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= 0003.0094.p (296 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313122|ref|YP_003777214.1| transcription regulator protein... 589 e-170 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 174 7e-45 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 147 7e-37 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 145 3e-36 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 128 7e-31 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 589 bits (1518), Expect = e-170, Method: Compositional matrix adjust. Identities = 288/296 (97%), Positives = 293/296 (98%) Query: 1 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEDFVGERLFYRDGRSI 60 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLE+FVGERLFYRDGRSI Sbjct: 1 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI 60 Query: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH 120 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH Sbjct: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH 120 Query: 121 PEIVVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPGYLKTLPPM 180 PEIVVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASP YLKTLPPM Sbjct: 121 PEIVVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYLKTLPPM 180 Query: 181 KSPTDLQHATLLRSALEPWQPWFEAAGLKDWVEPSSGLRVDDLGLLLEAVRHGYGIGLTR 240 KSP DL+ ATLLRSALEPWQPWFEAAGLKDWVEPS+GLRVDDLGLLLEAVRHGYG+GLTR Sbjct: 181 KSPADLKQATLLRSALEPWQPWFEAAGLKDWVEPSAGLRVDDLGLLLEAVRHGYGVGLTR 240 Query: 241 QHFAEELLARGEIVELFDVRLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFRNI 296 QHFAEELLARGEIVELFD+RLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFRNI Sbjct: 241 QHFAEELLARGEIVELFDIRLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFRNI 296 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 174 bits (442), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 113/293 (38%), Positives = 167/293 (56%), Gaps = 4/293 (1%) Query: 4 RLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEDFVGERLFYRDGRSIGLS 63 +LP + AL AF+AAAR+ F+ AAEE+ +TP A+SH++R LE+ +G +LF R G+ I ++ Sbjct: 6 KLPNLAALRAFDAAARYECFSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISIT 65 Query: 64 EFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEI 123 E G+R+ +R +L + R+ Q ++ + P+FA L PR+ F HPE+ Sbjct: 66 ETGQRFAATIRKSLSEIALAAEHLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPEL 125 Query: 124 VVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPGYL-KTLPPMKS 182 V L + L DL L DV +RFG GNY +++EKL ++ + VA+PGY K + Sbjct: 126 EVVLQSAAHLNDLRLDGIDVGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLAR 185 Query: 183 PTDLQHATLLR-SALEPWQPWFEAAGLKDWVEPSSGLRVDDLGLLLEAVRHGYGIGLTRQ 241 P DL H +LLR + E WQPW AGL + EP+ GL V+D L L G G+ L R Sbjct: 186 PADLAHCSLLRVDSRESWQPWLAEAGL-ELPEPTGGLLVEDSSLTLRQAAEGKGVALARH 244 Query: 242 HFAEELLARGEIVELFDVRLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFR 294 A + ++ GE+V LFDV + + Y+V A+ E+P V F W+ R Sbjct: 245 VIASQEISTGELVRLFDVVVPSEDAHYFVHLPEAL-EKPGVAAFKEWIFEEMR 296 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 147 bits (372), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 99/289 (34%), Positives = 148/289 (51%), Gaps = 5/289 (1%) Query: 5 LPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEDFVGERLFYRDGRSIGLSE 64 +PP+ +L AFEA AR SF +AA EL +TPSA+SH++ LE +G RLF R + + L+ Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 65 FGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEIV 124 G+ YL+ V AL + R+ V+ +++ P+FA LMPRI FTQRHP+I Sbjct: 62 AGQSYLNRVAGALGAINSATDDLRH-GVENSLQIHSSPSFASLWLMPRIGRFTQRHPDIA 120 Query: 125 VELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPGYLKTLPPMKSPT 184 + L S + D + + D++IR G ++P++ E + E +ASP +L + +P Sbjct: 121 LGLSASPEISDFEIGQVDLDIRCGVPHWPDLEIEAVLSERVIPMASPDFLAR-HRIDTPD 179 Query: 185 DLQHATLL--RSALEPWQPWFEAAGLKDWVEPSSGLRVDDLGLLLEAVRHGYGIGLTRQH 242 DL A L+ R +L W WF A D LR D + +EA G G+ Sbjct: 180 DLVLAPLIQSRGSLLQWPEWF-ARYAPDLRPERIALRFDRAMMSIEAAVQGLGVVFESDA 238 Query: 243 FAEELLARGEIVELFDVRLRTPPHAYYVVYERAVRERPEVDTFISWMQN 291 F LA G + +F L +Y V + RPEV F+ W++ Sbjct: 239 FGAVALASGRLQPVFADGLALEITQHYAVCPARNKSRPEVMLFLQWLRE 287 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 145 bits (367), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 93/289 (32%), Positives = 144/289 (49%), Gaps = 7/289 (2%) Query: 5 LPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEDFVGERLFYRDGRSIGLSE 64 LPP+ L AFEA AR SFA+AA EL +T SA+SH++ LE ++G RLF R + ++ Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 65 FGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEIV 124 G YL ++ A+ +T M R V + + P+ A LM R+ DF + +PEI Sbjct: 64 AGEAYLARIQGAISAITAASMDVRQ-GVSNTLYIHSAPSIASLWLMARLNDFARSYPEIT 122 Query: 125 VELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPGYLKTLPPMKSPT 184 L + + L E D++IR+G N+P ++ E LFEE +ASP +++ ++ P Sbjct: 123 FNLSAAHSQSNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAFIREY-RLRKPA 181 Query: 185 DLQHATLLRS--ALEPWQPWFEAAGLKDWVEPSS-GLRVDDLGLLLEAVRHGYGIGLTRQ 241 DL L+RS ++ W WF D P +R D + L+A G G+ L Sbjct: 182 DLLGVKLIRSNVSVVQWADWF--GEFADVRAPEQFAVRFDRAQMSLDAATQGLGVALESA 239 Query: 242 HFAEELLARGEIVELFDVRLRTPPHAYYVVYERAVRERPEVDTFISWMQ 290 A L ++ +F + A++ VY RP V F+ W++ Sbjct: 240 TVAARHLEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLR 288 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 128 bits (321), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 93/292 (31%), Positives = 145/292 (49%), Gaps = 8/292 (2%) Query: 1 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEDFVGERLFYRDGRSI 60 MA P++A+ AF AAARH SF +AA EL +T A+S +I+ LE ++G LF R R + Sbjct: 1 MADLTLPLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQV 60 Query: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH 120 L+E GR++ + AL L + A + + + P+FA L+P ++DF +R+ Sbjct: 61 LLTERGRQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERY 120 Query: 121 PEIVVELYLSVPLYDLSLSESDVEIRFGAGNYPNII-TEKLFEEPAFAVASPGYLKTLPP 179 P I ++ S + S D+ +R G N+P + ++ E+ VASP L+ +P Sbjct: 121 PGIAPQVVTSTATVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPL 180 Query: 180 MKSPTDLQHATLL-RSALEPWQPWFEAAGLKDWVEPSSGLRVDDLGLLLEAVRHGYGIGL 238 +H LL RS W+ W + AGLK + L D + +L+AV G G+ L Sbjct: 181 EDVSGLARHTVLLSRSRRNDWEDWRKLAGLKR-SRSQAMLHFDHVHFVLQAVVDGLGVAL 239 Query: 239 TRQHFAEELLARGEIVELF-DVRLRTPPHAYYVVYERAVRERPEVDTFISWM 289 + A+ L G +V F D+RL P YY+ + E F W+ Sbjct: 240 SPVSLADNDLRSGRLVCPFPDLRLTLAP--YYLGIN--AQAGSEAQLFARWL 287 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 0.323 0.139 0.421 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: 985,671 Number of extensions: 42340 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 215 Number of HSP's successfully gapped: 44 Length of query: 296 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 211 Effective length of database: 1,217,395 Effective search space: 256870345 Effective search space used: 256870345 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)