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= 0001.1072.p (297 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 206 3e-54 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 199 3e-52 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 179 2e-46 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 167 1e-42 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 141 5e-35 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 206 bits (523), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 112/295 (37%), Positives = 172/295 (58%), Gaps = 4/295 (1%) Query: 1 MNI---DLNLIRTFVAVYETRSVSAAAKRLNITQPSVSYSLQRLRDLLQDPLFTRTRNGM 57 MNI DLNL++TF+ ++E RS++AAA+RL++TQP+VS++L+RLR++ DPLF R+ + M Sbjct: 4 MNIAAADLNLLKTFIVIWELRSLTAAAERLHLTQPAVSHALRRLREMFDDPLFVRSTSAM 63 Query: 58 LPTFNATQLFATFKGAIDNIQDAISAARQFDPSSSTRRFRIALSDLGESHFLPYLVRELE 117 +PT A +L A+D +Q+A+ QFDP+++TR F + +SD+ SH LP L+ EL Sbjct: 64 VPTETAIRLHEPIARALDILQEALHTHAQFDPATATRTFHLVMSDMSCSHVLPLLMEELA 123 Query: 118 SIAPSVGLEVIQIDSEKIGEWLSTSHIDAAVGNLEFVGAQILKRKLFTESYSCVVSTKHP 177 AP V +EV Q+ E +G + +D A G L + + + + Y C++ +HP Sbjct: 124 HAAPHVSIEVQQMAMENLGAAMRNGDVDLAFGYLPGLPEDCQSQLVLYDDYICMLRREHP 183 Query: 178 TIGNSLSLEQYVAAKHV-VVSPFTGHHLVEDVMSEMGIKPIVALRVPHFTSLLAVVATTD 236 L+LE + ++V V+ TGH L EDV+ G+K VALR+PHFT +V TD Sbjct: 184 LAQGPLTLENLLQLRYVYTVTNTTGHQLAEDVLRNAGVKRDVALRMPHFTVAPQIVRITD 243 Query: 237 LMLTLPSRIAKSFARDGSMRSLPPPIPIPSFDVNLYWYPHSEDAMAQQWFCETII 291 L L LP IA+ D + L P+ +P V++Y + QW +I Sbjct: 244 LALFLPRSIAERNNLDHAFVLLDLPLEMPRIPVSIYTHTRFSGDTGIQWLRSLLI 298 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 199 bits (505), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 109/299 (36%), Positives = 172/299 (57%), Gaps = 4/299 (1%) Query: 2 NIDLNLIRTFVAVYETRSVSAAAKRLNITQPSVSYSLQRLRDLLQDPLFTRTRNGMLPTF 61 N+DLNL+R F A+ + RS++ A RL+++QP+VSY+L RLR + DPLF RT+ GM PT Sbjct: 6 NMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPTP 65 Query: 62 NATQLFATFKGAIDNIQDAISAARQFDPSSSTRRFRIALSDLGESHFLPYLVRELESIAP 121 A +L A+ +QDA+ +FDP+ STR FR +++D+ E FLP L L + AP Sbjct: 66 AALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQAP 125 Query: 122 SVGLEVIQIDSEKIGEWLSTSHIDAAVGNLEFVGAQILKRKLFTESYSCVVSTKHPTIGN 181 V L+V Q+ + E L T +D A GNL + LF E+Y C++ + Sbjct: 126 DVRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKPVTCHELLFRETYVCLMRQRDGLPQR 185 Query: 182 S-LSLEQYVAAKHVVV-SPFTGHHLVEDVMSEMGIKPIVALRVPHFTSLLAVVATTDLML 239 + L L++++A HV+V S + HH VE+ ++G++ ++L +PHFT L ++ +DL+ Sbjct: 186 AQLELDEFLAMSHVLVESAESSHHQVENSFQKLGVQRRISLSIPHFTVLPRILGKSDLVA 245 Query: 240 TLPSRIAKSFARD--GSMRSLPPPIPIPSFDVNLYWYPHSEDAMAQQWFCETIIRALSN 296 T+P+RIA+ F + G S P+ IP +V L+W+ + W + +I L Sbjct: 246 TVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLRQIVIDLLQQ 304 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 179 bits (455), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 94/290 (32%), Positives = 164/290 (56%), Gaps = 6/290 (2%) Query: 2 NIDLNLIRTFVAVYETRSVSAAAKRLNITQPSVSYSLQRLRDLLQDPLFTRTRNGMLPTF 61 +IDLNL+ F V++ R +S+ A+RL ++QP+VS +L RLR +D LF RT GM PT Sbjct: 8 DIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTP 67 Query: 62 NATQLFATFKGAIDNIQDAISAARQFDPSSSTRRFRIALSDLGESHFLPYLVRELESIAP 121 A QL A+ + A++ F P +S RRF IA++D+GE +F+P L+ AP Sbjct: 68 FAEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARCAP 127 Query: 122 SVGLEVIQIDSEKIGEWLSTSHIDAAVGNLEFVGAQILKRKLFTESYSCVVSTKH----P 177 V + ++ + + + + +D A+G + + + +R+LF + Y + H P Sbjct: 128 GVSISTVRAGAIDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHALDKP 187 Query: 178 TIGNSLSLEQYVAAKHVVVSP-FTGHHLVEDVMSEMGIKPIVALRVPHFTSLLAVVATTD 236 G +SL++++AA+H++VS + + + + + GI P V RVPHFT++ +V++T Sbjct: 188 GRGE-VSLKEFLAAEHLMVSSQESPYDRINQNLEKAGILPSVRFRVPHFTAVPYIVSSTA 246 Query: 237 LMLTLPSRIAKSFARDGSMRSLPPPIPIPSFDVNLYWYPHSEDAMAQQWF 286 L++T+P ++A+S A +R + PP+ +PS N++W+ W Sbjct: 247 LVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWL 296 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 167 bits (422), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 90/287 (31%), Positives = 152/287 (52%), Gaps = 2/287 (0%) Query: 2 NIDLNLIRTFVAVYETRSVSAAAKRLNITQPSVSYSLQRLRDLLQDPLFTRTRNGMLPTF 61 N DLNL+ +AV+E RSVSAAA++L+++QP+VS +L +LR L DPLF +T GM PT Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 62 NATQLFATFKGAIDNIQDAISAARQFDPSSSTRRFRIALSDLGESHFLPYLVRELESIAP 121 A L + + + + ++ QF P+++T+RF +ALSD+GE LP L+ + AP Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 122 SVGLEVIQIDSEKIGEWLSTSHIDAAVGNL-EFVGAQILKRKLFTESYSCVVSTKHPTIG 180 + + + ++ L + +D A+G + +++LF++ + C++ HP Sbjct: 123 HASVVTVTMAPAELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLPA 182 Query: 181 NSLSLEQYVAAKHVVV-SPFTGHHLVEDVMSEMGIKPIVALRVPHFTSLLAVVATTDLML 239 +SLE Y AA H+VV + + E + I+ V L HF ++ +VAT+DL+ Sbjct: 183 QKISLEHYQAAGHIVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIPLLVATSDLVA 242 Query: 240 TLPSRIAKSFARDGSMRSLPPPIPIPSFDVNLYWYPHSEDAMAQQWF 286 T+P + R +R + P +P D+ +W+ W Sbjct: 243 TVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWL 289 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 141 bits (356), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 93/299 (31%), Positives = 154/299 (51%), Gaps = 15/299 (5%) Query: 1 MNIDLNLIRTFVAVYETRSVSAAAKRLNITQPSVSYSLQRLRDLLQDPLFTRTRNGMLPT 60 + +DLNL+R F AV ++++ AA L +TQP+VS +L+RLRD L D L RT +G+ PT Sbjct: 4 LTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGVKPT 63 Query: 61 FNATQLFATFKGAIDNIQDAISAARQFDPSSSTRRFRIALSDLGESHFLPYLVRELESIA 120 A +L+ T + A+ ++ A+ A FD S + FR+A+ D + +LP LVR + A Sbjct: 64 PRAEELWPTVRRALSELE-AVIAPESFDISRAQNTFRMAMVDATAALWLPSLVRTIMRDA 122 Query: 121 PSVGLEVIQIDSEKIGEWLSTSHIDAAVGNLEFVGA-----------QILKRKLFTESYS 169 P + + ++ + + L ID AVG V A QI +L+T Y Sbjct: 123 PRIKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQYV 182 Query: 170 CVVSTKHPTIGNSLSLEQYVAAKHVVVSPFTG--HHLVEDVMSEMGIKPIVALRVPHFTS 227 CV+ HP G L+L+ Y A H++VS +G H +++DV++ M + + L V F + Sbjct: 183 CVMHKSHPLAGQPLTLDSYCNADHLLVS-LSGKPHAVIDDVLAGMNRERKILLTVNQFFT 241 Query: 228 LLAVVATTDLMLTLPSRIAKSFARDGSMRSLPPPIPIPSFDVNLYWYPHSEDAMAQQWF 286 +VA+++L+ LP + + ++ P P V++ W+ A +W Sbjct: 242 AGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAHKWL 300 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 0.134 0.386 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: 800,757 Number of extensions: 29424 Number of successful extensions: 174 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 164 Number of HSP's successfully gapped: 13 Length of query: 297 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 212 Effective length of database: 1,217,395 Effective search space: 258087740 Effective search space used: 258087740 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)