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= 0028.0032.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313396|ref|YP_003777488.1| LysR family transcription regul... 612 e-176 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 89 4e-19 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 86 5e-18 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 84 1e-17 gi|300311571|ref|YP_003775663.1| LysR family transcription regul... 84 1e-17 >gi|300313396|ref|YP_003777488.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 612 bits (1577), Expect = e-176, Method: Compositional matrix adjust. Identities = 300/305 (98%), Positives = 301/305 (98%) Query: 1 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT 60 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT Sbjct: 1 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT 60 Query: 61 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPG 120 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPG Sbjct: 61 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPG 120 Query: 121 IKIHVHEKERAEIEQSLVEGEIDMAVVLTSNLRHREIAYETLFGSVRRLWLPARHALGER 180 IKIHVHEKERAEIEQSLVEGEIDMAVVLTSNLRHREIAYETLFGSVRRLWLPARH LGER Sbjct: 121 IKIHVHEKERAEIEQSLVEGEIDMAVVLTSNLRHREIAYETLFGSVRRLWLPARHPLGER 180 Query: 181 TVVNLSEVANEPFILLTVDEADKTALRYWNQSGRKPNIIMRTSSIEAVRSMVANGSGVAI 240 T VNL+EVANEPFILLTVDEADKTALRYWNQSGRKPNIIMRTSSIEAVRSMVANGSGVAI Sbjct: 181 TAVNLAEVANEPFILLTVDEADKTALRYWNQSGRKPNIIMRTSSIEAVRSMVANGSGVAI 240 Query: 241 LSDLVYRPWSLEGLRIETVLLMDHVPAMNVGLAWRKGVTFTPAMEAVREYFRQSFLTPQL 300 LSDLVYRPWSLEGLRIETVLLMDHVPAMNVGLAWRKGV FTPAMEAVREYFRQSFL PQL Sbjct: 241 LSDLVYRPWSLEGLRIETVLLMDHVPAMNVGLAWRKGVEFTPAMEAVREYFRQSFLAPQL 300 Query: 301 SSGRR 305 SSGRR Sbjct: 301 SSGRR 305 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 89.0 bits (219), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/283 (25%), Positives = 132/283 (46%), Gaps = 13/283 (4%) Query: 3 ITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILTDS 62 I LR + YF AE +AA LHISQ +T I LE LGA LF RS + + LT + Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 63 GRHFLNHAYSILRSVDDAMKSPLPDNTA-SGSLRVAASYTVLGYFLPHHLQRLSQSYPGI 121 G++F I ++++ A ++ +T SG+L+V + LP + S +YP + Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 122 KIHVHEKERAEIEQSLVEGEIDMAVVLTSNLRHREIAYETLFGSVRRLWLPARHALGERT 181 + + E + + + +ID+ ++ R + T++ LP H L R Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPE-DCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 Query: 182 VVNLSEVANEPFI---LLTVDEADKTALRYWNQSGRKPNIIMRTSSIEAVRSMVANGSGV 238 ++ +E+A + FI + ++ G +P I++ T+ + + ++V G GV Sbjct: 181 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 Query: 239 AILSDLVYRPWSLEGLRIETVLLMDHV--PAMNVGLAWRKGVT 279 A++ P S++ + ++T + + P + V + W K T Sbjct: 241 ALV------PTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNT 277 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 85.5 bits (210), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 88/318 (27%), Positives = 144/318 (45%), Gaps = 29/318 (9%) Query: 2 AITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILTD 61 +I LR +RYF+A AE G +++AA + I Q ++ I+ LE LG LF R P+GM LTD Sbjct: 18 SIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTD 77 Query: 62 SGRHFLNHAYSILRSVDDAMKSPLPDNTASGSL-RVAASYT---VLGYFLPHHLQRLSQS 117 SG L A ++L +D + S A G + R+A +T L F+ ++ Sbjct: 78 SGAALLIDARALLAQLDTTVAS--VRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRAD 135 Query: 118 YPGIKIHVHEKERAEIEQSLVEGEIDMAVVLTSNLRHREIAYETLFGSVRRLWLPARHAL 177 P + + V E E+ ++L +D+A V + + ET+ LP H L Sbjct: 136 APDVAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPL 195 Query: 178 ---GERTVVNLSEVANEPFILLTVDEAD---KTALRYWNQSGRKPNIIMRTSSIEAVRSM 231 G+R + L +A E FI+ T + + +G P +I + S+ Sbjct: 196 VDGGKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSL 255 Query: 232 VANGSGVAILSDLVYRPWSLEGLRIETVLLMDHVPAMNVG----LAWRKGVTFTPAMEAV 287 VA G GV ++ P S+ + E V+ + A ++ LA+R G ++ Sbjct: 256 VAAGVGVTVI------PASMTRVNAEGVVYLKLTGAPDLKAPLHLAYRTG-----SISGA 304 Query: 288 REYFRQSFLTPQLSSGRR 305 R+ L +LS+GR+ Sbjct: 305 ARLMREEAL--KLSAGRK 320 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 84/297 (28%), Positives = 138/297 (46%), Gaps = 44/297 (14%) Query: 3 ITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILTDS 62 + LRQ+RYF A AE +AA LH++Q ++ I LE LLG PLF R+ + + LT + Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 63 GRHFLNHAYSILRSVDDAMKSPLPD------NTASGSLRV----AASYTVLGYFLPHHLQ 112 G L A +L+ + LPD + ASG L + +A Y++ LP LQ Sbjct: 67 GAALLPEAQRLLQQA-----AALPDLVRRAASGASGLLSLSFISSADYSI----LPPLLQ 117 Query: 113 RLSQSYPGIKIHVHEKERAEIEQSLVEGEIDMAVVL-------TSNLRHREIAYETLFGS 165 R YP ++I + E + L++G+ID ++L + L R + E L + Sbjct: 118 RFRAHYPQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAA 177 Query: 166 VRRLWLPARHALGERTVVNLSEVANEPFILLTVDEAD---KTALRYWNQSGRKPNIIMRT 222 + A+ +R V+L + P I+ A T L + +G P+I Sbjct: 178 L------PEGAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEA 231 Query: 223 SSIEAVRSMVANGSGVAILSDLVYRPWSLEGLR---IETVLLMDHVPAMNVGLAWRK 276 ++ + +V+ G G+A++ P S+ L+ ++ L D PA+ LAWR+ Sbjct: 232 IQMQTIVGLVSAGMGMALV------PQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRR 282 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 52/145 (35%), Positives = 82/145 (56%), Gaps = 1/145 (0%) Query: 5 LRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILTDSGR 64 LRQ+RYFVA + G +S+AA LHI+Q ++T I++LE L A L RS QG+I TD+G+ Sbjct: 3 LRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDAGK 62 Query: 65 HFLNHAYSILRSVDDAMKS-PLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPGIKI 123 F HA +IL+ V DA ++ + SG++ + +V L + +YP I + Sbjct: 63 VFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEITL 122 Query: 124 HVHEKERAEIEQSLVEGEIDMAVVL 148 + E+ + L G I++AV+ Sbjct: 123 QLTEELTGNLITQLKSGRINLAVLF 147 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 0.321 0.133 0.382 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: 897,418 Number of extensions: 35804 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 51 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 51 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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)