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= 0025.0096.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|300312554|ref|YP_003776646.1| transcription regulator protein... 593 e-171 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 134 1e-32 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 124 1e-29 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 107 1e-24 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 104 1e-23 >gi|300312554|ref|YP_003776646.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 593 bits (1529), Expect = e-171, Method: Compositional matrix adjust. Identities = 282/311 (90%), Positives = 298/311 (95%) Query: 1 MSRLPDHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR 60 MSRLPDHLD+HLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR Sbjct: 1 MSRLPDHLDLHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR 60 Query: 61 GMVPTQHGESLLKPAKRILDETERLFVPKTAFVPQEEARTFHIAAPDYMNTPFFTEVIAR 120 GMVPTQHGESLLKPAKRILDETERLF+PKT FVPQEE R FHIAAPDYMNTPFFTEVIAR Sbjct: 61 GMVPTQHGESLLKPAKRILDETERLFIPKTEFVPQEEERIFHIAAPDYMNTPFFTEVIAR 120 Query: 121 LRRESPKSHIVIHALGPETDYVRLLSDGELDLVIANWDEPPPHLHLSKLFDDPIVCLMRS 180 LRRESP+S IVIHALGP+TDYVR LSDGELDLVIANWD PP HLHLSKLFDDPIVCLMR+ Sbjct: 121 LRRESPRSRIVIHALGPDTDYVRRLSDGELDLVIANWDAPPAHLHLSKLFDDPIVCLMRA 180 Query: 181 DCAYAKRTAKDAMTIEDYLTLPHAAPSQILPGYHGTIDTFLEKQNLHRNVVVESAHFRML 240 DCAYA+RTA++AM++EDYL+LPHAAPSQILPGYHG+ID+FLEKQNL RNVVVESAHFRML Sbjct: 181 DCAYARRTAREAMSVEDYLSLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRML 240 Query: 241 PYMVAQTDLVLSAGQQFASFYEKTLSLKSYSVPIKFPPLRFYQLWHERVHQATEHKWLRA 300 PYMVAQTDLVL+AGQQFASFYEK LSLKSY+VPIKFPPLRFYQLWHER HQATEHKWLRA Sbjct: 241 PYMVAQTDLVLTAGQQFASFYEKLLSLKSYAVPIKFPPLRFYQLWHERSHQATEHKWLRA 300 Query: 301 QVSAAAKMLVN 311 QV AAAK+L Sbjct: 301 QVGAAAKLLAQ 311 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 134 bits (336), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 87/303 (28%), Positives = 142/303 (46%), Gaps = 15/303 (4%) Query: 7 HLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPTQ 66 + D++L+ I + E++VS A KL+ QP++S +L KLR GDPL V+ RGM PT Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 67 HGESLLKPAKRILDETERLFVPKTAFVPQEEARTFHIAAPDYMNTPFFTEVIARLRRESP 126 SL+ P + IL + F P + F +A D ++ R+R E+P Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 127 KSHIVIHALGPETDYVRLLSDGELDLVIANW-DEPPPHLHLSKLFDDPIVCLMRSDCAYA 185 + +V + P + V L GE+DL I + D + +LF VCL+R+ Sbjct: 123 HASVVTVTMAP-AELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLP 181 Query: 186 KRTAKDAMTIEDYLTLPHAAPSQILPGYHG----TIDTFLEKQNLHRNVVVESAHFRMLP 241 + +++E Y H I+ G + FL ++ + R VV+ +AHF +P Sbjct: 182 AQK----ISLEHYQAAGH-----IVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIP 232 Query: 242 YMVAQTDLVLSAGQQFASFYEKTLSLKSYSVPIKFPPLRFYQLWHERVHQATEHKWLRAQ 301 +VA +DLV + + F F + ++ + P L Q WH + H+ + WLR Sbjct: 233 LLVATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGL 292 Query: 302 VSA 304 +A Sbjct: 293 AAA 295 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 124 bits (311), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 87/300 (29%), Positives = 137/300 (45%), Gaps = 5/300 (1%) Query: 5 PDHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVP 64 P +D++L+ + + E+ +S VA +L QP++S +L +LR D L VR A+GM P Sbjct: 6 PRDIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQP 65 Query: 65 TQHGESLLKPAKRILDETERLFVPKTAFVPQEEARTFHIAAPDYMNTPFFTEVIARLRRE 124 T E L +P L + R + F PQ AR F IA D F +I R Sbjct: 66 TPFAEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARC 125 Query: 125 SPKSHIVIHALGPETDYVRLLSDGELDLVIANWDEPPPHLHLSKLFDDPIVCLMRSDCAY 184 +P I G D + G +DL I +D L+ +LF V + R A Sbjct: 126 APGVSISTVRAGA-IDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHAL 184 Query: 185 AKRTAKDAMTIEDYLTLPH-AAPSQILPGYHGTIDTFLEKQNLHRNVVVESAHFRMLPYM 243 K + ++++++L H SQ P + I+ LEK + +V HF +PY+ Sbjct: 185 DK-PGRGEVSLKEFLAAEHLMVSSQESP--YDRINQNLEKAGILPSVRFRVPHFTAVPYI 241 Query: 244 VAQTDLVLSAGQQFASFYEKTLSLKSYSVPIKFPPLRFYQLWHERVHQATEHKWLRAQVS 303 V+ T LV++ ++ A L+ P++ P L+ WH R +Q + WLR +S Sbjct: 242 VSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFIS 301 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 71/296 (23%), Positives = 131/296 (44%), Gaps = 7/296 (2%) Query: 6 DHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPT 65 +++D++L+R+ + E++++ +L+ QP++S +L +LR++ DPL +R GM PT Sbjct: 5 NNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPT 64 Query: 66 QHGESLLKPAKRILDETERLFVPKTAFVPQEEARTFHIAAPDYMNTPFFTEVIARLRRES 125 L KP R L + F P + R F + D F ++ L ++ Sbjct: 65 PAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQA 124 Query: 126 PKSHIVIHALGPETDYVRLLSDGELDLVIANWDEPPPHLHLSKLFDDPIVCLMRSDCAYA 185 P + + + P L G+LD N P LF + VCLMR Sbjct: 125 PDVRLQVEQV-PPAHLEEALRTGQLDFAFGNLPALKPVTCHELLFRETYVCLMRQRDGLP 183 Query: 186 KRTAKDAMTIEDYLTLPHAAPSQILPGYHGTIDTFLEKQNLHRNVVVESAHFRMLPYMVA 245 +R + ++++L + H +H ++F +K + R + + HF +LP ++ Sbjct: 184 QRA---QLELDEFLAMSHVLVESAESSHHQVENSF-QKLGVQRRISLSIPHFTVLPRILG 239 Query: 246 QTDLVLSAGQQFASFY--EKTLSLKSYSVPIKFPPLRFYQLWHERVHQATEHKWLR 299 ++DLV + + A + E SY +P+ P + WH+ + WLR Sbjct: 240 KSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLR 295 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 81/309 (26%), Positives = 137/309 (44%), Gaps = 20/309 (6%) Query: 8 LDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPTQH 67 LD++L+R+ ++ E+N++R A L QP++S +LR+LR+ D L++R A G+ PT Sbjct: 6 LDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGVKPTPR 65 Query: 68 GESLLKPAKRILDETERLFVPKTAFVPQEEARTFHIAAPDYMNTPFFTEVIARLRRESPK 127 E L +R L E E + P++ F TF +A D + ++ + R++P+ Sbjct: 66 AEELWPTVRRALSELEAVIAPES-FDISRAQNTFRMAMVDATAALWLPSLVRTIMRDAPR 124 Query: 128 SHIVIHALGPETDYVRLLSDGELDLVIA-----------NWDEPPPHLHLSKLFDDPIVC 176 I + L LL G++DL + + ++L+ VC Sbjct: 125 IKIRMMPLTTRDPRAMLLR-GDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQYVC 183 Query: 177 LMRSDCAYAKRTAKDAMTIEDYLTLPHAAPSQILPGY-HGTIDTFLEKQNLHRNVVVESA 235 +M A + +T++ Y H S L G H ID L N R +++ Sbjct: 184 VMHKSHPLAGQ----PLTLDSYCNADHLLVS--LSGKPHAVIDDVLAGMNRERKILLTVN 237 Query: 236 HFRMLPYMVAQTDLVLSAGQQFASFYEKTLSLKSYSVPIKFPPLRFYQLWHERVHQATEH 295 F +VA ++L+ + + +L +P + P LWHER + H Sbjct: 238 QFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAH 297 Query: 296 KWLRAQVSA 304 KWLRA +SA Sbjct: 298 KWLRAHLSA 306 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 0.322 0.136 0.409 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: 973,095 Number of extensions: 39135 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 11 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)