BLASTP 2.2.18 [Mar-02-2008] 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= 0024.0185.p (260 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 451 e-128 gi|300313085|ref|YP_003777177.1| LysR family transcription regul... 92 3e-20 gi|300309859|ref|YP_003773951.1| LysR family transcription regul... 84 9e-18 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 82 4e-17 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 80 2e-16 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 451 bits (1161), Expect = e-128, Method: Compositional matrix adjust. Identities = 222/260 (85%), Positives = 242/260 (93%) Query: 1 VQSNVTTRIKQLEESIGVPLFVRDRKRLVLTASGEALLDYAERILDLVQEAREVVSPQNP 60 VQSNVTTRIKQLE+S+GVPLFVRDR+R+VLTA+GEALLDYAERILDL QEAR+ V+PQ+P Sbjct: 37 VQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAAGEALLDYAERILDLAQEARQAVAPQSP 96 Query: 61 RGRLRIGSMESAAASRLPAPLAEFHQRWPEVRLELSTGPTDVLIAGVRAGKLDAALVAGP 120 RGRLRIGSMESAAASRLP PLAEFHQRWPEVRLELST PTDVL+A VRA KLDAALVAGP Sbjct: 97 RGRLRIGSMESAAASRLPGPLAEFHQRWPEVRLELSTAPTDVLMAQVRACKLDAALVAGP 156 Query: 121 IEDGALSATPLYKEELLLVTPRSHRRVRSPEDVMLDTLIVFEQGCAYRRHAESWFAGQGK 180 + D A ATPL++EELLLVTPRSHRRVR+PE+VMLDTLIVFEQGCAYRRHAE+WFAG G Sbjct: 157 VSDPAFDATPLFREELLLVTPRSHRRVRAPEEVMLDTLIVFEQGCAYRRHAEAWFAGHGA 216 Query: 181 GGVPVRTLELASYHAILACVAAGAGVAVVPRSVIAMQMEPHGFATHSLGRDGRVTTFLIS 240 G RTLELASYHAILACV+AGAGVAVVPRSVIAMQMEPHGFATHSLGRDGR+TTFLIS Sbjct: 217 GRQLPRTLELASYHAILACVSAGAGVAVVPRSVIAMQMEPHGFATHSLGRDGRITTFLIS 276 Query: 241 RRERSSASLLALRSLLVASL 260 RRER SAS LALR+LL+AS+ Sbjct: 277 RRERYSASFLALRALLMASV 296 >gi|300313085|ref|YP_003777177.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 92.4 bits (228), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 114/226 (50%), Gaps = 16/226 (7%) Query: 2 QSNVTTRIKQLEESIGVPLFVRDRKRLVLTASGEALLDYAERILDLVQEAREVVSPQNP- 60 Q ++ IK+LE+ +GV +F R + +T G ++ AER+L+ +E+ + QN Sbjct: 29 QPTLSVAIKKLEDELGVVIFERGGTEVSVTPLGAQIVAQAERVLEQTAAIKEIAN-QNKD 87 Query: 61 --RGRLRIGSMESAAASRLPAPLAEFHQRWPEVRLELSTGPTDVLIAGVRAGKLDAALVA 118 G LR+G + + LP+ + +R P++ L L T LI +R G+LDAA++A Sbjct: 88 PLSGPLRLGIIYTIGPYLLPSLVKTMIERVPQMPLILQENFTTRLIELLRQGELDAAIMA 147 Query: 119 GPIEDGALSATPLYKEELLLVTPRSHRRVRSPE----DVMLDTLIVFEQGCAYRRHA--- 171 P + L+ PLY EE ++ PR H+ E ++ +T+++ G +R Sbjct: 148 LPFPEHGLNVLPLYDEEFMVALPRQHKWAERKEIDARELKSETMLLLGNGHCFRDQVLEV 207 Query: 172 ---ESWFAGQGKGGVPVRTLELASYHAILACVAAGAGVAVVPRSVI 214 S F+ G G RT E +S I V++G GV V+PR+ I Sbjct: 208 CPEMSRFSTNGDG--IARTFEGSSLETIRHMVSSGIGVTVLPRASI 251 >gi|300309859|ref|YP_003773951.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 84.3 bits (207), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/223 (32%), Positives = 105/223 (47%), Gaps = 14/223 (6%) Query: 1 VQSNVTTRIKQLEESIGVPLFVRDRKRLVLTASGEALLDYAERILDLVQEAREVVSPQNP 60 QS V+ I++LEES+G LFVRD L LTA GE+LL +A IL A S Sbjct: 44 TQSTVSDHIRRLEESLGRRLFVRDTHSLALTADGESLLVHARLILQAHARAEAQFSAPRL 103 Query: 61 RGRLRIGSMESAAASRLPAPLAEFHQRWPEVRLELSTGPTDVLIAGVRAGKLDAALVAGP 120 RGR+R G+ + A LP LA F + PEV LE++ G T L A + GKLD L+ G Sbjct: 104 RGRVRFGTSDDLAMGPLPDMLAAFRSQHPEVELEITIGLTSDLYASLDQGKLD--LLVGK 161 Query: 121 IEDGALSATPLYKEELLLVTPRSHRRVRSPEDVMLDTLIVFEQGCAYRRHAESWFAGQGK 180 G ++ + +T R + D+ ++ + R A GK Sbjct: 162 RRSGESRGHSMFSTPMQWLT-----RPDTLVDLAEPLPLILLPEPSITRAAT--LQALGK 214 Query: 181 GGVPVRTLELASYHAILACVAA---GAGVAVVPRSVIAMQMEP 220 G R + + HA C+AA G G+A +P+ + + + P Sbjct: 215 SGHHWRIVCTSGSHA--GCMAAARGGLGLAALPQHLASRDLVP 255 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 82.0 bits (201), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 107/218 (49%), Gaps = 7/218 (3%) Query: 1 VQSNVTTRIKQLEESIGVPLFVRDRKRLVLTASGEALLDYAERILDLVQEAREVVSPQN- 59 QS +++RI LEE +GV L R K+ LT +G+ A ++LD+ ++ R+ + + Sbjct: 28 TQSTMSSRIASLEEELGVVLLDRREKQFRLTVAGQRFQRLAVKLLDMQRQIRQELGGHSA 87 Query: 60 -PRGRLRIGSMESAAASRLPAPLAEFHQRWPEVRLELSTGPTDVLIAGVRAGKLDAALVA 118 P LRIGS+ES S LPA L E R+P+ LEL+ + VL +R G D + Sbjct: 88 GPLA-LRIGSIESVVHSWLPAWLQEIRCRYPDFALELTVETSPVLTEQIRRGAQDLVFTS 146 Query: 119 GPIEDGALSATPLYKEELLLVTPRSHRRVRSP--EDVMLDTLIVFEQGCAYRRHAESWFA 176 D A+ + + E++ V R RS E++ LI F++G + H Sbjct: 147 TVGSDTAVRSRLMTPMEMVFVGHRERFGTRSHTLEELAAHDLITFQRGS--QPHQGLLQL 204 Query: 177 GQGKGGVPVRTLELASYHAILACVAAGAGVAVVPRSVI 214 Q G R ++S A++ V G GVA +PR+ + Sbjct: 205 CQEWGVANPRIHAISSISAMVQLVEGGFGVATLPRASV 242 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 79.7 bits (195), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 106/216 (49%), Gaps = 11/216 (5%) Query: 2 QSNVTTRIKQLEESIGVPLFVRDRKRLVLTASGEALLDYAERILDLVQEAREVVSPQNPR 61 QS + I+++E + G LF RD + + LT GE + A +++ ++ A +S R Sbjct: 33 QSAFSAMIQKIEAAAGARLFERDTRNVTLTPEGELFVQVARQLVSDIEAAFSDMSDYVAR 92 Query: 62 --GRLRIGSMESAAASRLPAPLAEFHQRWPEVRLELSTGPTDVLIAGVRAGKLDAALVAG 119 GR+ I ++ S AA LP LA++ QR+P V +EL +D + +R GK+D AL A Sbjct: 93 RKGRVAIAALPSLAAGWLPPVLADYRQRYPGVTVELFDAISDQCLDLLRHGKVDIALTAP 152 Query: 120 PIEDGALSATPLYKEELLLVTPRSH-----RRVRSPEDVMLDTLIVFEQGCAYRRHAESW 174 PL + LV + H RR++ P+ + +I + + R+H ++ Sbjct: 153 GPNLLEFDTRPLCSDPFYLVCRKDHKLASKRRIKVPQLAGCE-MIHLARSTSVRQHLDAV 211 Query: 175 FAGQGKGGVPVRTLELASYHAILACVAAGAGVAVVP 210 GGV LE+ + A + +G GV+VVP Sbjct: 212 LR---PGGVIHTGLEVEHLATVAALIESGLGVSVVP 244 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.134 0.381 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 698,431 Number of extensions: 27158 Number of successful extensions: 231 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 242 Number of HSP's successfully gapped: 43 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 129 (54.3 bits)