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= 0004.0097.p         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSp1506 [K] COG2188 Transcriptional regulators Rso Ralstonia sol...   117   3e-26
RSc1997 [K] COG2188 Transcriptional regulators Rso Ralstonia sol...    94   3e-19
lin0901 [K] COG2188 Transcriptional regulators Lin Listeria innocua    75   1e-13
BS_yvoA [K] COG2188 Transcriptional regulators Bsu Bacillus subt...    75   1e-13
STM3602 [K] COG2188 Transcriptional regulators Sty Salmonella ty...    75   2e-13

>RSp1506 [K] COG2188 Transcriptional regulators Rso Ralstonia solanacearum
          Length = 240

 Score =  117 bits (293), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 75/187 (40%), Positives = 104/187 (55%), Gaps = 7/187 (3%)

Query: 8   PAFVRLARYIHDR------IIAGEWLPGQVLPGEEALAQDMKVSVGTVRKAFDVLSGQGL 61
           PA +RL RY   R      +   +W PG  +P E  LA+   V+VGTVRKA DVL  +GL
Sbjct: 2   PADLRLPRYQQLRDDLAAQVARQQWRPGDAIPTEAELAKLYNVAVGTVRKAIDVLVAEGL 61

Query: 62  VTRHRGRGTFVTRATNERAFTSFYRLTDRADGVRRLPQDTLLLRERVAADADERAALKLD 121
           + R +GRGTFV RA+   +   F+R  +   G RR+P+  +L R+ + A +   A L+++
Sbjct: 62  LERFQGRGTFVRRASFASSLFRFFRFQNE-RGERRIPESRILKRDVLDAPSAPAAGLQIE 120

Query: 122 AGALVYRLRRLRVLDDTPLVLETISFPFARVGNKEWGADGAPFHLVYSFLEQQCGISVSR 181
            GA V RL RLR+LD  PL+ E I  P+ R         GA   L+Y   E+QCG  V+ 
Sbjct: 121 TGAPVIRLTRLRLLDAAPLLAEEIWLPYDRFEPLATLEPGAFGDLLYPLYEKQCGQIVAS 180

Query: 182 VEDRLRA 188
            E+ L A
Sbjct: 181 AEETLTA 187


>RSc1997 [K] COG2188 Transcriptional regulators Rso Ralstonia solanacearum
          Length = 274

 Score = 94.0 bits (232), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 64/187 (34%), Positives = 93/187 (49%), Gaps = 7/187 (3%)

Query: 6   LSPAFVRLARYIHDRIIAGEWLPGQVLPGEEALAQDMKVSVGTVRKAFDVLSGQGLVTRH 65
            SP + ++   I   + AGEW PG+++P E  LA   KVS GTVRKA D L+ + LV R 
Sbjct: 40  FSPLYQQIKTLILQSLQAGEWKPGEMIPSEMELAARYKVSQGTVRKAIDELAAENLVARR 99

Query: 66  RGRGTFVTRATNERAFTSFYRLTDRADGVRRLPQDTLLLRERVAADADERAALKLDAGAL 125
           +G+GTFVT    E     F RL     G +  P   +L  +R+ A A+    L L  G  
Sbjct: 100 QGKGTFVTTHYEEGVQFRFLRLMPE-QGEQHYPSSRVLECKRLRAPAEIARLLDLKPGDS 158

Query: 126 VYRLRRLRVLDDTPLVLETISFP---FARVGNKEWGADGAPFHLVYSFLEQQCGISVSRV 182
           V ++RR+      P V E I  P   F  +  ++      P   +Y+F E + G+ + R 
Sbjct: 159 VVQIRRVLFFSGEPTVFEEIWLPGSSFKGLTAEKLTDWKGP---MYAFFEAEFGVRMLRA 215

Query: 183 EDRLRAC 189
            +R+RA 
Sbjct: 216 TERIRAV 222


>lin0901 [K] COG2188 Transcriptional regulators Lin Listeria innocua
          Length = 237

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 60/180 (33%), Positives = 91/180 (50%), Gaps = 25/180 (13%)

Query: 13  LARYIHDRIIAGEWLPGQVLPGEEALAQDMKVSVGTVRKAFDVLSGQGLVTRHRGRGTFV 72
           +A  I ++I  G + P  +LP + +L++    S  T++KAFDVL+ +GLV R RG GTFV
Sbjct: 7   IAAEIREKINNGTYPPESILPDQVSLSRAYDCSRMTIKKAFDVLALEGLVYRQRGAGTFV 66

Query: 73  TRATNERAFTSFYRLTDRADGVRRLPQDTLLLRERVAADA---DERA--ALKLDAGALVY 127
            +  N  A      L D  DG+ ++  D  +  + +A D    DE+    L + A   VY
Sbjct: 67  MK--NALANKQDASLRD-YDGLTKMMGDNRIRSKIIAFDIAFPDEKTQEQLLIKADQPVY 123

Query: 128 RLRRLRVLDDTPLVLETISFPFARVGNKEWGADGAP-------FHLVYSFLEQQCGISVS 180
           +L RLR+LD  P VLE  + P          AD  P        H +Y++L+   G+ +S
Sbjct: 124 KLIRLRLLDGEPYVLEHTTMP----------ADLVPGLTREILHHSIYAYLQDTLGLVLS 173


>BS_yvoA [K] COG2188 Transcriptional regulators Bsu Bacillus subtilis
          Length = 243

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/197 (24%), Positives = 87/197 (44%), Gaps = 3/197 (1%)

Query: 8   PAFVRLARYIHDRIIAGEWLPGQVLPGEEALAQDMKVSVGTVRKAFDVLSGQGLVTRHRG 67
           P + ++   +  +I  GE  P   LP E   A+   +S  TVR+A   L  +GL+ R +G
Sbjct: 10  PIYYQIMEQLKTQIKNGELQPDMPLPSEREYAEQFGISRMTVRQALSNLVNEGLLYRLKG 69

Query: 68  RGTFVTRATNERAFTSFYRLTDRADGVRRLPQDTLLLRERVAADADERAALKLDAGALVY 127
           RGTFV++   E+A       T+        P   L+  + + +  +  A L     + ++
Sbjct: 70  RGTFVSKPKMEQALQGLTSFTEDMKSRGMTPGSRLIDYQLIDSTEELAAILGCGHPSSIH 129

Query: 128 RLRRLRVLDDTPLVLETISFPFARVGNKEWGADGAPFHLVYSFLEQQCGISVSRVEDRLR 187
           ++ R+R+ +D P+ +E+   PF   G        +    +Y  +E+   I +SR +  L 
Sbjct: 130 KITRVRLANDIPMAIESSHIPFELAGELNESHFQSS---IYDHIERYNSIPISRAKQELE 186

Query: 188 ACLLPKKVAKDFGLPAG 204
                 + A   G+  G
Sbjct: 187 PSAATTEEANILGIQKG 203


>STM3602 [K] COG2188 Transcriptional regulators Sty Salmonella typhimurium
           LT2
          Length = 239

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/141 (31%), Positives = 71/141 (50%)

Query: 8   PAFVRLARYIHDRIIAGEWLPGQVLPGEEALAQDMKVSVGTVRKAFDVLSGQGLVTRHRG 67
           P + +L   + + I  GE+ PGQ +P E  L+   +VS  TVRKA D L+ + L+TR  G
Sbjct: 12  PLYKQLEAALKEAIARGEYKPGQQIPTENELSVRWQVSRVTVRKALDALTRENLLTRVSG 71

Query: 68  RGTFVTRATNERAFTSFYRLTDRADGVRRLPQDTLLLRERVAADADERAALKLDAGALVY 127
           +GTFV+    +R+ T     ++      R P    +     + D + +A L ++ G    
Sbjct: 72  KGTFVSGEKFQRSMTGIMSFSELCQSQGRRPGSRTIKSVFESVDDETKALLNMNDGEKAV 131

Query: 128 RLRRLRVLDDTPLVLETISFP 148
            + R+R  DD  + LET+  P
Sbjct: 132 VIERIRYADDVAVSLETVHLP 152