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= 0030.0056.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 647 0.0 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 216 3e-57 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 211 5e-56 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 208 4e-55 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 148 7e-37 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 647 bits (1669), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/326 (99%), Positives = 323/326 (99%) Query: 1 MNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQAT 60 MNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQAT Sbjct: 18 MNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQAT 77 Query: 61 PDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAARICSVCTGAFHLAEAGVLDGLRVTT 120 PDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAA RICSVCTGAFHLAEAGVLDGLRVTT Sbjct: 78 PDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLAEAGVLDGLRVTT 137 Query: 121 HWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATAR 180 HWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATAR Sbjct: 138 HWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATAR 197 Query: 181 QLVMFIKRPGGQSQFSTPLATQSAGAGRFAELHAWIAAHLADDLRVENLAHRAGMSPRTF 240 QLVMFIKRPGGQSQFSTPLATQS GAGRFAELHAWIAAHLADDL VENLAHRAGMSPRTF Sbjct: 198 QLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVENLAHRAGMSPRTF 257 Query: 241 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGV 300 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGV Sbjct: 258 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGV 317 Query: 301 SPGQYRERFAATPAALSMAQAEPAAG 326 SPGQYRERFAATPAALSMAQAEPAAG Sbjct: 318 SPGQYRERFAATPAALSMAQAEPAAG 343 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 216 bits (549), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 130/305 (42%), Positives = 179/305 (58%), Gaps = 9/305 (2%) Query: 2 NLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQATP 61 ++LD +GP+ NRL G+ +YRL + S GG I +SAG + T+ + Sbjct: 15 SMLDFTGPLSAFDAANRLAGKTLYRLTLYSEPGGMIRSSAGALIHTERI--------GRT 66 Query: 62 DLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAARICSVCTGAFHLAEAGVLDGLRVTTH 121 TLI GG + + + AL + + A + RI +CTGAF LA G+LDG R TTH Sbjct: 67 SFDTLIVAGGGAPREGLVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLLDGKRATTH 126 Query: 122 WDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATARQ 181 W A +LQ+ +PA++VD+D IY R G +WTSAG++AGIDLALAL+E D G A + AR+ Sbjct: 127 WRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVELARSVARE 186 Query: 182 LVMFIKRPGGQSQFSTPLATQSAGAGRFAELHAWIAAHLADDLRVENLAHRAGMSPRTFA 241 LV++ +RPGGQSQFS L G+ R + HL L V+ LA A +S R F Sbjct: 187 LVVYHRRPGGQSQFSA-LQEMDGGSERIRRALGFAREHLHQALTVDLLAEVACLSRRQFD 245 Query: 242 RLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGVS 301 R + AETG+TPAR +E MR EAAR +E+++ L+ IA G+G+ +RR LR G Sbjct: 246 RAFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRMRRACLRLFGQP 305 Query: 302 PGQYR 306 P R Sbjct: 306 PQAMR 310 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 211 bits (538), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 132/309 (42%), Positives = 170/309 (55%), Gaps = 8/309 (2%) Query: 4 LDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQATPDL 63 LDL GP+ V + L Y L V S G + T + L SL + L L Sbjct: 31 LDLMGPIGVFSRAEELAPGS-YALRVASVDGALLRTRSPL-----SLAGIVPLSSIEGRL 84 Query: 64 HTLISPGGSSG--DQFPLDAALVAWIRQHAQAAARICSVCTGAFHLAEAGVLDGLRVTTH 121 T++ GG Q + ALV W+ + + A RI S+CTGAF L AG+LDG VTTH Sbjct: 85 DTVLVAGGHEQAIHQAATEVALVEWLNRRGRQARRIGSICTGAFVLGAAGLLDGRYVTTH 144 Query: 122 WDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATARQ 181 W LQ+ +P +VD D IY G I TSAGVT GIDLALALV DLG A A AR Sbjct: 145 WAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRDDLGQEIASAIARD 204 Query: 182 LVMFIKRPGGQSQFSTPLATQSAGAGRFAELHAWIAAHLADDLRVENLAHRAGMSPRTFA 241 LV+F+ RPG Q Q S L Q + F+ L W+ H +D+ V LA RA MSPR FA Sbjct: 205 LVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFA 264 Query: 242 RLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGVS 301 R ++ E G+ P + V +R++ A R LE+T ++RIA ++G L RVF + LG++ Sbjct: 265 RRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNADTLHRVFRQHLGMT 324 Query: 302 PGQYRERFA 310 P QYR R A Sbjct: 325 PAQYRARLA 333 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 208 bits (530), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 122/295 (41%), Positives = 178/295 (60%), Gaps = 8/295 (2%) Query: 12 VLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQATPDLHTLISPGG 71 V N++ G E YRLH S GG + +S G+ V T AT + T + G Sbjct: 22 VFEYANKVAGHEFYRLHNYSVGGGELASSLGMRVTTAKAA-------ATASIDTWVVCGV 74 Query: 72 SSGDQFPLDAALVAWIRQHAQAAARICSVCTGAFHLAEAGVLDGLRVTTHWDWAQELQRR 131 + + P A A++++ A+ A RI +CTG F LAEAG+L R TTHW +A+ +Q R Sbjct: 75 GNPLESPASAEECAFLQRAAKKARRIAGICTGGFVLAEAGLLARRRATTHWAFARAMQER 134 Query: 132 YPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATARQLVMFIKRPGG 191 +P +QV+ D IYI G +WTSAG+TAG+DLALA+V +DLG +A + AR+LVM R GG Sbjct: 135 FPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARKLVMHQHRAGG 194 Query: 192 QSQFSTPLATQSAGAGRFAELHAWIAAHLADDLRVENLAHRAGMSPRTFARLYVAETGRT 251 QSQ S L + R + + +L L VE LA +A +S R F R++ +ETG++ Sbjct: 195 QSQHSEMLEL-APKTDRIQDALNYARRNLKRALTVEELAEQANLSARQFTRVFTSETGQS 253 Query: 252 PARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGVSPGQYR 306 PA+ +E +RLEAAR +E++R PL+ +A + G+ + +++R VFLR GV+P R Sbjct: 254 PAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMR 308 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 148 bits (373), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 105/325 (32%), Positives = 160/325 (49%), Gaps = 35/325 (10%) Query: 3 LLDLSGPMQVLATTNRL------QGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRL 56 L DL+ +V T+++ QG Y ++S +GG I TS+ + +GT SLQ D Sbjct: 46 LADLAEIAEVFFVTDKMLSSMFSQGNG-YHFSLLSVRGGMITTSSSVQIGTLSLQHHD-- 102 Query: 57 LQATPDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAARICSVCTGAFHLAEAGVLDGL 116 ++A ++I G D L+ W+ A A RI ++CTG LAEAG+LD Sbjct: 103 IRA---FDSIIIADGRGNFADCNDPQLLNWLATAALHAPRIAALCTGVLVLAEAGLLDRK 159 Query: 117 RVTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASA- 175 +V HW LQR +P + V+ ++ ++TSA G ++ALAL+E DLG + A Sbjct: 160 KVAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADSGTGAEVALALIEDDLGSSFAH 219 Query: 176 ----IATARQLVMFIK--------RPGGQSQFSTPLATQSAGAGRFAELHAWIAAHLADD 223 T RQ F RPG + S R + W+ H++ Sbjct: 220 RIEQSLTVRQHHQFKHSLSRGSEIRPGEKRHRSE----------RIQKALIWLDEHMSSS 269 Query: 224 LRVENLAHRAGMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAG 283 + + A MS R F R + ETG TP + +R+EAA L+ET LP+++IA + G Sbjct: 270 INMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRCG 329 Query: 284 YGEEQNLRRVFLRQLGVSPGQYRER 308 ++L R+F + GVSPG+YR++ Sbjct: 330 LVSGEHLARLFRKHHGVSPGEYRKK 354 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 0.320 0.132 0.389 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: 1,120,899 Number of extensions: 49054 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 234 Number of HSP's successfully gapped: 6 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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: 131 (55.1 bits)