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= 0004.0007.p         (741 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_003774296.1| RNA polymerase sigma-70 factor transcription...  1516   0.0  
ref|YP_004751680.1| RNA polymerase sigma factor [Collimonas fung...  1264   0.0  
ref|YP_001098788.1| putative sigma 70 factor of RNA polymerase [...  1254   0.0  
emb|CAL60659.2| putative RNA polymerase sigma factor rpoD (Sigma...  1252   0.0  
ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthin...  1238   0.0  
ref|ZP_08274384.1| RNA polymerase sigma factor RpoD [Oxalobacter...  1223   0.0  
ref|ZP_04577180.1| RNA polymerase primary sigma factor [Oxalobac...  1118   0.0  
ref|ZP_04579316.1| RNA polymerase primary sigma factor [Oxalobac...  1102   0.0  
ref|YP_004028655.1| RNA polymerase sigma factor rpoD [Burkholder...  1015   0.0  
ref|YP_584752.1| RNA polymerase sigma factor RpoD [Cupriavidus m...  1009   0.0  

>ref|YP_003774296.1| RNA polymerase sigma-70 factor transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
 gb|ADJ62388.1| RNA polymerase sigma-70 factor transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 850

 Score = 1516 bits (3926), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 741/741 (100%), Positives = 741/741 (100%)

Query: 1   VTTKKPETKTAKTTKAAKVEGKDVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRR 60
           VTTKKPETKTAKTTKAAKVEGKDVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRR
Sbjct: 110 VTTKKPETKTAKTTKAAKVEGKDVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRR 169

Query: 61  GRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELE 120
           GRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELE
Sbjct: 170 GRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELE 229

Query: 121 RRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAE 180
           RRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAE
Sbjct: 230 RRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAE 289

Query: 181 TLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEI 240
           TLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEI
Sbjct: 290 TLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEI 349

Query: 241 AKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEAAS 300
           AKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEAAS
Sbjct: 350 AKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEAAS 409

Query: 301 SDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQFENMRK 360
           SDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQFENMRK
Sbjct: 410 SDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQFENMRK 469

Query: 361 AFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDVAVN 420
           AFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDVAVN
Sbjct: 470 AFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDVAVN 529

Query: 421 KCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQARVVL 480
           KCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQARVVL
Sbjct: 530 KCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQARVVL 589

Query: 481 PLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 540
           PLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM
Sbjct: 590 PLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 649

Query: 541 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 600
           KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE
Sbjct: 650 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 709

Query: 601 TGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPAD 660
           TGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPAD
Sbjct: 710 TGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPAD 769

Query: 661 AALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 720
           AALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK
Sbjct: 770 AALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 829

Query: 721 ALRKLRHPSRSDKLKSFLEGN 741
           ALRKLRHPSRSDKLKSFLEGN
Sbjct: 830 ALRKLRHPSRSDKLKSFLEGN 850


>ref|YP_004751680.1| RNA polymerase sigma factor [Collimonas fungivorans Ter331]
 gb|AEK60857.1| RNA polymerase sigma factor [Collimonas fungivorans Ter331]
          Length = 831

 Score = 1264 bits (3272), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 659/745 (88%), Positives = 692/745 (92%), Gaps = 4/745 (0%)

Query: 1   VTTKKPETKTAKTTK-AAKVEGK-DVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPG 58
           VT KKP+ K  K++K AA    K DVS    S VSQTTDAA LAAIDTSGY+LPSVKVPG
Sbjct: 87  VTIKKPQLKVVKSSKNAAPAPVKADVSVMIGSGVSQTTDAATLAAIDTSGYILPSVKVPG 146

Query: 59  RRGRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEE 118
           RRGRKPKEFQPE+DEVAALN +ER ELKA DKAKAKDRKAKEKALLKDAFSSDTEASEEE
Sbjct: 147 RRGRKPKEFQPENDEVAALNAVERAELKAVDKAKAKDRKAKEKALLKDAFSSDTEASEEE 206

Query: 119 LERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPD 178
           LE RRQKLKTLIK+GKERGFLTFSEINDHLPENI+DPEAIEGIIGTFSDMGI+VYE APD
Sbjct: 207 LEARRQKLKTLIKMGKERGFLTFSEINDHLPENIIDPEAIEGIIGTFSDMGIAVYEQAPD 266

Query: 179 AETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEI 238
           AETLLLSDNVA VASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEI
Sbjct: 267 AETLLLSDNVATVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEI 326

Query: 239 EIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEA 298
           EIAKRIEDGLKDMIQAISACPTTIAEIL AA++I KDEIK+DEIVDGLVDPN++++   A
Sbjct: 327 EIAKRIEDGLKDMIQAISACPTTIAEILLAADKIGKDEIKIDEIVDGLVDPNQTDEAATA 386

Query: 299 ASSDSDEDDEDEEEEEEDEEEEESESTG--SGAAGFSAEQLEQLKRDALGKFAVIGTQFE 356
           +++ +  D++ ++EEEE+EE+ E +     SGAAGFSAEQLEQLKRDALGKF  I TQF+
Sbjct: 387 SAAATAADEDSDDEEEEEEEDAEEDDASSTSGAAGFSAEQLEQLKRDALGKFETISTQFD 446

Query: 357 NMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILD 416
            MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAK+VEKLCDTLR QVDEVR +ERQILD
Sbjct: 447 KMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRGQVDEVRQIERQILD 506

Query: 417 VAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQA 476
           VAVNKC MPR HFIKVFPGNE NLDWVDGEV+ NH YS VLSRNVPA+KELQQ+LIDLQA
Sbjct: 507 VAVNKCGMPRPHFIKVFPGNETNLDWVDGEVSGNHAYSTVLSRNVPAVKELQQRLIDLQA 566

Query: 477 RVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN 536
           RVVLPL DLR INKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN
Sbjct: 567 RVVLPLPDLRGINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN 626

Query: 537 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ 596
           IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ
Sbjct: 627 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ 686

Query: 597 ILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTL 656
           ILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTL
Sbjct: 687 ILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTL 746

Query: 657 APADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQ 716
           APADAALHASMR VVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQ
Sbjct: 747 APADAALHASMRGVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQ 806

Query: 717 IEAKALRKLRHPSRSDKLKSFLEGN 741
           IEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 807 IEAKALRKLRHPSRSDKLKSFLEGN 831


>ref|YP_001098788.1| putative sigma 70 factor of RNA polymerase [Herminiimonas
           arsenicoxydans]
          Length = 858

 Score = 1254 bits (3244), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 644/746 (86%), Positives = 684/746 (91%), Gaps = 7/746 (0%)

Query: 1   VTTKKPETKTAKTTKAAKVEGK-----DVSATAASSVSQTTDAAALAAIDTSGYVLPSVK 55
           VT KK E K+  T+K+AKVE K      V+     +VSQTTDAA LAAIDTSGY+LPS+K
Sbjct: 115 VTNKKSEVKS--TSKSAKVEPKVESRPGVNVMITPTVSQTTDAATLAAIDTSGYILPSIK 172

Query: 56  VPGRRGRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEAS 115
           VPGRRGRKPKEFQPE+DEVAALN +ER ELKA DKAKAKDRKAKEKALLKDAFS+DTEAS
Sbjct: 173 VPGRRGRKPKEFQPENDEVAALNAVERAELKAVDKAKAKDRKAKEKALLKDAFSNDTEAS 232

Query: 116 EEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEH 175
           EEELE RRQKLKTLIK GKERGFLT++EINDHLPENI+DPEAIEGIIGTF+DMGI+VYE 
Sbjct: 233 EEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYEQ 292

Query: 176 APDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 235
           APDAETLLLSDNVA VASDD+AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE
Sbjct: 293 APDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 352

Query: 236 GEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQ 295
           GEI+IAKRIEDGL+DMIQAISACPTTIAEI+AAAERISKDE K+DEIVDGLVD N SE  
Sbjct: 353 GEIDIAKRIEDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIVDGLVDMNASEPV 412

Query: 296 VEAASSDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQF 355
           +   +  +  D+E+EEEEEE+ EEEE     SGAAGFS+EQLEQLKRD+L KF+ I  QF
Sbjct: 413 IAPPAPAAASDEEEEEEEEEEAEEEEETPAASGAAGFSSEQLEQLKRDSLAKFSTIAMQF 472

Query: 356 ENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQIL 415
           + MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAK+VEKLCDTLR QVDEVR +E+QIL
Sbjct: 473 DKMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRGQVDEVRQIEKQIL 532

Query: 416 DVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQ 475
           D+AVN+C MPR HFIKVFPGNE NLDWVDGEV  NH YS VL+RNVPA+KELQQKLIDLQ
Sbjct: 533 DIAVNRCEMPRNHFIKVFPGNETNLDWVDGEVEGNHPYSIVLARNVPAVKELQQKLIDLQ 592

Query: 476 ARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG 535
           ARVVLPL DLRAIN+KM AGE KAR AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 593 ARVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG 652

Query: 536 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 595
           NIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR
Sbjct: 653 NIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 712

Query: 596 QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 655
           QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT
Sbjct: 713 QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 772

Query: 656 LAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 715
           LAPADAALHASMR VVKD+LDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR
Sbjct: 773 LAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 832

Query: 716 QIEAKALRKLRHPSRSDKLKSFLEGN 741
           QIEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 833 QIEAKALRKLRHPSRSDKLKSFLEGN 858


>emb|CAL60659.2| putative RNA polymerase sigma factor rpoD (Sigma-70) [Herminiimonas
           arsenicoxydans]
          Length = 800

 Score = 1252 bits (3239), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 644/746 (86%), Positives = 684/746 (91%), Gaps = 7/746 (0%)

Query: 1   VTTKKPETKTAKTTKAAKVEGK-----DVSATAASSVSQTTDAAALAAIDTSGYVLPSVK 55
           VT KK E K+  T+K+AKVE K      V+     +VSQTTDAA LAAIDTSGY+LPS+K
Sbjct: 57  VTNKKSEVKS--TSKSAKVEPKVESRPGVNVMITPTVSQTTDAATLAAIDTSGYILPSIK 114

Query: 56  VPGRRGRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEAS 115
           VPGRRGRKPKEFQPE+DEVAALN +ER ELKA DKAKAKDRKAKEKALLKDAFS+DTEAS
Sbjct: 115 VPGRRGRKPKEFQPENDEVAALNAVERAELKAVDKAKAKDRKAKEKALLKDAFSNDTEAS 174

Query: 116 EEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEH 175
           EEELE RRQKLKTLIK GKERGFLT++EINDHLPENI+DPEAIEGIIGTF+DMGI+VYE 
Sbjct: 175 EEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYEQ 234

Query: 176 APDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 235
           APDAETLLLSDNVA VASDD+AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE
Sbjct: 235 APDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 294

Query: 236 GEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQ 295
           GEI+IAKRIEDGL+DMIQAISACPTTIAEI+AAAERISKDE K+DEIVDGLVD N SE  
Sbjct: 295 GEIDIAKRIEDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIVDGLVDMNASEPV 354

Query: 296 VEAASSDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQF 355
           +   +  +  D+E+EEEEEE+ EEEE     SGAAGFS+EQLEQLKRD+L KF+ I  QF
Sbjct: 355 IAPPAPAAASDEEEEEEEEEEAEEEEETPAASGAAGFSSEQLEQLKRDSLAKFSTIAMQF 414

Query: 356 ENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQIL 415
           + MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAK+VEKLCDTLR QVDEVR +E+QIL
Sbjct: 415 DKMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRGQVDEVRQIEKQIL 474

Query: 416 DVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQ 475
           D+AVN+C MPR HFIKVFPGNE NLDWVDGEV  NH YS VL+RNVPA+KELQQKLIDLQ
Sbjct: 475 DIAVNRCEMPRNHFIKVFPGNETNLDWVDGEVEGNHPYSIVLARNVPAVKELQQKLIDLQ 534

Query: 476 ARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG 535
           ARVVLPL DLRAIN+KM AGE KAR AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 535 ARVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG 594

Query: 536 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 595
           NIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR
Sbjct: 595 NIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 654

Query: 596 QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 655
           QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT
Sbjct: 655 QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 714

Query: 656 LAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 715
           LAPADAALHASMR VVKD+LDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR
Sbjct: 715 LAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 774

Query: 716 QIEAKALRKLRHPSRSDKLKSFLEGN 741
           QIEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 775 QIEAKALRKLRHPSRSDKLKSFLEGN 800


>ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthinobacterium sp.
           Marseille]
 gb|ABR89248.1| RNA polymerase primary sigma factor [Janthinobacterium sp.
           Marseille]
          Length = 826

 Score = 1238 bits (3204), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 645/747 (86%), Positives = 685/747 (91%), Gaps = 8/747 (1%)

Query: 1   VTTKKPETKTAKTTKAAKVEGK-----DVSATAASSVSQTTDAAALAAIDTSGYVLPSVK 55
           VT KK E K A  +K+AKVE K      V+    ++VSQTTDAA LAAIDTSGY+LPS+K
Sbjct: 82  VTNKKSEVKPA--SKSAKVEPKVESRPGVNVMITATVSQTTDAATLAAIDTSGYILPSIK 139

Query: 56  VPGRRGRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEAS 115
           VPGRRGRKPKEFQPE+DE+AALN +ER ELKA DKAKAKDRKAKEKALLKDAFSSDTEAS
Sbjct: 140 VPGRRGRKPKEFQPENDEIAALNAVERAELKAVDKAKAKDRKAKEKALLKDAFSSDTEAS 199

Query: 116 EEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEH 175
           EEELE RRQKLKTLIK GKERGFLT++EINDHLPENI+DPEAIEGIIGTF+DMGI+VYE 
Sbjct: 200 EEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYEQ 259

Query: 176 APDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 235
           APDAETLLLSDNVA VASDD+AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE
Sbjct: 260 APDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTRE 319

Query: 236 GEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQ 295
           GEI+IAKRIEDGL+DMIQAISACPTTIAEI+AAAERISKDE K+DEIVDGLVD + +E  
Sbjct: 320 GEIDIAKRIEDGLRDMIQAISACPTTIAEIIAAAERISKDEAKIDEIVDGLVDMDAAEPV 379

Query: 296 VEAASSDSDEDDEDEEEEEEDEEEEESESTG-SGAAGFSAEQLEQLKRDALGKFAVIGTQ 354
           V   +  +  DDE++EEEEE+EEEEE E+T  SGAAGFS+EQLEQLKRD+L KF+ I  Q
Sbjct: 380 VAPPAPAASSDDEEDEEEEEEEEEEEEETTAASGAAGFSSEQLEQLKRDSLAKFSTIAQQ 439

Query: 355 FENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQI 414
           F+ MRKAFEKEGYNSKPYVKAQEIISNELL IRFTAK+VEKLCDTLR QVDEVR +E+QI
Sbjct: 440 FDKMRKAFEKEGYNSKPYVKAQEIISNELLSIRFTAKVVEKLCDTLRGQVDEVRHIEKQI 499

Query: 415 LDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDL 474
           LDVAVN+C MPR HFIKVFPGNE NLDWVDGEV   H YS VL+RNVP +KELQQKLIDL
Sbjct: 500 LDVAVNRCGMPRGHFIKVFPGNETNLDWVDGEVNGKHAYSVVLARNVPTVKELQQKLIDL 559

Query: 475 QARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQE 534
           QARVVLPL DLRAINKKM AGE KAR AKREMTEANLRLVISIAKKYTNRGLQFLDLIQE
Sbjct: 560 QARVVLPLPDLRAINKKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQE 619

Query: 535 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRIS 594
           GNIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRIS
Sbjct: 620 GNIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRIS 679

Query: 595 RQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNN 654
           RQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNN
Sbjct: 680 RQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNN 739

Query: 655 TLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERI 714
           TLAPADAALHASMR VVKD+LDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERI
Sbjct: 740 TLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERI 799

Query: 715 RQIEAKALRKLRHPSRSDKLKSFLEGN 741
           RQIEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 800 RQIEAKALRKLRHPSRSDKLKSFLEGN 826


>ref|ZP_08274384.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium
           IMCC9480]
 gb|EGF32147.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 827

 Score = 1223 bits (3164), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 634/756 (83%), Positives = 681/756 (90%), Gaps = 15/756 (1%)

Query: 1   VTTKKPETK----------TAKTTKAA--KVEGK-DVSATAASSVSQTTDAAALAAIDTS 47
           VTTKK ETK          TAKT   A  KVE K  V+    ++VSQTTDAA LAAIDTS
Sbjct: 72  VTTKKSETKIAAKPSAKAATAKTDPKAEVKVENKPGVNVMITATVSQTTDAATLAAIDTS 131

Query: 48  GYVLPSVKVPGRRGRKPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDA 107
           GY+LPS+KVPGRRGRKPKEFQPE+DEVAALN +ER ELKA DKAKAKDRKAKEKALLKDA
Sbjct: 132 GYILPSIKVPGRRGRKPKEFQPENDEVAALNAVERAELKAVDKAKAKDRKAKEKALLKDA 191

Query: 108 FSSDTEASEEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSD 167
           FSSDTEA+EEELERRRQKLKTLIKLGK+RGFLT++EINDHLPENIVDPEAIEGIIGTF+D
Sbjct: 192 FSSDTEATEEELERRRQKLKTLIKLGKDRGFLTYAEINDHLPENIVDPEAIEGIIGTFND 251

Query: 168 MGISVYEHAPDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMG 227
           MGI+VYEHAPDAE++LL+DNVA VASDD+AEAAAEAALSTVDSDFGRTTDPVRMYMREMG
Sbjct: 252 MGIAVYEHAPDAESMLLTDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMG 311

Query: 228 SVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLV 287
           SVELLTREGEIEIAKRIEDGLKDMIQAISACPTTI+EILAAAERI+  E K+DEIVDGLV
Sbjct: 312 SVELLTREGEIEIAKRIEDGLKDMIQAISACPTTISEILAAAERITNGETKIDEIVDGLV 371

Query: 288 D--PNESEQQVEAASSDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDAL 345
           D    E            D+++E+EEE EE+E   E E+  SGAAGF+AEQ+EQLKR++L
Sbjct: 372 DMLVIEVVVVPPPKVVSEDDEEEEEEEAEEEESGAEEETNASGAAGFTAEQIEQLKRESL 431

Query: 346 GKFAVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVD 405
            KF  I TQF+ MRKA+EKEGYNSKPYVKAQE IS+ELL IRFTAK+VEKLCDTLR QV+
Sbjct: 432 VKFQAISTQFDKMRKAYEKEGYNSKPYVKAQEAISSELLAIRFTAKVVEKLCDTLRGQVE 491

Query: 406 EVRTVERQILDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIK 465
           EVR +ERQILDVAVNKC MPR+HFIKVFPGNE NLDWVDGEV+ NH YS +L RNVP +K
Sbjct: 492 EVRHIERQILDVAVNKCRMPRSHFIKVFPGNETNLDWVDGEVSGNHPYSVILGRNVPTVK 551

Query: 466 ELQQKLIDLQARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRG 525
           ELQQKL+DLQ+RVVLPL DLRAIN++M AGE KAR AKREMTEANLRLVISIAKKYTNRG
Sbjct: 552 ELQQKLLDLQSRVVLPLPDLRAINRRMAAGEMKARKAKREMTEANLRLVISIAKKYTNRG 611

Query: 526 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 585
           LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 612 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 671

Query: 586 TINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSH 645
           TINKMNRISRQILQETGAEPDPATLAIKMEMPE+KIRKIMKIAKEPISMETPIGDDDDSH
Sbjct: 672 TINKMNRISRQILQETGAEPDPATLAIKMEMPEEKIRKIMKIAKEPISMETPIGDDDDSH 731

Query: 646 LGDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGK 705
           LGDFIEDNNTLAPADAALHASMR VVKD+LDSLTPREAKVLRMRFGIEMSTDHTLEEVGK
Sbjct: 732 LGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGK 791

Query: 706 QFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN 741
           QFDVTRERIRQIEAKALRKLRHPSRSD+LKSFLEGN
Sbjct: 792 QFDVTRERIRQIEAKALRKLRHPSRSDRLKSFLEGN 827


>ref|ZP_04577180.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS]
 gb|EEO28142.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS]
          Length = 827

 Score = 1118 bits (2892), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 575/746 (77%), Positives = 649/746 (86%), Gaps = 14/746 (1%)

Query: 4   KKPETKTAKTTKAAKVEGKDVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRRGRK 63
           +KP+   ++ T A   E  +VS T       TTDAA LAAIDTSGYVLP+VKVPGRRGRK
Sbjct: 88  RKPKNAESQETVATASEKGNVSDTIV-----TTDAAQLAAIDTSGYVLPTVKVPGRRGRK 142

Query: 64  PKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELERRR 123
           PK+FQPE++EVAALN +ER E+KAADKA+AKDRKAKEKALLKDA + DTEA+EEELERRR
Sbjct: 143 PKDFQPENEEVAALNAVERAEMKAADKARAKDRKAKEKALLKDALAGDTEATEEELERRR 202

Query: 124 QKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAETLL 183
           ++LK LIKLGKER FLT++EINDHLP+N++DP+AIEGII TF+DMGISVYEHAPDAE LL
Sbjct: 203 ERLKMLIKLGKERSFLTYAEINDHLPDNVIDPDAIEGIISTFNDMGISVYEHAPDAEDLL 262

Query: 184 LSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR 243
           L+DNV  V SD++AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR
Sbjct: 263 LTDNVVTVTSDEEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR 322

Query: 244 IEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEAASSDS 303
           IE+GLKDMIQAIS+CPTTI EI+  AE+I  DEI++DE+VDGL D    E QV AA+SD+
Sbjct: 323 IEEGLKDMIQAISSCPTTILEIIGQAEKIRNDEIRIDEVVDGLAD-EAGESQVLAAASDN 381

Query: 304 DEDDEDEEEEEEDEEEEESESTGSGAAGFSA--------EQLEQLKRDALGKFAVIGTQF 355
           D+D+ DE++ + DE + E         G +         EQLE+LK DAL +FA+I T F
Sbjct: 382 DQDESDEDDSDADENDGEEAEEEESDGGSAGGAAAGFSAEQLEKLKEDALARFALIETYF 441

Query: 356 ENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQIL 415
           + M++AFEK+GYNS  YVKA   IS+ELLG+RFTA+ +EKLCDTLR Q+D+VR +ER+IL
Sbjct: 442 KEMQQAFEKDGYNSPAYVKAHNSISDELLGMRFTARFIEKLCDTLRTQMDDVRQIEREIL 501

Query: 416 DVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQ 475
           +VAVNKC +PRAHFIK FPGNE N++WVD EV A H YS +LSRNVP IKELQQ L+D++
Sbjct: 502 NVAVNKCGVPRAHFIKTFPGNETNMEWVDEEVHAGHPYSEILSRNVPMIKELQQNLVDIE 561

Query: 476 ARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEG 535
            R+ +PL DLR IN+KM AGE +AR AK+EMTEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 562 KRIGMPLADLREINRKMVAGEMRARKAKKEMTEANLRLVISIAKKYTNRGLQFLDLIQEG 621

Query: 536 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 595
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR
Sbjct: 622 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 681

Query: 596 QILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 655
           QILQETGAEPDPATLA+KM+MPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT
Sbjct: 682 QILQETGAEPDPATLAVKMDMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNT 741

Query: 656 LAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 715
           LAPADAALHASMRNVVKD+LDSLTPREAKVLRMRFG+EMSTDHTLEEVGKQFDVTRERIR
Sbjct: 742 LAPADAALHASMRNVVKDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIR 801

Query: 716 QIEAKALRKLRHPSRSDKLKSFLEGN 741
           QIEAKALRKLRHPSRSDKLKSFLE N
Sbjct: 802 QIEAKALRKLRHPSRSDKLKSFLESN 827


>ref|ZP_04579316.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13]
 gb|EEO30289.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13]
          Length = 819

 Score = 1102 bits (2851), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 576/744 (77%), Positives = 650/744 (87%), Gaps = 11/744 (1%)

Query: 4   KKPETKTAKTTKAAKVEGKDVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRRGRK 63
           +KP+       +    E  +VS+T       TTDAA LAAIDTSGYVLPSVKVPGRRGRK
Sbjct: 81  RKPKNAVLAEPEVVLSENSNVSSTVV-----TTDAAKLAAIDTSGYVLPSVKVPGRRGRK 135

Query: 64  PKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELERRR 123
           PK+FQPE++EVAALN +ER E+KA DKA+AKDRKAKEKALLKDA S D+EAS EELERRR
Sbjct: 136 PKDFQPENEEVAALNAVERAEMKAVDKARAKDRKAKEKALLKDALSGDSEASMEELERRR 195

Query: 124 QKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAETLL 183
           ++L  LIKLGKER FLT++EINDHLP+N++DP+AIEGII TF+DMGISVYE APDAE LL
Sbjct: 196 ERLMILIKLGKERSFLTYAEINDHLPDNVIDPDAIEGIISTFNDMGISVYEQAPDAEELL 255

Query: 184 LSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR 243
           L+DNV  V SD++AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR
Sbjct: 256 LTDNVVTVTSDEEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKR 315

Query: 244 IEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVDGLVDPNESEQQVEAASS-- 301
           IE+GL+DMI AIS+CPTTI EI+  AE+I  DE+K+DE+VDGL D  E  +     +S  
Sbjct: 316 IEEGLRDMISAISSCPTTILEIIDQAEKIRADEVKIDEVVDGLADDEEGSENAALNASAS 375

Query: 302 ----DSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRDALGKFAVIGTQFEN 357
               DSDE+D DEE+ +++E++EES S G  AAGFSAEQLE+LK +ALGKFAVIG  F+ 
Sbjct: 376 DSDEDSDEEDSDEEDSDDEEDDEESGSAGGAAAGFSAEQLEKLKDEALGKFAVIGAHFKE 435

Query: 358 MRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDV 417
           M+++FEK+GYNS  Y++A E IS ELL +RFTA+ +EKLCDTLRAQ+DEVR +ER+IL+V
Sbjct: 436 MQQSFEKDGYNSPAYLQAHESISAELLTMRFTARFIEKLCDTLRAQMDEVRQIEREILNV 495

Query: 418 AVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQAR 477
            VNKC +PRAHFIK FPGNE +L W+D EV A+H YSA+L RNVP +KELQQKL+D+Q R
Sbjct: 496 VVNKCGVPRAHFIKTFPGNETDLTWIDEEVEADHPYSAILERNVPMVKELQQKLVDIQNR 555

Query: 478 VVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNI 537
           + +PL DLR IN+KM AGE +AR AK+EMTEANLRLVISIAKKYTNRGLQFLDLIQEGNI
Sbjct: 556 IGMPLADLREINRKMVAGEMRARKAKKEMTEANLRLVISIAKKYTNRGLQFLDLIQEGNI 615

Query: 538 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQI 597
           GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQI
Sbjct: 616 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQI 675

Query: 598 LQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLA 657
           LQETGAEPDPATLA+KMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLA
Sbjct: 676 LQETGAEPDPATLAVKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLA 735

Query: 658 PADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQI 717
           P+DAALHASMRNVVKD+LDSLTPREAKVLRMRFG+EMSTDHTLEEVGKQFDVTRERIRQI
Sbjct: 736 PSDAALHASMRNVVKDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQI 795

Query: 718 EAKALRKLRHPSRSDKLKSFLEGN 741
           EAKALRKLRHPSRSDKLKSFLE N
Sbjct: 796 EAKALRKLRHPSRSDKLKSFLESN 819


>ref|YP_004028655.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454]
 emb|CBW74511.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454]
          Length = 778

 Score = 1015 bits (2624), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 514/654 (78%), Positives = 575/654 (87%), Gaps = 1/654 (0%)

Query: 88  ADKAKAKDRKAKEKALLKDAFSSDTEASEEELERRRQKLKTLIKLGKERGFLTFSEINDH 147
            +K KA+DR+AKEKALLK+AF+S    + EELE RR KL+ LIKLGKERGFLT++EINDH
Sbjct: 126 GEKIKARDRRAKEKALLKEAFASHQPGTAEELEERRSKLRALIKLGKERGFLTYAEINDH 185

Query: 148 LPENIVDPEAIEGIIGTFSDMGISVYEHAPDAETLLLSDNVANVASDDDAEAAAEAALST 207
           LP+N  + EAIE II TF+DMG++VYE APDAETLLL+DN  +V+SDD+ E  AE ALST
Sbjct: 186 LPDNFAETEAIESIISTFNDMGVAVYEQAPDAETLLLNDNAPSVSSDDEVEEEAEVALST 245

Query: 208 VDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILA 267
           VDS+FGRTTDPVRMYMREMG+VELLTREGEIEIAKRIEDGLK M+QAISACPTTIA+ILA
Sbjct: 246 VDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEDGLKHMVQAISACPTTIADILA 305

Query: 268 AAERISKDEIKVDEIVDGLVDPNESEQQVEAASSDSDEDDEDEEEEEEDEEEEESESTGS 327
            AER++ DEI+VDE+VDGL+DPN +E     ++SD+DE + + ++ +E +EEEE E  G+
Sbjct: 306 MAERVANDEIRVDELVDGLIDPN-AEDADGFSASDADEIESEADDADEGDEEEEEEDEGA 364

Query: 328 GAAGFSAEQLEQLKRDALGKFAVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIR 387
           GAA  SA QLE LKR +L +FA+IG  F+ MR+A+EKEGY SK Y+KAQE I  EL+ IR
Sbjct: 365 GAAAASAAQLEALKRASLERFALIGEWFDKMRRAYEKEGYKSKSYLKAQEAIQAELMSIR 424

Query: 388 FTAKIVEKLCDTLRAQVDEVRTVERQILDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEV 447
           FTA+ VE+LCDTLRAQVDEVR VERQIL + V+KC MPRA FI  FP NE NLDW +  V
Sbjct: 425 FTARTVERLCDTLRAQVDEVRQVERQILHIVVDKCGMPRAEFIARFPSNETNLDWAEQIV 484

Query: 448 AANHDYSAVLSRNVPAIKELQQKLIDLQARVVLPLQDLRAINKKMGAGEKKARMAKREMT 507
           A  H YSAVL RN+PAI+E QQ+LIDLQARVVLPL+DL+  N++M AGE KAR AKREMT
Sbjct: 485 AEGHPYSAVLERNIPAIREQQQRLIDLQARVVLPLKDLKETNRQMAAGELKARQAKREMT 544

Query: 508 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 567
           EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 545 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 604

Query: 568 RSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKI 627
           RSIADQARTIRIPVHMIETINKMNRISRQILQETG EPDPATLA KMEMPEDKIRKIMKI
Sbjct: 605 RSIADQARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKI 664

Query: 628 AKEPISMETPIGDDDDSHLGDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLR 687
           AKEPISMETPIGDDDDSHLGDFIEDNNT+APADAALHASMR+VVKD+LDSLTPREAKVLR
Sbjct: 665 AKEPISMETPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLR 724

Query: 688 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN 741
           MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 725 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN 778


>ref|YP_584752.1| RNA polymerase sigma factor RpoD [Cupriavidus metallidurans CH34]
 gb|ABF09483.1| RNA polymerase sigma D factor (housekeeping sigma factor)
           [Cupriavidus metallidurans CH34]
          Length = 855

 Score = 1009 bits (2610), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 518/706 (73%), Positives = 585/706 (82%), Gaps = 22/706 (3%)

Query: 52  PSVKV-PGRRGRKPK---------------EFQPESDEVAALNTIERTELKAADKAKAKD 95
           P+VK  P +RGRKPK               EF  ++D  A      +TE     K KAKD
Sbjct: 156 PAVKPEPKKRGRKPKAEMQQDDSTIEDVTEEFY-DNDAPATPAAAPKTE-----KQKAKD 209

Query: 96  RKAKEKALLKDAFSSDTEASEEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDP 155
           RKAKEKALLK+  SS+   SEEELE RRQKLK LIKLGK RG+LT++EINDHLP+++VD 
Sbjct: 210 RKAKEKALLKEFASSNQAGSEEELEIRRQKLKALIKLGKSRGYLTYAEINDHLPDDMVDS 269

Query: 156 EAIEGIIGTFSDMGISVYEHAPDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRT 215
           E I+ ++ T +D+GI+VYE APDAETLLL+DN  +  S+++AE  AEAALSTVDS+FGRT
Sbjct: 270 ETIDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRT 329

Query: 216 TDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKD 275
           TDPVRMYMREMG+VELLTREGEIEIAKRIE GLKDM+ AISACP TI+EILA+AER++ +
Sbjct: 330 TDPVRMYMREMGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILASAERVANE 389

Query: 276 EIKVDEIVDGLVDPNESEQQVEAASSDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAE 335
           EIK+DE VDGL+DPN  E Q  + +     DDEDE+ +E+ ++ EE +    G AG SA 
Sbjct: 390 EIKIDEFVDGLIDPNAEEVQDNSPAQAVAADDEDEDSDEDGDDGEEEDDESGGGAGASAR 449

Query: 336 QLEQLKRDALGKFAVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEK 395
           QLE+LK  AL KF VI  QF+ MR+AFEKEGY SKPYVKAQE I  EL+ IRFTA+ VE+
Sbjct: 450 QLEELKVAALEKFRVIAEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMSIRFTARNVER 509

Query: 396 LCDTLRAQVDEVRTVERQILDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSA 455
           LCDTLR QVDEVR +ER IL++ V+KC MPRA F+  FPGNE NLDW+   VA N  YS 
Sbjct: 510 LCDTLRGQVDEVRKLERAILNIVVDKCGMPRADFVARFPGNETNLDWIQTIVADNKSYST 569

Query: 456 VLSRNVPAIKELQQKLIDLQARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVI 515
           ++ RNVPA+ ELQQKLIDLQ+RVVLPL++L+ +N+KM  GEK+AR AKREMTEANLRLVI
Sbjct: 570 IVERNVPAVHELQQKLIDLQSRVVLPLKELKDVNRKMSEGEKRAREAKREMTEANLRLVI 629

Query: 516 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 575
           SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR
Sbjct: 630 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 689

Query: 576 TIRIPVHMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISME 635
           TIRIPVHMIETINKMNRISRQILQETG EPDPATLA KMEMPEDKIRKIMKIAKEPISME
Sbjct: 690 TIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 749

Query: 636 TPIGDDDDSHLGDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMS 695
           TPIGDDDDSHLGDFIED NTLAPA+AAL  SMR+VVKD+LDSLTPREAKVLRMRFGIEMS
Sbjct: 750 TPIGDDDDSHLGDFIEDTNTLAPAEAALDGSMRDVVKDVLDSLTPREAKVLRMRFGIEMS 809

Query: 696 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN 741
           TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN
Sbjct: 810 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN 855