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= 0012.0057.p (303 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313630|ref|YP_003777722.1| LysR family transcription regul... 196 2e-51 gi|300312018|ref|YP_003776110.1| transcription regulator protein... 162 4e-41 gi|300313187|ref|YP_003777279.1| transcription regulator protein... 141 7e-35 gi|300313746|ref|YP_003777838.1| LysR family transcription regul... 139 2e-34 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 138 7e-34 >gi|300313630|ref|YP_003777722.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 196 bits (498), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 117/282 (41%), Positives = 160/282 (56%), Gaps = 2/282 (0%) Query: 6 LNDLLGFVTVAREGSFTRAAATLGVTQSALSQAIRGLEERLQIRLLTRTTRSISLTPAGE 65 N+L FV V SF RAA LG++ SALSQ IR LE+R+ RLL RTTRS++ + GE Sbjct: 6 FNELKAFVAVVERQSFVRAAEHLGLSPSALSQTIRQLEDRIGARLLNRTTRSVAPSANGE 65 Query: 66 RLIQSIGNRFDEIEAELDALTALREKPGGTVRITCGDGMIQRVLLPKLAPLLQQYPDIKL 125 L + + F E+ A + + + G +RI + ++ P+LA Q +PD+ L Sbjct: 66 LLYRRVAPLFREMAAAVAQASEATGQMSGRLRINTLGIAARTIIAPRLARFHQAHPDVVL 125 Query: 126 EFDMSYALRDIVADRFDAGVRWGKTIDRDMIAVPIGPPLRMVVAASPEYFTRYPVPLHPN 185 + + L DIVA RFDAG+R G +++DM+A+ + P L MV ASP+Y R VP P Sbjct: 126 DIVVDDTLTDIVAGRFDAGIRVGNRVEKDMVAIRLTPDLNMVAVASPDYLARRGVPRSPK 185 Query: 186 DLMAQDCINQRMPSSGGLYVWDFEKDGEKINVRVDGSLIFNTVPPQIDAALAGLGVVLLP 245 DL CIN R+ G Y W+F+K G+++ V VDG +I N I AAL GLG+ Sbjct: 186 DLHDHTCINWRLQMDGRHYRWEFKKRGQQLEVAVDGPIITNHADIGIAAALGGLGIAYHF 245 Query: 246 E-DDLQSYLESGQLVRVLEDWCPVFEGYHLYYPSRRQPSPAF 286 E D + L G+LV+VL DW G LYYP+ RQ PA Sbjct: 246 ERDGVSELLSQGRLVQVLADWSISRPGLFLYYPN-RQHRPAL 286 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 162 bits (409), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 99/292 (33%), Positives = 151/292 (51%), Gaps = 1/292 (0%) Query: 5 NLNDLLGFVTVAREGSFTRAAATLGVTQSALSQAIRGLEERLQIRLLTRTTRSISLTPAG 64 +DL FVT+ R GSF AA LG+T SA S A++ LEERL +LL R++R+IS T AG Sbjct: 8 EFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAG 67 Query: 65 ERLIQSIGNRFDEIEAELDALTALREKPGGTVRITCGDGMIQRVLLPKLAPLLQQYPDIK 124 L + F++I A L L + G +RI ++ P + ++Q P ++ Sbjct: 68 SELAARLEQGFEQIGAALSQLDSSAAGSLGELRINVFADAAHLLIEPAIPEFVRQCPKVR 127 Query: 125 LEFDMSYALRDIVADRFDAGVRWGKTIDRDMIAVPIGPPLRMVVAASPEYFTRYPVPLHP 184 L + DIV++ +DAG+R+G + M+ P+ R V AA+P Y R+ PL Sbjct: 128 LTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTL 187 Query: 185 NDLMAQDCINQRMPSSGGLYVWDFEKDGEKINVRVDGSLIFNTVPPQIDAALAGLGVVLL 244 DL C+ Q + Y W+F + + +RV G + N I AA AG+G+ L Sbjct: 188 QDLQQHTCL-QLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYL 246 Query: 245 PEDDLQSYLESGQLVRVLEDWCPVFEGYHLYYPSRRQPSPAFSLVVNALRYE 296 E + +E G L +LE+W E +H+YY SRR PA +++ +R + Sbjct: 247 LEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDIIRLQ 298 >gi|300313187|ref|YP_003777279.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 141 bits (355), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 88/271 (32%), Positives = 141/271 (52%), Gaps = 4/271 (1%) Query: 12 FVTVAREGSFTRAAATLGVTQSALSQAIRGLEERLQIRLLTRTTRSISLTPAGERLIQSI 71 FV A GSF+ AA LG+T +A+ + + LE L +RL R+TR +SLT AGER +Q + Sbjct: 10 FVAAAHAGSFSAAARQLGLTSAAVGKNVARLESSLGVRLFHRSTRKLSLTEAGERFLQEV 69 Query: 72 GNRFDEIEAELDALTALREKPGGTVRITCGDGMIQRVLLPKLAPLLQQYPDIKLEFDMSY 131 G I + + L + +P GT++++ G G ++ ++P L L +YP I+ ++ Sbjct: 70 GGGLQAIRSAVANLASAGGQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFEN 129 Query: 132 ALRDIVADRFDAGVRWGKTIDRDMIAVPIGPPLRMVVAASPEYFTRYPVPLH-PNDLMAQ 190 D++++ FDA + G + ++A + P R V+ ASP Y +P PLH P DL Sbjct: 130 RPVDLISEGFDAAIAGGTELSPGVVARELAPAHR-VLLASPAYLDAHP-PLHSPADLAEH 187 Query: 191 DCINQRMPSSGGLYVWDF-EKDGEKINVRVDGSLIFNTVPPQIDAALAGLGVVLLPEDDL 249 I R P +G + + ++ G++ V + + + + A AGLG+ L+ Sbjct: 188 AGILIRSPQTGRVRPFSLRDRSGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVAMPHA 247 Query: 250 QSYLESGQLVRVLEDWCPVFEGYHLYYPSRR 280 YLE G LVRVL DW LY+ + R Sbjct: 248 LPYLEGGTLVRVLPDWYVDTGMLSLYFTAAR 278 >gi|300313746|ref|YP_003777838.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 139 bits (351), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 95/284 (33%), Positives = 145/284 (51%), Gaps = 2/284 (0%) Query: 11 GFVTVAREGSFTRAAATLGVTQSALSQAIRGLEERLQIRLLTRTTRSISLTPAGERLIQS 70 F V G+FTRAA +L + + LS+ +R LE L +RLL RTTR +S+TP G + Sbjct: 9 AFARVVEAGNFTRAADSLDMPNATLSKLVRELEAHLGVRLLQRTTRRVSVTPEGLDYYEK 68 Query: 71 IGNRFDEIEAELDALTALREKPGGTVRITCGDGMIQRVLLPKLAPLLQQYPDIKLEFDMS 130 G ++E + A R P G +RI G + VL+P L L +YPDI ++ +S Sbjct: 69 TGRLVRDLEDIDTSFNAARGNPRGKLRIDVGGSTARDVLIPALPDFLARYPDISIDLGVS 128 Query: 131 YALRDIVADRFDAGVRWGKTIDRDMIAVPIGPPLRMVVAASPEYFTRYPVPLHPNDLM-A 189 D++ D D +R G + ++A IG RMV A+P Y ++ VP +P++L Sbjct: 129 DRPVDLIGDSVDCVIRGGPLDNSSLVARQIGQA-RMVTCATPAYLKQFGVPAYPDELKNG 187 Query: 190 QDCINQRMPSSGGLYVWDFEKDGEKINVRVDGSLIFNTVPPQIDAALAGLGVVLLPEDDL 249 I+ P SG + + FE+ GEKI ++ + + N + AALAGLG+V Sbjct: 188 HRLISYLSPQSGRAFPFRFERKGEKIEIKTEHRIGVNESNAHLAAALAGLGIVQTFRYAA 247 Query: 250 QSYLESGQLVRVLEDWCPVFEGYHLYYPSRRQPSPAFSLVVNAL 293 L G+LV +L W P +H+ YP+ R S + ++ L Sbjct: 248 GPALARGELVEILTKWRPAPYPFHVVYPNNRHVSHRLRVFIDWL 291 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 138 bits (347), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 93/284 (32%), Positives = 137/284 (48%), Gaps = 9/284 (3%) Query: 12 FVTVAREGSFTRAAATLGVTQSALSQAIRGLEERLQIRLLTRTTRSISLTPAG----ERL 67 F V SFTRAA L + ++ ++ ++GLE LQ+RLL RTTR ISLTP G ER Sbjct: 10 FTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTPDGAAYYERC 69 Query: 68 IQSIGNRFDEIEAELDALTALREKPGGTVRITCGDGMIQRVLLPKLAPLLQQYPDIKLEF 127 ++ + + DE E +T P G +RI + + +LLP L +YPDI+L Sbjct: 70 VRILAD-LDETEQSFRNVT---RGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIELMM 125 Query: 128 DMSYALRDIVADRFDAGVRWGKTIDRDMIAVPIGPPLRMVVAASPEYFTRYPVPLHPNDL 187 M D+V + D +R G+ D M+A IG + V A+P Y R+ VP DL Sbjct: 126 GMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIG-TFQTVTCAAPAYLERHGVPHTIEDL 184 Query: 188 MAQDCINQRMPSSGGLYVWDFEKDGEKINVRVDGSLIFNTVPPQIDAALAGLGVVLLPED 247 ++ +G WDF +G V+++G L N ++ AL G G+V P Sbjct: 185 QQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQAPLY 244 Query: 248 DLQSYLESGQLVRVLEDWCPVFEGYHLYYPSRRQPSPAFSLVVN 291 + +++ G+LV VL W P + Y R SP V+ Sbjct: 245 MVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVD 288 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 0.140 0.414 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: 888,201 Number of extensions: 36091 Number of successful extensions: 256 Number of sequences better than 1.0e-08: 57 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 57 Length of query: 303 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 218 Effective length of database: 1,217,395 Effective search space: 265392110 Effective search space used: 265392110 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)