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= 0229.0021.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312111|ref|YP_003776203.1| LysR family transcription regul... 528 e-151 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 235 3e-63 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 92 5e-20 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 87 2e-18 gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 85 7e-18 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 528 bits (1361), Expect = e-151, Method: Compositional matrix adjust. Identities = 255/297 (85%), Positives = 275/297 (92%) Query: 1 MLFDLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLT 60 MLFDLTDLRLFILIAE NSLTRSAERMNLSL ATSNRIKELE RFG RLLYRESKGVQLT Sbjct: 1 MLFDLTDLRLFILIAEHNSLTRSAERMNLSLGATSNRIKELETRFGTRLLYRESKGVQLT 60 Query: 61 PAGQTFLSHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHP 120 PAG T L HAQQFMQQVE LK DMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFL HP Sbjct: 61 PAGHTLLHHAQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLARHP 120 Query: 121 QVNVALEERLNHDIMRGIQEGTADIGIVAGPVQGEGLEILNFSTDKLILATALEHPLAGV 180 QVNVALEERLNHDI+RGIQEGTADIGIVAGPVQGEGL+ILNFSTD+L+LATALEHPLA Sbjct: 121 QVNVALEERLNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLVLATALEHPLADA 180 Query: 181 GKVTFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIG 240 + F +TLEYEH+GLHEGSTLHHFL++IV+E+GQRLKLRIQVRSFEAMCRM+ETNVGIG Sbjct: 181 PSLPFIQTLEYEHIGLHEGSTLHHFLSKIVAENGQRLKLRIQVRSFEAMCRMIETNVGIG 240 Query: 241 IVPQSAALRHKQTMQLSLVELSDPWSVRERSMVVQSLDALPLYARDLVEFIRQQTAQ 297 I+P+SAA RH+QTMQLS+VELSDPWSVRERSMVVQ +D L +AR+LVEFIR+QTAQ Sbjct: 241 ILPRSAAQRHQQTMQLSVVELSDPWSVRERSMVVQDIDTLSPHARNLVEFIREQTAQ 297 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 235 bits (600), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 114/289 (39%), Positives = 184/289 (63%) Query: 3 FDLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLTPA 62 F+L+DLRLF+ I E S+T A+R +++LA+ S RI+ +E G LL R +GVQ T A Sbjct: 5 FELSDLRLFLHIVESGSITGGAQRAHMALASASARIRNMEDALGTPLLERGRRGVQTTDA 64 Query: 63 GQTFLSHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQV 122 G+ HA+ QQ+E+L+ ++ QY G+KG+IR+ NT+A+TEF+PE+L +FL HP Sbjct: 65 GRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHT 124 Query: 123 NVALEERLNHDIMRGIQEGTADIGIVAGPVQGEGLEILNFSTDKLILATALEHPLAGVGK 182 ++ LEE+L++++++ + +G AD+GI+A L+ F D L+ + HPLA Sbjct: 125 DIELEEKLSYEVVQAVIDGVADVGIIADSTDSGPLQTYPFRQDHLVAVLSKRHPLARRKS 184 Query: 183 VTFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIGIV 242 + FAE L + VGL S L L+ + +G+RL+ R+++RSF+ +CRMVE VG+ ++ Sbjct: 185 LAFAELLGEDFVGLSGDSALQQHLSGHATRAGKRLQYRVRLRSFDGICRMVEHQVGVAVL 244 Query: 243 PQSAALRHKQTMQLSLVELSDPWSVRERSMVVQSLDALPLYARDLVEFI 291 P++AAL M + + LSD WS R+ + V+ L+ LP R+L++ + Sbjct: 245 PETAALASTPHMDIRAIPLSDGWSRRQLLICVRGLEGLPGPTRELIQAL 293 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 92.0 bits (227), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 59/242 (24%), Positives = 116/242 (47%), Gaps = 11/242 (4%) Query: 8 LRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLTPAGQTFL 67 L+ F+ +A+ +A+R ++S +A S I+++EA G RL R+++ V LTP G+ F+ Sbjct: 10 LQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPEGELFV 69 Query: 68 SHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQVNVALE 127 A+Q + +E DM Y KG + I A + ++P +L + +P V V L Sbjct: 70 QVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGVTVELF 129 Query: 128 ERLNHDIMRGIQEGTADIGIVAGPVQGEGLEILNFST-----DKLILATALEHPLAGVGK 182 + ++ + ++ G DI + A G +L F T D L +H LA + Sbjct: 130 DAISDQCLDLLRHGKVDIALTA-----PGPNLLEFDTRPLCSDPFYLVCRKDHKLASKRR 184 Query: 183 VTFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIGIV 242 + + E + L +++ L+ ++ G + ++V + ++E+ +G+ +V Sbjct: 185 IKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGV-IHTGLEVEHLATVAALIESGLGVSVV 243 Query: 243 PQ 244 P+ Sbjct: 244 PE 245 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/274 (25%), Positives = 129/274 (47%), Gaps = 6/274 (2%) Query: 2 LFDLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLTP 61 + DL +R F++ A + R+A +N++ S +I LE R G++L R + V+LT Sbjct: 1 MLDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTT 60 Query: 62 AGQTFLSHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQ 121 G+ FL+ A + +Q E+ + +++ + G G +R+ A E +PE+L + T P+ Sbjct: 61 EGRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE 120 Query: 122 VNVALEERLNHDIMRGIQEGTADIGIVAGPVQGEGLEILNFSTDKLILATALEHPLAGVG 181 ++V L E ++ + T DIG + + LE+ + L+LA H LA Sbjct: 121 IDVVLFELISVAQLEAFTANTIDIGFLRPVASRQPLELQLVDEEALVLAMPQGHALAAYD 180 Query: 182 KVTFAETLEYEHVGLHEGSTLHHFLNRIVSESGQ---RLKLRIQVRSFEAMCRMVETNVG 238 ++ + L+ + +H + +F RI++ G + + + +V +G Sbjct: 181 RIATTQ-LDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLG 239 Query: 239 IGIVPQSAALRHKQTMQLSLVELSDPWSVRERSM 272 +GI+P SA H ++ L+D E SM Sbjct: 240 VGILPASAQRFHYDRVEFR--PLADEAPRAEMSM 271 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 85.1 bits (209), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 131/271 (48%), Gaps = 20/271 (7%) Query: 4 DLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLTPAG 63 DLT LR FI +A +LTR+A++++L+ A S +IK L+ G++L R + G+ LT G Sbjct: 2 DLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAEG 61 Query: 64 QTFLSHAQQFMQQVERLK---GDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTL-- 118 L A++ + V+ L+ D + + G + I T EF+ LG FL L Sbjct: 62 NKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAI--GTILDPEFIR--LGGFLKLLV 117 Query: 119 --HPQVNVALEERLNHDIMRGIQEGTADIGIVAG-PVQG-EGLEILNFSTDKLILATALE 174 HPQ++ L ++ ++ I+ G D+G G P QG + +E+ +F T K+I + Sbjct: 118 ERHPQLSTQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTSF-TYKVIAPAGWK 176 Query: 175 HPLAGVGKVTFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVE 234 + ++G G + E + S H L+RI ++ + V +M +V+ Sbjct: 177 NRVSGKG---WKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDLVK 233 Query: 235 TNVGIGIVPQSAALRHKQTMQLSL---VELS 262 + VG+ + S AL L + VELS Sbjct: 234 SGVGLSLARASIALNQAHAHGLVIADAVELS 264 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 0.321 0.135 0.376 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: 854,866 Number of extensions: 33965 Number of successful extensions: 212 Number of sequences better than 1.0e-08: 66 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 66 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 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 (21.9 bits) S2: 130 (54.7 bits)