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= 0013.0120.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... 523 e-150 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 234 7e-63 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 90 2e-19 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 86 4e-18 gi|300313131|ref|YP_003777223.1| LysR family transcription regul... 84 2e-17 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 523 bits (1347), Expect = e-150, Method: Compositional matrix adjust. Identities = 253/297 (85%), Positives = 273/297 (91%) Query: 1 MLFDLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLT 60 MLFDLTDLRLFILIAE NSLTRSAERMNLSL ATSNRIKELE RFG RLLYRESKGVQLT Sbjct: 1 MLFDLTDLRLFILIAEHNSLTRSAERMNLSLGATSNRIKELETRFGTRLLYRESKGVQLT 60 Query: 61 PAGQTFLTHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHP 120 PAG T L HAQQFMQQVE LK DMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFL HP Sbjct: 61 PAGHTLLHHAQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLARHP 120 Query: 121 QVNVALEERLNHDIMRGIQEGTADIGIVAGPVQGDGLEILNFSTDRLVLAAALEHPLAGI 180 QVNVALEERLNHDI+RGIQEGTADIGIVAGPVQG+GL+ILNFSTDRLVLA ALEHPLA Sbjct: 121 QVNVALEERLNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLVLATALEHPLADA 180 Query: 181 GKVSFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIG 240 + F +TLEYEH+GLHEGSTLHHFL++IV+E+GQRLKLRIQVRSFEAMCRM+ETNVGIG Sbjct: 181 PSLPFIQTLEYEHIGLHEGSTLHHFLSKIVAENGQRLKLRIQVRSFEAMCRMIETNVGIG 240 Query: 241 IVPHSAALRHKQTMQLSLIELTDPWSVRERSMVVQSLDALPLYARDLVEFIRQQTAQ 297 I+P SAA RH+QTMQLS++EL+DPWSVRERSMVVQ +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 = 234 bits (597), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 115/290 (39%), Positives = 185/290 (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 GQTFLTHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQV 122 G+ HA+ QQ+E+L+ ++ QY G+KG+IR+ NT+A+TEF+PE+L +FL HP Sbjct: 65 GRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHT 124 Query: 123 NVALEERLNHDIMRGIQEGTADIGIVAGPVQGDGLEILNFSTDRLVLAAALEHPLAGIGK 182 ++ LEE+L++++++ + +G AD+GI+A L+ F D LV + HPLA Sbjct: 125 DIELEEKLSYEVVQAVIDGVADVGIIADSTDSGPLQTYPFRQDHLVAVLSKRHPLARRKS 184 Query: 183 VSFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIGIV 242 ++FAE L + VGL S L L+ + +G+RL+ R+++RSF+ +CRMVE VG+ ++ Sbjct: 185 LAFAELLGEDFVGLSGDSALQQHLSGHATRAGKRLQYRVRLRSFDGICRMVEHQVGVAVL 244 Query: 243 PHSAALRHKQTMQLSLIELTDPWSVRERSMVVQSLDALPLYARDLVEFIR 292 P +AAL M + I L+D WS R+ + V+ L+ LP R+L++ ++ Sbjct: 245 PETAALASTPHMDIRAIPLSDGWSRRQLLICVRGLEGLPGPTRELIQALQ 294 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/241 (24%), Positives = 115/241 (47%), Gaps = 11/241 (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 THAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQVNVALE 127 A+Q + +E DM Y KG + I A + ++P +L + +P V V L Sbjct: 70 QVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGVTVELF 129 Query: 128 ERLNHDIMRGIQEGTADIGIVAGPVQGDGLEILNFST-----DRLVLAAALEHPLAGIGK 182 + ++ + ++ G DI + A G +L F T D L +H LA + Sbjct: 130 DAISDQCLDLLRHGKVDIALTA-----PGPNLLEFDTRPLCSDPFYLVCRKDHKLASKRR 184 Query: 183 VSFAETLEYEHVGLHEGSTLHHFLNRIVSESGQRLKLRIQVRSFEAMCRMVETNVGIGIV 242 + + E + L +++ L+ ++ G + ++V + ++E+ +G+ +V Sbjct: 185 IKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGV-IHTGLEVEHLATVAALIESGLGVSVV 243 Query: 243 P 243 P Sbjct: 244 P 244 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 85.9 bits (211), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 65/252 (25%), Positives = 120/252 (47%), Gaps = 4/252 (1%) 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 AGQTFLTHAQQFMQQVERLKGDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLTLHPQ 121 G+ FL A + +Q E+ + +++ + G G +R+ A E +PE+L + T P+ Sbjct: 61 EGRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE 120 Query: 122 VNVALEERLNHDIMRGIQEGTADIGIVAGPVQGDGLEILNFSTDRLVLAAALEHPLAGIG 181 ++V L E ++ + T DIG + LE+ + LVLA H LA Sbjct: 121 IDVVLFELISVAQLEAFTANTIDIGFLRPVASRQPLELQLVDEEALVLAMPQGHALAAYD 180 Query: 182 KVSFAETLEYEHVGLHEGSTLHHFLNRIVSESGQ---RLKLRIQVRSFEAMCRMVETNVG 238 +++ + L+ + +H + +F RI++ G + + + +V +G Sbjct: 181 RIATTQ-LDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLG 239 Query: 239 IGIVPHSAALRH 250 +GI+P SA H Sbjct: 240 VGILPASAQRFH 251 >gi|300313131|ref|YP_003777223.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/278 (26%), Positives = 125/278 (44%), Gaps = 26/278 (9%) Query: 2 LFDLTDLRLFILIAELNSLTRSAERMNLSLAATSNRIKELEARFGMRLLYRESKGVQLTP 61 + + LR F+ I E TR+AER+ ++ +A S +IKELEA + LL RE+K +LT Sbjct: 1 MISIRQLRYFVEIVEARGYTRAAERLFVAQSALSRQIKELEADLDVVLLRREAKTFELTQ 60 Query: 62 AGQTFLTHAQQFMQQVERLKGDMQQYNNGIKGYIRIF-ANTTAVTEFMPEILGKFLTLHP 120 AGQ F +++ + ++R + G G +R+ +++ +T + +L + L P Sbjct: 61 AGQDFYERSRKILLDLDRAVAQARTIGKGEHGALRLLHSSSVPLTAPLGPMLNEALKAFP 120 Query: 121 QVNVALEERLNHDIMRGIQEGTADIGIVAGPV--QGDGLEILNFSTDRLVLAAALEHPLA 178 +++ + + + R I EG+ADIG+ P+ L +RLV A H LA Sbjct: 121 GISLEISQAPSEYQAREIVEGSADIGLARLPILRANPNLASTVLYRERLVAAVPAGHRLA 180 Query: 179 GIGKVSFAE-------TLEYEHVG-----LHEGSTLHHFLNRIVSESGQRLKLRIQVRSF 226 +V AE T+ + G + E H F R+ + ++ Sbjct: 181 QRQEVEIAELRDEFFVTVPHRDRGGLSYLVAERCIAHGFYPRVARATSRK---------- 230 Query: 227 EAMCRMVETNVGIGIVPHSAALRHKQTMQLSLIELTDP 264 ++ +V GI +VP S A +S L DP Sbjct: 231 NSLLSLVNAGFGIAVVPQSMA-STSLAAGVSFPALKDP 267 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 0.322 0.136 0.380 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: 868,554 Number of extensions: 35023 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 65 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 65 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)