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= 0007.0086.p         (172 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm...   127   9e-30
PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   124   1e-28
fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s...   115   3e-26
PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   115   4e-26
PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma...    99   5e-21

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

 Score =  127 bits (320), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 71/152 (46%), Positives = 99/152 (65%), Gaps = 2/152 (1%)

Query: 15  FIEHHGWLRTRLRRSVGDAFAAEDVAAETFTQLLTSPP-QEVREPRALLTTISRRIVYEL 73
           F +H+ WL  R+ R  G  F AED+A+E F QLL  P  Q  REPRALLTTI++R++Y++
Sbjct: 16  FRQHYAWLAGRMGRKTGCRFGAEDLASEAFAQLLQMPDWQGTREPRALLTTIAQRLLYDI 75

Query: 74  WRRRDLEAACLQALAHANGEAQVISPEDQLQLLQALRAMDQALAGLSAKECAAFLLYKLD 133
           WRRRDLE A  QA A A  EA + SPE++  +L+AL  +D+ L GL  K   AFL  +LD
Sbjct: 76  WRRRDLELA-YQAWAAAQPEATLPSPEERALVLEALATIDRLLDGLPVKARTAFLYSQLD 134

Query: 134 GLTYQAIGEQLRITPSVARRYVAKGLLQCYKA 165
           GLTY  I  +L ++  + ++Y+ + +  CY A
Sbjct: 135 GLTYPEIAGRLNVSVRMVQKYMTQAMRLCYLA 166


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

 Score =  124 bits (311), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 70/152 (46%), Positives = 101/152 (66%), Gaps = 2/152 (1%)

Query: 14  MFIEHHGWLRTRLRRSVGDAFAAEDVAAETFTQLLTSP-PQEVREPRALLTTISRRIVYE 72
           MF   + WL  RLRR +G   +AED+A+ETF ++L  P P  +REPRALLTTI+RR++Y+
Sbjct: 14  MFQNDYSWLSGRLRRYLGCPHSAEDIASETFLKVLALPDPASIREPRALLTTIARRLMYD 73

Query: 73  LWRRRDLEAACLQALAHANGEAQVISPEDQLQLLQALRAMDQALAGLSAKECAAFLLYKL 132
            WRR+DLE A L++LA    EA   S E+Q Q+++ L  +++ LAGLS K  AAF+  ++
Sbjct: 74  GWRRQDLERAYLESLA-GLPEALAPSAEEQAQVVETLLRLERMLAGLSPKARAAFIHSQI 132

Query: 133 DGLTYQAIGEQLRITPSVARRYVAKGLLQCYK 164
            GLTY  I   L ++ S   +Y+ +G  QCY+
Sbjct: 133 GGLTYVEIACLLEVSVSRIHQYMVEGFKQCYQ 164


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

 Score =  115 bits (289), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 61/153 (39%), Positives = 96/153 (62%), Gaps = 2/153 (1%)

Query: 11  IEAMFIEHHGWLRTRLRRSVGDAFAAEDVAAETFTQLLTSPP-QEVREPRALLTTISRRI 69
            E+++  HHGWL++ L R +  AF A+D+A +TF +++ S     +R+PR+ L TI++R+
Sbjct: 13  FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRV 72

Query: 70  VYELWRRRDLEAACLQALAHANGEAQVISPEDQLQLLQALRAMDQALAGLSAKECAAFLL 129
           + +L+RR  LE A L+ LA    E    SPE++   L+ L+ +D  L GL+ K   AFLL
Sbjct: 73  MVDLFRRNALEKAYLEMLA-LMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLL 131

Query: 130 YKLDGLTYQAIGEQLRITPSVARRYVAKGLLQC 162
            +LDGLTY  I  +L ++ S  ++YVAK +  C
Sbjct: 132 SQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164


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

 Score =  115 bits (289), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 68/159 (42%), Positives = 100/159 (62%), Gaps = 4/159 (2%)

Query: 11  IEAMFIEHHGWLRTRLRRSVGDAFAAEDVAAETFTQLLTSP-PQEVREPRALLTTISRRI 69
           I  +F +++ WL  +L    G + +AED+AAE F Q+   P P  +R PRA L TI++R+
Sbjct: 12  IAQLFQQNYDWLCKKLSYQTGCSHSAEDLAAEAFLQVWMLPDPASIRSPRAFLATIAQRL 71

Query: 70  VYELWRRRDLEAACLQALAHANGEAQVISPEDQLQLLQALRAMDQALAGLSAKECAAFLL 129
           +YE WRR+DLE A LQ LA A  EA   SP +Q  L+++L+A+D+ L GLS +  A FL+
Sbjct: 72  MYESWRRKDLERAYLQILAEAP-EAVQPSPHEQWMLIESLQAIDRLLDGLSGQARAVFLM 130

Query: 130 YKLDGLTYQAIGEQLRITPSVARRYVAKGLLQCYKAAGF 168
            +L+GLTY  IGE+L ++     + +   L  CY+  GF
Sbjct: 131 SQLEGLTYVQIGERLGLSLGRIHQLMKDALHCCYR--GF 167


>PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 169

 Score = 99.0 bits (245), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 63/153 (41%), Positives = 91/153 (59%), Gaps = 2/153 (1%)

Query: 14  MFIEHHGWLRTRLRRSVGDAFAAEDVAAETFTQLLTS-PPQEVREPRALLTTISRRIVYE 72
           ++ +HH WL   LRR +G    A D+A +TF ++L S     + EPRA LTTI+RR++  
Sbjct: 15  LYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQAARIDEPRAFLTTIARRVLCN 74

Query: 73  LWRRRDLEAACLQALAHANGEAQVISPEDQLQLLQALRAMDQALAGLSAKECAAFLLYKL 132
            +RR+D+E A L+ALA +  E +V S E +  +L+ L  +D+ L GL       FLL +L
Sbjct: 75  HYRRQDVERAYLEALA-SLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQL 133

Query: 133 DGLTYQAIGEQLRITPSVARRYVAKGLLQCYKA 165
           DGL Y  I  QL I+ S  +RY+ K   +CY A
Sbjct: 134 DGLGYAEIATQLGISLSSVKRYMLKAAQRCYFA 166