570 566 PIRSF000767 none none IPR016262
PRINTS 382 390 9 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 358 371 14 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 506 518 13 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 542 553 12 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 527 542 16 PR00046 none Major sigma-70 factor signature IPR000943
Gene3D 404 451 48 G3DSA:1.10.10.10 none none IPR011991
SUPERFAMILY 407 480 74 SSF88659 none none IPR013324
Pfam 335 403 69 PF04542 none Sigma-70 region 2 IPR007627
ProSitePatterns 527 553 27 PS00716 none Sigma-70 factors family signature 2. IPR000943
ProSitePatterns 358 371 14 PS00715 none Sigma-70 factors family signature 1. IPR000943
PANTHER 68 570 503 PTHR30603 none none none
PANTHER 68 570 503 PTHR30603:SF9 none none none
Pfam 502 555 54 PF04545 none Sigma-70, region 4 IPR007630

0 Localization

13 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2014_nLBD*_A4 Qrob_Chr08 8 v_12498_318 v_12364_308 34,91 16,12 53,62 lod 2,4961 5,2
Bourran2_2014_nPriLBD_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,36 0 30,43 lod 2,5806 5,1
Bourran2_2014_nEpis*_A4 Qrob_Chr07 7 v_12400_446 s_1BPEBU_1211 6,93 0 15,13 lod 4,7411 11
Bourran2_2014_nSecLBD_A4 Qrob_Chr07 7 v_8327_222 s_1A4WGY_363 16,04 0 44,69 lod 2,6373 6,5
Bourran2_2014_nP_A4 Qrob_Chr11 11 s_1B58GB_1413 s_1A5BYY_1671 11,15 0 42,38 lod 1,8913 4,5
Bourran2_2014_nP_3P Qrob_Chr11 11 v_11486_194 s_1AT3E_2335 7,9 0,09 30,09 lod 2,3636 5
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_nEpiBC_A4 Qrob_Chr07 7 s_1DP9TW_798 v_8128_173 22,61 22,14 22,73 lod 3.1 8.5
Bourran2_2014_nEpiBC_A4 Qrob_Chr07 7 s_2FI9D9_500 s_1AXDMJ_325 12,26 0 34,9 lod 2,2306 6,1
Bourran2_2014_nPriBD_3P Qrob_Chr11 11 v_11486_194 s_1AT3E_2335 5,54 0,4 20,6 lod 2,6345 5,9
Bourran2_2002_QTL10_peak_Bud_burst_3P Qrob_Chr07 7 s_1CAWP_311 s_1BEZ9M_461 7,5 0 21,5 lod 3,7 6,3
Bourran2_2014_nPriBD*_A4 Qrob_Chr07 7 s_1A7UI0_596 s_1A3H6S_352 8,02 0 20,53 lod 4,1062 10,8
Bourran2_2014_nPriLBD*_A4 Qrob_Chr07 7 s_1C6BY7_802 s_1BPEBU_1211 7,15 0 16,34 lod 3,9419 10,2

0 Targeting