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= 0003.0011.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313063|ref|YP_003777155.1| transcription regulator protein... 480 e-137 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 210 1e-55 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 206 1e-54 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 169 3e-43 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 131 7e-32 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 480 bits (1236), Expect = e-137, Method: Compositional matrix adjust. Identities = 239/274 (87%), Positives = 255/274 (93%), Gaps = 5/274 (1%) Query: 1 MSDVEKIDAPEDGS----EAGEGGLARRDWIAGLEKGLLILEAFDYDNQRMTSAQVAART 56 M++ +K + P D S E EGGL+RRDWIAGLEKGLLILEAFD+DNQRMTSAQVAART Sbjct: 1 MNERDK-NGPADDSREVCEPTEGGLSRRDWIAGLEKGLLILEAFDFDNQRMTSAQVAART 59 Query: 57 GLSRTAARRYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPHLQQITGQ 116 GLSRTAARRYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQP LQQITGQ Sbjct: 60 GLSRTAARRYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPFLQQITGQ 119 Query: 117 TGEAVYASVLDGWDLVFIARNGTSRVMTTGFVLGARVPAQLASPGIVMLGALPEQQVREW 176 TGEAVYASVLDGWDLVFIARNG +RVMTTGFVLGARVPAQLASPGIVML ALPEQQVR+W Sbjct: 120 TGEAVYASVLDGWDLVFIARNGATRVMTTGFVLGARVPAQLASPGIVMLSALPEQQVRDW 179 Query: 177 LATCAMTPFTPHTITDPDRLYELIAQARQQGYALVEQQLQTGVRGIAVPLKNRHAKVVGA 236 LATCAMTPFTPHTITDPD+LY LIAQARQ GYA+VEQQLQTGVRGIAVPLKNRHAKV+GA Sbjct: 180 LATCAMTPFTPHTITDPDQLYALIAQARQLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGA 239 Query: 237 LSLSFPLAVESQEQTLARVLPALQQAANALIHQV 270 LSLS P+A E++EQTLAR+LPALQQAANALI+ V Sbjct: 240 LSLSLPMAAEAREQTLARILPALQQAANALINLV 273 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 210 bits (535), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 119/255 (46%), Positives = 163/255 (63%), Gaps = 3/255 (1%) Query: 5 EKIDAPEDGSEAGEGGLARRDWIAGLEKGLLILEAFDYDNQRMTSAQVAARTGLSRTAAR 64 E+ID E+ +A EG L +RD +AGLEKGL ++EAFD + R+T A+VA TGL+R AAR Sbjct: 4 ERID--EEPGDADEGPL-KRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAAR 60 Query: 65 RYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPHLQQITGQTGEAVYAS 124 RYL+TL HLGY+ + KTF+LTP VL++G SY SA LPRI+QP L ++ GEA Sbjct: 61 RYLITLTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCG 120 Query: 125 VLDGWDLVFIARNGTSRVMTTGFVLGARVPAQLASPGIVMLGALPEQQVREWLATCAMTP 184 VLD LV +A ++++T G RVPA + G ++L LP Q+ LA Sbjct: 121 VLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLPPAQLDAILARAQPEA 180 Query: 185 FTPHTITDPDRLYELIAQARQQGYALVEQQLQTGVRGIAVPLKNRHAKVVGALSLSFPLA 244 T HTITD +RL IA+AR QGYALV+Q+L+ G+R +AVP++N +VV A+++S Sbjct: 181 ITAHTITDVERLGLEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAG 240 Query: 245 VESQEQTLARVLPAL 259 E + R LPA+ Sbjct: 241 RMKLEDMVERCLPAM 255 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 206 bits (525), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 104/250 (41%), Positives = 164/250 (65%) Query: 21 LARRDWIAGLEKGLLILEAFDYDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYLHSEG 80 + +RD I GL KG ++ AFD D+ ++++++VA R GL+R+AARRYLLTL H G S+G Sbjct: 11 IQKRDLIEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLVHTGMAASDG 70 Query: 81 KTFALTPRVLKVGWSYFDSAPLPRILQPHLQQITGQTGEAVYASVLDGWDLVFIARNGTS 140 K F L PR+L +G SY +SA +PR + P LQ++T Q E+ S+LDG ++V++ R + Sbjct: 71 KKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTAA 130 Query: 141 RVMTTGFVLGARVPAQLASPGIVMLGALPEQQVREWLATCAMTPFTPHTITDPDRLYELI 200 +++ GF G R+PA + G V+LG + +++ +L + P T +TD L++ I Sbjct: 131 QLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAMTDKAALFQEI 190 Query: 201 AQARQQGYALVEQQLQTGVRGIAVPLKNRHAKVVGALSLSFPLAVESQEQTLARVLPALQ 260 R+QGY + E Q + G+RGIA+ +KNR+ +V+GALS++ +A S+E+ +AR +PALQ Sbjct: 191 LTMRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVTSNIAACSREEAIARGVPALQ 250 Query: 261 QAANALIHQV 270 AN L+ V Sbjct: 251 TTANTLMMWV 260 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 169 bits (427), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 91/266 (34%), Positives = 147/266 (55%), Gaps = 11/266 (4%) Query: 1 MSDVEKIDAPEDGSEAGEGGLARRDWIAGLEKGLLILEAFDYDNQRMTSAQVAARTGLSR 60 M+ ++IDA D S ++ L +GL ++ AF + +T AQ++ +TG+ R Sbjct: 1 MTIAQEIDALTDPS-----------FMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPR 49 Query: 61 TAARRYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPHLQQITGQTGEA 120 A RR L TL+ LGY S+ F+L P++L +G+SY S PL QP+L I+ GE+ Sbjct: 50 AAVRRCLHTLKQLGYADSDVNNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGES 109 Query: 121 VYASVLDGWDLVFIARNGTSRVMTTGFVLGARVPAQLASPGIVMLGALPEQQVREWLATC 180 +VLD +++++AR+ SRVM+ G+R+PA S G ML LPE Q++ + Sbjct: 110 CSLAVLDDHEVLYVARSAASRVMSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKV 169 Query: 181 AMTPFTPHTITDPDRLYELIAQARQQGYALVEQQLQTGVRGIAVPLKNRHAKVVGALSLS 240 + T T+ RL +++A R GYA+++++L+ G+R IAVP++ V+ AL++ Sbjct: 170 KLRALTEKTVVSQKRLRDILAGVRANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVG 229 Query: 241 FPLAVESQEQTLARVLPALQQAANAL 266 A S Q +LP L + A L Sbjct: 230 AQAARVSVAQMEEEILPVLLRGAQEL 255 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 131 bits (329), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 138/244 (56%), Gaps = 2/244 (0%) Query: 29 GLEKGLLILEAFDYDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYL--HSEGKTFALT 86 LEKGL +L AF+ ++ MT VA+ TG+S+++A+R + TLE LGY+ H + + + LT Sbjct: 16 SLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLT 75 Query: 87 PRVLKVGWSYFDSAPLPRILQPHLQQITGQTGEAVYASVLDGWDLVFIARNGTSRVMTTG 146 P+V++VG++Y + L + P L ++ TGE V + ++V++AR S+ + Sbjct: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPIH 135 Query: 147 FVLGARVPAQLASPGIVMLGALPEQQVREWLATCAMTPFTPHTITDPDRLYELIAQARQQ 206 +G+R+P + G L AL ++ + L + T TPHT TD + + +L+A +R++ Sbjct: 136 MPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRER 195 Query: 207 GYALVEQQLQTGVRGIAVPLKNRHAKVVGALSLSFPLAVESQEQTLARVLPALQQAANAL 266 G+A ++L G IA P+ N K V ++ + P + S E+ ++ P + + A A+ Sbjct: 196 GFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKKLGPLVLECARAI 255 Query: 267 IHQV 270 + V Sbjct: 256 SNSV 259 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 0.319 0.134 0.391 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: 903,702 Number of extensions: 38804 Number of successful extensions: 141 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 141 Number of HSP's successfully gapped: 9 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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 (21.8 bits) S2: 130 (54.7 bits)