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= 0012.0027.p (289 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 353 7e-99 gi|300313807|ref|YP_003777899.1| AraC family transcription regul... 132 3e-32 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 60 3e-10 gi|300313159|ref|YP_003777251.1| AraC family transcription regul... 57 2e-09 gi|300310576|ref|YP_003774668.1| transcription regulator protein... 57 2e-09 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 353 bits (907), Expect = 7e-99, Method: Compositional matrix adjust. Identities = 185/293 (63%), Positives = 220/293 (75%), Gaps = 10/293 (3%) Query: 2 IQPLPQRFIKRLRLQDGLGLTRAAQSQVTGVSSGAVPVIDIPGEDAFSVIVQLQDFRHHK 61 +Q P RF+K + LQ G+ L AAQ+Q + PVI+IPG DA+SVIVQLQDFR HK Sbjct: 1 MQDSPSRFMKLIPLQHGMALVHAAQAQPQ--ARVPAPVIEIPGADAWSVIVQLQDFREHK 58 Query: 62 LWRGQQLVHAGGHRSGEMAITDLREQWRCQHLSDYDNVRLQLPRATIEQWSEEGGRRISG 121 LWRGQ+LVHAG HR GE+A+TDLREQWRCQHLS Y+NVRL +PR +E+ EE R + Sbjct: 59 LWRGQRLVHAGAHRRGEVAVTDLREQWRCQHLSGYENVRLLVPRTAMEELGEEIARPVGE 118 Query: 122 LQQRQAVRDPVIWHLVQAMLPMLGEAANDG------DTVFMDSVTLALHTHLARHYGGQP 175 L+ Q DPV++HL QAMLP A G +T+F+DS+ LAL THL + YG Q Sbjct: 119 LRPVQGAADPVLFHLAQAMLPAARTAGAAGAASVASETLFLDSMMLALTTHLWQRYGQQS 178 Query: 176 L--ARNSGRLAGWQQVRVRDYMLAHLGQRLTLAELAAQCGLSRAHFSRAFKLSFGLPPHA 233 A +GRLAGWQ+ RVRD+ML+HL QRL+LAE+AAQ GLSRAHFSRAFK SFGL PHA Sbjct: 179 SRPASAAGRLAGWQEARVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHA 238 Query: 234 WLQRQRIALACQLLREDGKSMSVIALECGFSDQSHFSRVFKQVMGVGPMGWVR 286 WLQ+QRIALAC+LL E GKSM+ IALECGFSDQSHFSRVFKQV G+GP W+R Sbjct: 239 WLQQQRIALACRLLHEGGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAWLR 291 >gi|300313807|ref|YP_003777899.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 76/212 (35%), Positives = 115/212 (54%), Gaps = 3/212 (1%) Query: 77 GEMAITDLREQWRCQHLSDYDNVRLQLPRATIEQWSEE-GGRRISGLQQRQAVRDPVIWH 135 G + D E +R + +D + +++P + S+E RR++GL DPV+ H Sbjct: 86 GAIYTRDFSEDYRADLQAPFDFLLVEMPLSWFAAASDELRRRRVAGLATVTGQHDPVLQH 145 Query: 136 LVQAMLPMLGEAANDGDTVFMDSVTLALHTHLARHYGGQPLAR-NSGRLAGWQQVRVRDY 194 L A+ P L D +F+D + +AL THL + YGG P + L+ + R + Sbjct: 146 LAYALTPALANPDPDS-RLFIDQLGVALGTHLLQRYGGAPAPTLRTAPLSRLHEERAKMM 204 Query: 195 MLAHLGQRLTLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACQLLREDGKSM 254 +L + +++ E+A +C +S ++F RAFK S G PH WL QR+ +A Q LR ++ Sbjct: 205 LLEKVKGNVSIPEIARECNMSASYFLRAFKASTGHTPHQWLMVQRVEMAQQYLRSTQLTL 264 Query: 255 SVIALECGFSDQSHFSRVFKQVMGVGPMGWVR 286 + IAL C F DQSHFSRVF QV+G P W R Sbjct: 265 AEIALACDFYDQSHFSRVFSQVVGSTPGAWRR 296 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 59.7 bits (143), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 28/92 (30%), Positives = 45/92 (48%) Query: 198 HLGQRLTLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACQLLREDGKSMSVI 257 H+ + ++E A +S +F R FK G PH +L + RI AC L+E + I Sbjct: 265 HMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKI 324 Query: 258 ALECGFSDQSHFSRVFKQVMGVGPMGWVRGQG 289 A CG H +R+F++ GV P + + + Sbjct: 325 ARRCGLVSGEHLARLFRKHHGVSPGEYRKKEN 356 >gi|300313159|ref|YP_003777251.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 280 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 33/97 (34%), Positives = 51/97 (52%), Gaps = 1/97 (1%) Query: 190 RVRDYMLAHLGQRLTLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACQLLRE 249 R ++ H + ++L ELA G+ R R F+ +G+ PHA +I A LL++ Sbjct: 184 RAYAHLQQHCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQ 243 Query: 250 DGKSMSVIALECGFSDQSHFSRVFKQVMGVGPMGWVR 286 G S + A + GF+DQSHF R FK + P+ + R Sbjct: 244 -GASAADAAYDTGFADQSHFHRAFKSRVAATPLQYTR 279 >gi|300310576|ref|YP_003774668.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 26/84 (30%), Positives = 44/84 (52%) Query: 204 TLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACQLLREDGKSMSVIALECGF 263 T+A++A +S + F+ P AWL R+A ACQLLR ++ +A CG+ Sbjct: 169 TVAQMAEAAAISPSRLHEWFRAELDSSPRAWLAEVRMAQACQLLRTSALPLAQVAQRCGY 228 Query: 264 SDQSHFSRVFKQVMGVGPMGWVRG 287 +DQS + +++ GV P + + Sbjct: 229 ADQSALTHAMRRLRGVTPASYRKN 252 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 0.137 0.428 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: 1,004,698 Number of extensions: 43454 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 218 Number of HSP's successfully gapped: 6 Length of query: 289 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 205 Effective length of database: 1,222,130 Effective search space: 250536650 Effective search space used: 250536650 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: 130 (54.7 bits)