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= 0001.3698.p (318 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313081|ref|YP_003777173.1| transcription regulator protein... 563 e-162 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 270 1e-73 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 237 9e-64 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 192 3e-50 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 139 3e-34 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 563 bits (1451), Expect = e-162, Method: Compositional matrix adjust. Identities = 288/317 (90%), Positives = 303/317 (95%) Query: 1 MPARDTAFLIFADCSMLDFTGPLSAFDAANRVSGQALYRLTLYSEAGGMIRSSAGALIQT 60 MP R+TAFLIFADCSMLDFTGPLSAFDAANR++G+ LYRLTLYSE GGMIRSSAGALI T Sbjct: 1 MPLRETAFLIFADCSMLDFTGPLSAFDAANRLAGKTLYRLTLYSEPGGMIRSSAGALIHT 60 Query: 61 ERIGRASFDTLVVAGGGAPREGLVSPALRRYIVRAAARSRRIAGVCTGAFVLAAAGVLDG 120 ERIGR SFDTL+VAGGGAPREGLVSPALRR+++RAAARSRRIAG+CTGAFVLAA G+LDG Sbjct: 61 ERIGRTSFDTLIVAGGGAPREGLVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLLDG 120 Query: 121 RHATTHWRMAAKLQQMHPQVKVDSDRIYSRDGKVWTSAGISAGIDLALALIEEDHGVELA 180 + ATTHWRMAAKLQQMHP VKVDSDRIYSRDG VWTSAGISAGIDLALALIE+DHGVELA Sbjct: 121 KRATTHWRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVELA 180 Query: 181 RSVARELVVYHRRPGGQSQFSALQEMDGGSERIRRALGFAREHLQHELTVDLLAEVACLS 240 RSVARELVVYHRRPGGQSQFSALQEMDGGSERIRRALGFAREHL LTVDLLAEVACLS Sbjct: 181 RSVARELVVYHRRPGGQSQFSALQEMDGGSERIRRALGFAREHLHQALTVDLLAEVACLS 240 Query: 241 RRQFDRTFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATGFGDADRMRRACLR 300 RRQFDR FAAETGQTPARAIEQMRAEAARLRIEQSQD+LESIARATGFGDADRMRRACLR Sbjct: 241 RRQFDRAFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRMRRACLR 300 Query: 301 LFGQPPQAMRRLARLDE 317 LFGQPPQAMRRLAR ++ Sbjct: 301 LFGQPPQAMRRLARAED 317 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 270 bits (690), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 151/292 (51%), Positives = 195/292 (66%), Gaps = 1/292 (0%) Query: 24 SAFDAANRVSGQALYRLTLYSEAGGMIRSSAGALIQTERIGRA-SFDTLVVAGGGAPREG 82 + F+ AN+V+G YRL YS GG + SS G + T + S DT VV G G P E Sbjct: 21 AVFEYANKVAGHEFYRLHNYSVGGGELASSLGMRVTTAKAAATASIDTWVVCGVGNPLES 80 Query: 83 LVSPALRRYIVRAAARSRRIAGVCTGAFVLAAAGVLDGRHATTHWRMAAKLQQMHPQVKV 142 S ++ RAA ++RRIAG+CTG FVLA AG+L R ATTHW A +Q+ P ++V Sbjct: 81 PASAEECAFLQRAAKKARRIAGICTGGFVLAEAGLLARRRATTHWAFARAMQERFPDIQV 140 Query: 143 DSDRIYSRDGKVWTSAGISAGIDLALALIEEDHGVELARSVARELVVYHRRPGGQSQFSA 202 + DRIY DG +WTSAG++AG+DLALA++ +D G E ARSVAR+LV++ R GGQSQ S Sbjct: 141 EDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARKLVMHQHRAGGQSQHSE 200 Query: 203 LQEMDGGSERIRRALGFAREHLQHELTVDLLAEVACLSRRQFDRTFAAETGQTPARAIEQ 262 + E+ ++RI+ AL +AR +L+ LTV+ LAE A LS RQF R F +ETGQ+PA+AIE Sbjct: 201 MLELAPKTDRIQDALNYARRNLKRALTVEELAEQANLSARQFTRVFTSETGQSPAKAIEG 260 Query: 263 MRAEAARLRIEQSQDSLESIARATGFGDADRMRRACLRLFGQPPQAMRRLAR 314 +R EAARL IEQS+ LE +AR TGF D MR LR FG PQ+MRR R Sbjct: 261 LRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMRREGR 312 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 237 bits (604), Expect = 9e-64, Method: Compositional matrix adjust. Identities = 138/318 (43%), Positives = 194/318 (61%), Gaps = 9/318 (2%) Query: 2 PARDTAFLIFADCSMLDFTGPLSAFDAANRVSGQALYRLTLYSEAGGMIRSSAG------ 55 P R FL +A ++LD +GP+ NR+ G+ +YRL + S GG I +SAG Sbjct: 6 PPRRVVFLAYAGMNLLDLSGPMQVLATTNRLQGREVYRLHVVSAQGGTILTSAGLPVGTQ 65 Query: 56 ALIQTERIGRASFD--TLVVAGGGAPREGLVSPALRRYIVRAAARSRRIAGVCTGAFVLA 113 +L + +R+ +A+ D TL+ GG + + + AL +I + A + RI VCTGAF LA Sbjct: 66 SLQEMDRLLQATPDLHTLISPGGSSGDQFPLDAALVAWIRQHAQAAVRICSVCTGAFHLA 125 Query: 114 AAGVLDGRHATTHWRMAAKLQQMHPQVKVDSDRIYSRDGKVWTSAGISAGIDLALALIEE 173 AGVLDG TTHW A +LQ+ +P ++VD+D IY R G++WTSAG++AGIDLALAL+E+ Sbjct: 126 EAGVLDGLRVTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQ 185 Query: 174 DHGVELARSVARELVVYHRRPGGQSQFSA-LQEMDGGSERIRRALGFAREHLQHELTVDL 232 D G A + AR+LV++ +RPGGQSQFS L G+ R + HL +L V+ Sbjct: 186 DLGHASAIATARQLVMFIKRPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVEN 245 Query: 233 LAEVACLSRRQFDRTFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATGFGDAD 292 LA A +S R F R + AETG+TPAR +E MR EAAR +E+++ L+ IA G+G+ Sbjct: 246 LAHRAGMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQ 305 Query: 293 RMRRACLRLFGQPPQAMR 310 +RR LR G P R Sbjct: 306 NLRRVFLRQLGVSPGQYR 323 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 192 bits (489), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 125/325 (38%), Positives = 180/325 (55%), Gaps = 13/325 (4%) Query: 1 MPARDTAFLIFADCSMLDFTGPLSAFDAANRVSGQALYRLTLYSEAGGMIR-----SSAG 55 + AR F+ F LD GP+ F A ++ + Y L + S G ++R S AG Sbjct: 15 LAARTVVFIAFDGAEPLDLMGPIGVFSRAEELAPGS-YALRVASVDGALLRTRSPLSLAG 73 Query: 56 ALIQTERIGRASFDTLVVAGGG--APREGLVSPALRRYIVRAAARSRRIAGVCTGAFVLA 113 + + GR DT++VAGG A + AL ++ R ++RRI +CTGAFVL Sbjct: 74 IVPLSSIEGR--LDTVLVAGGHEQAIHQAATEVALVEWLNRRGRQARRIGSICTGAFVLG 131 Query: 114 AAGVLDGRHATTHWRMAAKLQQMHPQVKVDSDRIYSRDGKVWTSAGISAGIDLALALIEE 173 AAG+LDGR+ TTHW LQQ P+ KVD D IY DG + TSAG++ GIDLALAL+ + Sbjct: 132 AAGLLDGRYVTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRD 191 Query: 174 DHGVELARSVARELVVYHRRPGGQSQFSA-LQEMDGGSERIRRALGFAREHLQHELTVDL 232 D G E+A ++AR+LV++ RPG Q Q SA L + L + +H Q +++V+ Sbjct: 192 DLGQEIASAIARDLVLFLHRPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNA 251 Query: 233 LAEVACLSRRQFDRTFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATGFGDAD 292 LAE A +S R F R F E G+ P + + ++R + A +E++ S+E IA +G +AD Sbjct: 252 LAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNAD 311 Query: 293 RMRRACLRLFGQPPQAMRRLARLDE 317 + R + G P R ARL E Sbjct: 312 TLHRVFRQHLGMTPAQYR--ARLAE 334 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 91/281 (32%), Positives = 144/281 (51%), Gaps = 7/281 (2%) Query: 38 YRLTLYSEAGGMIRSSAGALIQTERIGRA---SFDTLVVAGGGAPREGLVSPALRRYIVR 94 Y +L S GGMI +S+ I T + +FD++++A G P L ++ Sbjct: 73 YHFSLLSVRGGMITTSSSVQIGTLSLQHHDIRAFDSIIIADGRGNFADCNDPQLLNWLAT 132 Query: 95 AAARSRRIAGVCTGAFVLAAAGVLDGRHATTHWRMAAKLQQMHPQVKVDSDRIYSRDGKV 154 AA + RIA +CTG VLA AG+LD + HW + +LQ+ P + V+ +D V Sbjct: 133 AALHAPRIAALCTGVLVLAEAGLLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQDQNV 192 Query: 155 WTSAGISAGIDLALALIEEDHGVELARSVARELVV--YHRRPGGQSQFSALQ--EMDGGS 210 +TSA G ++ALALIE+D G A + + L V +H+ S+ S ++ E S Sbjct: 193 FTSADSGTGAEVALALIEDDLGSSFAHRIEQSLTVRQHHQFKHSLSRGSEIRPGEKRHRS 252 Query: 211 ERIRRALGFAREHLQHELTVDLLAEVACLSRRQFDRTFAAETGQTPARAIEQMRAEAARL 270 ERI++AL + EH+ + + A+ +S R F R F ETG+TP + ++R EAA L Sbjct: 253 ERIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACL 312 Query: 271 RIEQSQDSLESIARATGFGDADRMRRACLRLFGQPPQAMRR 311 ++++ +E IAR G + + R + G P R+ Sbjct: 313 YLKETDLPIEKIARRCGLVSGEHLARLFRKHHGVSPGEYRK 353 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 0.134 0.385 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: 994,368 Number of extensions: 39969 Number of successful extensions: 182 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 178 Number of HSP's successfully gapped: 7 Length of query: 318 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 233 Effective length of database: 1,217,395 Effective search space: 283653035 Effective search space used: 283653035 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)