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= 0028.0069.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 251 4e-68 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 226 2e-60 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 209 3e-55 gi|300310469|ref|YP_003774561.1| LysR family transcription regul... 187 9e-49 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 179 3e-46 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 251 bits (642), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 125/284 (44%), Positives = 185/284 (65%), Gaps = 1/284 (0%) Query: 8 DLAFFVVLAKLGSLSGTARELGLTPPAVTKRLMMLEQRLGVRLVNRTTRRFSLTSEGESY 67 DL F V+A+ S +G+ARE+G +P ++KR+ +LEQ LGVRL +RTTR +T EG + Sbjct: 9 DLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGGNV 68 Query: 68 LAQATQILDRIRDMEESVSSGRAAPKGLLRVNATPGFGRTRIAPLVSRFAHDHPDVEVEL 127 A +ILD + M E+VSS + P+GLL+++ + G GR ++PL+SRFA +HP+++++L Sbjct: 69 HEWARRILDDVEQMMETVSSAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEHPELKIQL 128 Query: 128 QLTDRPISLVEEAYDLAIRFGELPDTRLSARKLMSNKRFLCASPAYLKKAGEPLTPEELH 187 +L DR I LV E DL IR G + L +++++ ++R LCASPAYLKK G P L Sbjct: 129 ELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPAYLKKHGLPADLAALR 188 Query: 188 RHRCILHRQNDDVYGTWRLEKGKKIELVKVRGAVSSNDGDVVMNWALEGHGIVQRSEWDA 247 +H+C++ R+ + +G WR+ K +E VKV G ++SN G+++ WA++GHGI+ RS WD Sbjct: 189 QHQCLVIRERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQWAVDGHGIILRSAWDV 248 Query: 248 AKYLASGRLKEVMPGYALPSANLYVYYLSRRNLPAKVRSFVDFL 291 A L GRL V+P Y + VY L +N AKVR V FL Sbjct: 249 ADSLKRGRLVRVLPQYYQEADLCAVYPLQLKN-SAKVRECVRFL 291 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 226 bits (576), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 115/290 (39%), Positives = 170/290 (58%), Gaps = 1/290 (0%) Query: 9 LAFFVVLAKLGSLSGTARELGLTPPAVTKRLMMLEQRLGVRLVNRTTRRFSLTSEGESYL 68 ++ F +A GSLS AR G+ P + +RL LE+RLGV+L+ RTTR+ LT+EG ++L Sbjct: 7 ISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEGAAFL 66 Query: 69 AQATQILDRIRDMEESVSSGRAAPKGLLRVNATPGFGRTRIAPLVSRFAHDHPDVEVELQ 128 +IL + D E +VS A G L ++A GFGR +APL+ F +H DV + L Sbjct: 67 EDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVTLTLN 126 Query: 129 LTDRPISLVEEAYDLAIRFGELPDTRLSARKLMSNKRFLCASPAYLKKAGEPLTPEELHR 188 L DR ++ E D+AIR L D+ L + KL N R + A+PAYL++ G P +P+EL R Sbjct: 127 LNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPDELMR 186 Query: 189 HRCILHRQNDDVYGTWRLEKGKKIELVKVRGAVSSNDGDVVMNWALEGHGIVQRSEWDAA 248 H C+ G W L + K+ + KV G + NDG+V+ NWAL G G+ RS W+ Sbjct: 187 HNCLAMSSEGSQRG-WTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRSMWEVG 245 Query: 249 KYLASGRLKEVMPGYALPSANLYVYYLSRRNLPAKVRSFVDFLVAEFKGP 298 + +G L V+ +A P+ ++Y + RR+LP ++R+FVDFL + P Sbjct: 246 AAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQP 295 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 209 bits (531), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 111/288 (38%), Positives = 165/288 (57%), Gaps = 1/288 (0%) Query: 8 DLAFFVVLAKLGSLSGTARELGLTPPAVTKRLMMLEQRLGVRLVNRTTRRFSLTSEGESY 67 ++ F+ +A LGS A LG++ AV++ ++ LE RLG RL+ RTTRR SLT G Y Sbjct: 6 EIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALY 65 Query: 68 LAQATQILDRIRDMEESVSSGRAAPKGLLRVNATPGFGRTRIAPLVSRFAHDHPDVEVEL 127 L + QI+ + + ++ +SSG A P GLLR+NA FG +APL F HP++ +++ Sbjct: 66 LERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDI 125 Query: 128 QLTDRPISLVEEAYDLAIRFGELPDTRLSARKLMSNKRFLCASPAYLKKAGEPLTPEELH 187 L+DR + +++E YD+AIR L D+ L RKL S +CASPAYL G P P EL Sbjct: 126 TLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHELA 185 Query: 188 RHRCILHRQNDDVYGTWRLEKGKKIELVKVRGAVSSNDGDVVMNWALEGHGIVQRSEWDA 247 +H+ I + N W+ + V+V + N+GD + AL G GI ++ + Sbjct: 186 QHQTISYSYNQS-KDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMI 244 Query: 248 AKYLASGRLKEVMPGYALPSANLYVYYLSRRNLPAKVRSFVDFLVAEF 295 +YL SG+L ++ Y P +Y Y SR +LPAK+R+ +DFL F Sbjct: 245 DQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300310469|ref|YP_003774561.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 187 bits (475), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 117/304 (38%), Positives = 157/304 (51%), Gaps = 16/304 (5%) Query: 8 DLAFFVVLAKLGSLSGTARELGLTPPAVTKRLMMLEQRLGVRLVNRTTRRFSLTSEGESY 67 D+ L SL+G AR L LTPPAVT RL +E R+GVRL NR R F+LT EG+ Sbjct: 6 DMQLLRALGSSASLAGAARLLDLTPPAVTVRLQRIEDRIGVRLANRAARGFALTDEGQRL 65 Query: 68 LAQATQILDRIRDMEESVS--------SGRAAPKGLLRVNATPGFGRTRIAPLVSRFAHD 119 + +AT IL+RI + SVS + A G LRV A GFGR +APLV + Sbjct: 66 VQEATDILERIEAITASVSRESDRGEHASLANVSGSLRVVAPFGFGRRYVAPLVRDLHRN 125 Query: 120 HPDVEVELQLTDRPISLVEEAYDLAIRFGELPDTRLSARKLMSNKRFLCASPAYLKKAGE 179 HP + + L L + P++ A D I G + + L N+RFLCASPA ++ Sbjct: 126 HPRLAISLLLAESPLAAASGA-DAIISIGRVKGSSWVGHFLAPNERFLCASPALARRMNR 184 Query: 180 PLTPEELHRHRCILHRQNDDVYGTWRL-------EKGKKIELVKVRGAVSSNDGDVVMNW 232 P EL + + R+NDD R + K VK+ GA+SSNDG + +W Sbjct: 185 ARHPSELADYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALSSNDGTITRDW 244 Query: 233 ALEGHGIVQRSEWDAAKYLASGRLKEVMPGYALPSANLYVYYLSRRNLPAKVRSFVDFLV 292 AL+G G V RSEWD A L G LK V+PG+ L A + R+ L + R F++ Sbjct: 245 ALDGEGFVARSEWDCAHLLTDGSLKRVLPGWQLDPAPIMALLPGRQGLTLRQRVFLEAAK 304 Query: 293 AEFK 296 F+ Sbjct: 305 RAFQ 308 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 179 bits (454), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 108/294 (36%), Positives = 158/294 (53%), Gaps = 5/294 (1%) Query: 9 LAFFVVLAKLGSLSGTARELGLTPPAVTKRLMMLEQRLGVRLVNRTTRRFSLTSEGESYL 68 + F A+LGS + A LGLTP +V++ + LE RLGVRL RTTR+ LT EGE Y Sbjct: 12 IELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREGELYR 71 Query: 69 AQATQILDRIRDMEESVSSGRAAPKGLLRVNATPGFGRTRIAPLVSRFAHDHPDVEVELQ 128 Q Q L++I D E ++ + P GLLR++ + R+ PL+ RF +P +EVEL Sbjct: 72 DQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIEVELS 131 Query: 129 LTDRPISLVEEAYDLAIRFGELPDTRLSARKLMSNKRFLCASPAYLKKAGEPLTPEELHR 188 + +R + VEE YDLAIR G PD+RL A L L A+PAYL + G+P + EL + Sbjct: 132 IANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIAELEQ 191 Query: 189 HRC---ILHRQNDDVYGTWRLEKGKKIEL-VKVRGAVSSNDGDVVMNWALEGHGIVQRSE 244 H C IL + ++ +G+ ++ K R + +D +NWA+ G G+ Q Sbjct: 192 HDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRI-HDDVLGCVNWAIAGGGLFQIYH 250 Query: 245 WDAAKYLASGRLKEVMPGYALPSANLYVYYLSRRNLPAKVRSFVDFLVAEFKGP 298 + A + G L EV+ + + Y R+L A+VR+FV+FL P Sbjct: 251 FIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQAVASP 304 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 0.320 0.136 0.394 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: 945,165 Number of extensions: 38967 Number of successful extensions: 246 Number of sequences better than 1.0e-08: 59 Number of HSP's gapped: 197 Number of HSP's successfully gapped: 59 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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 (21.8 bits) S2: 130 (54.7 bits)