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= 0009.0045.p (303 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313216|ref|YP_003777308.1| LysR family transcription regul... 607 e-175 gi|300311633|ref|YP_003775725.1| LysR family transcription regul... 136 2e-33 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 73 3e-14 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 64 1e-11 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 64 1e-11 >gi|300313216|ref|YP_003777308.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 607 bits (1566), Expect = e-175, Method: Compositional matrix adjust. Identities = 302/303 (99%), Positives = 303/303 (100%) Query: 1 MAGLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLEL 60 MAGLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLEL Sbjct: 1 MAGLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLEL 60 Query: 61 NDEGRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 NDEGRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ Sbjct: 61 NDEGRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 Query: 121 DPIRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELA 180 DPIRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELA Sbjct: 121 DPIRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELA 180 Query: 181 RRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPQITGEFDDGALLLAFGDAGA 240 RRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRP+ITGEFDDGALLLAFGDAGA Sbjct: 181 RRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPRITGEFDDGALLLAFGDAGA 240 Query: 241 GIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISVQRKLTHPAVLAIQSAARGNLIVG 300 GIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISVQRKLTHPAVLAIQSAARGNLIVG Sbjct: 241 GIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISVQRKLTHPAVLAIQSAARGNLIVG 300 Query: 301 SSR 303 SSR Sbjct: 301 SSR 303 >gi|300311633|ref|YP_003775725.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 136 bits (343), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 135/278 (48%), Gaps = 10/278 (3%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 LN+ HL YFW VAK G + RA+E LH + +S Q+ E+ LG LF R GRRL L+D Sbjct: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKHLGEDLFIREGRRLSLSDT 65 Query: 64 GRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQDP- 122 G++VF YA+ IF + +E+ L R G +LRVG + + L L+ DP Sbjct: 66 GQLVFTYADNIFGLSQEMLGRLEGRSAG-VTRLRVGSVATLSRNYQENWLRPMLS--DPS 122 Query: 123 IRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELARR 182 + + G+L+ LL L H+LD+++A+ +P + D + LG S A R Sbjct: 123 VALTLESGQLEGLLERLVQHQLDVVLANETVPADPDRPLHCRFLGSQAVSVVGP---AHR 179 Query: 183 YRKG---FPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPQITGEFDDGALLLAFGDAG 239 + G P +G +PG A+R R +RP++ E DD A+L Sbjct: 180 WEAGSLRIPEDLEGIDMALPGPRHALRMRFDALCVSADVRPRLRAEVDDMAMLRLIARDS 239 Query: 240 AGIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISV 277 + P + + LV +G+T + E FYAI+ Sbjct: 240 GWLSVLPEVVVQDELRNGVLVTVGQTTELVENFYAITT 277 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 75/272 (27%), Positives = 111/272 (40%), Gaps = 38/272 (13%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 + L F TV GGV RA+ERL+ ++ ++ E+S+G PLF R RR+ L Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 64 GRMVFDYAERIFSIGEELEEALRLR-PGGRALQLRVGVADAVPKAIAYLLLESALAMQDP 122 G + DYAERI + +E +A+ + P GR LR+G +ESA A + P Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRGR---LRIGS------------MESAAASRLP 114 Query: 123 ------------IRIICREGKLDVLLADLALHKLDIIIADSPMP-PNVDVRGYHHLLGEC 169 +R+ DVL+A + KLD + P+ P D Sbjct: 115 GPLAEFHQRWPEVRLELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFR----- 169 Query: 170 DTSFFATPELARRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPQI--TGEFD 227 + TP RR R D ++ + A R WF Q+ T E Sbjct: 170 EELLLVTPRSHRRVRAPEEVMLDT--LIVFEQGCAYRRHAEAWFAGHGAGRQLPRTLELA 227 Query: 228 DGALLLAFGDAGAGIFAAPAAIAAQIRKQYGL 259 +LA AGAG+ P ++ A + +G Sbjct: 228 SYHAILACVSAGAGVAVVPRSVIAMQMEPHGF 259 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 64.3 bits (155), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/256 (25%), Positives = 112/256 (43%), Gaps = 22/256 (8%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 L+ + F A RA+ L++T +S Q+ L E LG LF RVGR + L E Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 64 GRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVP-KAIAYLLLESALAMQDP 122 GR+ A R+ + E+ E +R G+ ++RVG A + I LL+++ ++ + Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE- 120 Query: 123 IRIICREGKLDVLLADL-ALHKLDIIIADSP----MPPNVDVRGYHHLLGECDTSFFATP 177 +DV+L +L ++ +L+ A++ + P + L + + A P Sbjct: 121 ---------IDVVLFELISVAQLEAFTANTIDIGFLRPVASRQPLELQLVDEEALVLAMP 171 Query: 178 E---LARRYRKGFPGSFDGAPFLM--PGEDAAVRPRLLRWFEKEKIRPQITGEFDDGALL 232 + LA Y + DG PF+M P R++ ++P T D + Sbjct: 172 QGHALA-AYDRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTI 230 Query: 233 LAFGDAGAGIFAAPAA 248 L+ AG G+ PA+ Sbjct: 231 LSLVRAGLGVGILPAS 246 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 63.9 bits (154), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/247 (21%), Positives = 105/247 (42%), Gaps = 10/247 (4%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 ++ + L YF + +RA++ LH+T T+S + EE + PL R GRRL+L D Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 64 GRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQDPI 123 GR+V++ ++I + + L +R R+ +L +G+ + + +L++ I Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMI-NILCTPVLKAFRERHPDI 119 Query: 124 RIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVR----GYHHLLGECDTSFFATPEL 179 ++ +E + +A +L+I + P P + + + + F Sbjct: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRA 179 Query: 180 ARRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPQITGEFDDGALLLAFGDAG 239 + R DG P ++ + + L F + I+P+I + L+A AG Sbjct: 180 SLRC-----AQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAG 234 Query: 240 AGIFAAP 246 G P Sbjct: 235 MGTALLP 241 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 0.324 0.141 0.414 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: 908,959 Number of extensions: 37234 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 10 Length of query: 303 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 218 Effective length of database: 1,217,395 Effective search space: 265392110 Effective search space used: 265392110 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)