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= 0257.0014.p (346 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 159 4e-40 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 155 5e-39 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 153 2e-38 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 151 8e-38 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 122 3e-29 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 159 bits (401), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 99/277 (35%), Positives = 147/277 (53%), Gaps = 4/277 (1%) Query: 4 PLRSISVFHAVARSGSISSAAEELNVTPSAVSQQIQALETHLGTSLMVKVGRGVALTEAG 63 PL ++ F AVAR S + AA EL++T SAVS Q+ LE++LG L + GV +T AG Sbjct: 6 PLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAG 65 Query: 64 ERYFSMIAEEIDRISEATQSIRGLRPVTLLTVRATPTLSSKWLLPRLRSFLDANPDLEVR 123 E Y + I I I+ A+ +R TL + + P+++S WL+ RL F + P++ Sbjct: 66 EAYLARIQGAISAITAASMDVRQGVSNTLY-IHSAPSIASLWLMARLNDFARSYPEITFN 124 Query: 124 LNGTNEVTDFTRETVDVEIRHGRGQWPGLFTEGLTEEWFFPVCSPGYAAADSM-NVADVA 182 L+ + ++F VD++IR+G WPGL E L EE P+ SP + + AD+ Sbjct: 125 LSAAHSQSNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAFIREYRLRKPADLL 184 Query: 183 QHRLIQSVKSQVQWPYWFS-MSKITPPNQMRRVLFDRSHMAVDAAADGIGLALESSLMMW 241 +LI+S S VQW WF + + P Q V FDR+ M++DAA G+G+ALES+ + Sbjct: 185 GVKLIRSNVSVVQWADWFGEFADVRAPEQF-AVRFDRAQMSLDAATQGLGVALESATVAA 243 Query: 242 RELRDGSLVCPVRKPPKISQTTQWIVCPVDHLRKNKV 278 R L + L I + V P H R+ V Sbjct: 244 RHLEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAV 280 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 155 bits (392), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 97/284 (34%), Positives = 151/284 (53%), Gaps = 8/284 (2%) Query: 1 MYLPLRSISVFHAVARSGSISSAAEELNVTPSAVSQQIQALETHLGTSLMVKVGRGVALT 60 M PL S+ F A+AR S + AA EL++TPSA+S Q+ LE LG L + +GV LT Sbjct: 1 MIPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELT 60 Query: 61 EAGERYFSMIAEEIDRISEATQSIR-GLRPVTLLTVRATPTLSSKWLLPRLRSFLDANPD 119 AG+ Y + +A + I+ AT +R G+ L + ++P+ +S WL+PR+ F +PD Sbjct: 61 PAGQSYLNRVAGALGAINSATDDLRHGVE--NSLQIHSSPSFASLWLMPRIGRFTQRHPD 118 Query: 120 LEVRLNGTNEVTDFTRETVDVEIRHGRGQWPGLFTEGLTEEWFFPVCSPGYAAADSMNVA 179 + + L+ + E++DF VD++IR G WP L E + E P+ SP + A ++ Sbjct: 119 IALGLSASPEISDFEIGQVDLDIRCGVPHWPDLEIEAVLSERVIPMASPDFLARHRIDTP 178 Query: 180 -DVAQHRLIQSVKSQVQWPYWFSMSKITPPNQMRRVL--FDRSHMAVDAAADGIGLALES 236 D+ LIQS S +QWP WF ++ P + R+ FDR+ M+++AA G+G+ ES Sbjct: 179 DDLVLAPLIQSRGSLLQWPEWF--ARYAPDLRPERIALRFDRAMMSIEAAVQGLGVVFES 236 Query: 237 SLMMWRELRDGSLVCPVRKPPKISQTTQWIVCPVDHLRKNKVFL 280 L G L + T + VCP + + +V L Sbjct: 237 DAFGAVALASGRLQPVFADGLALEITQHYAVCPARNKSRPEVML 280 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 153 bits (387), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 138/234 (58%), Gaps = 4/234 (1%) Query: 20 ISSAAEELNVTPSAVSQQIQALETHLGTSLMVKVGRGVALTEAGERYFSMIAEEIDRISE 79 S AAEE++VTP A+S Q++ALE LG L ++ G+ +++TE G+R+ + I + + I+ Sbjct: 25 FSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISITETGQRFAATIRKSLSEIAL 84 Query: 80 ATQSIRGLRPVTLLTVRATPTLSSKWLLPRLRSFLDANPDLEVRLNGTNEVTDFTRETVD 139 A + +R L + TP+ +S+WL PRL F+DA+P+LEV L + D + +D Sbjct: 85 AAEHLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQSAAHLNDLRLDGID 144 Query: 140 VEIRHGRGQWPGLFTEGLTEEWFFPVCSPGYAAADSMNV---ADVAQHRLIQSVKSQVQW 196 V +R GRG + GL +E L++++++PV +PGY S + AD+A L++ V S+ W Sbjct: 145 VGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLR-VDSRESW 203 Query: 197 PYWFSMSKITPPNQMRRVLFDRSHMAVDAAADGIGLALESSLMMWRELRDGSLV 250 W + + + P +L + S + + AA+G G+AL ++ +E+ G LV Sbjct: 204 QPWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALARHVIASQEISTGELV 257 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 151 bits (381), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 98/266 (36%), Positives = 141/266 (53%), Gaps = 5/266 (1%) Query: 1 MYLPLRSISVFHAVARSGSISSAAEELNVTPSAVSQQIQALETHLGTSLMVKVGRGVALT 60 MYLPL ++ F AR S + AAEEL+VT +AVS Q++ LE LG +L ++ RG+ALT Sbjct: 1 MYLPLNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALT 60 Query: 61 EAGERYFSMIAEEIDRISEATQSIRGLRPVTLLTVRATPTLSSKWLLPRLRSFLDANPDL 120 + G ++A+ RI++ R +LTV T + WL+PRLR F +P + Sbjct: 61 DEGLALLPVVAQSFGRIADVLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFV 120 Query: 121 EVRLNGTNEVTDFTRETVDVEIRHGRGQWPGLFTEGLTEEWFFPVCSPGYAAADSMNVAD 180 ++RL N D E +D IR G G W G E L E P+C+P AA + AD Sbjct: 121 DLRLLTNNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAI-AARLRSPAD 179 Query: 181 VAQHRLIQSVKSQVQWPYWFSMSKITPPNQMRRVLFDRSHMAVDAAADGIGLALESSLMM 240 + L++S +S +W WF+ + P +R +FD S +AAA G+AL LM Sbjct: 180 LGAETLLRSYRSD-EWGRWFAAAGAACPP-LRGFVFDSSLALAEAAAQEAGVALLPVLMF 237 Query: 241 WRELRDGSLVCPVRKPPKISQTTQWI 266 REL+ G LVCP + +I W+ Sbjct: 238 ERELQQGRLVCPFGQ--RIVLGAYWL 261 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 125/254 (49%), Gaps = 2/254 (0%) Query: 1 MYLPLRSISVFHAVARSGSISSAAEELNVTPSAVSQQIQALETHLGTSLMVKVGRGVALT 60 + LPL +I F A AR S + AA ELNVT A+S+QI+ LE +LG L + R V LT Sbjct: 4 LTLPLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLT 63 Query: 61 EAGERYFSMIAEEIDRISEATQSIRGLRPVTLLTVRATPTLSSKWLLPRLRSFLDANPDL 120 E G ++F + ++ ++ A + + P + + P+ + +WL+P L F++ P + Sbjct: 64 ERGRQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGI 123 Query: 121 EVRLNGTNEVTDFTRETVDVEIRHGRGQWP-GLFTEGLTEEWFFPVCSPGYAAADSM-NV 178 ++ + + D+ +R G WP L + E+ V SP A + +V Sbjct: 124 APQVVTSTATVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDV 183 Query: 179 ADVAQHRLIQSVKSQVQWPYWFSMSKITPPNQMRRVLFDRSHMAVDAAADGIGLALESSL 238 + +A+H ++ S + W W ++ + + FD H + A DG+G+AL Sbjct: 184 SGLARHTVLLSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVS 243 Query: 239 MMWRELRDGSLVCP 252 + +LR G LVCP Sbjct: 244 LADNDLRSGRLVCP 257 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 0.132 0.388 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: 1,008,163 Number of extensions: 38145 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 213 Number of HSP's successfully gapped: 47 Length of query: 346 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 260 Effective length of database: 1,212,660 Effective search space: 315291600 Effective search space used: 315291600 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: 131 (55.1 bits)