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= 0013.0039.p (247 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 504 e-144 gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 145 3e-36 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 129 2e-31 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 110 1e-25 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 504 bits (1299), Expect = e-144, Method: Compositional matrix adjust. Identities = 247/247 (100%), Positives = 247/247 (100%) Query: 1 VFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLA 60 VFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLA Sbjct: 25 VFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLA 84 Query: 61 MPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALV 120 MPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALV Sbjct: 85 MPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALV 144 Query: 121 MEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRF 180 MEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRF Sbjct: 145 MEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRF 204 Query: 181 LQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAF 240 LQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAF Sbjct: 205 LQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAF 264 Query: 241 FPAREPC 247 FPAREPC Sbjct: 265 FPAREPC 271 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 145 bits (366), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 128/234 (54%), Gaps = 6/234 (2%) Query: 14 VPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLAMPVTLQAYGLFVR 73 P+H H +G L+ A G + + G W+VPP +AVW+ GV HS + + Q LF+ Sbjct: 34 TPLHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIA 93 Query: 74 QDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALVMEEV--LTQPTLP 131 A +P C + +SPLL ++I LA+ R++ +R L A+++EE+ + LP Sbjct: 94 PQA-ASMPEQCCTLALSPLLVQMICHLAEQRQDYAPHERTARLAAVLVEELEHSQRHALP 152 Query: 132 FHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRFLQSTGMTFGKW 191 HLP P +AR L + P D T A+W R AM +++F R TGM+FG+W Sbjct: 153 LHLPAPQHSRLRAIAR---HLAEHPADRRTVAQWGQRHAMSERSFARFVQAETGMSFGRW 209 Query: 192 RQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAFFPARE 245 R+Q+ LM +L L G + +V+ GYDS SA+ T F K GKPP+ + R+ Sbjct: 210 RRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYMAQRQ 263 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 77/234 (32%), Positives = 119/234 (50%), Gaps = 3/234 (1%) Query: 1 VFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLA 60 V +Y G+V P H H + L+Y SGL++V G W+VPP AVW+ SG H Sbjct: 26 VVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVWIPSGREHQSR 85 Query: 61 MPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALV 120 M + F+ + R+ + V+ V PLLREL+I + + R L L+ Sbjct: 86 MLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDPHYVLHSREENLIRLL 145 Query: 121 MEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRF 180 ++E+ +P H+P P + + LC L P + A+WA +L + ++TF RRF Sbjct: 146 LDEIGRAEEIPAHVPLP---PEPRLGELCHRFLAAPSIRSGPAQWALQLHISERTFSRRF 202 Query: 181 LQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFG 234 L TGM F +WR + +M ++ L G P+T +A GY+ +A++T F K G Sbjct: 203 LAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTMFRKMTG 256 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 110 bits (274), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 118/236 (50%), Gaps = 3/236 (1%) Query: 10 AGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLAMPVTLQAYG 69 A ++ H H +G L+YA G+++V+ G WLVPP A+W+ V H + M + Sbjct: 33 ARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEILMLSKVSMRT 92 Query: 70 LFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALVMEEVLTQPT 129 L++ Q L ++ VS LLRELI+ L + R + L++ E+ P Sbjct: 93 LYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAELILSELARAPA 152 Query: 130 LPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRFLQSTGMTFG 189 +P +PWP D + +C+A+L DPG + A+WA +T R F + TG+ F Sbjct: 153 IPVAIPWP---GDRRLQAICEAILADPGRQFSLADWAGMGGASVRTVIRLFPKETGLQFR 209 Query: 190 KWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAFFPARE 245 W QQ+ L +L L +G P+ VA A GY S SA++ F K P+ + +E Sbjct: 210 HWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHYLQRQE 265 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 0.324 0.135 0.426 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: 864,156 Number of extensions: 36774 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 4 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)