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= 0025.0083.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312334|ref|YP_003776426.1| transcription regulator protein... 343 1e-95 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 225 3e-60 gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 193 1e-50 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 187 1e-48 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 178 4e-46 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 343 bits (880), Expect = 1e-95, Method: Compositional matrix adjust. Identities = 153/302 (50%), Positives = 216/302 (71%), Gaps = 1/302 (0%) Query: 1 MDKLKQIEAFVSVVEKGSLAAAALEENITPVMLGRRIDALEKRLGTKLMHRTTRHLTLTE 60 MD+ KQI F V +GSL+AAA E I P M+GRR+DALE+RLG KL+ RTTR + LT Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 QGSVFLDHCRKLLGDIEVAEKSIAEGRHKATGHLVVSTPAAYGRLHVAPHAPTFLANHPE 120 +G+ FL+ C+++L D+E AE +++E +A+G L++S PA +GR HVAP P+FLA H + Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VQISFNLTDRVVDLVREGYDLGIRIGGAIEPSFVAVKLAGNRRVVCAAPEYLHRNGIPKT 180 V ++ NL DR+ D++ EG D+ IRI + + V+VKLA N RV+ AAP YL R+G P++ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 LDDLARHNCLAFNLQGGQQRGWYFQQNGKPVIIRAQGNLDCNDGELLHRWASEGLGLAWR 240 D+L RHNCLA + + G QRGW +Q+GK + + GN+ CNDGE+LH WA G GLAWR Sbjct: 181 PDELMRHNCLAMSSE-GSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWR 239 Query: 241 STWEIQSQLASGELITVLDEYALPHYDIMAVYPQQRHLPAKTRFFIDYLKEVYSQPDYWT 300 S WE+ + + +GEL+TVLD++A P I AV+ Q+RHLP + R F+D+L+ Y+QPDYW Sbjct: 240 SMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDYWK 299 Query: 301 RS 302 ++ Sbjct: 300 KT 301 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 225 bits (574), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 111/295 (37%), Positives = 175/295 (59%), Gaps = 1/295 (0%) Query: 1 MDKLKQIEAFVSVVEKGSLAAAALEENITPVMLGRRIDALEKRLGTKLMHRTTRHLTLTE 60 M+KL++IE F++V + GS AA I+ + R + LE RLG++LM RTTR L+LTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 QGSVFLDHCRKLLGDIEVAEKSIAEGRHKATGHLVVSTPAAYGRLHVAPHAPTFLANHPE 120 G+++L+ C++++ +E A+ ++ G K TG L ++ P +G LH+AP P FL HPE Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VQISFNLTDRVVDLVREGYDLGIRIGGAIEPSFVAVKLAGNRRVVCAAPEYLHRNGIPKT 180 + + L+DR+VD++ EGYD+ IRI + + V KL VCA+P YL +G P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 LDDLARHNCLAFNLQGGQQRGWYFQQNGKPVIIRAQGNLDCNDGELLHRWASEGLGLAWR 240 +LA+H ++++ + W F PV +R L N+G+ + A G+G+ + Sbjct: 181 PHELAQHQTISYSYNQSKDE-WQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQ 239 Query: 241 STWEIQSQLASGELITVLDEYALPHYDIMAVYPQQRHLPAKTRFFIDYLKEVYSQ 295 T+ I L SG+L+++L +Y P I AVYP + HLPAK R +D+L E ++Q Sbjct: 240 PTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQ 294 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 193 bits (490), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 96/262 (36%), Positives = 155/262 (59%), Gaps = 1/262 (0%) Query: 1 MDKLKQIEAFVSVVEKGSLAAAALEENITPVMLGRRIDALEKRLGTKLMHRTTRHLTLTE 60 M +L+ + FV + GSL+AAA + ++TP + + LE LG +L+ R+TR L LT Sbjct: 1 MIRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 Query: 61 QGSVFLDHCRKLLGDIEVAEKSIAEGRHKATGHLVVSTPAAYGRLHVAPHAPTFLANHPE 120 G +L H R +L ++ ++A GR G+L +S P+ +GR + F A HP Sbjct: 61 DGERYLQHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPA 120 Query: 121 VQISFNLTDRVVDLVREGYDLGIRIGGAIEPSFVAVKLA-GNRRVVCAAPEYLHRNGIPK 179 V + +++DRV D+ R+ D+ IR + S VA+ LA NRRV+CA+P+YL R+G P+ Sbjct: 121 VSLQVHVSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLARHGRPR 180 Query: 180 TLDDLARHNCLAFNLQGGQQRGWYFQQNGKPVIIRAQGNLDCNDGELLHRWASEGLGLAW 239 + DL +HNCL + L W F ++ +PV ++ G+ C+DGEL+ RWA G G+A+ Sbjct: 181 SPADLRQHNCLRYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDGELVRRWAVNGRGIAY 240 Query: 240 RSTWEIQSQLASGELITVLDEY 261 +S ++ + L +G L +L++Y Sbjct: 241 KSRLDVLADLRNGRLEALLEDY 262 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 187 bits (474), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 102/289 (35%), Positives = 158/289 (54%), Gaps = 3/289 (1%) Query: 4 LKQIEAFVSVVEKGSLAAAALEENITPVMLGRRIDALEKRLGTKLMHRTTRHLTLTEQGS 63 L+ + F V S A +A E +P + +RI LE+ LG +L HRTTR + +TE+G Sbjct: 7 LEDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGG 66 Query: 64 VFLDHCRKLLGDIEVAEKSIAEGRHKATGHLVVSTPAAYGRLHVAPHAPTFLANHPEVQI 123 + R++L D+E ++++ + G L +ST GR V+P F + HPE++I Sbjct: 67 NVHEWARRILDDVEQMMETVSSAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEHPELKI 126 Query: 124 SFNLTDRVVDLVREGYDLGIRIGGAIEPSFVAVKLAGNRRVVCAAPEYLHRNGIPKTLDD 183 L DR +DLV EG DL IR+G EP + ++ ++RV+CA+P YL ++G+P L Sbjct: 127 QLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPAYLKKHGLPADLAA 186 Query: 184 LARHNCLAFNLQGGQQRGWYFQQNGKPV-IIRAQGNLDCNDGELLHRWASEGLGLAWRST 242 L +H CL + Q G + K V ++ G L N GE++H+WA +G G+ RS Sbjct: 187 LRQHQCLVIR-ERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQWAVDGHGIILRSA 245 Query: 243 WEIQSQLASGELITVLDEYALPHYDIMAVYPQQRHLPAKTRFFIDYLKE 291 W++ L G L+ VL +Y D+ AVYP Q AK R + +L++ Sbjct: 246 WDVADSLKRGRLVRVLPQY-YQEADLCAVYPLQLKNSAKVRECVRFLQK 293 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 178 bits (452), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 105/305 (34%), Positives = 166/305 (54%), Gaps = 4/305 (1%) Query: 1 MDKLKQIEAFVSVVEKGSLAAAALEENITPVMLGRRIDALEKRLGTKLMHRTTRHLTLTE 60 MD+ Q E FV V E GSL+ AA ++ R + ALE+RLG +L+ R+TR L L+ Sbjct: 1 MDRWSQFELFVQVAELGSLSRAAEALGLSNAAASRALAALEQRLGARLVERSTRRLGLSR 60 Query: 61 QGSVFLDHCRKLLGDIEVAEKSIAEGRHKATGHLVVSTPAAYGRLHVAPHAPTFLANHPE 120 G F HC+ L ++ AE+ + +G L +++ ++ H++P P F +PE Sbjct: 61 AGEDFYRHCKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPE 120 Query: 121 VQISFNLTDRVVDLVREGYDLGIRIGGAIEPSFVAVK-LAGNRRVVCAAPEYLHRNGIPK 179 V++ +R +DL+ DL IR + +AV+ LA RR++ AAP YL G P+ Sbjct: 121 VRLEVIAANRYMDLLDSDIDLAIRTREFEPDANIAVRRLATTRRILAAAPGYLAARGTPR 180 Query: 180 TLDDLARHNCLAFNLQGGQQRGWYFQQNGKPVIIRAQGNLDCNDGELLHRWASEGLGLAW 239 TLDDLA+H+ L ++ R ++G + + + NDG+++ A EGLG+ Sbjct: 181 TLDDLAQHDLLVYSHAKEPNRLHLSGRDGSQRTLEIKSLMQSNDGQIIRAAALEGLGILI 240 Query: 240 RSTWEIQSQLASGELITVLDEYALPHYDIMAVYPQQRHLPAKTRFFIDYLKEVYSQPDY- 298 + + I + +G L+ VLDE+ LP I Y ++HLPA+ R FID+L + + + DY Sbjct: 241 QPNYIIYDDIVAGRLVPVLDEWDLPRLSINIAYQGRKHLPARVRVFIDFLVQHFEEMDYE 300 Query: 299 --WTR 301 WTR Sbjct: 301 RKWTR 305 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 0.137 0.417 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: 985,478 Number of extensions: 42829 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 172 Number of HSP's successfully gapped: 44 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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)