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= 0001.1146.p (309 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 579 e-166 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 230 9e-62 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 214 9e-57 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 199 3e-52 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 150 2e-37 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 579 bits (1492), Expect = e-166, Method: Compositional matrix adjust. Identities = 280/309 (90%), Positives = 294/309 (95%) Query: 1 MATFNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEG 60 MATFNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEG Sbjct: 1 MATFNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEG 60 Query: 61 MQPTPAALELAKPINRALQAVQDALRYTERFDPAASTRVFRASMTDVAEMMFLPQLCELL 120 MQPTPAALELAKPINRALQAVQDALRYTERFDPA STRVFRASMTDVAEMMFLP LCE+L Sbjct: 61 MQPTPAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEIL 120 Query: 121 TAQAPHTRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKTVTCHELLFRETYVCMMRKRP 180 TAQAP RLQVEQVPPAHLEEALRTGQLDFAFGNLPALK VTCHELLFRETYVC+MR+R Sbjct: 121 TAQAPDVRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKPVTCHELLFRETYVCLMRQRD 180 Query: 181 ELPARAQLTLDEFLALSHVLVESAESSHHQVEHSFRTLGVQRKISLSIPHFTVLPRILGK 240 LP RAQL LDEFLA+SHVLVESAESSHHQVE+SF+ LGVQR+ISLSIPHFTVLPRILGK Sbjct: 181 GLPQRAQLELDEFLAMSHVLVESAESSHHQVENSFQKLGVQRRISLSIPHFTVLPRILGK 240 Query: 241 SDLVATVPARIAKLFHSEHPDVFLSYELPVKLPTVDITLHWHQAFDADAGNSWLRQIVID 300 SDLVATVPARIA+LFHSEHP VF+SY+LPV +P V++TLHWHQ+FD DAGNSWLRQIVID Sbjct: 241 SDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLRQIVID 300 Query: 301 LLQSYGRSS 309 LLQ YGRSS Sbjct: 301 LLQQYGRSS 309 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 230 bits (587), Expect = 9e-62, Method: Compositional matrix adjust. Identities = 124/302 (41%), Positives = 185/302 (61%), Gaps = 6/302 (1%) Query: 8 DLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPTPAA 67 DLNLL+ F I + RSLT A RLHL+QPAVS+AL RLR++FDDPLF+R+ M PT A Sbjct: 10 DLNLLKTFIVIWELRSLTAAAERLHLTQPAVSHALRRLREMFDDPLFVRSTSAMVPTETA 69 Query: 68 LELAKPINRALQAVQDALRYTERFDPAASTRVFRASMTDVAEMMFLPQLCELLTAQAPHT 127 + L +PI RAL +Q+AL +FDPA +TR F M+D++ LP L E L APH Sbjct: 70 IRLHEPIARALDILQEALHTHAQFDPATATRTFHLVMSDMSCSHVLPLLMEELAHAAPHV 129 Query: 128 RLQVEQVPPAHLEEALRTGQLDFAFGNLPALKTVTCHELLFRETYVCMMRKRPELPARAQ 187 ++V+Q+ +L A+R G +D AFG LP L +L+ + Y+CM+R+ L A+ Sbjct: 130 SIEVQQMAMENLGAAMRNGDVDLAFGYLPGLPEDCQSQLVLYDDYICMLRREHPL-AQGP 188 Query: 188 LTLDEFLALSHVLVESAESSHHQVEHSFRTLGVQRKISLSIPHFTVLPRILGKSDLVATV 247 LTL+ L L +V + + H E R GV+R ++L +PHFTV P+I+ +DL + Sbjct: 189 LTLENLLQLRYVYTVTNTTGHQLAEDVLRNAGVKRDVALRMPHFTVAPQIVRITDLALFL 248 Query: 248 PARIAKLFHSEHPDVFLSYELPVKLPTVDITLHWHQAFDADAGNSWLRQIVIDLLQSYGR 307 P IA+ + +H F+ +LP+++P + ++++ H F D G WLR ++I++ +GR Sbjct: 249 PRSIAERNNLDH--AFVLLDLPLEMPRIPVSIYTHTRFSGDTGIQWLRSLLIEM---FGR 303 Query: 308 SS 309 S Sbjct: 304 GS 305 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 214 bits (544), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 114/295 (38%), Positives = 166/295 (56%), Gaps = 4/295 (1%) Query: 6 NMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPTP 65 ++DLNLL VFQ + ER ++ RL LSQPAVS AL RLR+ F+D LF+RT +GMQPTP Sbjct: 8 DIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTP 67 Query: 66 AALELAKPINRALQAVQDALRYTERFDPAASTRVFRASMTDVAEMMFLPQLCELLTAQAP 125 A +LA+P+ ALQ V AL E F P S R F +MTDV E+ F+P L E AP Sbjct: 68 FAEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARCAP 127 Query: 126 HTRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKTVTCHELLFRETYVCMMRKRPEL--P 183 + + L+ + +G++D A G L LFR+ YV M R L P Sbjct: 128 GVSISTVRAGAIDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHALDKP 187 Query: 184 ARAQLTLDEFLALSHVLVESAESSHHQVEHSFRTLGVQRKISLSIPHFTVLPRILGKSDL 243 R +++L EFLA H++V S ES + ++ + G+ + +PHFT +P I+ + L Sbjct: 188 GRGEVSLKEFLAAEHLMVSSQESPYDRINQNLEKAGILPSVRFRVPHFTAVPYIVSSTAL 247 Query: 244 VATVPARIAKLFHSEHPDVFLSYELPVKLPTVDITLHWHQAFDADAGNSWLRQIV 298 V TVP ++A+ + P + P++LP++ + WH+ ++ D GN WLR + Sbjct: 248 VVTVPRKLAE--SAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFI 300 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 199 bits (505), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 108/298 (36%), Positives = 171/298 (57%), Gaps = 4/298 (1%) Query: 6 NMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPTP 65 N DLNLL + A+ +ERS++ A +L +SQPAVS AL +LR DPLF++T GMQPTP Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 66 AALELAKPINRALQAVQDALRYTERFDPAASTRVFRASMTDVAEMMFLPQLCELLTAQAP 125 A+ L P LQ V + +++F PA +T+ F +++D+ E+M LP+L E + +AP Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 126 HTRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKTVT-CHELLFRETYVCMMRKRPELPA 184 H + + PA L AL +G++D A G P L+ + LF + +VC++R LPA Sbjct: 123 HASVVTVTMAPAELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLPA 182 Query: 185 RAQLTLDEFLALSHVLVESAESSHHQVEHSFRTLGVQRKISLSIPHFTVLPRILGKSDLV 244 + +++L+ + A H++V++ E ++R++ LS HF +P ++ SDLV Sbjct: 183 Q-KISLEHYQAAGHIVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIPLLVATSDLV 241 Query: 245 ATVPARIAKLFHSEHPDVFLSYELPVKLPTVDITLHWHQAFDADAGNSWLRQIVIDLL 302 ATVP + F + L E ++P +D+ HWH+ + DAGN+WLR + L Sbjct: 242 ATVPRAFGE-FVVRFAGIRL-VEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGLAAALF 297 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 97/304 (31%), Positives = 150/304 (49%), Gaps = 15/304 (4%) Query: 3 TFNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQ 62 +F +DLNLLRVF A+ E++LT A N L ++QPAVS AL RLR +D L IRT G++ Sbjct: 2 SFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGVK 61 Query: 63 PTPAALELAKPINRALQAVQDALRYTERFDPAASTRVFRASMTDVAEMMFLPQLCELLTA 122 PTP A EL + RAL ++ A+ E FD + + FR +M D ++LP L + Sbjct: 62 PTPRAEELWPTVRRALSELE-AVIAPESFDISRAQNTFRMAMVDATAALWLPSLVRTIMR 120 Query: 123 QAPHTRLQVEQVPPAHLEEALRTGQLDFAFGNLPAL-----------KTVTCHELLFRET 171 AP ++++ + L G +D A G P + K+ H L+ Sbjct: 121 DAPRIKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQ 180 Query: 172 YVCMMRKRPELPARAQLTLDEFLALSHVLVESAESSHHQVEHSFRTLGVQRKISLSIPHF 231 YVC+M K L A LTLD + H+LV + H ++ + +RKI L++ F Sbjct: 181 YVCVMHKSHPL-AGQPLTLDSYCNADHLLVSLSGKPHAVIDDVLAGMNRERKILLTVNQF 239 Query: 232 TVLPRILGKSDLVATVPARIAKLFHSEHPDVFLSYELPVKLPTVDITLHWHQAFDADAGN 291 RI+ S+L+ +P + + + + ELP + P + + WH+ + + Sbjct: 240 FTAGRIVASSELITVLPRHLVAA--TGMAEALVVKELPFQTPEEHVDMLWHERDARNPAH 297 Query: 292 SWLR 295 WLR Sbjct: 298 KWLR 301 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 0.135 0.396 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: 938,267 Number of extensions: 38058 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 235 Number of HSP's successfully gapped: 18 Length of query: 309 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 224 Effective length of database: 1,217,395 Effective search space: 272696480 Effective search space used: 272696480 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: 40 (21.6 bits) S2: 130 (54.7 bits)