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= 0005.0178.p         (151 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VCA0889 [K] COG0583 Transcriptional regulator Vch Vibrio cholerae     122   3e-28
VC1955 [K] COG0583 Transcriptional regulator Vch Vibrio cholerae       91   7e-19
slr1871 [K] COG0583 Transcriptional regulator Syn Synechocystis        90   2e-18
PA2547 [K] COG0583 Transcriptional regulator Pae Pseudomonas aer...    90   2e-18
PA0056 [K] COG0583 Transcriptional regulator Pae Pseudomonas aer...    88   6e-18

>VCA0889 [K] COG0583 Transcriptional regulator Vch Vibrio cholerae
          Length = 312

 Score =  122 bits (306), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 58/144 (40%), Positives = 85/144 (59%), Gaps = 2/144 (1%)

Query: 2   RIDHLLCATPHYLATHGTPAHPQALKEHSCIYLGESPADARWRFRRQGKSVNVEVRGRYA 61
           + + +LCA+P YLA  GTP HP  L EH C+YL E+  D  W F +  ++  V V GRYA
Sbjct: 166 KTNLVLCASPEYLAQRGTPIHPTDLAEHDCLYLAETDKDHIWTFAKGRETHTVAVSGRYA 225

Query: 62  ANHTGVRLDAVLRHLGIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRH 121
            N + +RL  V  HLGI     F+ + AL  G +VQVL +W+ +++Y G +   Y  T++
Sbjct: 226 VNQSQLRLTGVKNHLGIGIFHDFVVQDALAAGKVVQVLQEWNIKSNYHGAIAMQYAQTKY 285

Query: 122 LPPRLGAFVQFLAQRLAQVPTLAG 145
           +P RL  F+ F+ + L+  P L G
Sbjct: 286 MPARLRVFIDFVLEHLS--PKLNG 307


>VC1955 [K] COG0583 Transcriptional regulator Vch Vibrio cholerae
          Length = 315

 Score = 91.3 bits (225), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 46/133 (34%), Positives = 72/133 (54%), Gaps = 3/133 (2%)

Query: 6   LLCATPHYLATHGTPAHPQALKEHSC-IYLGESPADARWRFRRQGKSVNVEVRGRYAANH 64
           ++ A+P YL  +G+P  P AL EH+C IY        RW F R G +  ++V G Y+ + 
Sbjct: 166 VVAASPDYLLRYGSPTEPMALMEHNCLIYRSWERDYTRWSFSRDGHNQTIKVAGNYSVDL 225

Query: 65  TGVRLDAVLRHLGIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHLPP 124
                DA +   GIA L  ++ R     G L+Q+LP+WS         +A+YP+ +H+P 
Sbjct: 226 AEAVRDAAVAGWGIAYLATYLLRDEFRTGQLIQLLPEWSANQQM--PFYAVYPSRQHMPK 283

Query: 125 RLGAFVQFLAQRL 137
           +  A ++F+ QRL
Sbjct: 284 KTSAVIEFIKQRL 296


>slr1871 [K] COG0583 Transcriptional regulator Syn Synechocystis
          Length = 295

 Score = 90.1 bits (222), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/128 (35%), Positives = 67/128 (52%), Gaps = 3/128 (2%)

Query: 6   LLCATPHYLATHGTPAHPQALKEHSCIYLGESPADARWRFRRQGKSVNVEVRGRYAANHT 65
           LLCA+P YLA  G P   + L+ H+C+  G S   ++W+F  Q     + V G + +N+ 
Sbjct: 165 LLCASPEYLAVRGMPQALEDLQRHNCLLYGYSSGGSQWQFLGQAGEKVISVSGNFCSNNG 224

Query: 66  GVRLDAVLRHLGIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHLPPR 125
                AV + LGIA LP FI +P LE G +  +LP +  R         +YP  RHL  +
Sbjct: 225 EALAIAVAQGLGIALLPQFIVQPYLEAGKMQIILPDYCLRELTVS---LIYPVNRHLATK 281

Query: 126 LGAFVQFL 133
           +  F +FL
Sbjct: 282 VKLFTEFL 289


>PA2547 [K] COG0583 Transcriptional regulator Pae Pseudomonas aeruginosa
          Length = 305

 Score = 89.7 bits (221), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 77/144 (53%), Gaps = 7/144 (4%)

Query: 3   IDHLLCATPHYLATHGTPAHPQALKEHSCIYLGESPADARWRFRRQGKSVNVEVRGRYAA 62
           ++H+LCA P YL+ HG P  P+AL+EH CI    S    RW FR+  + + V + GRY  
Sbjct: 166 LEHVLCAAPAYLSQHGQPLRPEALREHECIRFSLSGHADRWTFRKDRECIAVPIAGRYRV 225

Query: 63  NHTGVRLDAVLRHLGIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHL 122
           + +    DA+L   G++ +P    +  L EG LV++L  W         + A+YP +R L
Sbjct: 226 SSSLAVRDALLAGFGLSLIPRLYVQAELAEGRLVELLADWKADE---TAIHAVYP-SRQL 281

Query: 123 PPRLGAFVQFLAQRLAQ---VPTL 143
             +   F+ FL + +AQ    PTL
Sbjct: 282 AGKTRVFLDFLTETMAQGHDSPTL 305


>PA0056 [K] COG0583 Transcriptional regulator Pae Pseudomonas aeruginosa
          Length = 306

 Score = 88.2 bits (217), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 53/139 (38%), Positives = 76/139 (54%), Gaps = 10/139 (7%)

Query: 6   LLCATPHYLATHGTPAHPQALKEHSCI---YLGESPADARWRFRRQGKSVNVEVRGRYAA 62
           ++CA P YL  HGTP  P+ L  H+C+   Y G S     W+F R G+  +V V G  +A
Sbjct: 164 VICAAPDYLRRHGTPRRPEDLALHNCLTYSYFGRS----LWQFERDGEPTSVPVGGSLSA 219

Query: 63  NHTGVRLDAVLRHLGIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHL 122
           N + V L+A     GI+  P + A P +  G LV +LP+WS      G + A+Y + R +
Sbjct: 220 NESTVLLEAAAAGAGISQQPLYSAAPLIRSGRLVALLPEWS--PQVLG-IHAVYASRRQM 276

Query: 123 PPRLGAFVQFLAQRLAQVP 141
           PP L A + FL +R+A  P
Sbjct: 277 PPALRALLDFLVERMAADP 295