Protein : Qrob_P0736490.2 Q. robur
Protein Identifier  ? Qrob_P0736490.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=1) K03093 - RNA polymerase sigma factor Gene Prediction Quality  validated
Protein length 

Sequence

Length: 573  
Kegg Orthology  K03093
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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|pper:PRUPE_ppa003696mg 1 571 + 571 Gaps:19 99.82 555 64.98 0.0 hypothetical protein
blastp_kegg lcl|pmum:103320269 1 571 + 571 Gaps:21 99.82 553 64.13 0.0 RNA polymerase sigma factor sigC-like
blastp_kegg lcl|vvi:100252651 1 572 + 572 Gaps:11 100.00 561 61.68 0.0 RNA polymerase sigma factor rpoD-like
blastp_kegg lcl|cit:102616677 1 572 + 572 Gaps:38 100.00 534 62.17 0.0 RNA polymerase sigma factor sigC-like
blastp_kegg lcl|tcc:TCM_037242 7 571 + 565 Gaps:38 62.62 848 67.23 0.0 RNApolymerase sigma-subunit C putative
blastp_kegg lcl|pop:POPTR_0006s25090g 1 572 + 572 Gaps:15 100.00 559 61.72 0.0 POPTRDRAFT_819521 hypothetical protein
blastp_kegg lcl|pxb:103959521 1 571 + 571 Gaps:20 99.82 558 63.38 0.0 RNA polymerase sigma factor sigC-like
blastp_kegg lcl|pxb:103951768 1 571 + 571 Gaps:20 99.82 558 63.02 0.0 RNA polymerase sigma factor sigC-like
blastp_kegg lcl|fve:101292275 1 570 + 570 Gaps:30 99.45 545 64.39 0.0 RNA polymerase sigma factor sigC-like
blastp_kegg lcl|pxb:103957060 1 570 + 570 Gaps:22 99.64 556 62.45 0.0 RNA polymerase sigma factor sigC-like
blastp_pdb 3iyd_F 334 571 + 238 none 38.83 613 31.09 2e-35 mol:protein length:613 RNA polymerase sigma factor rpoD
blastp_pdb 1l9u_Q 322 571 + 250 Gaps:6 77.11 332 32.42 3e-35 mol:protein length:332 SIGMA FACTOR SIGA
blastp_pdb 1l9u_H 322 571 + 250 Gaps:6 77.11 332 32.42 3e-35 mol:protein length:332 SIGMA FACTOR SIGA
blastp_pdb 1l9z_H 298 571 + 274 Gaps:16 61.64 438 32.22 5e-35 mol:protein length:438 SIGMA FACTOR SIGA
blastp_pdb 3eql_P 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 3eql_F 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 3dxj_P 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase pricipal sigma factor (RpoD)
blastp_pdb 3dxj_F 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase pricipal sigma factor (RpoD)
blastp_pdb 2cw0_P 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_pdb 2cw0_F 331 571 + 241 Gaps:3 57.68 423 32.38 3e-34 mol:protein length:423 RNA polymerase sigma factor rpoD
blastp_uniprot_sprot sp|O24621|SIGC_ARATH 31 571 + 541 Gaps:56 87.39 571 55.71 1e-166 RNA polymerase sigma factor sigC OS Arabidopsis thaliana GN SIGC PE 2 SV 1
blastp_uniprot_sprot sp|O22056|SIGB_ARATH 217 570 + 354 Gaps:15 62.76 572 33.98 1e-65 RNA polymerase sigma factor sigB OS Arabidopsis thaliana GN SIGB PE 2 SV 2
blastp_uniprot_sprot sp|P26683|SIGA_NOSS1 273 570 + 298 Gaps:1 76.15 390 34.34 4e-51 RNA polymerase sigma factor SigA OS Nostoc sp. (strain PCC 7120 / UTEX 2576) GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|P38023|SIGA1_SYNE7 273 570 + 298 Gaps:5 74.44 399 34.01 1e-46 RNA polymerase sigma factor SigA1 OS Synechococcus elongatus (strain PCC 7942) GN sigA1 PE 3 SV 2
blastp_uniprot_sprot sp|Q9LD95|SIGF_ARATH 218 572 + 355 Gaps:6 65.63 547 28.41 2e-46 RNA polymerase sigma factor sigF chloroplastic OS Arabidopsis thaliana GN SIGF PE 1 SV 1
blastp_uniprot_sprot sp|P77994|SIGA_THEMA 334 572 + 239 none 59.90 399 35.56 1e-43 RNA polymerase sigma factor SigA OS Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN sigA PE 1 SV 3
blastp_uniprot_sprot sp|P74565|SIGA_SYNY3 334 570 + 237 Gaps:1 55.53 425 34.75 8e-43 RNA polymerase sigma factor SigA OS Synechocystis sp. (strain PCC 6803 / Kazusa) GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|P52322|SIGA_MICAE 323 570 + 248 Gaps:1 59.38 416 33.60 8e-43 RNA polymerase sigma factor SigA OS Microcystis aeruginosa GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|P27785|SIGA_STRAU 316 571 + 256 Gaps:3 81.70 317 34.36 1e-42 RNA polymerase sigma factor SigA OS Streptomyces aureofaciens GN sigA PE 3 SV 1
blastp_uniprot_sprot sp|P18182|HRDA_STRCO 330 571 + 242 Gaps:8 61.11 396 35.95 2e-42 RNA polymerase principal sigma factor HrdA OS Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN hrdA PE 1 SV 2

17 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
SUPERFAMILY 279 407 129 SSF88946 none none IPR013325
Pfam 339 406 68 PF04542 none Sigma-70 region 2 IPR007627
Gene3D 192 407 216 G3DSA:1.10.601.10 none none none
Pfam 418 493 76 PF04539 none Sigma-70 region 3 IPR007624
SUPERFAMILY 411 482 72 SSF88659 none none IPR013324
PRINTS 362 375 14 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 531 546 16 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 510 522 13 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 386 394 9 PR00046 none Major sigma-70 factor signature IPR000943
PRINTS 546 557 12 PR00046 none Major sigma-70 factor signature IPR000943
PANTHER 270 572 303 PTHR30603:SF10 none none none
SUPERFAMILY 475 560 86 SSF88659 none none IPR013324
Gene3D 408 458 51 G3DSA:1.10.10.10 none none IPR011991
Pfam 506 559 54 PF04545 none Sigma-70, region 4 IPR007630
PANTHER 270 572 303 PTHR30603 none none none
Gene3D 502 571 70 G3DSA:1.10.10.10 none none IPR011991
TIGRFAM 335 559 225 TIGR02937 none sigma70-ECF: RNA polymerase sigma factor, sigma-70 family IPR014284

0 Localization

1 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2015_nEpis_3P Qrob_Chr12 12 s_1AOES6_1466 s_1B0DDG_1094 28,97 28,55 30,1 lod 3.6 8.4

0 Targeting