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= 0001.0855.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... 592 e-170 gi|300312695|ref|YP_003776787.1| AraC family transcription regul... 286 2e-78 gi|300313268|ref|YP_003777360.1| transcription regulator protein... 61 1e-10 gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 58 1e-09 >gi|300310394|ref|YP_003774486.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 592 bits (1526), Expect = e-170, Method: Compositional matrix adjust. Identities = 282/294 (95%), Positives = 291/294 (98%) Query: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG Sbjct: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 Query: 61 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVNQCAANIPEMEAIMPLLERSHRG 120 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLV+QCAA+I EMEAIMPLLERSHRG Sbjct: 61 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVDQCAASIAEMEAIMPLLERSHRG 120 Query: 121 LLFDAATSDTVRPLMQRLIDQRGLKRLALFWEILDVLANSPEPEVLASLSYKLDLSGFNS 180 LLFDAATS+TVRPLMQRLIDQRGLKRLALFWE+LDVLAN+PEPEVLASLSYKLDLSG NS Sbjct: 121 LLFDAATSETVRPLMQRLIDQRGLKRLALFWELLDVLANAPEPEVLASLSYKLDLSGVNS 180 Query: 181 SGLNCAIAYLREHLTEDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL 240 SGLN AIAYLREHLT+DIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL Sbjct: 181 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL 240 Query: 241 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFRHTFATNGVFAATG 294 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFR+TFA+NG+FAATG Sbjct: 241 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFRNTFASNGLFAATG 294 >gi|300312695|ref|YP_003776787.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 286 bits (731), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 132/281 (46%), Positives = 186/281 (66%), Gaps = 1/281 (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 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVNQCAANIPEMEAIMPLLERSHRG 120 LV+TGPNLP NW+S++ A + VP R LV+QF + IPE+ + +L+ + RG Sbjct: 61 NLVLTGPNLPHNWVSNLGAHQQVPARDLVLQFSRPFAERVVGAIPELSPLQEMLDGAARG 120 Query: 121 LLFDAATSDTVRPLMQRLIDQRGLKRLALFWEILDVLANSPEPEVLASLSYKLDLSGFNS 180 L F A ++ PLMQ L G +R+ L +L+ LA+ PE + LA Y L+ S Sbjct: 121 LQFPDALGASITPLMQELAQASGARRVVLMMSVLERLASCPERKPLAGPGYDLNAQRHMS 180 Query: 181 SGLNCAIAYLREHLTEDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL 240 S LN ++ +R++L ++ E DLA++ G ++SSF+R FKRHTG T ++Y+N LR++ AC Sbjct: 181 STLNQVLSCIRQNLGGNLRETDLAELAGMSVSSFTRFFKRHTGCTFIQYQNGLRLNEAC- 239 Query: 241 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFR 281 LL + +T++CY GF+NLSNFNR F KGM PS FR Sbjct: 240 ELLMCTELSVTEVCYRVGFNNLSNFNRQFLASKGMPPSRFR 280 >gi|300313268|ref|YP_003777360.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 60.8 bits (146), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 34/95 (35%), Positives = 48/95 (50%) Query: 187 IAYLREHLTEDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACLALLTRP 246 + ++ HL + + LA++ + F R F TG + RY +R+ A L L +P Sbjct: 17 LDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYILLMRLKHASLQLAFQP 76 Query: 247 QARITDICYETGFSNLSNFNRHFHKIKGMSPSEFR 281 Q RI DI E GF N +F R F G SPS+FR Sbjct: 77 QRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFR 111 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 31/92 (33%), Positives = 52/92 (56%), Gaps = 1/92 (1%) Query: 189 YLREHLTEDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACLALLTRPQA 248 ++ HL + + ++A G + + FSRAFK+ G + + Q R+ LAC LL Sbjct: 199 FMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALAC-RLLHEGGK 257 Query: 249 RITDICYETGFSNLSNFNRHFHKIKGMSPSEF 280 +T I E GFS+ S+F+R F +++GM P+ + Sbjct: 258 SMTTIALECGFSDQSHFSRVFKQVQGMGPAAW 289 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 0.137 0.419 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: 949,212 Number of extensions: 38845 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 152 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 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)