BLASTP 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0034.0196.p (551 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples from WGS projects 15,459,386 sequences; 5,307,515,862 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|YP_530309.1| RNA polymerase factor sigma-54 [Rhodopseudomona... 932 0.0 ref|YP_001236327.1| RNA polymerase factor sigma-54 [Bradyrhizobi... 932 0.0 ref|YP_001202334.1| RNA polymerase factor sigma-54 [Bradyrhizobi... 929 0.0 ref|NP_767363.1| RNA polymerase factor sigma-54 [Bradyrhizobium ... 920 0.0 ref|YP_567319.1| RNA polymerase factor sigma-54 [Rhodopseudomona... 900 0.0 >ref|YP_530309.1| RNA polymerase factor sigma-54 [Rhodopseudomonas palustris BisB18] gb|ABD85990.1| sigma-54 (RpoN) [Rhodopseudomonas palustris BisB18] Length = 553 Score = 932 bits (2408), Expect = 0.0, Method: Compositional matrix adjust. Identities = 458/556 (82%), Positives = 495/556 (89%), Gaps = 10/556 (1%) Query: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSAFVEEELERNPLLERAADGPEPPV 60 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDL++FVE+ELERNPLL+RA + EPPV Sbjct: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLASFVEDELERNPLLDRANENGEPPV 60 Query: 61 AGEPAMERPDYGDSD------GSSSYGDDGDASDMAAGPGGEAAFEPGQEEWLNRDLGSR 114 GE A ER ++ D D G + D D SD AAG G FE E+W+ RDLGSR Sbjct: 61 PGELAPERAEFSDRDDAASGSGEDAGADGSDFSDRAAGDG----FEASAEDWMQRDLGSR 116 Query: 115 AEIEQTLDTRLDNVFSEEPAEAAARAAQDAPPSVYTEWGGGASSDDEYNLEAFVAAELTL 174 AEIEQTLDT LDNVFSEEPAE AAR AQDA P+ +TEWGGG+S+DD YNLEAFVAAE+TL Sbjct: 117 AEIEQTLDTGLDNVFSEEPAETAARTAQDAAPTAFTEWGGGSSNDDGYNLEAFVAAEITL 176 Query: 175 ADHLAEQLAVAFSAPAQRMIGQYLIDLVDDAGYLPADLGQAAERLGASQQAVDEVVAVLQ 234 HLAEQLAVAF+ P QR+IGQYL+DLVDDAGYLP DLG A ERLGAS + V+ VVAVLQ Sbjct: 177 GGHLAEQLAVAFTDPKQRLIGQYLVDLVDDAGYLPPDLGDATERLGASAEQVEAVVAVLQ 236 Query: 235 KFDPPGVCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAALRKLCGVDDEDIT 294 KFDP GVCARNLSECLAIQLR+ DRYDPAMQALVEHLDLLAKRDI ALR++CGVDDED+ Sbjct: 237 KFDPAGVCARNLSECLAIQLRDRDRYDPAMQALVEHLDLLAKRDIGALRRICGVDDEDLA 296 Query: 295 DMIAEIRRLDPKPGLKFGTARTQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQSYYAE 354 DMI EIR LDPKPGLKFGTAR QT+VPDVYVRPGPDGGWHVELNS+TLP+VLVNQ YY+E Sbjct: 297 DMIGEIRHLDPKPGLKFGTARVQTVVPDVYVRPGPDGGWHVELNSETLPKVLVNQVYYSE 356 Query: 355 LSKTIRKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTYGVAHLRPL 414 LSKTIRKDGDK+YFTDCLQNATWLVRALDQRARTILKV+TEIVRQQDGFFT GVAHLRPL Sbjct: 357 LSKTIRKDGDKAYFTDCLQNATWLVRALDQRARTILKVSTEIVRQQDGFFTQGVAHLRPL 416 Query: 415 NLKAVADAIQMHESTVSRVTANKYMATNRGSFELKYFFTASIASADGGEAHSAEAVRHHI 474 NLKAVADAIQMHESTVSRVTANKYMATNRG FELKYFFTASIASADGGEAHSAEAVRHHI Sbjct: 417 NLKAVADAIQMHESTVSRVTANKYMATNRGIFELKYFFTASIASADGGEAHSAEAVRHHI 476 Query: 475 KQLIDGEAPSAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNA 534 KQLIDGE P+ ILSDDTIVE+LR +GIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNA Sbjct: 477 KQLIDGENPAIILSDDTIVEKLREAGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNA 536 Query: 535 LSAPASSSDRSRDTAP 550 L+APA+++DRSRDTAP Sbjct: 537 LTAPATTADRSRDTAP 552 >ref|YP_001236327.1| RNA polymerase factor sigma-54 [Bradyrhizobium sp. BTAi1] gb|ABQ32421.1| RNA polymerase, sigma 54 subunit, RpoN/SigL [Bradyrhizobium sp. BTAi1] Length = 545 Score = 932 bits (2408), Expect = 0.0, Method: Compositional matrix adjust. Identities = 463/552 (83%), Positives = 493/552 (89%), Gaps = 8/552 (1%) Query: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSAFVEEELERNPLLERAADGPEPPV 60 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLS FVEEELERNPLLERA DGPE PV Sbjct: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSTFVEEELERNPLLERANDGPEAPV 60 Query: 61 AGEPAM-ERPDYGDSDGSSSYGDDGDASDMAAGPGGEAAFEPGQEEWLNRDLGSRAEIEQ 119 AGE M ER ++ D+ G+ G G +F+ E+W++RDLG+R EIEQ Sbjct: 61 AGEQQMSERSEFSDA------GEAGGEDFGDGGGAAGESFDGAPEDWMSRDLGTRTEIEQ 114 Query: 120 TLDTRLDNVFSEEPAEAAARAAQDAPPSVYTEWGGGASSDDEYNLEAFVAAELTLADHLA 179 TLDT LDNVFSEEPAE AAR AQDA P+ YTEWGGGAS D++YNLEAFVAAE TL+DHLA Sbjct: 115 TLDTGLDNVFSEEPAETAARNAQDAAPTTYTEWGGGASGDEDYNLEAFVAAETTLSDHLA 174 Query: 180 EQLAVAFSAPAQRMIGQYLIDLVDDAGYLPADLGQAAERLGASQQAVDEVVAVLQKFDPP 239 EQ AVAF+APA RMIGQYLIDLVD+AGYLPADLGQAA+RLGA Q VD V+ VLQ FDPP Sbjct: 175 EQAAVAFTAPADRMIGQYLIDLVDEAGYLPADLGQAADRLGAEQADVDAVLGVLQTFDPP 234 Query: 240 GVCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAALRKLCGVDDEDITDMIAE 299 G+CARNLSECLAIQLRELDRYDPAMQALVEHLD+LAKRD A+LRKLCGVDDED+ DMI E Sbjct: 235 GICARNLSECLAIQLRELDRYDPAMQALVEHLDILAKRDFASLRKLCGVDDEDLVDMIGE 294 Query: 300 IRRLDPKPGLKFGTARTQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQSYYAELSKTI 359 IRRLDPKPGLKFGT RTQTMVPDVYVRPGPDGGW VELNSDTLPRVLVNQ YY+ELSKTI Sbjct: 295 IRRLDPKPGLKFGTTRTQTMVPDVYVRPGPDGGWLVELNSDTLPRVLVNQVYYSELSKTI 354 Query: 360 RKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTYGVAHLRPLNLKAV 419 RKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFT+GVAHLRPLNLKAV Sbjct: 355 RKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAV 414 Query: 420 ADAIQMHESTVSRVTANKYMATNRGSFELKYFFTASIASADGGEAHSAEAVRHHIKQLID 479 ADAIQMHESTVSRVTANKYMATNRG+FELKYFFTASIASADGGEAHSAEAVRHHIKQLID Sbjct: 415 ADAIQMHESTVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLID 474 Query: 480 GEAPSAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNALSAPA 539 E PSAILSDDTIVE+LRA+GIDIARRTVAKYREAMRIPSSVQRRRDKQSML +ALS PA Sbjct: 475 AEDPSAILSDDTIVEKLRAAGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLAHALSGPA 534 Query: 540 SSSDRSRDTAPV 551 +DR+RDTA V Sbjct: 535 -GADRTRDTASV 545 >ref|YP_001202334.1| RNA polymerase factor sigma-54 [Bradyrhizobium sp. ORS 278] emb|CAL74084.1| RNA polymerase sigma-54 factor [Bradyrhizobium sp. ORS 278] Length = 546 Score = 929 bits (2400), Expect = 0.0, Method: Compositional matrix adjust. Identities = 470/553 (84%), Positives = 500/553 (90%), Gaps = 9/553 (1%) Query: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSAFVEEELERNPLLERAADGPEPPV 60 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLS FVEEELERNPLLERA DGPE PV Sbjct: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSTFVEEELERNPLLERANDGPEAPV 60 Query: 61 AGEPAM-ERPDYGDSDGSSSYGDD-GDASDMAAGPGGEAAFEPGQEEWLNRDLGSRAEIE 118 AGE M ER ++ S+G + GDD GD AG G ++E E+W++RDLGSR EIE Sbjct: 61 AGEQQMAERGEF--SEGGEASGDDFGDG----AGSSGGESYESAPEDWMSRDLGSRTEIE 114 Query: 119 QTLDTRLDNVFSEEPAEAAARAAQDAPPSVYTEWGGGASSDDEYNLEAFVAAELTLADHL 178 QTLDT LDNVFSEEPAEAAAR AQDA P+ YTEWGGGAS D++YNLEAFVAAE TL+DHL Sbjct: 115 QTLDTGLDNVFSEEPAEAAARNAQDAAPTTYTEWGGGASGDEDYNLEAFVAAETTLSDHL 174 Query: 179 AEQLAVAFSAPAQRMIGQYLIDLVDDAGYLPADLGQAAERLGASQQAVDEVVAVLQKFDP 238 AEQ AVAF +PA RMIGQYLIDLVD+AGYLP DLGQAA+RLGA Q VD V+ VLQ FDP Sbjct: 175 AEQAAVAFVSPADRMIGQYLIDLVDEAGYLPVDLGQAADRLGAEQADVDAVLGVLQTFDP 234 Query: 239 PGVCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAALRKLCGVDDEDITDMIA 298 PG+CARNLSECLAIQLRELDRYDPAMQAL+EHLDLLAKRD AALR+LCGVDDED+ DMI Sbjct: 235 PGICARNLSECLAIQLRELDRYDPAMQALIEHLDLLAKRDFAALRRLCGVDDEDLVDMIG 294 Query: 299 EIRRLDPKPGLKFGTARTQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQSYYAELSKT 358 EIRRLDPKPGLKFGT RTQTMVPDVYVRPGPDGGW VELNSDTLPRVLVNQ YY+ELSKT Sbjct: 295 EIRRLDPKPGLKFGTTRTQTMVPDVYVRPGPDGGWLVELNSDTLPRVLVNQVYYSELSKT 354 Query: 359 IRKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTYGVAHLRPLNLKA 418 IRKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFT+GVAHLRPLNLKA Sbjct: 355 IRKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKA 414 Query: 419 VADAIQMHESTVSRVTANKYMATNRGSFELKYFFTASIASADGGEAHSAEAVRHHIKQLI 478 VADAIQMHESTVSRVTANKYMATNRG+FELKYFFTASIASADGGEAHSAEAVRHHIKQLI Sbjct: 415 VADAIQMHESTVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLI 474 Query: 479 DGEAPSAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNALSAP 538 D E PSAILSDDTIVE+LRA+GIDIARRTVAKYREAMRIPSSVQRRRDKQSML +ALS+P Sbjct: 475 DAEDPSAILSDDTIVEKLRAAGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLAHALSSP 534 Query: 539 ASSSDRSRDTAPV 551 A S+DR+RDTA V Sbjct: 535 A-SADRTRDTASV 546 >ref|NP_767363.1| RNA polymerase factor sigma-54 [Bradyrhizobium japonicum USDA 110] sp|P30333.1|RP55_BRAJA RecName: Full=RNA polymerase sigma-54 factor 2 gb|AAA26241.1| RNA polymerase sigma-54 subunit [Bradyrhizobium japonicum] dbj|BAC45988.1| RNA polymerase sigma-54 subunit [Bradyrhizobium japonicum USDA 110] Length = 537 Score = 920 bits (2377), Expect = 0.0, Method: Compositional matrix adjust. Identities = 466/550 (84%), Positives = 493/550 (89%), Gaps = 14/550 (2%) Query: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSAFVEEELERNPLLERAADGPEPPV 60 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDL+ FVEEELERNPLLERA D Sbjct: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLTTFVEEELERNPLLERAND---EAS 57 Query: 61 AGEPAMERPDYGDSDGSSSYGDDGDASDMAAGPGGEAAFEPGQEEWLNRDLGSRAEIEQT 120 GE E + DSDG G + GPG AFEPGQEEW+++DLG+RAEIEQT Sbjct: 58 GGEAPAEAGQFSDSDG-------GHNDEPGGGPG--EAFEPGQEEWMSKDLGTRAEIEQT 108 Query: 121 LDTRLDNVFSEEPAEAAARAAQDAPPSVYTEWGGGASSDDEYNLEAFVAAELTLADHLAE 180 LDT LDNVFSEEPAEAAAR AQDA P+ YTEWGGGAS D++YNLEAFVAAE+TL DHLAE Sbjct: 109 LDTGLDNVFSEEPAEAAARNAQDAAPTTYTEWGGGASGDEDYNLEAFVAAEVTLGDHLAE 168 Query: 181 QLAVAFSAPAQRMIGQYLIDLVDDAGYLPADLGQAAERLGASQQAVDEVVAVLQKFDPPG 240 QL+VAF+APAQRMIGQYLIDLVD+AGYLP DLGQAAERLGASQQ V++V+AVLQKFDPPG Sbjct: 169 QLSVAFTAPAQRMIGQYLIDLVDEAGYLPPDLGQAAERLGASQQEVEDVLAVLQKFDPPG 228 Query: 241 VCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAALRKLCGVDDEDITDMIAEI 300 VCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIA LRK+CGVDDEDI DMI EI Sbjct: 229 VCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAGLRKVCGVDDEDIADMIGEI 288 Query: 301 RRLDPKPGLKFGTARTQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQSYYAELSKTIR 360 RRL+PKPG+KFG AR QTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQ+YY+ELSK I Sbjct: 289 RRLNPKPGMKFGAARLQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQTYYSELSKKIG 348 Query: 361 KDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTYGVAHLRPLNLKAVA 420 KDGDKSYFTD LQNATWLVRALDQRARTILKVATEIVRQQDGFFT+GVAHLRPLNLKAVA Sbjct: 349 KDGDKSYFTDALQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAVA 408 Query: 421 DAIQMHESTVSRVTANKYMATNRGSFELKYFFTASIASADGGEAHSAEAVRHHIKQLIDG 480 DAIQMHESTVSRVTANKYMATNRG+FELKYFFTASIASADGGEAHSAEAVRHHIKQLID Sbjct: 409 DAIQMHESTVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLIDS 468 Query: 481 EAPSAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNALSAPAS 540 EAP+AILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQS LGN LS + Sbjct: 469 EAPAAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSALGNVLS--TA 526 Query: 541 SSDRSRDTAP 550 SDRSR+ P Sbjct: 527 MSDRSRNPEP 536 >ref|YP_567319.1| RNA polymerase factor sigma-54 [Rhodopseudomonas palustris BisB5] gb|ABE37418.1| sigma-54 factor, core-binding region [Rhodopseudomonas palustris BisB5] Length = 546 Score = 900 bits (2325), Expect = 0.0, Method: Compositional matrix adjust. Identities = 455/551 (82%), Positives = 502/551 (91%), Gaps = 7/551 (1%) Query: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLSAFVEEELERNPLLERAADGPEPPV 60 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDL+ FVE+ELE+NPLL+RA+D EP V Sbjct: 1 MALTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLAVFVEDELEKNPLLDRASDNAEPLV 60 Query: 61 AGEPAMERPDY-GDSDGSSSYGDDGDASDMAAGPGGEAAFEPGQEEWLNRDLGSRAEIEQ 119 AGE +M+R + GD G S G G+ASD A GG++ FEPG EEW++RDLGSR+EIEQ Sbjct: 61 AGEASMDRAENAGDEFGGSEAG--GEASDFADNAGGDS-FEPGSEEWMHRDLGSRSEIEQ 117 Query: 120 TLDTRLDNVFSEEPAEAAARAAQDAPPSVYTEWGGGASSDDEYNLEAFVAAELTLADHLA 179 TLDT ++NVF EEPAEAAARAAQDA P+ YTEWGGGASSD+ YNLEAFVAAE +LADHL+ Sbjct: 118 TLDTGMENVFPEEPAEAAARAAQDAAPASYTEWGGGASSDEGYNLEAFVAAETSLADHLS 177 Query: 180 EQLAVAFSAPAQRMIGQYLIDLVDDAGYLPADLGQAAERLGASQQAVDEVVAVLQKFDPP 239 EQLAVA S+P++RMIGQYLIDLVDDAGYLPADLG+AAERLG +Q V+ VV VLQ FDPP Sbjct: 178 EQLAVALSSPSERMIGQYLIDLVDDAGYLPADLGEAAERLGTTQTEVEAVVGVLQTFDPP 237 Query: 240 GVCARNLSECLAIQLRELDRYDPAMQALVEHLDLLAKRDIAALRKLCGVDDEDITDMIAE 299 G+CAR+L+ECLAIQLRELDR+DPAMQAL+EHLDLLAKRD+ +LRK+CGVDDED+ DMI E Sbjct: 238 GICARSLAECLAIQLRELDRFDPAMQALIEHLDLLAKRDVVSLRKICGVDDEDLADMIGE 297 Query: 300 IRRLDPKPGLKFGTARTQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQSYYAELSKTI 359 IR LDPKPGLKF ++R QT+VPDV+VRPGPDGGW VELNSDTLP+VLVNQSYY+ELSKTI Sbjct: 298 IRHLDPKPGLKFNSSRVQTVVPDVFVRPGPDGGWLVELNSDTLPKVLVNQSYYSELSKTI 357 Query: 360 RKDGDKSYFTDCLQNATWLVRALDQRARTILKVATEIVRQQDGFFTYGVAHLRPLNLKAV 419 RKDGDKSYF+DCLQ ATWLVRALDQRARTILKVATEIVRQQDGFFT+GVAHLRPLNLKAV Sbjct: 358 RKDGDKSYFSDCLQTATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAV 417 Query: 420 ADAIQMHESTVSRVTANKYMATNRGSFELKYFFTASIASADGGEAHSAEAVRHHIKQLID 479 ADAIQMHESTVSRVTANKYMATNRG+FELKYFFTASIASADGGEAHSAEAVRHHI+QLID Sbjct: 418 ADAIQMHESTVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIRQLID 477 Query: 480 GEAPSAILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRRDKQSMLGNALSAPA 539 GE PSAILSDDTIVERLR +GIDIARRTVAKYREAMRIPSSVQRRRDK SMLG AL+APA Sbjct: 478 GEDPSAILSDDTIVERLRGAGIDIARRTVAKYREAMRIPSSVQRRRDKHSMLGTALTAPA 537 Query: 540 SSSDRSRDTAP 550 DRSRDTAP Sbjct: 538 ---DRSRDTAP 545