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= 0001.1052.p (255 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310576|ref|YP_003774668.1| transcription regulator protein... 346 1e-96 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 65 6e-12 gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 64 2e-11 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 61 9e-11 gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 58 8e-10 >gi|300310576|ref|YP_003774668.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 346 bits (888), Expect = 1e-96, Method: Compositional matrix adjust. Identities = 178/253 (70%), Positives = 205/253 (81%), Gaps = 2/253 (0%) Query: 1 MPTLTLPPGELPLPQLHLRSYREQTLADRHDFSQLVLPLAGRLELDIAGHQGYADSLTAA 60 +P+L P PL QLHLRSYR+++LA RHDF QLVLPLAG L LDI G +G AD+ T A Sbjct: 3 LPSLPHPDLAPPLAQLHLRSYRDESLAHRHDFPQLVLPLAGHLALDIGGREGRADAATGA 62 Query: 61 FVEPGAWHETRAGGSNRALVLDLAPHAVDTLQLEALARRAFVPLTAAASKLVEFMALSLA 120 FVEPGA H TRAGG NR+LVLDLAP V+ LQLE LA+R F+PL+ AA KLVEFMA+SLA Sbjct: 63 FVEPGARHATRAGGENRSLVLDLAPATVNALQLEQLAQRPFLPLSVAAGKLVEFMAVSLA 122 Query: 121 QSTAPAAGHALHHWVPLLLDTLAQQPPQVKSRLHRMLARVEAQAAQPWTVADMAALAAIS 180 Q+ + A L HWVPLLLDTLAQ+ PQ SRL RM+A+VEAQ A PWTVA MA AAIS Sbjct: 123 QARSSPA--MLQHWVPLLLDTLAQRTPQALSRLRRMMAQVEAQVAHPWTVAQMAEAAAIS 180 Query: 181 PSRLHEWFQQELGTSPRAWLAEVRLAQACQLLRTSALPVAAIAQRCGYGDQSAMTHAMRK 240 PSRLHEWF+ EL +SPRAWLAEVR+AQACQLLRTSALP+A +AQRCGY DQSA+THAMR+ Sbjct: 181 PSRLHEWFRAELDSSPRAWLAEVRMAQACQLLRTSALPLAQVAQRCGYADQSALTHAMRR 240 Query: 241 LRGTTPSAYRKQY 253 LRG TP++YRK Y Sbjct: 241 LRGVTPASYRKNY 253 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 65.1 bits (157), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 40/97 (41%), Positives = 54/97 (55%), Gaps = 4/97 (4%) Query: 153 LHRMLARVEAQAAQPWTVADMAALAAISPSRLHEWFQQELGTSPRAWLAEVRLAQACQLL 212 L M AR+E Q W+VA +A +AA+S S E F + LG +P A+L R+ A +LL Sbjct: 201 LKHMHARIE----QRWSVAQLARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARELL 256 Query: 213 RTSALPVAAIAQRCGYGDQSAMTHAMRKLRGTTPSAY 249 R L V+ IA+R GYG SA + A + G P Y Sbjct: 257 RRGELSVSEIAERTGYGSTSAFSVAFTRQVGQPPGLY 293 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 30/85 (35%), Positives = 50/85 (58%) Query: 165 AQPWTVADMAALAAISPSRLHEWFQQELGTSPRAWLAEVRLAQACQLLRTSALPVAAIAQ 224 AQ ++A++AA + +S + F+Q G SP AWL + R+A AC+LL + IA Sbjct: 205 AQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHEGGKSMTTIAL 264 Query: 225 RCGYGDQSAMTHAMRKLRGTTPSAY 249 CG+ DQS + ++++G P+A+ Sbjct: 265 ECGFSDQSHFSRVFKQVQGMGPAAW 289 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 60.8 bits (146), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 28/104 (26%), Positives = 52/104 (50%) Query: 152 RLHRMLARVEAQAAQPWTVADMAALAAISPSRLHEWFQQELGTSPRAWLAEVRLAQACQL 211 R+ + L ++ + +++ A ++S F++E G +P +L ++R+ AC Sbjct: 254 RIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLY 313 Query: 212 LRTSALPVAAIAQRCGYGDQSAMTHAMRKLRGTTPSAYRKQYRA 255 L+ + LP+ IA+RCG + RK G +P YRK+ A Sbjct: 314 LKETDLPIEKIARRCGLVSGEHLARLFRKHHGVSPGEYRKKENA 357 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 57.8 bits (138), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 40/142 (28%), Positives = 69/142 (48%), Gaps = 10/142 (7%) Query: 109 SKLVEFMALSLAQSTAPAAGHALHHWVPLLLDTLAQQPPQVKSRLHRMLARVEAQAAQPW 168 ++L + +A S+ + A W+ A + PQV R+LA V + W Sbjct: 211 ARLADVLAASIIRGWVECACSDASGWIA------AVRCPQVG----RVLAAVHQHPERDW 260 Query: 169 TVADMAALAAISPSRLHEWFQQELGTSPRAWLAEVRLAQACQLLRTSALPVAAIAQRCGY 228 +VA++AAL S S + F +G +P ++A V++ QA + L VA +A R GY Sbjct: 261 SVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGY 320 Query: 229 GDQSAMTHAMRKLRGTTPSAYR 250 +++ + A +++ G PS R Sbjct: 321 DSEASFSRAFKRIIGHPPSEAR 342 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 0.130 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: 772,451 Number of extensions: 30532 Number of successful extensions: 184 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 9 Length of query: 255 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 172 Effective length of database: 1,226,865 Effective search space: 211020780 Effective search space used: 211020780 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: 129 (54.3 bits)