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= 0001.3670.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 546 e-156 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 186 2e-48 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 165 3e-42 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 150 1e-37 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 144 7e-36 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 546 bits (1406), Expect = e-156, Method: Compositional matrix adjust. Identities = 269/301 (89%), Positives = 283/301 (94%) Query: 1 MIRLEDLTIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 MIRLEDL IFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP Sbjct: 1 MIRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 Query: 61 DGERYLQYARNVLAEVNAGRDAVAHGRRVVGGTLSLSVPSDFGRNLMCQWLDEFQAQHPA 120 DGERYLQ+ARNVLAEVNAGRDAVAHGRRV+GG LSLS PSDFGRNL+ QWLDEFQAQHPA Sbjct: 61 DGERYLQHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPA 120 Query: 121 VNLQVRISDRVADMFRQPVEVAIRYSPPEDSSLVALALAPDNRRVLCASPDYLARHGRPR 180 V+LQV +SDRVADM+RQPV+VAIRYS P+DSSLVAL LAPDNRRVLCASPDYLARHGRPR Sbjct: 121 VSLQVHVSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLARHGRPR 180 Query: 181 SPADLRQHNCLRYLLSDTLHSQWTFFKDGTPLQMQVSGDRVCDDGELVHRWAVDGRGIAY 240 SPADLRQHNCLRY+LSDTLHSQW FFKD P+Q+QVSGDR CDDGELV RWAV+GRGIAY Sbjct: 181 SPADLRQHNCLRYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDGELVRRWAVNGRGIAY 240 Query: 241 KSRLDVLADLRNGRLEALLPDYVGEASPLNLVCTHRMSLSPTVRALRELLGERIGRYLTD 300 KSRLDVLADLRNGRLEALL DY GE SPL+LVCTHRM +SPTVRALRELLGERI RYL D Sbjct: 241 KSRLDVLADLRNGRLEALLEDYEGEPSPLHLVCTHRMCVSPTVRALRELLGERIARYLKD 300 Query: 301 R 301 R Sbjct: 301 R 301 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 186 bits (473), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 106/290 (36%), Positives = 165/290 (56%), Gaps = 2/290 (0%) Query: 1 MIRLEDLTIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 M + + ++ F A GSLSAAAR + PA+ + LE LG +LL R+TR + LT Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 DGERYLQYARNVLAEVNAGRDAVAHGRRVVGGTLSLSVPSDFGRNLMCQWLDEFQAQHPA 120 +G +L+ + +LA++ AV+ G L +S P+ FGR + L F A+H Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VNLQVRISDRVADMFRQPVEVAIRYSPPEDSSLVALALAPDNRRVLCASPDYLARHGRPR 180 V L + ++DR+AD+ + ++VAIR + DS+LV++ LA +N RV+ A+P YL RHG P+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLA-ENHRVIVAAPAYLRRHGTPQ 179 Query: 181 SPADLRQHNCLRYLLSDTLHSQWTFFKDGTPLQMQVSGDRVCDDGELVHRWAVDGRGIAY 240 SP +L +HNCL + S+ WT + G +V G+ VC+DGE++H WA+ GRG+A+ Sbjct: 180 SPDELMRHNCL-AMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAW 238 Query: 241 KSRLDVLADLRNGRLEALLPDYVGEASPLNLVCTHRMSLSPTVRALRELL 290 +S +V A + G L +L + A + V R L +RA + L Sbjct: 239 RSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFL 288 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 165 bits (418), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 93/263 (35%), Positives = 141/263 (53%), Gaps = 1/263 (0%) Query: 4 LEDLTIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTPDGE 63 LEDL +F A + S + +AR+ +PA S + LE LG RL R+TRS+ +T +G Sbjct: 7 LEDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGG 66 Query: 64 RYLQYARNVLAEVNAGRDAVAHGRRVVGGTLSLSVPSDFGRNLMCQWLDEFQAQHPAVNL 123 ++AR +L +V + V+ +RV G L +S GR ++ L F ++HP + + Sbjct: 67 NVHEWARRILDDVEQMMETVSSAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEHPELKI 126 Query: 124 QVRISDRVADMFRQPVEVAIRYSPPEDSSLVALALAPDNRRVLCASPDYLARHGRPRSPA 183 Q+ + DR D+ + +++ IR + L + + P ++RVLCASP YL +HG P A Sbjct: 127 QLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILP-SQRVLCASPAYLKKHGLPADLA 185 Query: 184 DLRQHNCLRYLLSDTLHSQWTFFKDGTPLQMQVSGDRVCDDGELVHRWAVDGRGIAYKSR 243 LRQH CL + W ++VSG + GE++H+WAVDG GI +S Sbjct: 186 ALRQHQCLVIRERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQWAVDGHGIILRSA 245 Query: 244 LDVLADLRNGRLEALLPDYVGEA 266 DV L+ GRL +LP Y EA Sbjct: 246 WDVADSLKRGRLVRVLPQYYQEA 268 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 150 bits (380), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 95/295 (32%), Positives = 151/295 (51%), Gaps = 3/295 (1%) Query: 1 MIRLEDLTIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 M RL+ + +F + GS AA D++ AVA+ + LE LG RLL RSTR L LT Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 DGERYLQYARNVLAEVNAGRDAVAHGRRVVGGTLSLSVPSDFGRNLMCQWLDEFQAQHPA 120 G+ YL+ R +LAEV+ V+ + GTL++ + FG++ + + L + +P Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 VNLQVRISDRVADMFRQPVEVAIRYSPPE-DSSLVALALAPDNRRVLCASPDYLARHGRP 179 V L + +S+R D+ + +++ S + D+S++ L R +LC SP Y+AR G P Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGV-ARVILCTSPAYIARQGAP 179 Query: 180 RSPADLRQHNCLRYLLSDTLHSQWTFFKDGTPLQMQVSGDRVCDDGELVHRWAVDGRGIA 239 P DL +HNCL + + L W +G L + + V + G L+ A+ G GI Sbjct: 180 EQPEDLSRHNCLNF-SHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIV 238 Query: 240 YKSRLDVLADLRNGRLEALLPDYVGEASPLNLVCTHRMSLSPTVRALRELLGERI 294 + + DLR+GRL +LP + +++V R LS VR+ E + R Sbjct: 239 LRPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFISARF 293 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 144 bits (364), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 95/292 (32%), Positives = 147/292 (50%), Gaps = 4/292 (1%) Query: 2 IRLEDLTIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTPD 61 ++L + +F AA+ GS +AAA +TPA S ++ RLE LG RL AR+TR +RLT + Sbjct: 7 VQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTRE 66 Query: 62 GERYLQYARNVLAEVNAGRDAVAHGRRVVGGTLSLSVPSDFGRNLMCQWLDEFQAQHPAV 121 GE Y + L ++ + ++V G L +SV + + + L FQ +P + Sbjct: 67 GELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQI 126 Query: 122 NLQVRISDRVADMFRQPVEVAIRYSPPEDSSLVALALAPDNRRVLCASPDYLARHGRPRS 181 +++ I++RV D + ++AIR P DS L+A L + L A+P YLAR G+PRS Sbjct: 127 EVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLE-EATLGLFAAPAYLARRGQPRS 185 Query: 182 PADLRQHNCLRYLLSDTLHSQWTFFKDGTPLQMQV---SGDRVCDDGELVHRWAVDGRGI 238 A+L QH+C++++L + + FKD M S R+ DD WA+ G G+ Sbjct: 186 IAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGL 245 Query: 239 AYKSRLDVLADLRNGRLEALLPDYVGEASPLNLVCTHRMSLSPTVRALRELL 290 A +R G L +L +++ H LS VRA E L Sbjct: 246 FQIYHFIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFL 297 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 0.408 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: 987,940 Number of extensions: 42335 Number of successful extensions: 262 Number of sequences better than 1.0e-08: 50 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 50 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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)