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= 0077.0008.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310493|ref|YP_003774585.1| transcription regulator protein... 191 7e-50 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 139 3e-34 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 136 3e-33 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 127 1e-30 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 126 2e-30 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 191 bits (485), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 102/246 (41%), Positives = 152/246 (61%), Gaps = 1/246 (0%) Query: 49 LYVNSVEKSMRVLMAFDGQQRQLSLSQIAALTGFDLSTAQRFTYTLMTLGYLTKDDEVRK 108 L+ S+EK + VL AF+ Q R ++L +A+ TG S+AQR +TL TLGY+ K + R+ Sbjct: 12 LFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRR 71 Query: 109 YELAPKVLNFAYHYLTSSDLVRRATPYLQQLSQETEETTNLTILDGADVVFVQRIVSRNV 168 Y+L PKV+ Y+YL + LV A P+L +L+ T ET NLT ++V+V R V+ Sbjct: 72 YQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKF 131 Query: 169 LNPNVVTGTRLPAYCTASGLAIMSTLDDAEVDAILDRSDLKMYTPFTIADRGQIKQRLMQ 228 + ++ G+R+P YCTASG A +S L+ E AIL+ S+ ++TP T D I Q L Sbjct: 132 IPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAA 191 Query: 229 FREQGYAHIREEYFLGDISTAAVVRDSRLGRALGAVNMAVTTARWNGESDERRHADLVML 288 RE+G+A REE FLGD+S A+ V +S + + +V++ T+RW+ E E++ LV+ Sbjct: 192 SRERGFASNREELFLGDMSIASPVFNSE-RKPVASVHVVAPTSRWSVEEAEKKLGPLVLE 250 Query: 289 AARAIS 294 ARAIS Sbjct: 251 CARAIS 256 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 73/216 (33%), Positives = 124/216 (57%), Gaps = 3/216 (1%) Query: 51 VNSVEKSMRVLMAFDGQQRQLSLSQIAALTGFDLSTAQRFTYTLMTLGYLTKDDEVRKYE 110 + + K V+ AFD QLS S++A G S A+R+ TL+ G D +K+ Sbjct: 17 IEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLVHTGMAASDG--KKFW 74 Query: 111 LAPKVLNFAYHYLTSSDLVRRATPYLQQLSQETEETTNLTILDGADVVFVQRIVSRNVLN 170 L P++LN YL S+ + R P+LQ+L+Q+ +E+TN ++LDG ++V+V R+ + ++N Sbjct: 75 LMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTAAQLVN 134 Query: 171 PNVVTGTRLPAYCTASGLAIMSTLDDAEVDAILDRSDLKMYTPFTIADRGQIKQRLMQFR 230 GTRLPAY T +G ++ +DAE+ A L+R +L +T + D+ + Q ++ R Sbjct: 135 AGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAMTDKAALFQEILTMR 194 Query: 231 EQGYAHIREEYFLGDISTAAVVRDSRLGRALGAVNM 266 QGY ++ +G A V++ R GR +GA+++ Sbjct: 195 RQGYGITENQFEMGMRGIAIAVKN-RNGRVIGALSV 229 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 136 bits (342), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 80/252 (31%), Positives = 138/252 (54%), Gaps = 3/252 (1%) Query: 44 GINSPLYVNSVEKSMRVLMAFDGQQRQLSLSQIAALTGFDLSTAQRFTYTLMTLGYLTKD 103 + P ++ S+ + + V+ AF +R L+++QI+ TG + +R +TL LGY D Sbjct: 9 ALTDPSFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGY--AD 66 Query: 104 DEVRKYELAPKVLNFAYHYLTSSDLVRRATPYLQQLSQETEETTNLTILDGADVVFVQRI 163 +V + L PK+L Y YL+S+ L A PYL +S+ E+ +L +LD +V++V R Sbjct: 67 SDVNNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARS 126 Query: 164 VSRNVLNPNVVTGTRLPAYCTASGLAIMSTLDDAEVDAILDRSDLKMYTPFTIADRGQIK 223 + V++ + TG+RLPAYCT+ G A+++ L + ++ A D+ L+ T T+ + +++ Sbjct: 127 AASRVMSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLR 186 Query: 224 QRLMQFREQGYAHIREEYFLGDISTAAVVRDSRLGRALGAVNMAVTTARWNGESDERRHA 283 L R GYA I EE +G S A VR + G L A+N+ AR + E Sbjct: 187 DILAGVRANGYAVIDEELEVGLRSIAVPVRGAS-GNVLAALNVGAQAARVSVAQMEEEIL 245 Query: 284 DLVMLAARAISI 295 +++ A+ +S+ Sbjct: 246 PVLLRGAQELSV 257 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 127 bits (318), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 128/226 (56%), Gaps = 3/226 (1%) Query: 51 VNSVEKSMRVLMAFDGQQRQLSLSQIAALTGFDLSTAQRFTYTLMTLGYLTKDDEVRKYE 110 V +EK ++V+ AFD ++ +L+++++A LTG + A+R+ TL LGY+ D+ + + Sbjct: 23 VAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYMRHDN--KTFS 80 Query: 111 LAPKVLNFAYHYLTSSDLVRRATPYLQQLSQETEETTNLTILDGADVVFVQRIVSRNVLN 170 L P VL YL S+ L R P L +L+ E + +LD +V V + + +++ Sbjct: 81 LTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVS 140 Query: 171 PNVVTGTRLPAYCTASGLAIMSTLDDAEVDAILDRSDLKMYTPFTIADRGQIKQRLMQFR 230 + GTR+PAYCTA+G +++ L A++DAIL R+ + T TI D ++ + + R Sbjct: 141 TTLQPGTRVPAYCTANGRILLANLPPAQLDAILARAQPEAITAHTITDVERLGLEIARAR 200 Query: 231 EQGYAHIREEYFLGDISTAAVVRDSRLGRALGAVNMAVTTARWNGE 276 QGYA + +E LG + A VR+ R G + A+N++V R E Sbjct: 201 VQGYALVDQELELGLRTMAVPVRNFR-GEVVAAMNISVHAGRMKLE 245 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 126 bits (316), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 134/251 (53%), Gaps = 14/251 (5%) Query: 29 ETDESGSAAPAADNTGINSPL--------YVNSVEKSMRVLMAFDGQQRQLSLSQIAALT 80 E D++G PA D+ + P ++ +EK + +L AFD ++++ +Q+AA T Sbjct: 3 ERDKNG---PADDSREVCEPTEGGLSRRDWIAGLEKGLLILEAFDFDNQRMTSAQVAART 59 Query: 81 GFDLSTAQRFTYTLMTLGYLTKDDEVRKYELAPKVLNFAYHYLTSSDLVRRATPYLQQLS 140 G + A+R+ TL LGYL E + + L P+VL + Y S+ L R P+LQQ++ Sbjct: 60 GLSRTAARRYLLTLEHLGYL--HSEGKTFALTPRVLKVGWSYFDSAPLPRILQPFLQQIT 117 Query: 141 QETEETTNLTILDGADVVFVQRIVSRNVLNPNVVTGTRLPAYCTASGLAIMSTLDDAEVD 200 +T E ++LDG D+VF+ R + V+ V G R+PA + G+ ++S L + +V Sbjct: 118 GQTGEAVYASVLDGWDLVFIARNGATRVMTTGFVLGARVPAQLASPGIVMLSALPEQQVR 177 Query: 201 AILDRSDLKMYTPFTIADRGQIKQRLMQFREQGYAHIREEYFLGDISTAAVVRDSRLGRA 260 L + +TP TI D Q+ + Q R+ GYA + ++ G + AV +R + Sbjct: 178 DWLATCAMTPFTPHTITDPDQLYALIAQARQLGYAVVEQQLQTG-VRGIAVPLKNRHAKV 236 Query: 261 LGAVNMAVTTA 271 +GA+++++ A Sbjct: 237 IGALSLSLPMA 247 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 0.317 0.130 0.357 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: 755,012 Number of extensions: 28111 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 108 Number of HSP's successfully gapped: 8 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)