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= 0001.2572.p (311 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... 525 e-150 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 214 6e-57 gi|300313081|ref|YP_003777173.1| transcription regulator protein... 213 1e-56 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 199 2e-52 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 140 1e-34 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 525 bits (1353), Expect = e-150, Method: Compositional matrix adjust. Identities = 262/311 (84%), Positives = 278/311 (89%), Gaps = 1/311 (0%) Query: 1 MNLLDLAGPMQALATTNRLQAQDIYRLHVASAQGGAIVTSAGLPVLTQSLAELDQALAGA 60 MNLLDL+GPMQ LATTNRLQ +++YRLHV SAQGG I+TSAGLPV TQSL E+D+ L Sbjct: 18 MNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQSLQEMDRLLQAT 77 Query: 61 P-LHTLVSPGGSQGDQFRLDPALVAWIRQRAPQAQRICSVCSGAFHLAEAGLLDGLRVTT 119 P LHTL+SPGGS GDQF LD ALVAWIRQ A A RICSVC+GAFHLAEAG+LDGLRVTT Sbjct: 78 PDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLAEAGVLDGLRVTT 137 Query: 120 HWDSVAQLQRRYPALQVDGEPIYIRQGRIWTSAGVTAGIDLTLALVEQDLGHAAAIATAR 179 HWD +LQRRYPALQVD +PIYIRQGRIWTSAGVTAGIDL LALVEQDLGHA+AIATAR Sbjct: 138 HWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATAR 197 Query: 180 QLVMFIKRPGGQSQFSAPLASQSAGAGRFVELHAWIAGHLEADLRVENLARQVNMSPRTF 239 QLVMFIKRPGGQSQFS PLA+QS GAGRF ELHAWIA HL DL VENLA + MSPRTF Sbjct: 198 QLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVENLAHRAGMSPRTF 257 Query: 240 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQSGYGEEQNLRRVFLRQLGV 299 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQ+GYGEEQNLRRVFLRQLGV Sbjct: 258 ARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGV 317 Query: 300 SPGQYRERFAA 310 SPGQYRERFAA Sbjct: 318 SPGQYRERFAA 328 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 214 bits (546), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 135/312 (43%), Positives = 174/312 (55%), Gaps = 15/312 (4%) Query: 4 LDLAGPMQALATTNRLQAQDIYRLHVASAQGGAIVTS-----AGLPVLTQSLAELDQALA 58 LDL GP+ + L A Y L VAS G + T AG+ L+ LD Sbjct: 31 LDLMGPIGVFSRAEEL-APGSYALRVASVDGALLRTRSPLSLAGIVPLSSIEGRLDT--- 86 Query: 59 GAPLHTLVSPGGSQG-DQFRLDPALVAWIRQRAPQAQRICSVCSGAFHLAEAGLLDGLRV 117 LV+ G Q Q + ALV W+ +R QA+RI S+C+GAF L AGLLDG V Sbjct: 87 -----VLVAGGHEQAIHQAATEVALVEWLNRRGRQARRIGSICTGAFVLGAAGLLDGRYV 141 Query: 118 TTHWDSVAQLQRRYPALQVDGEPIYIRQGRIWTSAGVTAGIDLTLALVEQDLGHAAAIAT 177 TTHW +V LQ+ +P +VD + IY G I TSAGVT GIDL LALV DLG A A Sbjct: 142 TTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRDDLGQEIASAI 201 Query: 178 ARQLVMFIKRPGGQSQFSAPLASQSAGAGRFVELHAWIAGHLEADLRVENLARQVNMSPR 237 AR LV+F+ RPG Q Q SA L +Q + F L W+ H + D+ V LA + MSPR Sbjct: 202 ARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPR 261 Query: 238 TFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQSGYGEEQNLRRVFLRQL 297 FAR ++ E G+ P + V +R++ A R LE+T ++RIA +SG L RVF + L Sbjct: 262 NFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNADTLHRVFRQHL 321 Query: 298 GVSPGQYRERFA 309 G++P QYR R A Sbjct: 322 GMTPAQYRARLA 333 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 213 bits (543), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 128/304 (42%), Positives = 179/304 (58%), Gaps = 8/304 (2%) Query: 2 NLLDLAGPMQALATTNRLQAQDIYRLHVASAQGGAIVTSAGLPVLTQSLAELDQALAGAP 61 ++LD GP+ A NRL + +YRL + S GG I +SAG + T+ + Sbjct: 15 SMLDFTGPLSAFDAANRLAGKTLYRLTLYSEPGGMIRSSAGALIHTERIGR-------TS 67 Query: 62 LHTLVSPGGSQGDQFRLDPALVAWIRQRAPQAQRICSVCSGAFHLAEAGLLDGLRVTTHW 121 TL+ GG + + PAL + + A +++RI +C+GAF LA GLLDG R TTHW Sbjct: 68 FDTLIVAGGGAPREGLVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLLDGKRATTHW 127 Query: 122 DSVAQLQRRYPALQVDGEPIYIRQGRIWTSAGVTAGIDLTLALVEQDLGHAAAIATARQL 181 A+LQ+ +PA++VD + IY R G +WTSAG++AGIDL LAL+E D G A + AR+L Sbjct: 128 RMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVELARSVAREL 187 Query: 182 VMFIKRPGGQSQFSAPLASQSAGAGRFVELHAWIAGHLEADLRVENLARQVNMSPRTFAR 241 V++ +RPGGQSQFSA L G+ R + HL L V+ LA +S R F R Sbjct: 188 VVYHRRPGGQSQFSA-LQEMDGGSERIRRALGFAREHLHQALTVDLLAEVACLSRRQFDR 246 Query: 242 LYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQSGYGEEQNLRRVFLRQLGVSP 301 + AETG+TPAR +E MR EAAR +E+++ L+ IA +G+G+ +RR LR G P Sbjct: 247 AFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRMRRACLRLFGQPP 306 Query: 302 GQYR 305 R Sbjct: 307 QAMR 310 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 199 bits (506), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 117/292 (40%), Positives = 175/292 (59%), Gaps = 13/292 (4%) Query: 17 NRLQAQDIYRLHVASAQGGAIVTSAGLPVLTQSLA---ELDQALAGAPLHTLVSPGGSQG 73 N++ + YRLH S GG + +S G+ V T A +D + + L SP ++ Sbjct: 27 NKVAGHEFYRLHNYSVGGGELASSLGMRVTTAKAAATASIDTWVVCGVGNPLESPASAEE 86 Query: 74 DQFRLDPALVAWIRQRAPQAQRICSVCSGAFHLAEAGLLDGLRVTTHWDSVAQLQRRYPA 133 A++++ A +A+RI +C+G F LAEAGLL R TTHW +Q R+P Sbjct: 87 ---------CAFLQRAAKKARRIAGICTGGFVLAEAGLLARRRATTHWAFARAMQERFPD 137 Query: 134 LQVDGEPIYIRQGRIWTSAGVTAGIDLTLALVEQDLGHAAAIATARQLVMFIKRPGGQSQ 193 +QV+ + IYI G +WTSAG+TAG+DL LA+V +DLG AA + AR+LVM R GGQSQ Sbjct: 138 IQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARKLVMHQHRAGGQSQ 197 Query: 194 FSAPLASQSAGAGRFVELHAWIAGHLEADLRVENLARQVNMSPRTFARLYVAETGRTPAR 253 S L + R + + +L+ L VE LA Q N+S R F R++ +ETG++PA+ Sbjct: 198 HSEML-ELAPKTDRIQDALNYARRNLKRALTVEELAEQANLSARQFTRVFTSETGQSPAK 256 Query: 254 TVELMRLEAARRALEETRLPLKRIASQSGYGEEQNLRRVFLRQLGVSPGQYR 305 +E +RLEAAR +E++R PL+ +A ++G+ + +++R VFLR GV+P R Sbjct: 257 AIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMR 308 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 140 bits (353), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 102/324 (31%), Positives = 160/324 (49%), Gaps = 34/324 (10%) Query: 3 LLDLAGPMQALATTNRLQAQ-----DIYRLHVASAQGGAIVTSAGLPVLTQSLAELDQAL 57 L DLA + T+++ + + Y + S +GG I TS+ + + T SL D Sbjct: 46 LADLAEIAEVFFVTDKMLSSMFSQGNGYHFSLLSVRGGMITTSSSVQIGTLSLQHHDIRA 105 Query: 58 AGAPLHTLVSPG-GSQGDQFRLDPALVAWIRQRAPQAQRICSVCSGAFHLAEAGLLDGLR 116 + +++ G G+ D DP L+ W+ A A RI ++C+G LAEAGLLD + Sbjct: 106 FDS---IIIADGRGNFADCN--DPQLLNWLATAALHAPRIAALCTGVLVLAEAGLLDRKK 160 Query: 117 VTTHWDSVAQLQRRYPALQVDGEPIYIRQGRIWTSAGVTAGIDLTLALVEQDLGHAAA-- 174 V HW +LQR +P + V+ ++ ++TSA G ++ LAL+E DLG + A Sbjct: 161 VAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADSGTGAEVALALIEDDLGSSFAHR 220 Query: 175 ---IATARQLVMFIK--------RPGGQSQFSAPLASQSAGAGRFVELHAWIAGHLEADL 223 T RQ F RPG + S R + W+ H+ + + Sbjct: 221 IEQSLTVRQHHQFKHSLSRGSEIRPGEKRHRSE----------RIQKALIWLDEHMSSSI 270 Query: 224 RVENLARQVNMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQSGY 283 + A V+MS R F R + ETG TP + +R+EAA L+ET LP+++IA + G Sbjct: 271 NMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRCGL 330 Query: 284 GEEQNLRRVFLRQLGVSPGQYRER 307 ++L R+F + GVSPG+YR++ Sbjct: 331 VSGEHLARLFRKHHGVSPGEYRKK 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 0.321 0.133 0.387 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: 1,044,225 Number of extensions: 45552 Number of successful extensions: 220 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 7 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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)