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= 0001.0066.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310394|ref|YP_003774486.1| AraC family transcription regul... 590 e-170 gi|300312695|ref|YP_003776787.1| AraC family transcription regul... 289 2e-79 gi|300313268|ref|YP_003777360.1| transcription regulator protein... 62 5e-11 gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 60 2e-10 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 59 5e-10 >gi|300310394|ref|YP_003774486.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 590 bits (1520), Expect = e-170, Method: Compositional matrix adjust. Identities = 281/294 (95%), Positives = 288/294 (97%) Query: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG Sbjct: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 Query: 61 QLVMTGPNLPQNWISDIGRDEVVPVRSLVIQFPEQLVDQCAASIPEMDAIMPLLERSHRG 120 QLVMTGPNLPQNWISDI DE+VPVRSLVIQFPEQLVDQCAASI EM+AIMPLLERSHRG Sbjct: 61 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVDQCAASIAEMEAIMPLLERSHRG 120 Query: 121 LLFDAATSDTVRPLMQRLIDQRGLKRLALFWEILDVLANSPEPEVLASLSYKLDLSGVNS 180 LLFDAATS+TVRPLMQRLIDQRGLKRLALFWE+LDVLAN+PEPEVLASLSYKLDLSGVNS Sbjct: 121 LLFDAATSETVRPLMQRLIDQRGLKRLALFWELLDVLANAPEPEVLASLSYKLDLSGVNS 180 Query: 181 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLSTFSRAFKRHTGTTLVRYKNQLRVDLACL 240 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLS+FSRAFKRHTGTTLVRYKNQLRVDLACL Sbjct: 181 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL 240 Query: 241 ALLNNPEARITDICYETGFSNLSNFNRHFQKIKGMSPSEFRNTFASNGLFAATG 294 ALL P+ARITDICYETGFSNLSNFNRHF KIKGMSPSEFRNTFASNGLFAATG Sbjct: 241 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFRNTFASNGLFAATG 294 >gi|300312695|ref|YP_003776787.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 289 bits (740), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 132/282 (46%), Positives = 190/282 (67%), Gaps = 1/282 (0%) Query: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 M PDLELVH R+ +SF AW+H YP +WH+HPEYE+H++ A+SG+F+VGD IGDF PG Sbjct: 1 MSPDLELVHTRQDQSFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDFGPG 60 Query: 61 QLVMTGPNLPQNWISDIGRDEVVPVRSLVIQFPEQLVDQCAASIPEMDAIMPLLERSHRG 120 LV+TGPNLP NW+S++G + VP R LV+QF ++ +IPE+ + +L+ + RG Sbjct: 61 NLVLTGPNLPHNWVSNLGAHQQVPARDLVLQFSRPFAERVVGAIPELSPLQEMLDGAARG 120 Query: 121 LLFDAATSDTVRPLMQRLIDQRGLKRLALFWEILDVLANSPEPEVLASLSYKLDLSGVNS 180 L F A ++ PLMQ L G +R+ L +L+ LA+ PE + LA Y L+ S Sbjct: 121 LQFPDALGASITPLMQELAQASGARRVVLMMSVLERLASCPERKPLAGPGYDLNAQRHMS 180 Query: 181 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLSTFSRAFKRHTGTTLVRYKNQLRVDLACL 240 S LN+ ++ +R++L ++ E DLA++ G ++S+F+R FKRHTG T ++Y+N LR++ AC Sbjct: 181 STLNQVLSCIRQNLGGNLRETDLAELAGMSVSSFTRFFKRHTGCTFIQYQNGLRLNEAC- 239 Query: 241 ALLNNPEARITDICYETGFSNLSNFNRHFQKIKGMSPSEFRN 282 LL E +T++CY GF+NLSNFNR F KGM PS FR+ Sbjct: 240 ELLMCTELSVTEVCYRVGFNNLSNFNRQFLASKGMPPSRFRS 281 >gi|300313268|ref|YP_003777360.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 62.4 bits (150), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 49/101 (48%) Query: 183 LNRAIAYLREHLTDDIGEQDLADMVGQNLSTFSRAFKRHTGTTLVRYKNQLRVDLACLAL 242 R + ++ HL + + LA++ + F R F TG + RY +R+ A L L Sbjct: 13 FERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYILLMRLKHASLQL 72 Query: 243 LNNPEARITDICYETGFSNLSNFNRHFQKIKGMSPSEFRNT 283 P+ RI DI E GF N +F R F+ G SPS+FR Sbjct: 73 AFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRA 113 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 60.1 bits (144), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 31/92 (33%), Positives = 53/92 (57%), Gaps = 1/92 (1%) Query: 189 YLREHLTDDIGEQDLADMVGQNLSTFSRAFKRHTGTTLVRYKNQLRVDLACLALLNNPEA 248 ++ HL + ++A G + + FSRAFK+ G + + Q R+ LAC LL+ Sbjct: 199 FMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALAC-RLLHEGGK 257 Query: 249 RITDICYETGFSNLSNFNRHFQKIKGMSPSEF 280 +T I E GFS+ S+F+R F++++GM P+ + Sbjct: 258 SMTTIALECGFSDQSHFSRVFKQVQGMGPAAW 289 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 58.9 bits (141), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 33/103 (32%), Positives = 52/103 (50%), Gaps = 1/103 (0%) Query: 180 SSGLNRAIAYLREHLTDDIGEQDLADMVGQNLSTFSRAFKRHTGTTLVRYKNQLRVDLAC 239 S + +A+ +L EH++ I + AD V + F R FKR TG T + ++R++ AC Sbjct: 252 SERIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAAC 311 Query: 240 LALLNNPEARITDICYETGFSNLSNFNRHFQKIKGMSPSEFRN 282 L L + I I G + + R F+K G+SP E+R Sbjct: 312 L-YLKETDLPIEKIARRCGLVSGEHLARLFRKHHGVSPGEYRK 353 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 0.322 0.138 0.416 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: 957,225 Number of extensions: 40229 Number of successful extensions: 150 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 5 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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)