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= 0022.0224.p (347 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... 600 e-173 gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 80 2e-16 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 62 8e-11 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 60 2e-10 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 59 7e-10 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 600 bits (1548), Expect = e-173, Method: Compositional matrix adjust. Identities = 300/301 (99%), Positives = 301/301 (100%) Query: 47 MAFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 106 MAFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPT Sbjct: 1 MAFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 60 Query: 107 DMARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAEEFP 166 DMARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLA+EFP Sbjct: 61 DMARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAQEFP 120 Query: 167 SLEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALR 226 SLEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALR Sbjct: 121 SLEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALR 180 Query: 227 RKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLSLVREGLGWAYLP 286 RKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLSLVREGLGWAYLP Sbjct: 181 RKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLSLVREGLGWAYLP 240 Query: 287 QSLVQAQIEAGALTVIDFDNISNQQRQWVDVVWCKDRPLGLGAQRFVALMREMAPARRKR 346 QSLVQAQIEAGALTVIDFDNISNQQRQWVDVVWCKDRPLGLGAQRFVALMREMAPARRKR Sbjct: 241 QSLVQAQIEAGALTVIDFDNISNQQRQWVDVVWCKDRPLGLGAQRFVALMREMAPARRKR 300 Query: 347 R 347 R Sbjct: 301 R 301 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 88/266 (33%), Positives = 127/266 (47%), Gaps = 24/266 (9%) Query: 49 FSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDM 108 S D +RVF+ V DSGSF AAAR+L R S+VS I+ LE +L L LFDR+ + T Sbjct: 6 LSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRPQLTAP 65 Query: 109 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAE----- 163 AL DAR + + L A + +G E ++ LAV PL L + Sbjct: 66 GEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFF-------PLDCLVDLLQRF 118 Query: 164 --EFPS----LEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAV 217 FP+ LEVE L A A R++ D A L ++ P S LVAV Sbjct: 119 RAAFPAVTVRLEVEALG---AVAERVI-DGRAMLGILGTLPTTPPNLMRITLPSVRLVAV 174 Query: 218 IAPDHPALRRKKRKLRYEDLYDIRQIAVASRDARVSDPRFFL-ARQIWRTDNHLATLSLV 276 +AP HP L + K ++ + L Q+ ++ R + F + +R WR + +L+ Sbjct: 175 VAPHHP-LAKVKGRIAEKMLLQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALL 233 Query: 277 REGLGWAYLPQSLVQAQIEAGALTVI 302 R G+GW +P +V+ + AG L I Sbjct: 234 RAGMGWGNMPLHVVKEDLAAGRLVSI 259 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 61.6 bits (148), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 45/180 (25%), Positives = 82/180 (45%), Gaps = 1/180 (0%) Query: 49 FSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDM 108 F ++R+FL +++SGS + A+ +S S I +E L L +R R + TD Sbjct: 5 FELSDLRLFLHIVESGSITGGAQRAHMALASASARIRNMEDALGTPLLERGRRGVQTTDA 64 Query: 109 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAEEFPSL 168 RAL AR++A + QL +GL+ + L ++ + LA P Sbjct: 65 GRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHT 124 Query: 169 EVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPALRRK 228 ++E+ + ++ + D A + ++ + + + F + LVAV++ HP RRK Sbjct: 125 DIELEEKLSYEVVQAVIDGVADVGIIADSTDSGPLQTY-PFRQDHLVAVLSKRHPLARRK 183 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 79/238 (33%), Positives = 107/238 (44%), Gaps = 23/238 (9%) Query: 55 RVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDMARALEP 114 R FL VL++GS SAA RE+G +V I LE+ L L+LF R+ PTD A L+P Sbjct: 12 RSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAALELKP 71 Query: 115 DARLLASTLRQLDAHALAMHQGLERKLTLAV-APELLSAPWAKP-LAVLAEEFPSLEVEV 172 A +A+ L A QG E + T+ + A E++S P LA L P L VE+ Sbjct: 72 YAAAIAANSAAL--RRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELRVEL 129 Query: 173 LSSPQAD---------AMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHP 223 + S +AD A+RM AQ ALV +R G+ S + V H Sbjct: 130 VLSNKADDLLQREADIAVRMF--RPAQDALVAKR-LGSIELGLHAHQSYLTV------HG 180 Query: 224 ALRRKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLSLVREGLG 281 A + L L Q + R+ P A RTD+ LA L+ +R G G Sbjct: 181 A-PKSVDALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFG 237 >gi|300309487|ref|YP_003773579.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 58.5 bits (140), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 106/236 (44%), Gaps = 23/236 (9%) Query: 58 LAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDMARALEPDAR 117 +A+ D GS AA ++ S + ++E+ L +QLF RT R PT++ + AR Sbjct: 24 IALSDHGSLLKAAEQVALTQPGASKALQEIESTLGVQLFTRTNRGLEPTELGHCVIRYAR 83 Query: 118 LLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAP-WAKPLAVLAEEFPSLEVEVLSSP 176 L+ + L L LA+ QG + LAV + + P L L E P+L VE++ Sbjct: 84 LIQTDLTHLREEMLAIMQGHGGR--LAVGTIMGAVPLLTDALTRLLEAHPALSVEIVEDT 141 Query: 177 QADAMRMLYDDTAQLALVFERPAGNDR----EAFQEFSSEMLVAVIAPDHPALRRKKRKL 232 A +R+L D +L L R + + R +AF E L V + HP L Sbjct: 142 SARLLRLL--DQGRLDLAICRTSISQRPDLYDAFN-IHEEELAVVASVQHPL--ADAPSL 196 Query: 233 RYEDLYDIRQIAVAS---------RDARVSDPRFFLARQIWRTDNHLATLSLVREG 279 + DL D R + ++ R+ +D RF L + T + TLSL+++ Sbjct: 197 QLADLADSRWVVYSANMPMRLTLEREFHDADLRFPL--HLMETTSAFTTLSLLQKN 250 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 0.133 0.383 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: 996,845 Number of extensions: 40471 Number of successful extensions: 250 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 255 Number of HSP's successfully gapped: 21 Length of query: 347 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 261 Effective length of database: 1,212,660 Effective search space: 316504260 Effective search space used: 316504260 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 (22.0 bits) S2: 131 (55.1 bits)