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= 0001.0069.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 252 3e-68 gi|300313810|ref|YP_003777902.1| LysR family transcription regul... 103 1e-23 gi|300312870|ref|YP_003776962.1| transcription regulator protein... 90 3e-19 gi|300313689|ref|YP_003777781.1| LysR family transcription regul... 73 3e-14 gi|300313085|ref|YP_003777177.1| LysR family transcription regul... 69 3e-13 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 252 bits (643), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 145/287 (50%), Positives = 181/287 (63%), Gaps = 2/287 (0%) Query: 5 ISLDYLRTFVAAADHGSFSAAGRAIGRAQSVVSQTIASLEGQLGVALFERVGRYPKLTPQ 64 +SLD LR FV AD GSF AA R + RAQS VS IASLE QLG+ LF+R G P+LT Sbjct: 6 LSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRPQLTAP 65 Query: 65 GTNLLADARRVVMGADALTAKARSFSAGLESELSIVVDVMFPHPCLTDALGSFKERFRST 124 G LLADAR+V+ D+L +A S++ G E E+++ VDV FP CL D L F+ F + Sbjct: 66 GEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDCLVDLLQRFRAAFPAV 125 Query: 125 PLRLHVEALGRVAELVLNGQCSLGITGTLPFLPPGLAAERLFSEEMVTVVAPGSPLTGRQ 184 +RL VEALG VAE V++G+ LGI GTLP PP L L S +V VVAP PL + Sbjct: 126 TVRLEVEALGAVAERVIDGRAMLGILGTLPTTPPNLMRITLPSVRLVAVVAPHHPLAKVK 185 Query: 185 GPIAFRELLDETQLVLTDRSSLTSGVDYGVQGKNIWRLADLGAKHAFLRAGLGWGHMPRW 244 G IA + LL +TQLVL+DRS LT+ D+ V + WR++DLG KHA LRAG+GWG+MP Sbjct: 186 GRIAEKMLLQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWGNMPLH 245 Query: 245 LINEDVKEGRLVRIEL--EGPSAGLLPFQATYLSDRLPGPAGRWLLE 289 ++ ED+ GRLV I P LP Q Y D GPA W L+ Sbjct: 246 VVKEDLAAGRLVSISTIHHPPQGAELPIQCVYKPDHRAGPALSWWLD 292 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 103 bits (258), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 74/262 (28%), Positives = 119/262 (45%), Gaps = 2/262 (0%) Query: 4 GISLDYLRTFVAAADHGSFSAAGRAIGRAQSVVSQTIASLEGQLGVALFERVGRYPKLTP 63 S D +R F+A D GSFSAA R +GR S VS TI+ LE +L + LF+R R + T Sbjct: 2 AFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTD 61 Query: 64 QGTNLLADARRVVMGADALTAKARSFSAGLESELSIVVDVMFPHPCLTDALGSFKERFRS 123 L DAR + L A A + GLE +L++ V L + F S Sbjct: 62 MARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAQEFPS 121 Query: 124 TPLRLHVEALGRVAELVLNGQCSLGITGTLPFLPPGLAAERLFSEEMVTVVAPGSP-LTG 182 + + ++ + L + P A + SE +V V+AP P L Sbjct: 122 LEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALRR 181 Query: 183 RQGPIAFRELLDETQLVLTDRSSLTSGVDYGVQGKNIWRLADLGAKHAFLRAGLGWGHMP 242 ++ + + +L D Q+ + R + S + + + IWR + A + +R GLGW ++P Sbjct: 182 KKRKLRYEDLYDIRQIAVASRDARVSDPRFFL-ARQIWRTDNHLATLSLVREGLGWAYLP 240 Query: 243 RWLINEDVKEGRLVRIELEGPS 264 + L+ ++ G L I+ + S Sbjct: 241 QSLVQAQIEAGALTVIDFDNIS 262 >gi|300312870|ref|YP_003776962.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 89.7 bits (221), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 73/259 (28%), Positives = 119/259 (45%), Gaps = 6/259 (2%) Query: 4 GISLDYLRTFVAAADHGSFSAAGRAIGRAQSVVSQTIASLEGQLGVALFERVGRYPKLTP 63 ++L+ L GSF+AA A+ R S ++ ++ LE L V LF+R G +LTP Sbjct: 2 NLTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLTP 61 Query: 64 QGTNLLADARRVVMGADALTAKARSFSAGLESELSIVVDVMFPHPCLTDALGSFKERFRS 123 G LL + R +++ A+ L + + + G E+EL IV++ + P + + +F Sbjct: 62 AGLQLLQEGRHLLLAANDLEQRVKRTATGRETELHIVLNSLIPFDKMLPIIAAFDREQSG 121 Query: 124 TPLRLHVEALGRVAELVLNGQCSLGITGTLPFLPPGLAAERLFSEEM-----VTVVAPGS 178 T LR L E ++ G+ +L I TL + R +E+ V VVAP Sbjct: 122 TRLRFTPGVLTGAWEKLIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAVDWVFVVAPQH 181 Query: 179 PLTGRQGPIAFRELLDETQLVLTDRSSLTSGVDYG-VQGKNIWRLADLGAKHAFLRAGLG 237 PL G + P++ + + + D S + G + G+ +A + K AGLG Sbjct: 182 PLAGVEEPLSAELVRSHRAIAVGDNSQSLPTLTMGLLSGQETLTVATVADKLQAQLAGLG 241 Query: 238 WGHMPRWLINEDVKEGRLV 256 GH+PR + G LV Sbjct: 242 CGHLPRIWAEPYLASGALV 260 >gi|300313689|ref|YP_003777781.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 45/144 (31%), Positives = 74/144 (51%) Query: 10 LRTFVAAADHGSFSAAGRAIGRAQSVVSQTIASLEGQLGVALFERVGRYPKLTPQGTNLL 69 LR F GS +AA + A S VS+ IA +E + GV LFER R LTP G L+ Sbjct: 6 LRYFYQVGRTGSLTAAAERLDVAVSAVSRQIAKMEEETGVPLFERRARGMVLTPAGEVLM 65 Query: 70 ADARRVVMGADALTAKARSFSAGLESELSIVVDVMFPHPCLTDALGSFKERFRSTPLRLH 129 A ARR ++ + + A+ R A + +++ F L + F+E++ +LH Sbjct: 66 AYARRNLLEMEQVLAEVRGLHAVGQGVITLACSEGFAWDLLPNVTAQFREQYPGLQFKLH 125 Query: 130 VEALGRVAELVLNGQCSLGITGTL 153 V R +++V++G+ + +T +L Sbjct: 126 VVGAARASQMVIDGEADISVTYSL 149 >gi|300313085|ref|YP_003777177.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 69.3 bits (168), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 75/273 (27%), Positives = 113/273 (41%), Gaps = 16/273 (5%) Query: 5 ISLDYLRTFVAAADHGSFSAAGRAIGRAQSVVSQTIASLEGQLGVALFERVGRYPKLTPQ 64 ++L L+ VA A F A A AQ +S I LE +LGV +FER G +TP Sbjct: 1 MTLTELKYIVAVAREKHFGHAAEACFVAQPTLSVAIKKLEDELGVVIFERGGTEVSVTPL 60 Query: 65 GTNLLADARRVVMGADALTAKARSFSAGLESELSI-VVDVMFPHPCLTDALGSFKERFRS 123 G ++A A RV+ A+ A L L + ++ + P+ L + + ER Sbjct: 61 GAQIVAQAERVLEQTAAIKEIANQNKDPLSGPLRLGIIYTIGPY-LLPSLVKTMIERVPQ 119 Query: 124 TPLRLHVEALGRVAELVLNGQCSLGITGTLPFLPPGLAAERLFSEEMVTVVAPGSPLTGR 183 PL L R+ EL+ G+ I LPF GL L+ EE + V P Sbjct: 120 MPLILQENFTTRLIELLRQGELDAAIMA-LPFPEHGLNVLPLYDEEFM-VALPRQHKWAE 177 Query: 184 QGPIAFRELLDETQLVLTDRSSLTSGV--------DYGVQGKNIWRL---ADLGAKHAFL 232 + I REL ET L+L + V + G I R + L + Sbjct: 178 RKEIDARELKSETMLLLGNGHCFRDQVLEVCPEMSRFSTNGDGIARTFEGSSLETIRHMV 237 Query: 233 RAGLGWGHMPRWLINE-DVKEGRLVRIELEGPS 264 +G+G +PR I + D ++G + + P+ Sbjct: 238 SSGIGVTVLPRASIPDVDTRDGMVRYVPFVAPA 270 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 0.138 0.407 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: 981,626 Number of extensions: 42324 Number of successful extensions: 236 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 35 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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: 130 (54.7 bits)