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= 0045.0030.p         (164 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   184   1e-46
PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   166   1e-41
fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s...   162   3e-40
PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   149   2e-36
PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma...   134   7e-32

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

 Score =  184 bits (466), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 90/155 (58%), Positives = 122/155 (78%), Gaps = 1/155 (0%)

Query: 6   LYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSDRVPSVIHEPRAYLTTVAQRLVS 65
           LY DHH WL GWL+RRLG  + AADLAQDTF+++L S R  + I EPRA+LTT+A+R++ 
Sbjct: 15  LYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVS-RQAARIDEPRAFLTTIARRVLC 73

Query: 66  NLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRAFLLSQL 125
           N +RR+ +E+AYLEALA  P    PS + +AI+LETL+ELD+LLD LP + +  FLL+QL
Sbjct: 74  NHYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQL 133

Query: 126 DGLTHAQVAAALGISIPTVKRYLVKALQRCYFADI 160
           DGL +A++A  LGIS+ +VKRY++KA QRCYFA++
Sbjct: 134 DGLGYAEIATQLGISLSSVKRYMLKAAQRCYFAEL 168


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

 Score =  166 bits (421), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 85/154 (55%), Positives = 116/154 (75%), Gaps = 1/154 (0%)

Query: 2   SIEALYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSDRVPSVIHEPRAYLTTVAQ 61
           ++  LY DHH WL+GWL+RRLG +E AADLAQDTF RLL S RV     EPRAYLTTVA+
Sbjct: 11  AVSHLYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLDA-REPRAYLTTVAK 69

Query: 62  RLVSNLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRAFL 121
            L+ N ++R+ LE+AYL+ALA  P  LAP P+++ ++LETL E+D LL  LP  VR+AFL
Sbjct: 70  GLMINWFQRQSLERAYLDALANLPEDLAPPPEQRLMVLETLHEVDALLGSLPDRVRQAFL 129

Query: 122 LSQLDGLTHAQVAAALGISIPTVKRYLVKALQRC 155
           L+Q++GL +  +A  LG+S+ +VKRY+ +A ++C
Sbjct: 130 LAQIEGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163


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

 Score =  162 bits (410), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 79/155 (50%), Positives = 113/155 (72%), Gaps = 1/155 (0%)

Query: 1   MSIEALYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSDRVPSVIHEPRAYLTTVA 60
           ++ E+LY  HH WLK WL R+L ++  A D+AQDTFLR++ S+ + S I +PR++L T+A
Sbjct: 11  LTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETL-STIRDPRSFLCTIA 69

Query: 61  QRLVSNLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRAF 120
           +R++ +L+RR  LE+AYLE LA  P   APSP+E+   LETL  LD +LD L    R AF
Sbjct: 70  KRVMVDLFRRNALEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAF 129

Query: 121 LLSQLDGLTHAQVAAALGISIPTVKRYLVKALQRC 155
           LLSQLDGLT++++A  LG+SI +VK+Y+ KA++ C
Sbjct: 130 LLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164


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

 Score =  149 bits (377), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 77/156 (49%), Positives = 106/156 (67%), Gaps = 1/156 (0%)

Query: 3   IEALYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSDRVPSVIHEPRAYLTTVAQR 62
           + +LY DH  WL  WL R LG  ++A DL+QDTF+RLLG   +P  + EPRA+L  VA+ 
Sbjct: 12  VGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRPELPG-LREPRAFLAKVARG 70

Query: 63  LVSNLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRAFLL 122
           L+ + +RR  LEQAYL  LA  P A  PS +EQ ++LE L E+D+LL  L    R AFL 
Sbjct: 71  LMIDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGTLSLKARSAFLY 130

Query: 123 SQLDGLTHAQVAAALGISIPTVKRYLVKALQRCYFA 158
           S+LDG+ HA++A  LG+S+P V++YL + L++CY A
Sbjct: 131 SRLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYIA 166


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

 Score =  134 bits (338), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 69/151 (45%), Positives = 105/151 (69%), Gaps = 1/151 (0%)

Query: 6   LYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSDRVPSVIHEPRAYLTTVAQRLVS 65
           ++ + +SWL G L+R LG    A D+A +TFL++L     P+ I EPRA LTT+A+RL+ 
Sbjct: 14  MFQNDYSWLSGRLRRYLGCPHSAEDIASETFLKVLALPD-PASIREPRALLTTIARRLMY 72

Query: 66  NLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRAFLLSQL 125
           + WRR+ LE+AYLE+LA  P ALAPS +EQA ++ETLL L+++L  L    R AF+ SQ+
Sbjct: 73  DGWRRQDLERAYLESLAGLPEALAPSAEEQAQVVETLLRLERMLAGLSPKARAAFIHSQI 132

Query: 126 DGLTHAQVAAALGISIPTVKRYLVKALQRCY 156
            GLT+ ++A  L +S+  + +Y+V+  ++CY
Sbjct: 133 GGLTYVEIACLLEVSVSRIHQYMVEGFKQCY 163