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= 0012.0082.p (335 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 665 0.0 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 221 5e-59 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 172 3e-44 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 159 3e-40 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 157 8e-40 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 665 bits (1715), Expect = 0.0, Method: Compositional matrix adjust. Identities = 330/335 (98%), Positives = 333/335 (99%) Query: 1 MTEISDFLPHRPSHVAARTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGSYALRVASVDG 60 MTEISDFLPHRPSH+AARTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGSYALRVASVDG Sbjct: 1 MTEISDFLPHRPSHLAARTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGSYALRVASVDG 60 Query: 61 ALLRTRSPLSLAGIVPLSSIEGRLDTVLVAGGHEQAIRQAATEVALVEWLDRRGRQARRI 120 ALLRTRSPLSLAGIVPLSSIEGRLDTVLVAGGHEQAI QAATEVALVEWL+RRGRQARRI Sbjct: 61 ALLRTRSPLSLAGIVPLSSIEGRLDTVLVAGGHEQAIHQAATEVALVEWLNRRGRQARRI 120 Query: 121 GSICTGAFVLGAAGLLDGRHVTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTT 180 GSICTGAFVLGAAGLLDGR+VTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTT Sbjct: 121 GSICTGAFVLGAAGLLDGRYVTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTT 180 Query: 181 GIDLALALVRADLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWML 240 GIDLALALVR DLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWML Sbjct: 181 GIDLALALVRDDLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWML 240 Query: 241 DHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIER 300 DHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIER Sbjct: 241 DHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIER 300 Query: 301 IAERSGLKNADTLHRVFRQHLGMTPAQYRARLAEE 335 IAERSGLKNADTLHRVFRQHLGMTPAQYRARLAEE Sbjct: 301 IAERSGLKNADTLHRVFRQHLGMTPAQYRARLAEE 335 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 221 bits (564), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 138/322 (42%), Positives = 179/322 (55%), Gaps = 8/322 (2%) Query: 18 RTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGS-YALRVASVDGALLRTRSPL-----SL 71 R VVF+A+ G LDL GP+ V + L Y L V S G + T + L SL Sbjct: 8 RRVVFLAYAGMNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSL 67 Query: 72 AGIVPLSSIEGRLDTVLVAGGHEQAIRQAATEVALVEWLDRRGRQARRIGSICTGAFVLG 131 + L L T++ GG + Q + ALV W+ + + A RI S+CTGAF L Sbjct: 68 QEMDRLLQATPDLHTLISPGG--SSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLA 125 Query: 132 AAGLLDGRHVTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRA 191 AG+LDG VTTHW LQ+ +P +VD D IY G I TSAGVT GIDLALALV Sbjct: 126 EAGVLDGLRVTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQ 185 Query: 192 DLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNA 251 DLG A A AR LV+F+ RPG Q Q S L Q + F+ L W+ H +D+ V Sbjct: 186 DLGHASAIATARQLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVEN 245 Query: 252 LAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNAD 311 LA RA MSPR FAR ++ E G+ P + V +R++ A R LE+T ++RIA ++G Sbjct: 246 LAHRAGMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQ 305 Query: 312 TLHRVFRQHLGMTPAQYRARLA 333 L RVF + LG++P QYR R A Sbjct: 306 NLRRVFLRQLGVSPGQYRERFA 327 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 172 bits (436), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 124/319 (38%), Positives = 172/319 (53%), Gaps = 12/319 (3%) Query: 18 RTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGS-YALRVASVDGALLRTRSPLSLAGIVP 76 R F+ F LD GP+ F A LA + Y L + S G ++R S AG + Sbjct: 4 RETAFLIFADCSMLDFTGPLSAFDAANRLAGKTLYRLTLYSEPGGMIR-----SSAGALI 58 Query: 77 LSSIEGR--LDTVLVAGGHEQAIRQAATEVALVEWLDRRGRQARRIGSICTGAFVLGAAG 134 + GR DT++VAGG A R+ AL + R ++RRI ICTGAFVL A G Sbjct: 59 HTERIGRTSFDTLIVAGG--GAPREGLVSPALRRHVLRAAARSRRIAGICTGAFVLAATG 116 Query: 135 LLDGRHVTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRADLG 194 LLDG+ TTHW LQQ P KVD D IY DG + TSAG++ GIDLALAL+ D G Sbjct: 117 LLDGKRATTHWRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALALIEDDHG 176 Query: 195 QEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNALAE 254 E+A ++AR+LV++ RPG Q Q SA L + L + +H + ++V+ LAE Sbjct: 177 VELARSVARELVVYHRRPGGQSQFSA-LQEMDGGSERIRRALGFAREHLHQALTVDLLAE 235 Query: 255 RAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNADTLH 314 A +S R F R F E G+ P + + ++R + A +E++ ++E IA +G +AD + Sbjct: 236 VACLSRRQFDRAFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRMR 295 Query: 315 RVFRQHLGMTPAQYRARLA 333 R + G P R RLA Sbjct: 296 RACLRLFGQPPQAMR-RLA 313 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 159 bits (401), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 97/287 (33%), Positives = 152/287 (52%), Gaps = 11/287 (3%) Query: 51 YALRVASVDGALLRTRSPLSLAGIVPLSSIEGR-LDTVLVAGGHEQAIRQAATEVALVEW 109 Y + SV G ++ T S + + G + L + R D++++A G + + L+ W Sbjct: 73 YHFSLLSVRGGMITTSSSVQI-GTLSLQHHDIRAFDSIIIADG--RGNFADCNDPQLLNW 129 Query: 110 LDRRGRQARRIGSICTGAFVLGAAGLLDGRHVTTHWAAVDLLQQYFPKAKVDPDAIYRID 169 L A RI ++CTG VL AGLLD + V HWA D LQ+ FP V+P D Sbjct: 130 LATAALHAPRIAALCTGVLVLAEAGLLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQD 189 Query: 170 GPICTSAGVTTGIDLALALVRADLGQEIASAIARDLVL-----FLHRPGRQQQISATLVA 224 + TSA TG ++ALAL+ DLG A I + L + F H R +I Sbjct: 190 QNVFTSADSGTGAEVALALIEDDLGSSFAHRIEQSLTVRQHHQFKHSLSRGSEIRPGEKR 249 Query: 225 QQSAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRI 284 +S + L+W+ +H ++++ A+ +MS RNF R F RE G+ P ++ ++RI Sbjct: 250 HRS--ERIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRI 307 Query: 285 DHACRHLEKTGWSIERIAERSGLKNADTLHRVFRQHLGMTPAQYRAR 331 + AC +L++T IE+IA R GL + + L R+FR+H G++P +YR + Sbjct: 308 EAACLYLKETDLPIEKIARRCGLVSGEHLARLFRKHHGVSPGEYRKK 354 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 157 bits (398), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 164/306 (53%), Gaps = 12/306 (3%) Query: 29 EPLDLMG--PIGVFSRAEELAPGS-YALRVASVDGALLRTRSPLSLAGIVPLSSIEGRLD 85 E +MG VF A ++A Y L SV G L S L + ++ +D Sbjct: 10 EGFQVMGLATQAVFEYANKVAGHEFYRLHNYSVGGGELA--SSLGMRVTTAKAAATASID 67 Query: 86 TVLVAG-GHEQAIRQAATEVALVEWLDRRGRQARRIGSICTGAFVLGAAGLLDGRHVTTH 144 T +V G G+ +A E A +L R ++ARRI ICTG FVL AGLL R TTH Sbjct: 68 TWVVCGVGNPLESPASAEECA---FLQRAAKKARRIAGICTGGFVLAEAGLLARRRATTH 124 Query: 145 WAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRADLGQEIASAIARD 204 WA +Q+ FP +V+ D IY +DGP+ TSAG+T G+DLALA+V DLG+E A ++AR Sbjct: 125 WAFARAMQERFPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARK 184 Query: 205 LVLFLHRPGRQQQISATL-VAQQSAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNF 263 LV+ HR G Q Q S L +A ++ D L + + + ++V LAE+A +S R F Sbjct: 185 LVMHQHRAGGQSQHSEMLELAPKT--DRIQDALNYARRNLKRALTVEELAEQANLSARQF 242 Query: 264 ARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNADTLHRVFRQHLGM 323 R F E G+ P + + LR++ A +E++ +E +A +G ++ + VF + G+ Sbjct: 243 TRVFTSETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGV 302 Query: 324 TPAQYR 329 P R Sbjct: 303 APQSMR 308 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 0.323 0.137 0.403 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: 1,116,314 Number of extensions: 47907 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 8 Length of query: 335 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 249 Effective length of database: 1,212,660 Effective search space: 301952340 Effective search space used: 301952340 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: 131 (55.1 bits)