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= 0106.0088.p         (142 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|NP_773931.1| transcriptional regulator [Bradyrhizobium japon...   203   6e-51
gb|AAM12344.1| sigma 54 activator [Bradyrhizobium japonicum]          175   2e-42
ref|YP_259275.1| acetoin catabolism regulatory protein [Pseudomo...   113   9e-24
ref|ZP_08873137.1| Fis family GAF modulated sigma-54 specific tr...   111   4e-23
ref|YP_004700019.1| GAF modulated sigma54 specific Fis family tr...   108   2e-22

>ref|NP_773931.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 dbj|BAC52556.1| transcriptional regulatory protein [Bradyrhizobium japonicum USDA
           110]
          Length = 627

 Score =  203 bits (517), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 99/141 (70%), Positives = 118/141 (83%)

Query: 1   MAEDGSFRSDLYYRLRGMEIRLPALRERTDRKDVIAQIADEEAPHCRIAADAWAQLMAYP 60
           MAE+G+FR+DLY+RLRGME++LP+LRER DR D+I QIA EEAP+CR++ +AWA L AYP
Sbjct: 479 MAEEGAFRADLYFRLRGMEVKLPSLRERADRDDIIRQIAREEAPNCRLSDEAWALLSAYP 538

Query: 61  FPGNMRQLRHVLRLAGATAEDAVITEADLDLPPFGARGAEADHTTRERTAIVDALRANDG 120
           +PGNMRQLRHVLRLAG TAE+ V+T+ADLDLP FG R AE D    ER  IV+ALR + G
Sbjct: 539 YPGNMRQLRHVLRLAGCTAENGVVTDADLDLPLFGGRAAEPDLAAAERATIVEALRKHGG 598

Query: 121 RVTNAARALGLSRATLYRKIR 141
           RVT AARAL LSRATLYRKI+
Sbjct: 599 RVTEAARALKLSRATLYRKIK 619


>gb|AAM12344.1| sigma 54 activator [Bradyrhizobium japonicum]
          Length = 188

 Score =  175 bits (443), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 90/141 (63%), Positives = 109/141 (77%)

Query: 1   MAEDGSFRSDLYYRLRGMEIRLPALRERTDRKDVIAQIADEEAPHCRIAADAWAQLMAYP 60
           MAE+G+FR+DLY+RLRGME++LP+LRER DR D+I QIA EEAP+CR++ +AWA L AYP
Sbjct: 40  MAEEGAFRADLYFRLRGMEVKLPSLRERADRDDIIRQIAREEAPNCRLSDEAWALLSAYP 99

Query: 61  FPGNMRQLRHVLRLAGATAEDAVITEADLDLPPFGARGAEADHTTRERTAIVDALRANDG 120
           +PGNMRQLRHVLRLAG TAE+ V+T+ADLDLP FG R A+     R R     A +A   
Sbjct: 100 YPGNMRQLRHVLRLAGCTAENGVVTDADLDLPLFGGRAADGPRGGRARDDRRGAAQAWRS 159

Query: 121 RVTNAARALGLSRATLYRKIR 141
            V   ARAL LSRATLYRKI+
Sbjct: 160 CVPRRARALKLSRATLYRKIK 180


>ref|YP_259275.1| acetoin catabolism regulatory protein [Pseudomonas fluorescens
           Pf-5]
 gb|AAY91442.1| acetoin catabolism regulatory protein [Pseudomonas fluorescens
           Pf-5]
          Length = 622

 Score =  113 bits (283), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 68/154 (44%), Positives = 95/154 (61%), Gaps = 15/154 (9%)

Query: 1   MAEDGSFRSDLYYRLRGMEIRLPALRERTDRKDVIAQIADEEAPHC----RIAADAWAQL 56
           +  +GSFR DLY+RL G   +LP LRER+DR  +I +I +EE+  C    ++   A   L
Sbjct: 461 LVAEGSFREDLYFRLGGARFQLPPLRERSDRLALITRIVEEESKRCGAPVQLGNAALECL 520

Query: 57  MAYPFPGNMRQLRHVLRLAGATAEDAVITEADLDLPPFGARGAEADH--------TTRER 108
           + Y +PGN+RQLRHVLR A A  E  +I   DL   P   RGAEA+         T+ ER
Sbjct: 521 LGYRWPGNVRQLRHVLRYACAVCEGPLIQLHDL---PEQLRGAEAEGALPALETATSPER 577

Query: 109 TAIVDALRANDGRVTNAARALGLSRATLYRKIRR 142
            A++DAL  +  +   AA+ALG+SRATLYR++++
Sbjct: 578 QALLDALVRHRWKPVAAAKALGISRATLYRRVQQ 611


>ref|ZP_08873137.1| Fis family GAF modulated sigma-54 specific transcriptional
           regulator [Verminephrobacter sp. At4]
          Length = 648

 Score =  111 bits (277), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 68/153 (44%), Positives = 89/153 (58%), Gaps = 14/153 (9%)

Query: 1   MAEDGSFRSDLYYRLRGMEIRLPALRERTDRKDVIAQI-ADEEAPHCRIAADAWAQLMAY 59
           +  +G FR DLYYRL G+E+ LPALRERTDR+++I  I  DE    CR+ A A   LM +
Sbjct: 490 LVREGRFREDLYYRLAGIELDLPALRERTDRRELIHDILMDEAGGACRLGAAAERLLMGH 549

Query: 60  PFPGNMRQLRHVLRLAGATAEDAVITEADLDLPPFGARGAEADHT----------TRERT 109
           P+PGN+RQLRHVLR A A A+   IT   L   P  +R                   ER 
Sbjct: 550 PWPGNLRQLRHVLRSAAALADGQTITPEHL---PSLSRSPAPAEAAPASGLNPIQANERK 606

Query: 110 AIVDALRANDGRVTNAARALGLSRATLYRKIRR 142
           A++  L  +   V++ A+AL +SR TLYRK+RR
Sbjct: 607 ALLQMLEEHRWNVSHVAKALEISRNTLYRKLRR 639


>ref|YP_004700019.1| GAF modulated sigma54 specific Fis family transcriptional regulator
           [Pseudomonas putida S16]
 gb|AEJ11139.1| GAF modulated sigma54 specific Fis family transcriptional regulator
           [Pseudomonas putida S16]
          Length = 602

 Score =  108 bits (271), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 68/149 (45%), Positives = 87/149 (58%), Gaps = 12/149 (8%)

Query: 1   MAEDGSFRSDLYYRLRGMEIRLPALRERTDRKDVIAQIADEEAPHCRI----AADAWAQL 56
           M EDG FR DLY+RL      LP LRER DR  +I Q+  EEA  C +    A DA   L
Sbjct: 445 MVEDGRFREDLYFRLANARFELPPLREREDRLGLIHQLLAEEAEACGVEVVLADDALQAL 504

Query: 57  MAYPFPGNMRQLRHVLRLAGATAEDAVITEADLDLPPFGARG-----AEADHTTRERTAI 111
           + Y +PGN+RQLR VLR A A +ED  +   DL   P   RG     AE+  +   R  +
Sbjct: 505 LVYRWPGNLRQLRQVLRYACAVSEDGRVQVQDL---PQEVRGEVVASAESSMSCPARQLL 561

Query: 112 VDALRANDGRVTNAARALGLSRATLYRKI 140
           +DAL  +  +  +AARALG+SRATLYR++
Sbjct: 562 LDALIRHRWKPADAARALGISRATLYRRV 590