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= 0016.0035.p         (191 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   119   5e-27
RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm...   118   1e-26
PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   110   2e-24
fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s...   109   5e-24
PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma...    95   9e-20

>PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 168

 Score =  119 bits (297), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 69/167 (41%), Positives = 104/167 (62%), Gaps = 18/167 (10%)

Query: 19  IFIEHHGWLRTRLRRSAFTAEDVAAETXSVGDAFTAEDVAAETFTQLLHSPPPQEVREPR 78
           +F   + WL  RLRR              +G   +AED+A+ETF ++L  P P  +REPR
Sbjct: 14  MFQNDYSWLSGRLRRY-------------LGCPHSAEDIASETFLKVLALPDPASIREPR 60

Query: 79  ALLTTISRRIVYELWRRRDLEEACLQALAHVSGDVQAISP--EDQLQLLQALRAMDQALA 136
           ALLTTI+RR++Y+ WRR+DLE A L++LA   G  +A++P  E+Q Q+++ L  +++ LA
Sbjct: 61  ALLTTIARRLMYDGWRRQDLERAYLESLA---GLPEALAPSAEEQAQVVETLLRLERMLA 117

Query: 137 GLSAKECAAFLLYKLDGLTYQAIGAQLRITPSVARRYVAKGLLQCYK 183
           GLS K  AAF+  ++ GLTY  I   L ++ S   +Y+ +G  QCY+
Sbjct: 118 GLSPKARAAFIHSQIGGLTYVEIACLLEVSVSRIHQYMVEGFKQCYQ 164


>RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Rso Ralstonia solanacearum
          Length = 169

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/175 (40%), Positives = 98/175 (56%), Gaps = 14/175 (8%)

Query: 11  PAMSRIEAIFIEHHGWLRTRLRRSAFTAEDVAAETXSVGDAFTAEDVAAETFTQLLHSPP 70
           PA       F +H+ WL  R+ R               G  F AED+A+E F QLL  P 
Sbjct: 7   PATEVASDWFRQHYAWLAGRMGRK-------------TGCRFGAEDLASEAFAQLLQMPD 53

Query: 71  PQEVREPRALLTTISRRIVYELWRRRDLEEACLQALAHVSGDVQAISPEDQLQLLQALRA 130
            Q  REPRALLTTI++R++Y++WRRRDLE A  QA A    +    SPE++  +L+AL  
Sbjct: 54  WQGTREPRALLTTIAQRLLYDIWRRRDLELA-YQAWAAAQPEATLPSPEERALVLEALAT 112

Query: 131 MDQALAGLSAKECAAFLLYKLDGLTYQAIGAQLRITPSVARRYVAKGLLQCYKAA 185
           +D+ L GL  K   AFL  +LDGLTY  I  +L ++  + ++Y+ + +  CY A 
Sbjct: 113 IDRLLDGLPVKARTAFLYSQLDGLTYPEIAGRLNVSVRMVQKYMTQAMRLCYLAG 167


>PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 169

 Score =  110 bits (274), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 66/172 (38%), Positives = 99/172 (57%), Gaps = 16/172 (9%)

Query: 16  IEAIFIEHHGWLRTRLRRSAFTAEDVAAETXSVGDAFTAEDVAAETFTQLLHSPPPQEVR 75
           I  +F +++ WL  +L             +   G + +AED+AAE F Q+   P P  +R
Sbjct: 12  IAQLFQQNYDWLCKKL-------------SYQTGCSHSAEDLAAEAFLQVWMLPDPASIR 58

Query: 76  EPRALLTTISRRIVYELWRRRDLEEACLQALAHVSGDVQAISPEDQLQLLQALRAMDQAL 135
            PRA L TI++R++YE WRR+DLE A LQ LA     VQ  SP +Q  L+++L+A+D+ L
Sbjct: 59  SPRAFLATIAQRLMYESWRRKDLERAYLQILAEAPEAVQP-SPHEQWMLIESLQAIDRLL 117

Query: 136 AGLSAKECAAFLLYKLDGLTYQAIGAQLRITPSVARRYVAKGLLQCYKAAGF 187
            GLS +  A FL+ +L+GLTY  IG +L ++     + +   L  CY+  GF
Sbjct: 118 DGLSGQARAVFLMSQLEGLTYVQIGERLGLSLGRIHQLMKDALHCCYR--GF 167


>fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Eco Escherichia coli K12
          Length = 173

 Score =  109 bits (272), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 61/166 (36%), Positives = 99/166 (59%), Gaps = 14/166 (8%)

Query: 16  IEAIFIEHHGWLRTRLRRSAFTAEDVAAETXSVGDAFTAEDVAAETFTQLLHSPPPQEVR 75
            E+++  HHGWL++ L R              +  AF A+D+A +TF +++ S     +R
Sbjct: 13  FESLYGTHHGWLKSWLTRK-------------LQSAFDADDIAQDTFLRVMVSETLSTIR 59

Query: 76  EPRALLTTISRRIVYELWRRRDLEEACLQALAHVSGDVQAISPEDQLQLLQALRAMDQAL 135
           +PR+ L TI++R++ +L+RR  LE+A L+ LA +  +  A SPE++   L+ L+ +D  L
Sbjct: 60  DPRSFLCTIAKRVMVDLFRRNALEKAYLEMLA-LMPEGGAPSPEERESQLETLQLLDSML 118

Query: 136 AGLSAKECAAFLLYKLDGLTYQAIGAQLRITPSVARRYVAKGLLQC 181
            GL+ K   AFLL +LDGLTY  I  +L ++ S  ++YVAK +  C
Sbjct: 119 DGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164


>PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 168

 Score = 94.7 bits (234), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 94/166 (56%), Gaps = 14/166 (8%)

Query: 16  IEAIFIEHHGWLRTRLRRSAFTAEDVAAETXSVGDAFTAEDVAAETFTQLLHSPPPQEVR 75
           +  ++ +HHGWL+  LRR    AE+ A             D+A +TF +LL S    + R
Sbjct: 12  VSHLYQDHHGWLQGWLRRRLGCAENAA-------------DLAQDTFARLLASRRVLDAR 58

Query: 76  EPRALLTTISRRIVYELWRRRDLEEACLQALAHVSGDVQAISPEDQLQLLQALRAMDQAL 135
           EPRA LTT+++ ++   ++R+ LE A L ALA++  D+ A  PE +L +L+ L  +D  L
Sbjct: 59  EPRAYLTTVAKGLMINWFQRQSLERAYLDALANLPEDL-APPPEQRLMVLETLHEVDALL 117

Query: 136 AGLSAKECAAFLLYKLDGLTYQAIGAQLRITPSVARRYVAKGLLQC 181
             L  +   AFLL +++GL Y+AI  +L ++    +RY+ +   QC
Sbjct: 118 GSLPDRVRQAFLLAQIEGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163