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= 0001.4416.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313810|ref|YP_003777902.1| LysR family transcription regul... 551 e-158 gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 77 2e-15 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 60 3e-10 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 56 3e-09 gi|300312018|ref|YP_003776110.1| transcription regulator protein... 56 5e-09 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 551 bits (1420), Expect = e-158, Method: Compositional matrix adjust. Identities = 273/301 (90%), Positives = 287/301 (95%) Query: 1 MAFSSDNVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 60 MAFSSDNV+VFLAVLDSGSFSAAAR+LGRVPSSVSMTISQLEAELDLQLFDRTARDARPT Sbjct: 1 MAFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 60 Query: 61 ELARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVPWARPLAVLAAEFP 120 ++ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLA+APELLS PWA+PLAVLA EFP Sbjct: 61 DMARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAQEFP 120 Query: 121 SLEVEVLSSPQADAMQMLYDNTAQLALVFERHAGDDSEAFQELSSEMMVAVIAPDHPARL 180 SLEVEVLSSPQADAM+MLYD+TAQLALVFER AG+D EAFQE SSEM+VAVIAPDHPA Sbjct: 121 SLEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALR 180 Query: 181 RKKRKLRYEDLYDIRQIAVASRDASISDPRFFLARHIWRTDNHLATLSLVREGLGWAYLP 240 RKKRKLRYEDLYDIRQIAVASRDA +SDPRFFLAR IWRTDNHLATLSLVREGLGWAYLP Sbjct: 181 RKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLSLVREGLGWAYLP 240 Query: 241 HSLVQAQIEAGTLVVIDFDNISNQQRMWVDVVWSKDRPLGLGAQRFIALMREMAPSRRKR 300 SLVQAQIEAG L VIDFDNISNQQR WVDVVW KDRPLGLGAQRF+ALMREMAP+RRKR Sbjct: 241 QSLVQAQIEAGALTVIDFDNISNQQRQWVDVVWCKDRPLGLGAQRFVALMREMAPARRKR 300 Query: 301 K 301 + Sbjct: 301 R 301 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 121/255 (47%), Gaps = 2/255 (0%) Query: 3 FSSDNVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPTEL 62 S D ++VF+ V DSGSF AAAR+L R S+VS I+ LE +L L LFDR+ + T Sbjct: 6 LSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRPQLTAP 65 Query: 63 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVPWARPLAVLAAEFPSL 122 AL DAR + + L A + +G E ++ LA+ L A FP++ Sbjct: 66 GEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDCLVDLLQRFRAAFPAV 125 Query: 123 EVEVLSSPQADAMQMLYDNTAQLALVFERHAGDDSEAFQELSSEMMVAVIAPDHPARLRK 182 V + + + D A L ++ + L S +VAV+AP HP + Sbjct: 126 TVRLEVEALGAVAERVIDGRAMLGILGTLPTTPPNLMRITLPSVRLVAVVAPHHPLA-KV 184 Query: 183 KRKLRYEDLYDIRQIAVASRDASISDPRFFL-ARHIWRTDNHLATLSLVREGLGWAYLPH 241 K ++ + L Q+ ++ R + F + +R WR + +L+R G+GW +P Sbjct: 185 KGRIAEKMLLQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWGNMPL 244 Query: 242 SLVQAQIEAGTLVVI 256 +V+ + AG LV I Sbjct: 245 HVVKEDLAAGRLVSI 259 >gi|300309487|ref|YP_003773579.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 59.7 bits (143), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 106/234 (45%), Gaps = 19/234 (8%) Query: 12 LAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPTELARALEPDAR 71 +A+ D GS AA Q+ S + ++E+ L +QLF RT R PTEL + AR Sbjct: 24 IALSDHGSLLKAAEQVALTQPGASKALQEIESTLGVQLFTRTNRGLEPTELGHCVIRYAR 83 Query: 72 LLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVP-WARPLAVLAAEFPSLEVEVLSSP 130 L+ + L L LA+ QG + LA+ + +VP L L P+L VE++ Sbjct: 84 LIQTDLTHLREEMLAIMQGHGGR--LAVGTIMGAVPLLTDALTRLLEAHPALSVEIVEDT 141 Query: 131 QADAMQMLYDNTAQLALVFERHAG--DDSEAFQELSSEMMVAVIAPDHPARLRKKRKLRY 188 A +++L LA+ + D +AF + E + V + HP L L+ Sbjct: 142 SARLLRLLDQGRLDLAICRTSISQRPDLYDAFN-IHEEELAVVASVQHP--LADAPSLQL 198 Query: 189 EDLYDIRQIAVAS---------RDASISDPRFFLARHIWRTDNHLATLSLVREG 233 DL D R + ++ R+ +D RF L H+ T + TLSL+++ Sbjct: 199 ADLADSRWVVYSANMPMRLTLEREFHDADLRFPL--HLMETTSAFTTLSLLQKN 250 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 56.2 bits (134), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 46/191 (24%), Positives = 88/191 (46%), Gaps = 7/191 (3%) Query: 3 FSSDNVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPTEL 62 F ++++FL +++SGS + A++ +S S I +E L L +R R + T+ Sbjct: 5 FELSDLRLFLHIVESGSITGGAQRAHMALASASARIRNMEDALGTPLLERGRRGVQTTDA 64 Query: 63 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVPWARPLAVLAAEFPSL 122 RAL AR++A + QL +GL+ + L ++ LA A P Sbjct: 65 GRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHT 124 Query: 123 EVEVLSSPQADAMQMLYDNTAQLALVFERHAGDDSEAFQE--LSSEMMVAVIAPDHPARL 180 ++E+ + +Q + D A + ++ + DS Q + +VAV++ HP L Sbjct: 125 DIELEEKLSYEVVQAVIDGVADVGIIAD---STDSGPLQTYPFRQDHLVAVLSKRHP--L 179 Query: 181 RKKRKLRYEDL 191 +++ L + +L Sbjct: 180 ARRKSLAFAEL 190 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 55.8 bits (133), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 34/82 (41%), Positives = 48/82 (58%), Gaps = 4/82 (4%) Query: 7 NVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPT----EL 62 +++VF+ +L +GSF AAA QLG PS+ S + +LE L QL R++R PT EL Sbjct: 11 DLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAGSEL 70 Query: 63 ARALEPDARLLASTLRQLDAHA 84 A LE + + L QLD+ A Sbjct: 71 AARLEQGFEQIGAALSQLDSSA 92 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 0.132 0.378 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: 895,951 Number of extensions: 35518 Number of successful extensions: 262 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 265 Number of HSP's successfully gapped: 23 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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)