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= 0033.0055.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 582 e-167 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 262 2e-71 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 208 6e-55 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 155 3e-39 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 150 1e-37 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 582 bits (1499), Expect = e-167, Method: Compositional matrix adjust. Identities = 288/313 (92%), Positives = 301/313 (96%) Query: 1 MHHIGYLLTEGFQVMGLATQSVFEYANKVVGHDFYRMHNYSVAGGEITSSLGMRVSTTRA 60 MHH+GYLLTEGFQVMGLATQ+VFEYANKV GH+FYR+HNYSV GGE+ SSLGMRV+T +A Sbjct: 1 MHHVGYLLTEGFQVMGLATQAVFEYANKVAGHEFYRLHNYSVGGGELASSLGMRVTTAKA 60 Query: 61 AATATIDTWVVCGVGNPLESPASQEERAFLQRAAKKARRIAGICTGGFVLAESGLLARRR 120 AATA+IDTWVVCGVGNPLESPAS EE AFLQRAAKKARRIAGICTGGFVLAE+GLLARRR Sbjct: 61 AATASIDTWVVCGVGNPLESPASAEECAFLQRAAKKARRIAGICTGGFVLAEAGLLARRR 120 Query: 121 ATTHWAFAAAMRARFPDIQIEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEVARS 180 ATTHWAFA AM+ RFPDIQ+EDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEE ARS Sbjct: 121 ATTHWAFARAMQERFPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARS 180 Query: 181 VAHKLVMHQHRAGGQSQHSEMLALAPKTDRIQDALNYARRHLKRALTVEELAEQANLSAR 240 VA KLVMHQHRAGGQSQHSEML LAPKTDRIQDALNYARR+LKRALTVEELAEQANLSAR Sbjct: 181 VARKLVMHQHRAGGQSQHSEMLELAPKTDRIQDALNYARRNLKRALTVEELAEQANLSAR 240 Query: 241 QFTRVFTAETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGF 300 QFTRVFT+ETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGF Sbjct: 241 QFTRVFTSETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGF 300 Query: 301 GVAPQSMRREVRA 313 GVAPQSMRRE RA Sbjct: 301 GVAPQSMRREGRA 313 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 262 bits (670), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 154/293 (52%), Positives = 196/293 (66%), Gaps = 1/293 (0%) Query: 21 SVFEYANKVVGHDFYRMHNYSVAGGEITSSLGMRVSTTRAAATATIDTWVVCGVGNPLES 80 S F+ AN++ G YR+ YS GG I SS G + T R T + DT +V G G P E Sbjct: 24 SAFDAANRLAGKTLYRLTLYSEPGGMIRSSAGALIHTERIGRT-SFDTLIVAGGGAPREG 82 Query: 81 PASQEERAFLQRAAKKARRIAGICTGGFVLAESGLLARRRATTHWAFAAAMRARFPDIQI 140 S R + RAA ++RRIAGICTG FVLA +GLL +RATTHW AA ++ P +++ Sbjct: 83 LVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLLDGKRATTHWRMAAKLQQMHPAVKV 142 Query: 141 EDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEVARSVAHKLVMHQHRAGGQSQHSE 200 + DRIY DG +WTSAG++AG+DLALA++ D G E+ARSVA +LV++ R GGQSQ S Sbjct: 143 DSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVELARSVARELVVYHRRPGGQSQFSA 202 Query: 201 MLALAPKTDRIQDALNYARRHLKRALTVEELAEQANLSARQFTRVFTAETGQSPAKAIEG 260 + + ++RI+ AL +AR HL +ALTV+ LAE A LS RQF R F AETGQ+PA+AIE Sbjct: 203 LQEMDGGSERIRRALGFAREHLHQALTVDLLAEVACLSRRQFDRAFAAETGQTPARAIEQ 262 Query: 261 LRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMRREVRA 313 +R EAARL IEQS+ LE +AR TGF D MR LR FG PQ+MRR RA Sbjct: 263 MRAEAARLRIEQSQDTLESIARATGFGDADRMRRACLRLFGQPPQAMRRLARA 315 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 208 bits (529), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 122/312 (39%), Positives = 182/312 (58%), Gaps = 9/312 (2%) Query: 6 YLLTEGFQVMGLA-TQSVFEYANKVVGHDFYRMHNYSVAGGEITSSLGMRVSTTRAA--- 61 +L G ++ L+ V N++ G + YR+H S GG I +S G+ V T Sbjct: 12 FLAYAGMNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMD 71 Query: 62 ----ATATIDTWVVCGVGNPLESPASQEERAFLQRAAKKARRIAGICTGGFVLAESGLLA 117 AT + T + G + + P A++++ A+ A RI +CTG F LAE+G+L Sbjct: 72 RLLQATPDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLAEAGVLD 131 Query: 118 RRRATTHWAFAAAMRARFPDIQIEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEV 177 R TTHW +A ++ R+P +Q++ D IYI G +WTSAG+TAG+DLALA+V +DLG Sbjct: 132 GLRVTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHAS 191 Query: 178 ARSVAHKLVMHQHRAGGQSQHSEMLAL-APKTDRIQDALNYARRHLKRALTVEELAEQAN 236 A + A +LVM R GGQSQ S LA + R + + HL L VE LA +A Sbjct: 192 AIATARQLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVENLAHRAG 251 Query: 237 LSARQFTRVFTAETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVF 296 +S R F R++ AETG++PA+ +E +RLEAAR +E++R PL+ +A + G+ + +++R VF Sbjct: 252 MSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVF 311 Query: 297 LRGFGVAPQSMR 308 LR GV+P R Sbjct: 312 LRQLGVSPGQYR 323 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 155 bits (393), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 85/221 (38%), Positives = 128/221 (57%), Gaps = 1/221 (0%) Query: 89 FLQRAAKKARRIAGICTGGFVLAESGLLARRRATTHWAFAAAMRARFPDIQIEDDRIYIV 148 +L R ++ARRI ICTG FVL +GLL R TTHWA ++ FP +++ D IY + Sbjct: 109 WLNRRGRQARRIGSICTGAFVLGAAGLLDGRYVTTHWAAVDLLQQYFPKAKVDPDAIYRI 168 Query: 149 DGPLWTSAGMTAGLDLALAMVGKDLGEEVARSVAHKLVMHQHRAGGQSQHS-EMLALAPK 207 DGP+ TSAG+T G+DLALA+V DLG+E+A ++A LV+ HR G Q Q S ++A Sbjct: 169 DGPICTSAGVTTGIDLALALVRDDLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSA 228 Query: 208 TDRIQDALNYARRHLKRALTVEELAEQANLSARQFTRVFTAETGQSPAKAIEGLRLEAAR 267 D L + H + ++V LAE+A +S R F R F E G+ P + + LR++ A Sbjct: 229 GDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHAC 288 Query: 268 LMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMR 308 +E++ +E +A +G ++ + VF + G+ P R Sbjct: 289 RHLEKTGWSIERIAERSGLKNADTLHRVFRQHLGMTPAQYR 329 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 150 bits (379), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 103/325 (31%), Positives = 167/325 (51%), Gaps = 16/325 (4%) Query: 3 HIGYLLTEGFQVMGLA-TQSVFEYANKVVGHDFYRMHNY-----SVAGGEITSSLGMRVS 56 HIG +++EG + LA VF +K++ F + + Y SV GG IT+S +++ Sbjct: 35 HIGVIVSEGVILADLAEIAEVFFVTDKMLSSMFSQGNGYHFSLLSVRGGMITTSSSVQIG 94 Query: 57 TT--RAAATATIDTWVVC-GVGNPLESPASQEERAFLQRAAKKARRIAGICTGGFVLAES 113 T + D+ ++ G GN + Q +L AA A RIA +CTG VLAE+ Sbjct: 95 TLSLQHHDIRAFDSIIIADGRGNFADCNDPQLLN-WLATAALHAPRIAALCTGVLVLAEA 153 Query: 114 GLLARRRATTHWAFAAAMRARFPDIQIEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDL 173 GLL R++ HWA ++ FPDI +E + D ++TSA G ++ALA++ DL Sbjct: 154 GLLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADSGTGAEVALALIEDDL 213 Query: 174 GEEVARSVAHKLVMHQHRAGGQSQHSEMLALAP-----KTDRIQDALNYARRHLKRALTV 228 G A + L + QH S S + P +++RIQ AL + H+ ++ + Sbjct: 214 GSSFAHRIEQSLTVRQHHQFKHSL-SRGSEIRPGEKRHRSERIQKALIWLDEHMSSSINM 272 Query: 229 EELAEQANLSARQFTRVFTAETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRD 288 E A+ ++S R F R F ETG++P + +R+EAA L ++++ P+E +AR G Sbjct: 273 SEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRCGLVS 332 Query: 289 RRHMREVFLRGFGVAPQSMRREVRA 313 H+ +F + GV+P R++ A Sbjct: 333 GEHLARLFRKHHGVSPGEYRKKENA 357 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 0.322 0.133 0.383 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: 919,881 Number of extensions: 35819 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 6 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)