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= 0001.2840.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... 515 e-147 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 240 1e-64 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 204 9e-54 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 160 1e-40 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 143 2e-35 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 515 bits (1326), Expect = e-147, Method: Compositional matrix adjust. Identities = 246/313 (78%), Positives = 277/313 (88%) Query: 1 MHHIGYLLTDGFQIMGLATQSVFEYANKVAGEDFYALHNFSVAGGSVLSSLGMSITTTPA 60 MHH+GYLLT+GFQ+MGLATQ+VFEYANKVAG +FY LHN+SV GG + SSLGM +TT A Sbjct: 1 MHHVGYLLTEGFQVMGLATQAVFEYANKVAGHEFYRLHNYSVGGGELASSLGMRVTTAKA 60 Query: 61 SQADHMDSWMICGVADPLASPASPDERSFLQRTGKSARRIAAICTGGFVLAEAGLLAKRR 120 + +D+W++CGV +PL SPAS +E +FLQR K ARRIA ICTGGFVLAEAGLLA+RR Sbjct: 61 AATASIDTWVVCGVGNPLESPASAEECAFLQRAAKKARRIAGICTGGFVLAEAGLLARRR 120 Query: 121 ATTHWFFAREMQARFPEIQVEHDRIYIVDGPIWTSAGMTAGLDMALAMVAKDLGEEVARG 180 ATTHW FAR MQ RFP+IQVE DRIYIVDGP+WTSAGMTAGLD+ALAMV KDLGEE AR Sbjct: 121 ATTHWAFARAMQERFPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARS 180 Query: 181 VAHKLVMHQHRTGGQTQHSEMLALAPKTDRIQNALNYARKNLMRPLTVEELAEEANLSPR 240 VA KLVMHQHR GGQ+QHSEML LAPKTDRIQ+ALNYAR+NL R LTVEELAE+ANLS R Sbjct: 181 VARKLVMHQHRAGGQSQHSEMLELAPKTDRIQDALNYARRNLKRALTVEELAEQANLSAR 240 Query: 241 QFSRVFSAETGLSPSKAIEGLRLEAARLMIEQSRHSLEVIARETGFRDRRHMREVFIRGY 300 QF+RVF++ETG SP+KAIEGLRLEAARLMIEQSRH LEV+ARETGFRDRRHMREVF+RG+ Sbjct: 241 QFTRVFTSETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGF 300 Query: 301 GVAPQMMRREGRA 313 GVAPQ MRREGRA Sbjct: 301 GVAPQSMRREGRA 313 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 240 bits (612), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 139/293 (47%), Positives = 188/293 (64%), Gaps = 1/293 (0%) Query: 21 SVFEYANKVAGEDFYALHNFSVAGGSVLSSLGMSITTTPASQADHMDSWMICGVADPLAS 80 S F+ AN++AG+ Y L +S GG + SS G I T + D+ ++ G P Sbjct: 24 SAFDAANRLAGKTLYRLTLYSEPGGMIRSSAGALIHTERIGRTS-FDTLIVAGGGAPREG 82 Query: 81 PASPDERSFLQRTGKSARRIAAICTGGFVLAEAGLLAKRRATTHWFFAREMQARFPEIQV 140 SP R + R +RRIA ICTG FVLA GLL +RATTHW A ++Q P ++V Sbjct: 83 LVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLLDGKRATTHWRMAAKLQQMHPAVKV 142 Query: 141 EHDRIYIVDGPIWTSAGMTAGLDMALAMVAKDLGEEVARGVAHKLVMHQHRTGGQTQHSE 200 + DRIY DG +WTSAG++AG+D+ALA++ D G E+AR VA +LV++ R GGQ+Q S Sbjct: 143 DSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVELARSVARELVVYHRRPGGQSQFSA 202 Query: 201 MLALAPKTDRIQNALNYARKNLMRPLTVEELAEEANLSPRQFSRVFSAETGLSPSKAIEG 260 + + ++RI+ AL +AR++L + LTV+ LAE A LS RQF R F+AETG +P++AIE Sbjct: 203 LQEMDGGSERIRRALGFAREHLHQALTVDLLAEVACLSRRQFDRAFAAETGQTPARAIEQ 262 Query: 261 LRLEAARLMIEQSRHSLEVIARETGFRDRRHMREVFIRGYGVAPQMMRREGRA 313 +R EAARL IEQS+ +LE IAR TGF D MR +R +G PQ MRR RA Sbjct: 263 MRAEAARLRIEQSQDTLESIARATGFGDADRMRRACLRLFGQPPQAMRRLARA 315 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 204 bits (518), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 121/316 (38%), Positives = 181/316 (57%), Gaps = 17/316 (5%) Query: 6 YLLTDGFQIMGLA-TQSVFEYANKVAGEDFYALHNFSVAGGSVLSSLGMSITTTPASQAD 64 +L G ++ L+ V N++ G + Y LH S GG++L+S G+ + T + D Sbjct: 12 FLAYAGMNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMD 71 Query: 65 HMDSWMICGVAD--PLASPASPDERSF---------LQRTGKSARRIAAICTGGFVLAEA 113 + + D L SP F +++ ++A RI ++CTG F LAEA Sbjct: 72 RL----LQATPDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLAEA 127 Query: 114 GLLAKRRATTHWFFAREMQARFPEIQVEHDRIYIVDGPIWTSAGMTAGLDMALAMVAKDL 173 G+L R TTHW +A+E+Q R+P +QV+ D IYI G IWTSAG+TAG+D+ALA+V +DL Sbjct: 128 GVLDGLRVTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDL 187 Query: 174 GEEVARGVAHKLVMHQHRTGGQTQHSEMLAL-APKTDRIQNALNYARKNLMRPLTVEELA 232 G A A +LVM R GGQ+Q S LA + R + +L L VE LA Sbjct: 188 GHASAIATARQLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVENLA 247 Query: 233 EEANLSPRQFSRVFSAETGLSPSKAIEGLRLEAARLMIEQSRHSLEVIARETGFRDRRHM 292 A +SPR F+R++ AETG +P++ +E +RLEAAR +E++R L+ IA + G+ + +++ Sbjct: 248 HRAGMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNL 307 Query: 293 REVFIRGYGVAPQMMR 308 R VF+R GV+P R Sbjct: 308 RRVFLRQLGVSPGQYR 323 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 160 bits (405), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 90/221 (40%), Positives = 128/221 (57%), Gaps = 1/221 (0%) Query: 89 FLQRTGKSARRIAAICTGGFVLAEAGLLAKRRATTHWFFAREMQARFPEIQVEHDRIYIV 148 +L R G+ ARRI +ICTG FVL AGLL R TTHW +Q FP+ +V+ D IY + Sbjct: 109 WLNRRGRQARRIGSICTGAFVLGAAGLLDGRYVTTHWAAVDLLQQYFPKAKVDPDAIYRI 168 Query: 149 DGPIWTSAGMTAGLDMALAMVAKDLGEEVARGVAHKLVMHQHRTGGQTQHS-EMLALAPK 207 DGPI TSAG+T G+D+ALA+V DLG+E+A +A LV+ HR G Q Q S ++A Sbjct: 169 DGPICTSAGVTTGIDLALALVRDDLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSA 228 Query: 208 TDRIQNALNYARKNLMRPLTVEELAEEANLSPRQFSRVFSAETGLSPSKAIEGLRLEAAR 267 D L + + ++V LAE A +SPR F+R F E G P + + LR++ A Sbjct: 229 GDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHAC 288 Query: 268 LMIEQSRHSLEVIARETGFRDRRHMREVFIRGYGVAPQMMR 308 +E++ S+E IA +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 = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 101/326 (30%), Positives = 159/326 (48%), Gaps = 18/326 (5%) Query: 3 HIGYLLTDGFQIMGLA-TQSVFEYANKVAGEDF-----YALHNFSVAGGSVLSSLGMSIT 56 HIG ++++G + LA VF +K+ F Y SV GG + +S + I Sbjct: 35 HIGVIVSEGVILADLAEIAEVFFVTDKMLSSMFSQGNGYHFSLLSVRGGMITTSSSVQIG 94 Query: 57 TTPASQAD--HMDSWMICGVADPLASPASPDERSFLQRTGKSARRIAAICTGGFVLAEAG 114 T D DS +I A P ++L A RIAA+CTG VLAEAG Sbjct: 95 TLSLQHHDIRAFDSIIIADGRGNFADCNDPQLLNWLATAALHAPRIAALCTGVLVLAEAG 154 Query: 115 LLAKRRATTHWFFAREMQARFPEIQVEHDRIYIVDGPIWTSAGMTAGLDMALAMVAKDLG 174 LL +++ HW +Q FP+I VE + D ++TSA G ++ALA++ DLG Sbjct: 155 LLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADSGTGAEVALALIEDDLG 214 Query: 175 EEVARGVAHKLVMHQHRTGGQTQH--SEMLALAP-----KTDRIQNALNYARKNLMRPLT 227 A + L + QH Q +H S + P +++RIQ AL + +++ + Sbjct: 215 SSFAHRIEQSLTVRQHH---QFKHSLSRGSEIRPGEKRHRSERIQKALIWLDEHMSSSIN 271 Query: 228 VEELAEEANLSPRQFSRVFSAETGLSPSKAIEGLRLEAARLMIEQSRHSLEVIARETGFR 287 + E A+ ++S R F R F ETG +P + +R+EAA L ++++ +E IAR G Sbjct: 272 MSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRCGLV 331 Query: 288 DRRHMREVFIRGYGVAPQMMRREGRA 313 H+ +F + +GV+P R++ A Sbjct: 332 SGEHLARLFRKHHGVSPGEYRKKENA 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 0.321 0.133 0.386 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: 953,829 Number of extensions: 37031 Number of successful extensions: 158 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 157 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 (21.9 bits) S2: 130 (54.7 bits)