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= 0034.0076.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 120 1e-28 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 120 2e-28 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 114 1e-26 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 84 1e-17 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 82 4e-17 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 120 bits (302), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 86/290 (29%), Positives = 152/290 (52%), Gaps = 8/290 (2%) Query: 10 NVNFKLLQTFLLVADQSSFRIAAEKSFRSPSAVSAQIRQLEAQLGVALFHRTTRNVRLTT 69 N++ +LLQ FL +AD F AA++ S SA SA I+++EA G LF R TRNV LT Sbjct: 4 NISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTP 63 Query: 70 EGEQLLDCAQRALMEVESGLRKIQESADIRRGRVSISCSPTIAETRLARVLAAFEKEYPG 129 EGE + A++ + ++E+ + + R+GRV+I+ P++A L VLA + + YPG Sbjct: 64 EGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPG 123 Query: 130 IEVSVRE-LTSMALFLXDFG------IGPSIDTMEFHFDEVMDDPLFALVPKRFITTAKR 182 + V + + ++ L L G P + +EF + DP + + K +KR Sbjct: 124 VTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKLASKR 183 Query: 183 SISLATLTNMPLLLLSPATALRGMLETALLERNLAFSTRYQFTQAQTLISMATAGLGAAI 242 I + L ++ L+ +T++R L+ A+L T + T+ ++ +GLG ++ Sbjct: 184 RIKVPQLAGCEMIHLARSTSVRQHLD-AVLRPGGVIHTGLEVEHLATVAALIESGLGVSV 242 Query: 243 LPRVALPARVDASTHVLRIVNPQLTRQVSIITMRGQKLSPASLRLVELLK 292 +P + L + + + P+L R + I+T + + LS A+ L+EL++ Sbjct: 243 VPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLELVE 292 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 120 bits (300), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 152/293 (51%), Gaps = 15/293 (5%) Query: 16 LQTFLLVADQSSFRIAAEKSFRSPSAVSAQIRQLEAQLGVALFHRTTRNVRLTTEGEQLL 75 +Q F+ +AD SF+ AA + +AV+ ++R+LE LGV L RTTR++ LT G L Sbjct: 8 VQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALTEIGRDFL 67 Query: 76 DCAQRALMEVESGLRKIQESADIRRGRVSISCSPTIAETRLARVLAAFEKEYPGIEVSVR 135 A+R L E+ L +I+E+ RRG VSI+C PT+ L R+L A+ YP + + Sbjct: 68 PQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKIL 127 Query: 136 ELTSMALFLX------DFGIGPSIDTMEFHFDEVM-----DDPLFALVPKRFITTAKRSI 184 + S A+ +FGI + + H E++ +D + PK +R I Sbjct: 128 DHASSAVAEAVLRREVEFGIHIAGE----HHPELISVALTEDRYVLICPKDHPLARRRRI 183 Query: 185 SLATLTNMPLLLLSPATALRGMLETALLERNLAFSTRYQFTQAQTLISMATAGLGAAILP 244 + L + PL+ ++ R +L+ L A + Y+ ++ T + + G+G A++P Sbjct: 184 AWRQLQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYEVQRSSTAVGLVAQGVGVAVVP 243 Query: 245 RVALPARVDASTHVLRIVNPQLTRQVSIITMRGQKLSPASLRLVELLKQLMPD 297 ++A+ + V+ +V+P ++R + +IT + LSPA+ L +++++ D Sbjct: 244 KLAIQEGAYPTVRVIELVDPVVSRSLVLITRKAAHLSPAAQALYDMIREHEGD 296 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 86/290 (29%), Positives = 143/290 (49%), Gaps = 7/290 (2%) Query: 10 NVNFKLLQTFLLVADQSSFRIAAEKSFRSPSAVSAQIRQLEAQLGVALFHRTTRNVRLTT 69 N+ LQ F+ VA QSSFR AAE F + A+S +I LE L LF RTTR V LT Sbjct: 4 NIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLTP 63 Query: 70 EGEQLLDCAQRALMEVESGLRKIQESADIRRGRVSISCSPTIAETRLARVLAAFEKEYPG 129 GE L AQ + E+E ++ +++ RR V+++C P++A L +VL + + + Sbjct: 64 AGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARSHAN 123 Query: 130 IEVSVRE------LTSMALFLXDFGIG-PSIDTMEFHFDEVMDDPLFALVPKRFITTAKR 182 + V + + L S+ DFG+ E F E+ + A++P A Sbjct: 124 VRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAAHA 183 Query: 183 SISLATLTNMPLLLLSPATALRGMLETALLERNLAFSTRYQFTQAQTLISMATAGLGAAI 242 S++ +L L+ +S ++ R +++ A +Y+ IS+ AGLG A+ Sbjct: 184 SLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGLGVAL 243 Query: 243 LPRVALPARVDASTHVLRIVNPQLTRQVSIITMRGQKLSPASLRLVELLK 292 LP +A+ + +P L+R + +IT++G+ L PA+ L + L+ Sbjct: 244 LPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALR 293 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 83/302 (27%), Positives = 149/302 (49%), Gaps = 32/302 (10%) Query: 11 VNFKLLQTFLLVADQSSFRIAAEKSFRSPSAVSAQIRQLEAQLGVALFHRTTRNVRLTTE 70 ++F+ L+ F ++A++ AAE+ +++ A++ I +LE QLG LF R R +RLT Sbjct: 1 MDFRDLKYFTVIAEEGHVGRAAERLYKTQPALTKCIDRLEEQLGAPLFERLGRGIRLTAV 60 Query: 71 GEQLLDCAQRALMEVESGLRKIQESADIRRGRVSISCSPTIAETRLARV----LAAFEKE 126 GE LL+ A++ + ++ R+I + A R G + + C PT+AE L V L +K Sbjct: 61 GEALLNRARQISLMMDETAREIGDYAHGREGNIRLGCVPTLAEHVLPGVCQQLLGEAQKV 120 Query: 127 YPGIEVSVRE--LTSMALFLXDFGIGPSIDTME-FHFDEVMDDPLFALV-PKRFITTAKR 182 ++VS+ + L + D +GP I E FH +E+M D + + P+ I K Sbjct: 121 TIDLKVSMNDALLAGLKAGELDIVLGPMIQDDELFHTEEIMQDQMVVMASPQHPIFDKK- 179 Query: 183 SISLATLTNMPLLLLSPATALRGMLETALLERNLAFSTRYQFTQAQTLISMATAGLGAAI 242 I L L + +L + + R L+ + +R+ + Q T T+++M I Sbjct: 180 -IRLRHLLDYQWVLPAQSVLSRQWLDN-VFDRHHLPRPKVQIT--PTVLNM--------I 227 Query: 243 LPRV------ALPARVDAS---THVLRIVNPQLT--RQVSIITMRGQKLSPASLRLVELL 291 LP + ++++ S H+ +V + T R++ + R LSPA+ RL+ +L Sbjct: 228 LPLIERSNLLGFASKLNLSEGRGHLREVVLKETTMLRRMGLTYRRDMYLSPAAQRLIRIL 287 Query: 292 KQ 293 + Sbjct: 288 HE 289 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 82.4 bits (202), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 77/292 (26%), Positives = 132/292 (45%), Gaps = 10/292 (3%) Query: 11 VNFKLLQTFLLVADQSSFRIAAEKSFRSPSAVSAQIRQLEAQLGVALFHRTTRNVRLTTE 70 ++ + L+ F SSF AA+ + S VS +RQLE ++ L R R ++LT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 71 GEQLLDCAQRALMEVESGLRKIQESADIRRGRVSISCSPTIAETRLARVLAAFEKEYPGI 130 G + + Q+ L ++ +++++ +R GR+ I P I VL AF + +P I Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMI-NILCTPVLKAFRERHPDI 119 Query: 131 EVSVRELTS------MALFLXDFGIG--PSIDTMEFHFDEVMDDPLFALVPKRFITTAKR 182 V ++E T +A + G+ P+ + V P++A+ + Sbjct: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRA 179 Query: 183 SISLATLTNMPLLLLSPATALRGMLETALLERNLAFSTRYQFTQAQTLISMATAGLGAAI 242 S+ A L MPL+LL+ L L E + Q Q L++MA AG+G A+ Sbjct: 180 SLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTAL 239 Query: 243 LPRVALPARVDASTHVLRIVNPQLTRQVSIITMRGQKLSPASLRLVELLKQL 294 LP + +R+V P++ +V+ +T RG LS A+ + + QL Sbjct: 240 LPEPFIHRLATQQLQAVRLVEPEVQWKVAYVT-RGGYLSHAAHAWMAVSAQL 290 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 0.133 0.360 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: 766,058 Number of extensions: 26658 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 58 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 58 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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)