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= 0033.0058.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... 99 4e-22 gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 96 3e-21 gi|300312870|ref|YP_003776962.1| transcription regulator protein... 80 2e-16 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 69 4e-13 gi|300313396|ref|YP_003777488.1| LysR family transcription regul... 67 2e-12 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 99.0 bits (245), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 93/296 (31%), Positives = 147/296 (49%), Gaps = 29/296 (9%) Query: 1 MQWNLDQLRQFVAAAEHGSISAAARHLGRAQSAVSTAIALLEVDLGVTLFDRSAHKAGLT 60 M ++ D +R F+A + GS SAAAR LGR S+VS I+ LE +L + LFDR+A A T Sbjct: 1 MAFSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 60 Query: 61 EVGAAMLQEAR---EVLRQADALEERARSFSLGDPASLTMVLDEAL---PYAA-LRVLLR 113 ++ A+ +AR LRQ DA A + G LT+ + L P+A L VL + Sbjct: 61 DMARALEPDARLLASTLRQLDA---HALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAQ 117 Query: 114 ELSARAPYFXLELTLLDGTPAEVVAAVQQRRADIGFHFDRGRVASGFDQRHIGSVAQGIF 173 E + LE+ +L A+ + + A + F+R +G D+ + + Sbjct: 118 EFPS------LEVEVLSSPQADAMRMLYDDTAQLALVFER---PAGNDREAFQEFSSEML 168 Query: 174 V---SPRHPLAARE--RLRKTDLAQYRQLILQADG--VEEPVY--SPKLWRSDNHYSIAE 224 V +P HP R+ +LR DL RQ+ + + V +P + + ++WR+DNH + Sbjct: 169 VAVIAPDHPALRRKKRKLRYEDLYDIRQIAVASRDARVSDPRFFLARQIWRTDNHLATLS 228 Query: 225 MVADNLGWAILPVNVAEYFDHAKALVPLRCPALALPLLS-VQMLWLPGRPLGSTAQ 279 +V + LGWA LP ++ + A AL + ++ V ++W RPLG AQ Sbjct: 229 LVREGLGWAYLPQSLVQAQIEAGALTVIDFDNISNQQRQWVDVVWCKDRPLGLGAQ 284 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 96.3 bits (238), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 102/310 (32%), Positives = 147/310 (47%), Gaps = 24/310 (7%) Query: 4 NLDQLRQFVAAAEHGSISAAARHLGRAQSAVSTAIALLEVDLGVTLFDRSAHKAGLTEVG 63 +LDQLR FV A+ GS AAAR L RAQSAVS AIA LE LG+ LFDRS ++ LT G Sbjct: 7 SLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRPQLTAPG 66 Query: 64 AAMLQEAREVLRQADALEERARSFSLGDPASLTMVLDEALPYAALRVLLRELSARAPYFX 123 A+L +AR+VL D+L+ RA S++ G + + +D P L LL+ A P Sbjct: 67 EALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDCLVDLLQRFRAAFPAVT 126 Query: 124 LELTLLDGTPAEVVAAVQQR----RADIGFHFDRGRVASGFDQRHIGSVAQGIFVSPRHP 179 + L + E + AV +R RA +G + + SV V+P HP Sbjct: 127 VRLEV------EALGAVAERVIDGRAMLGILGTLPTTPPNLMRITLPSVRLVAVVAPHHP 180 Query: 180 LA-ARERLRKTDLAQYRQLILQADGVEEP------VYSPKLWRSDNHYSIAEMVADNLGW 232 LA + R+ + L Q QL+L +D E V+S WR + + ++ +GW Sbjct: 181 LAKVKGRIAEKMLLQQTQLVL-SDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGW 239 Query: 233 AILPVNVAEYFDHAKALVPLRC----PALALPLLSVQMLWLPGRPLGSTAQWIGERFGQL 288 +P++V + A LV + P A L +Q ++ P G W + L Sbjct: 240 GNMPLHVVKEDLAAGRLVSISTIHHPPQGA--ELPIQCVYKPDHRAGPALSWWLDALANL 297 Query: 289 LSSQGQAVLG 298 S + Q G Sbjct: 298 GSLEAQPAAG 307 >gi|300312870|ref|YP_003776962.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 90/307 (29%), Positives = 135/307 (43%), Gaps = 32/307 (10%) Query: 1 MQWNLDQLRQFVAAAEHGSISAAARHLGRAQSAVSTAIALLEVDLGVTLFDRSAHKAGLT 60 M L+ L GS +AAA L R SA++ ++ LE DL V LFDR H+A LT Sbjct: 1 MNLTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLT 60 Query: 61 EVGAAMLQEAREVLRQADALEERARSFSLGDPASLTMVLDEALPYAALRVLL----RELS 116 G +LQE R +L A+ LE+R + + G L +VL+ +P+ + ++ RE S Sbjct: 61 PAGLQLLQEGRHLLLAANDLEQRVKRTATGRETELHIVLNSLIPFDKMLPIIAAFDREQS 120 Query: 117 ARAPYFXLELTLLDGTPAEVVAAVQ---QRRAD--IGFHFDRG---RVASGFDQRHIGSV 168 T L TP + A + + RA+ IG D R + F + +G+V Sbjct: 121 G---------TRLRFTPGVLTGAWEKLIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAV 171 Query: 169 AQGIFVSPRHPLAARERLRKTDLAQYRQLILQADGVEE-PVYSPKLWRSDNHYSIAEMVA 227 V+P+HPLA E +L + + I D + P + L ++A VA Sbjct: 172 DWVFVVAPQHPLAGVEEPLSAELVRSHRAIAVGDNSQSLPTLTMGLLSGQETLTVA-TVA 230 Query: 228 DN-------LGWAILPVNVAEYFDHAKALVPLRCPALALPLLSVQMLWLPGRPLGSTAQW 280 D LG LP AE + + ALV + A A P + + W P G + +W Sbjct: 231 DKLQAQLAGLGCGHLPRIWAEPYLASGALVEKQTLA-AKPNDNFMVAW-PKAEQGKSLKW 288 Query: 281 IGERFGQ 287 + Q Sbjct: 289 FIQHLAQ 295 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 68.9 bits (167), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 49/156 (31%), Positives = 82/156 (52%), Gaps = 6/156 (3%) Query: 4 NLDQLRQFVAAAEHGSISAAARHLGRAQSAVSTAIALLEVDLGVTLFDRSAHKAGLTEVG 63 ++ QL+ FVA A + + A+ L AQ +S I LLE +LGV L R++ LTE G Sbjct: 2 DIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEAG 61 Query: 64 AAMLQEAREVLRQADALEERARSFSLGDPASLTMVLDEALPYAALRVLLRELSARAPYFX 123 ++A ++L + D L+ + L +L++ + Y L +L+R+L R Y Sbjct: 62 RVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKL--RQHYPE 119 Query: 124 LELTLLDGTPAEVVAAVQQRRADIGFHFDRGRVASG 159 +++ LL+ T + AA++ R D+GF GR+ S Sbjct: 120 VDIQLLELTSMQQFAALKSGRIDVGF----GRIRSN 151 >gi|300313396|ref|YP_003777488.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 66.6 bits (161), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 89/311 (28%), Positives = 136/311 (43%), Gaps = 42/311 (13%) Query: 1 MQWNLDQLRQFVAAAEHGSISAAARHLGRAQSAVSTAIALLEVDLGVTLFDRSAHKAGLT 60 M L Q+R FVA AE G IS AA HL +QS+V++AI LE LG LF RS LT Sbjct: 1 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT 60 Query: 61 EVGAAMLQEAREVLRQAD-----ALEERARSFSLGDPASLTMVLDEALPYAALRVLLREL 115 + G L A +LR D L + S SL AS T VL LP+ L+ L Sbjct: 61 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYT-VLGYFLPHH-----LQRL 114 Query: 116 SARAPYFXLELTLLDGTPAEVVAAVQQRRADIGFHFDRGRVASGFDQRHI------GSVA 169 S P +++ + + AE+ ++ + D+ + S R I GSV Sbjct: 115 SQSYP--GIKIHVHEKERAEIEQSLVEGEIDMAV-----VLTSNLRHREIAYETLFGSVR 167 Query: 170 QGIFVSPRHPLAARERLRKTDLAQYRQLILQADGVEEPVY--------SPK-LWRSDNHY 220 + +++ RHPL R + ++A ++L D ++ P + R+ + Sbjct: 168 R-LWLPARHPLGERTAVNLAEVANEPFILLTVDEADKTALRYWNQSGRKPNIIMRTSSIE 226 Query: 221 SIAEMVADNLGWAILPVNVAEYFDHAKALVPLRCPALAL----PLLSVQMLWLPGRPLGS 276 ++ MVA+ G AIL ++ +L LR + L P ++V + W G Sbjct: 227 AVRSMVANGSGVAIL----SDLVYRPWSLEGLRIETVLLMDHVPAMNVGLAWRKGVEFTP 282 Query: 277 TAQWIGERFGQ 287 + + E F Q Sbjct: 283 AMEAVREYFRQ 293 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 0.135 0.393 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: 855,919 Number of extensions: 32411 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 32 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 32 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)