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= 0009.0205.p (254 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... 167 6e-43 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 158 5e-40 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 156 1e-39 gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 144 5e-36 gi|300311760|ref|YP_003775852.1| transcription regulator protein... 56 3e-09 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 167 bits (424), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 93/242 (38%), Positives = 132/242 (54%), Gaps = 3/242 (1%) Query: 15 PAAALAIDYPHGHVIELHRHAYAQLLYAIEGVLVVETAEGRWVVPPTRGVWLQPEVDHQV 74 P ++ YP G V+ +H+H L+YA G+L V+ G+W+VPPT VWL+ V H + Sbjct: 24 PVFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSL 83 Query: 75 RMRGDVKMRTVFVNMQELPNMPQENCVLDIPPLLRELIVAAVGIGPALVADGRDWHLLRL 134 M ++ +FV +P +CV+ + PLLRELI+ ++ R L L Sbjct: 84 AMPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGAL 143 Query: 135 LVHELRSVPVLPLYLPLP---ADRGLRVICEALMAQPDDDATVDMHAQQLGIATRTFHRL 191 ++ E+ + P LP +LP P D + +C+AL+ P D AT A +L + +TFHR Sbjct: 144 VMEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRR 203 Query: 192 FLRETGMRFSHWRQQARLLLALENLARGDKIIDVALDHGYTSQSAFAAMFKKHFGIAPSR 251 FL+ TGM F WRQQ RL+ +L L +G I VAL GY S SA+ F K FG PS Sbjct: 204 FLQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSA 263 Query: 252 FF 253 FF Sbjct: 264 FF 265 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 158 bits (399), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 88/232 (37%), Positives = 125/232 (53%) Query: 15 PAAALAIDYPHGHVIELHRHAYAQLLYAIEGVLVVETAEGRWVVPPTRGVWLQPEVDHQV 74 P A Y HG V H H AQLLY + G++ V TA+G WVVPP VW+ +HQ Sbjct: 25 PVVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVWIPSGREHQS 84 Query: 75 RMRGDVKMRTVFVNMQELPNMPQENCVLDIPPLLRELIVAAVGIGPALVADGRDWHLLRL 134 RM V + F+ + P + VL + PLLREL++ A + P V R+ +L+RL Sbjct: 85 RMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDPHYVLHSREENLIRL 144 Query: 135 LVHELRSVPVLPLYLPLPADRGLRVICEALMAQPDDDATVDMHAQQLGIATRTFHRLFLR 194 L+ E+ +P ++PLP + L +C +A P + A QL I+ RTF R FL Sbjct: 145 LLDEIGRAEEIPAHVPLPPEPRLGELCHRFLAAPSIRSGPAQWALQLHISERTFSRRFLA 204 Query: 195 ETGMRFSHWRQQARLLLALENLARGDKIIDVALDHGYTSQSAFAAMFKKHFG 246 +TGM F WR +A ++ A+ LA G + +A D GY +AF+ MF+K G Sbjct: 205 QTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTMFRKMTG 256 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 156 bits (395), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 92/253 (36%), Positives = 144/253 (56%), Gaps = 3/253 (1%) Query: 2 DTSNYHHMINANAPAAALAIDYPHGHVIELHRHAYAQLLYAIEGVLVVETAEGRWVVPPT 61 + + H+ ++ A A + ++ H H QLLYA+EGV+ V T +G W+VPP Sbjct: 13 EVDTFQHLPSS---VVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPH 69 Query: 62 RGVWLQPEVDHQVRMRGDVKMRTVFVNMQELPNMPQENCVLDIPPLLRELIVAAVGIGPA 121 R +W+ P+V+H++ M V MRT+++N + + ++ +L++ LLRELI+A + Sbjct: 70 RALWVPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRD 129 Query: 122 LVADGRDWHLLRLLVHELRSVPVLPLYLPLPADRGLRVICEALMAQPDDDATVDMHAQQL 181 R H+ L++ EL P +P+ +P P DR L+ ICEA++A P ++ A Sbjct: 130 YAPQSRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLADWAGMG 189 Query: 182 GIATRTFHRLFLRETGMRFSHWRQQARLLLALENLARGDKIIDVALDHGYTSQSAFAAMF 241 G + RT RLF +ETG++F HW QQ L AL L+RGD + VA GY SQSAF+ MF Sbjct: 190 GASVRTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMF 249 Query: 242 KKHFGIAPSRFFR 254 +K P+ + + Sbjct: 250 RKALRTTPNHYLQ 262 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 144 bits (364), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 116/225 (51%), Gaps = 3/225 (1%) Query: 31 LHRHAYAQLLYAIEGVLVVETAEGRWVVPPTRGVWLQPEVDHQVRMRGDVKMRTVFVNMQ 90 LH H QL+ A+ G + ETA+G W+VPP VW+ P V H R+ D ++ +F+ Q Sbjct: 36 LHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIAPQ 95 Query: 91 ELPNMPQENCVLDIPPLLRELIVAAVGIGPALVADGRDWHLLRLLVHELRSVP--VLPLY 148 +MP++ C L + PLL ++I R L +LV EL LPL+ Sbjct: 96 AA-SMPEQCCTLALSPLLVQMICHLAEQRQDYAPHERTARLAAVLVEELEHSQRHALPLH 154 Query: 149 LPLPADRGLRVICEALMAQPDDDATVDMHAQQLGIATRTFHRLFLRETGMRFSHWRQQAR 208 LP P LR I L P D TV Q+ ++ R+F R ETGM F WR+Q Sbjct: 155 LPAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAMSERSFARFVQAETGMSFGRWRRQIH 214 Query: 209 LLLALENLARGDKIIDVALDHGYTSQSAFAAMFKKHFGIAPSRFF 253 L+LAL+ LA G + V+ D GY S SAF MF+K G P+R+ Sbjct: 215 LMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYM 259 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 55.8 bits (133), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 59/125 (47%), Gaps = 6/125 (4%) Query: 134 LLVHELRS-----VPVLPLYLPLPADRGLRVICEALMAQPDDDATVDMHAQQLGIATRTF 188 LL+ LRS V P L AD L AL AQP D V A+ ++ +F Sbjct: 177 LLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDWNVPRLARVAALSRSSF 236 Query: 189 HRLFLRETGMRFSHWRQQARLLLALENLARGD-KIIDVALDHGYTSQSAFAAMFKKHFGI 247 F RE G+ + R+ LA L R D I +VAL GY+S S F+ F +H G+ Sbjct: 237 FERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGYSSASTFSVAFSRHVGL 296 Query: 248 APSRF 252 PS+F Sbjct: 297 PPSQF 301 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 0.326 0.140 0.435 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: 724,003 Number of extensions: 26349 Number of successful extensions: 124 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 123 Number of HSP's successfully gapped: 5 Length of query: 254 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 171 Effective length of database: 1,226,865 Effective search space: 209793915 Effective search space used: 209793915 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 129 (54.3 bits)