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= 0029.0007.p (319 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 617 e-178 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 159 3e-40 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 151 9e-38 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 149 3e-37 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 142 5e-35 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 617 bits (1591), Expect = e-178, Method: Compositional matrix adjust. Identities = 296/319 (92%), Positives = 310/319 (97%) Query: 1 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDELVIRTAHGV 60 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLND+LVIRTAHGV Sbjct: 1 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGV 60 Query: 61 KPTPRAEELWPTVRRALSELEAVITPETFDVTRAQNTFRMAMVDATAALWLPSLVRTIMR 120 KPTPRAEELWPTVRRALSELEAVI PE+FD++RAQNTFRMAMVDATAALWLPSLVRTIMR Sbjct: 61 KPTPRAEELWPTVRRALSELEAVIAPESFDISRAQNTFRMAMVDATAALWLPSLVRTIMR 120 Query: 121 DAPRLKIRMMPLTTRDPRAMLLRGDVDLAVGFFPGVTAQLADGQGMVKTQISHERLYTGQ 180 DAPR+KIRMMPLTTRDPRAMLLRGD+DLAVGFFPGVTAQLADGQGM K+QISH RLYTGQ Sbjct: 121 DAPRIKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQ 180 Query: 181 YVCVMHKNHPLADKELTLDAYCSADHLLVSLSGKPHAVIDDVLSGMGRERKILLTVNQFF 240 YVCVMHK+HPLA + LTLD+YC+ADHLLVSLSGKPHAVIDDVL+GM RERKILLTVNQFF Sbjct: 181 YVCVMHKSHPLAGQPLTLDSYCNADHLLVSLSGKPHAVIDDVLAGMNRERKILLTVNQFF 240 Query: 241 TAGRIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWL 300 TAGRIVASSELITVLPRHL+AATGM E LVVKELPF+TPEEHVDMLWHERDARNPAHKWL Sbjct: 241 TAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAHKWL 300 Query: 301 RAHLVATTHDEFGRINMKR 319 RAHL ATTHDEFGRINMKR Sbjct: 301 RAHLSATTHDEFGRINMKR 319 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 159 bits (402), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 103/318 (32%), Positives = 161/318 (50%), Gaps = 18/318 (5%) Query: 2 SFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDELVIRTAHGVK 61 +F +DLNLLRVF A+ E++LT A N L ++QPAVS AL RLR +D L IRT G++ Sbjct: 3 TFNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQ 62 Query: 62 PTPRAEELWPTVRRALSELE-AVITPETFDVTRAQNTFRMAMVDATAALWLPSLVRTIMR 120 PTP A EL + RAL ++ A+ E FD ++ FR +M D ++LP L + Sbjct: 63 PTPAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTA 122 Query: 121 DAPRLKIRMMPLTTRDPRAMLLRGDVDLAVGFFPGVTAQLADGQGMVKTQISHERLYTGQ 180 AP +++++ + L G +D A G P +K HE L+ Sbjct: 123 QAPDVRLQVEQVPPAHLEEALRTGQLDFAFGNLPA-----------LKPVTCHELLFRET 171 Query: 181 YVCVMHKNHPLADK-ELTLDAYCSADHLLVSLSGKPHAVIDDVLSGMGRERKILLTVNQF 239 YVC+M + L + +L LD + + H+LV + H +++ +G +R+I L++ F Sbjct: 172 YVCLMRQRDGLPQRAQLELDEFLAMSHVLVESAESSHHQVENSFQKLGVQRRISLSIPHF 231 Query: 240 FTAGRIVASSELITVLPRHLIAATGMTE---VLVVKELPFKTPEEHVDMLWHERDARNPA 296 RI+ S+L+ +P IA +E V V +LP P V + WH+ + Sbjct: 232 TVLPRILGKSDLVATVPAR-IARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAG 290 Query: 297 HKWLRAHLVATTHDEFGR 314 + WLR +V ++GR Sbjct: 291 NSWLR-QIVIDLLQQYGR 307 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 151 bits (381), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 98/304 (32%), Positives = 150/304 (49%), Gaps = 17/304 (5%) Query: 6 LDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDELVIRTAHGVKPTPR 65 +DLNLL VF V E+ ++ A L ++QPAVSNAL RLR + DEL +RTA G++PTP Sbjct: 9 IDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTPF 68 Query: 66 AEELWPTVRRALSEL-EAVITPETFDVTRAQNTFRMAMVDATAALWLPSLVRTIMRDAPR 124 AE+L V AL ++ A+ E F + F +AM D ++P+L+ R AP Sbjct: 69 AEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARCAPG 128 Query: 125 LKIRMMPLTTRDPRAMLLRGDVDLAVGFFPGVTAQLADGQGMVKTQISHERLYTGQYVCV 184 + I + D ++ + G VDLA+G F ++ L RL+ +YV + Sbjct: 129 VSISTVRAGAIDLKSEMESGRVDLAIGAFDNLSEAL-----------YQRRLFRQEYVSM 177 Query: 185 MHKNHPLADK----ELTLDAYCSADHLLVSLSGKPHAVIDDVLSGMGRERKILLTVNQFF 240 H L DK E++L + +A+HL+VS P+ I+ L G + V F Sbjct: 178 FRIGHAL-DKPGRGEVSLKEFLAAEHLMVSSQESPYDRINQNLEKAGILPSVRFRVPHFT 236 Query: 241 TAGRIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWL 300 IV+S+ L+ +PR L + L + P + P +M WH R ++ + WL Sbjct: 237 AVPYIVSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWL 296 Query: 301 RAHL 304 R + Sbjct: 297 RGFI 300 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 149 bits (376), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 103/319 (32%), Positives = 159/319 (49%), Gaps = 16/319 (5%) Query: 1 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDELVIRTAHGV 60 M+ DLNLL+ F + ++LT AA L +TQPAVS+ALRRLR+ +D L +R+ + Sbjct: 4 MNIAAADLNLLKTFIVIWELRSLTAAAERLHLTQPAVSHALRRLREMFDDPLFVRSTSAM 63 Query: 61 KPTPRAEELWPTVRRALSEL-EAVITPETFDVTRAQNTFRMAMVDATAALWLPSLVRTIM 119 PT A L + RAL L EA+ T FD A TF + M D + + LP L+ + Sbjct: 64 VPTETAIRLHEPIARALDILQEALHTHAQFDPATATRTFHLVMSDMSCSHVLPLLMEELA 123 Query: 120 RDAPRLKIRMMPLTTRDPRAMLLRGDVDLAVGFFPGVTAQLADGQGMVKTQISHERLYTG 179 AP + I + + + A + GDVDLA G+ PG+ D Q + LY Sbjct: 124 HAAPHVSIEVQQMAMENLGAAMRNGDVDLAFGYLPGLPE---DCQSQLV-------LY-D 172 Query: 180 QYVCVMHKNHPLADKELTLDAYCSADHLLVSLSGKPHAVIDDVLSGMGRERKILLTVNQF 239 Y+C++ + HPLA LTL+ ++ + H + +DVL G +R + L + F Sbjct: 173 DYICMLRREHPLAQGPLTLENLLQLRYVYTVTNTTGHQLAEDVLRNAGVKRDVALRMPHF 232 Query: 240 FTAGRIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKW 299 A +IV ++L LPR + + V+ +LP + P V + H R + + +W Sbjct: 233 TVAPQIVRITDLALFLPRSIAERNNLDHAFVLLDLPLEMPRIPVSIYTHTRFSGDTGIQW 292 Query: 300 LRAHLVAT----THDEFGR 314 LR+ L+ +HD+ R Sbjct: 293 LRSLLIEMFGRGSHDDCAR 311 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 142 bits (357), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 87/299 (29%), Positives = 149/299 (49%), Gaps = 11/299 (3%) Query: 5 TLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDELVIRTAHGVKPTP 64 DLNLL + AV E++++ AA L M+QPAVS AL +LR L D L ++T G++PTP Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 65 RAEELWPTVRRALSELEA-VITPETFDVTRAQNTFRMAMVDATAALWLPSLVRTIMRDAP 123 RA L R L + A V++ + F F +A+ D + LP L+ I +AP Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 124 RLKIRMMPLTTRDPRAMLLRGDVDLAVGFFPGVTAQLADGQGMVKTQISHERLYTGQYVC 183 + + + + A L G+VDLA+G+FP + +RL++ +VC Sbjct: 123 HASVVTVTMAPAELVAALESGEVDLAIGYFPDLR----------NRNFFQQRLFSQDFVC 172 Query: 184 VMHKNHPLADKELTLDAYCSADHLLVSLSGKPHAVIDDVLSGMGRERKILLTVNQFFTAG 243 ++ HPL ++++L+ Y +A H++V G+ + + L R+++L+ F Sbjct: 173 LLRAGHPLPAQKISLEHYQAAGHIVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIP 232 Query: 244 RIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWLRA 302 +VA+S+L+ +PR + + E F+ P + WH + ++ + WLR Sbjct: 233 LLVATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRG 291 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 0.135 0.397 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: 980,843 Number of extensions: 39985 Number of successful extensions: 261 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 257 Number of HSP's successfully gapped: 24 Length of query: 319 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 234 Effective length of database: 1,217,395 Effective search space: 284870430 Effective search space used: 284870430 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 130 (54.7 bits)