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= 0018.0078.p         (182 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s...   161   6e-40
PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   155   7e-38
PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   150   2e-36
PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   145   4e-35
PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   139   3e-33

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

 Score =  161 bits (408), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 79/163 (48%), Positives = 112/163 (68%), Gaps = 1/163 (0%)

Query: 14  TVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWL 73
           T  +  F +LY  HHGWL+ WL R++ S+FDA D+AQDTFLRV+     L  +R+PR++L
Sbjct: 7   TTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSE-TLSTIRDPRSFL 65

Query: 74  SRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERA 133
             IA  ++VD  RR  +E+  LE +A +PE    SPE R   +E L ++D++L+GL  + 
Sbjct: 66  CTIAKRVMVDLFRRNALEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKT 125

Query: 134 RQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMR 176
           R+AFLLS+LD ++Y EIA  LGVS+SSV+KY+A A+ HC L R
Sbjct: 126 REAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHCLLFR 168


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

 Score =  155 bits (391), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 81/163 (49%), Positives = 112/163 (68%), Gaps = 2/163 (1%)

Query: 10  PVPHTVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREP 69
           P   ++H    H LY +HHGWLQ WLRRR+G + +AADLAQDTF R+L     LD  REP
Sbjct: 3   PADASLHDAVSH-LYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLDA-REP 60

Query: 70  RAWLSRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGL 129
           RA+L+ +A GL+++  +R+ +ER  L+A+A+LPE     PE RL+++E L  +DALL  L
Sbjct: 61  RAYLTTVAKGLMINWFQRQSLERAYLDALANLPEDLAPPPEQRLMVLETLHEVDALLGSL 120

Query: 130 GERARQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHC 172
            +R RQAFLL++++ + Y  IA  LGVSL SV++YM  A R C
Sbjct: 121 PDRVRQAFLLAQIEGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163


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

 Score =  150 bits (378), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 80/153 (52%), Positives = 107/153 (69%), Gaps = 1/153 (0%)

Query: 22  TLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLV 81
           TLYS+HH WL  WLRRR+G   +AADLAQDTF++VL    A   + EPRA+L+ IA  ++
Sbjct: 14  TLYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQAAR-IDEPRAFLTTIARRVL 72

Query: 82  VDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSR 141
            +  RR++VER  LEA+A LPE EV S E R I++E L  +D LL+GL   A++ FLL++
Sbjct: 73  CNHYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQ 132

Query: 142 LDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYL 174
           LD + Y EIA  LG+SLSSV++YM  A + CY 
Sbjct: 133 LDGLGYAEIATQLGISLSSVKRYMLKAAQRCYF 165


>PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 172

 Score =  145 bits (367), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 88/167 (52%), Positives = 120/167 (71%), Gaps = 1/167 (0%)

Query: 10  PVPHTVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREP 69
           P+  + H +  H LYSEHHGWLQ WLR ++G + DAADLAQDTFLR+L K   L  +  P
Sbjct: 4   PILLSAHHRAMHALYSEHHGWLQNWLRGKLGCAADAADLAQDTFLRILLKR-ELREIGMP 62

Query: 70  RAWLSRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGL 129
           RA+L  IA GLV+D  RREE++R  LE+IAHLPE +  SPEAR +++E L  I  +L+GL
Sbjct: 63  RAFLRTIARGLVIDHWRREELQRAYLESIAHLPEAQAPSPEARELVLELLEEISRMLDGL 122

Query: 130 GERARQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMR 176
             + R AFLL++ +++S+ +IA  +GVS  SVE+Y+A A+ HCYL+R
Sbjct: 123 KPKVRTAFLLAQCEDLSHRQIAERMGVSQRSVERYVAEALYHCYLLR 169


>PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Pae Pseudomonas aeruginosa
          Length = 172

 Score =  139 bits (350), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 74/166 (44%), Positives = 106/166 (63%), Gaps = 1/166 (0%)

Query: 9   MPVPHTVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVRE 68
           M      +++   +LY +H GWL  WL R +G    A DL+QDTF+R+LG+P  L G+RE
Sbjct: 1   MSAGDVSNSEFVGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRP-ELPGLRE 59

Query: 69  PRAWLSRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEG 128
           PRA+L+++A GL++D  RR  +E+  L  +A +PE E  S E + +++E L  ID LL  
Sbjct: 60  PRAFLAKVARGLMIDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGT 119

Query: 129 LGERARQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYL 174
           L  +AR AFL SRLD M + EIA  LGVS+  V +Y+A  +R CY+
Sbjct: 120 LSLKARSAFLYSRLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYI 165