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= 0001.3826.p (314 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... 519 e-148 gi|300311633|ref|YP_003775725.1| LysR family transcription regul... 140 1e-34 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 79 4e-16 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 69 6e-13 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 67 1e-12 >gi|300313216|ref|YP_003777308.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 519 bits (1336), Expect = e-148, Method: Compositional matrix adjust. Identities = 276/302 (91%), Positives = 292/302 (96%) Query: 1 MASLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQISLFEESLGYKLFKRVGRRLEL 60 MA LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQ+SLFEESLGY LF+RVGRRLEL Sbjct: 1 MAGLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLEL 60 Query: 61 NDEGRMVFDYAERIFSLGQELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 NDEGRMVFDYAERIFS+G+ELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ Sbjct: 61 NDEGRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 Query: 121 EPIRIICREGKLDVLLADLAIHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPALA 180 +PIRIICREGKLDVLLADLA+HKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATP LA Sbjct: 121 DPIRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELA 180 Query: 181 RRYRKGFPLSLDGAPFLMPGEDAAVRPRLLRWFEKQGIRPQITGEFDDGALLLAFGDAGA 240 RRYRKGFP S DGAPFLMPGEDAAVRPRLLRWFEK+ IRP+ITGEFDDGALLLAFGDAGA Sbjct: 181 RRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPRITGEFDDGALLLAFGDAGA 240 Query: 241 GIFAAPTAIAAQIRKQYGLVDIGKTDAIREQFYAISVERRLSHPAVLAIQSAARGNLVAA 300 GIFAAP AIAAQIRKQYGLV+IG+T+AIREQFYAISV+R+L+HPAVLAIQSAARGNL+ Sbjct: 241 GIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISVQRKLTHPAVLAIQSAARGNLIVG 300 Query: 301 GT 302 + Sbjct: 301 SS 302 >gi|300311633|ref|YP_003775725.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 140 bits (354), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 92/280 (32%), Positives = 135/280 (48%), Gaps = 8/280 (2%) Query: 1 MASLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQISLFEESLGYKLFKRVGRRLEL 60 + LN+ HL YFW VAK G + RA+E LH + +S QI E+ LG LF R GRRL L Sbjct: 3 LEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKHLGEDLFIREGRRLSL 62 Query: 61 NDEGRMVFDYAERIFSLGQELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 +D G++VF YA+ IF L QE+ L R G +LRVG + + L L+ Sbjct: 63 SDTGQLVFTYADNIFGLSQEMLGRLEGRSAG-VTRLRVGSVATLSRNYQENWLRPMLS-D 120 Query: 121 EPIRIICREGKLDVLLADLAIHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPALA 180 + + G+L+ LL L H+LD+++A+ +P + D + LG S A Sbjct: 121 PSVALTLESGQLEGLLERLVQHQLDVVLANETVPADPDRPLHCRFLGSQAVSVVGP---A 177 Query: 181 RRYRKG---FPLSLDGAPFLMPGEDAAVRPRLLRWFEKQGIRPQITGEFDDGALLLAFGD 237 R+ G P L+G +PG A+R R +RP++ E DD A+L Sbjct: 178 HRWEAGSLRIPEDLEGIDMALPGPRHALRMRFDALCVSADVRPRLRAEVDDMAMLRLIAR 237 Query: 238 AGAGIFAAPTAIAAQIRKQYGLVDIGKTDAIREQFYAISV 277 + P + + LV +G+T + E FYAI+ Sbjct: 238 DSGWLSVLPEVVVQDELRNGVLVTVGQTTELVENFYAITT 277 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 79.3 bits (194), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 79/272 (29%), Positives = 113/272 (41%), Gaps = 38/272 (13%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQISLFEESLGYKLFKRVGRRLELNDE 63 + L F TV GGV RA+ERL+ ++ +I E+S+G LF R RR+ L Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 64 GRMVFDYAERIFSLGQELEEALRLR-PGGRALQLRVGVADAVPKAIAYLLLESALAMQEP 122 G + DYAERI L QE +A+ + P GR LR+G +ESA A + P Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRGR---LRIGS------------MESAAASRLP 114 Query: 123 ------------IRIICREGKLDVLLADLAIHKLDIIIADSPMP-PNVDVRGYHHLLGEC 169 +R+ DVL+A + KLD + P+ P D Sbjct: 115 GPLAEFHQRWPEVRLELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFR----- 169 Query: 170 DTSFFATPALARRYRKGFPLSLDGAPFLMPGEDAAVRPRLLRWFEKQGIRPQI--TGEFD 227 + TP RR R + LD ++ + A R WF G Q+ T E Sbjct: 170 EELLLVTPRSHRRVRAPEEVMLDT--LIVFEQGCAYRRHAEAWFAGHGAGRQLPRTLELA 227 Query: 228 DGALLLAFGDAGAGIFAAPTAIAAQIRKQYGL 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 = 68.6 bits (166), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 68/256 (26%), Positives = 114/256 (44%), Gaps = 22/256 (8%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQISLFEESLGYKLFKRVGRRLELNDE 63 L+ + F A RA+ L++T +S QI L E LG +LF+RVGR + L E Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 64 GRMVFDYAERIFSLGQELEEALRLRPGGRALQLRVGVADAVP-KAIAYLLLESALAMQEP 122 GR+ A R+ L ++ E +R G+ ++RVG A + I LL+++ ++ E Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE- 120 Query: 123 IRIICREGKLDVLLADL-AIHKLDIIIADSP----MPPNVDVRGYHHLLGECDTSFFATP 177 +DV+L +L ++ +L+ A++ + P + L + + A P Sbjct: 121 ---------IDVVLFELISVAQLEAFTANTIDIGFLRPVASRQPLELQLVDEEALVLAMP 171 Query: 178 ---ALARRYRKGFPLSLDGAPFLM--PGEDAAVRPRLLRWFEKQGIRPQITGEFDDGALL 232 ALA Y + LDG PF+M P R++ ++P T D + Sbjct: 172 QGHALA-AYDRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTI 230 Query: 233 LAFGDAGAGIFAAPTA 248 L+ AG G+ P + Sbjct: 231 LSLVRAGLGVGILPAS 246 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/251 (25%), Positives = 107/251 (42%), Gaps = 18/251 (7%) Query: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQISLFEESLGYKLFKRVGRRLELNDE 63 ++ + L YF + +RA++ LH+T T+S + EE + L R GRRL+L D Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 64 GRMVFDYAERIFSLGQELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQE-- 121 GR+V++ ++I + Q L +R R+ +L +G +P I L A +E Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIG----IPPMINILCTPVLKAFRERH 116 Query: 122 -PIRIICREGKLDVLLADLAIHKLDIIIADSPMPP-----NVDVRGYHHLLGECDTSFFA 175 I ++ +E + +A +L+I + P P + V Y SF Sbjct: 117 PDIAVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQK 176 Query: 176 TPALARRYRKGFPLSLDGAPFLMPGEDAAVRPRLLRWFEKQGIRPQITGEFDDGALLLAF 235 A R + LDG P ++ + + L F + GI+P+I + L+A Sbjct: 177 NRASLRCAQ------LDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAM 230 Query: 236 GDAGAGIFAAP 246 AG G P Sbjct: 231 ALAGMGTALLP 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 0.323 0.139 0.405 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: 934,895 Number of extensions: 38111 Number of successful extensions: 169 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 16 Length of query: 314 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 229 Effective length of database: 1,217,395 Effective search space: 278783455 Effective search space used: 278783455 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)