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= 0138.0003.p (241 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 123 1e-29 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 123 2e-29 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 114 9e-27 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 105 2e-24 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 67 2e-12 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 123 bits (308), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 77/213 (36%), Positives = 114/213 (53%) Query: 1 VAWLRRHCTVRHKLVCICTGTLLAGYAGLLGQRKCTTHHSHIKELRGIAPAAEVLENRIF 60 V WL R ++ ICTG + G AGLL R TTH + + L+ P A+V + I+ Sbjct: 107 VEWLNRRGRQARRIGSICTGAFVLGAAGLLDGRYVTTHWAAVDLLQQYFPKAKVDPDAIY 166 Query: 61 VEDGDLCTSAGVTTGIDLALHLVAQIAGHACSASVARSLVVYMRRTGADPQLSPWLVARN 120 DG +CTSAGVTTGIDLAL LV G ++++AR LV+++ R G Q+S LVA+ Sbjct: 167 RIDGPICTSAGVTTGIDLALALVRDDLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQ 226 Query: 121 HLHPAVHRVQNAVIKDPAGDWSVARLAEIACTSERHLTRLFREHTGDSLVDYIHRIRIAL 180 + ++ P D SV LAE A S R+ R F G Y+ +RI Sbjct: 227 SAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDH 286 Query: 181 ARDLLVQSPFDMEHVAEKAGFHSSRQLRRVWKK 213 A L ++ + +E +AE++G ++ L RV+++ Sbjct: 287 ACRHLEKTGWSIERIAERSGLKNADTLHRVFRQ 319 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 123 bits (308), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 77/213 (36%), Positives = 115/213 (53%), Gaps = 7/213 (3%) Query: 2 AWLRRHCTVRHKLVCICTGTLLAGYAGLLGQRKCTTHHSHIKELRGIAPAAEVLENRIFV 61 A+L+R ++ ICTG + AGLL +R+ TTH + + ++ P +V ++RI++ Sbjct: 88 AFLQRAAKKARRIAGICTGGFVLAEAGLLARRRATTHWAFARAMQERFPDIQVEDDRIYI 147 Query: 62 EDGDLCTSAGVTTGIDLALHLVAQIAGHACSASVARSLVVYMRRTGADPQLSPWLVARNH 121 DG L TSAG+T G+DLAL +V + G + SVAR LV++ R G Q S L Sbjct: 148 VDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARKLVMHQHRAGGQSQHSEML----E 203 Query: 122 LHPAVHRVQNAVI---KDPAGDWSVARLAEIACTSERHLTRLFREHTGDSLVDYIHRIRI 178 L P R+Q+A+ ++ +V LAE A S R TR+F TG S I +R+ Sbjct: 204 LAPKTDRIQDALNYARRNLKRALTVEELAEQANLSARQFTRVFTSETGQSPAKAIEGLRL 263 Query: 179 ALARDLLVQSPFDMEHVAEKAGFHSSRQLRRVW 211 AR ++ QS +E VA + GF R +R V+ Sbjct: 264 EAARLMIEQSRHPLEVVARETGFRDRRHMREVF 296 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 114 bits (284), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 71/213 (33%), Positives = 110/213 (51%) Query: 1 VAWLRRHCTVRHKLVCICTGTLLAGYAGLLGQRKCTTHHSHIKELRGIAPAAEVLENRIF 60 VAW+R+H ++ +CTG AG+L + TTH +EL+ PA +V + I+ Sbjct: 101 VAWIRQHAQAAVRICSVCTGAFHLAEAGVLDGLRVTTHWDWAQELQRRYPALQVDADPIY 160 Query: 61 VEDGDLCTSAGVTTGIDLALHLVAQIAGHACSASVARSLVVYMRRTGADPQLSPWLVARN 120 + G + TSAGVT GIDLAL LV Q GHA + + AR LV++++R G Q S L ++ Sbjct: 161 IRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATARQLVMFIKRPGGQSQFSTPLATQS 220 Query: 121 HLHPAVHRVQNAVIKDPAGDWSVARLAEIACTSERHLTRLFREHTGDSLVDYIHRIRIAL 180 + + A D V LA A S R RL+ TG + + +R+ Sbjct: 221 TGAGRFAELHAWIAAHLADDLHVENLAHRAGMSPRTFARLYVAETGRTPARTVELMRLEA 280 Query: 181 ARDLLVQSPFDMEHVAEKAGFHSSRQLRRVWKK 213 AR L ++ ++ +A +AG+ + LRRV+ + Sbjct: 281 ARRALEETRLPLKRIASQAGYGEEQNLRRVFLR 313 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 105 bits (263), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 73/207 (35%), Positives = 99/207 (47%), Gaps = 29/207 (14%) Query: 17 ICTGTLLAGYAGLLGQRKCTTHHSHIKELRGIAPAAEVLENRIFVEDGDLCTSAGVTTGI 76 ICTG + GLL ++ TTH +L+ + PA +V +RI+ DG + TSAG++ GI Sbjct: 105 ICTGAFVLAATGLLDGKRATTHWRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGI 164 Query: 77 DLALHLVAQIAGHACSASVARSLVVYMRRTGADPQLSPWL--------------VARNHL 122 DLAL L+ G + SVAR LVVY RR G Q S AR HL Sbjct: 165 DLALALIEDDHGVELARSVARELVVYHRRPGGQSQFSALQEMDGGSERIRRALGFAREHL 224 Query: 123 HPAVHRVQNAVIKDPAGDWSVARLAEIACTSERHLTRLFREHTGDSLVDYIHRIRIALAR 182 H A+ +V LAE+AC S R R F TG + I ++R AR Sbjct: 225 HQAL---------------TVDLLAEVACLSRRQFDRAFAAETGQTPARAIEQMRAEAAR 269 Query: 183 DLLVQSPFDMEHVAEKAGFHSSRQLRR 209 + QS +E +A GF + ++RR Sbjct: 270 LRIEQSQDTLESIARATGFGDADRMRR 296 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 66.6 bits (161), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/209 (25%), Positives = 97/209 (46%), Gaps = 13/209 (6%) Query: 13 KLVCICTGTLLAGYAGLLGQRKCTTHHSHIKELRGIAPAAEVLENRIFVEDGDLCTSAGV 72 ++ +CTG L+ AGLL ++K H + L+ P V V+D ++ TSA Sbjct: 139 RIAALCTGVLVLAEAGLLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADS 198 Query: 73 TTGIDLALHLVAQIAGHACSASVARSLVVYMRRTGADPQLSPWLVARNHLHPA-----VH 127 TG ++AL L+ G + + + +SL V Q L + + P Sbjct: 199 GTGAEVALALIEDDLGSSFAHRIEQSLTVRQHH-----QFKHSLSRGSEIRPGEKRHRSE 253 Query: 128 RVQNAVI---KDPAGDWSVARLAEIACTSERHLTRLFREHTGDSLVDYIHRIRIALARDL 184 R+Q A+I + + +++ A+ SER+ R F+ TG++ ++ +IRI A Sbjct: 254 RIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLY 313 Query: 185 LVQSPFDMEHVAEKAGFHSSRQLRRVWKK 213 L ++ +E +A + G S L R+++K Sbjct: 314 LKETDLPIEKIARRCGLVSGEHLARLFRK 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 0.325 0.135 0.429 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: 731,069 Number of extensions: 26748 Number of successful extensions: 121 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 7 Length of query: 241 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 158 Effective length of database: 1,226,865 Effective search space: 193844670 Effective search space used: 193844670 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 (21.7 bits) S2: 129 (54.3 bits)