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= 0002.0182.p (287 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 548 e-157 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 321 4e-89 gi|300313122|ref|YP_003777214.1| transcription regulator protein... 139 4e-34 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 127 8e-31 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 122 3e-29 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 548 bits (1411), Expect = e-157, Method: Compositional matrix adjust. Identities = 268/282 (95%), Positives = 277/282 (98%) Query: 1 MAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLN 60 MAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLN Sbjct: 9 MAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLN 68 Query: 61 RVAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQRYPEIAFGLSASPE 120 RVAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQR+P+IA GLSASPE Sbjct: 69 RVAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQRHPDIALGLSASPE 128 Query: 121 ISDFEIGQVDLDIRCGVPHWPDLEIEPVLSEQVIPMASPDFLARHRIETPEDLVLAPLIQ 180 ISDFEIGQVDLDIRCGVPHWPDLEIE VLSE+VIPMASPDFLARHRI+TP+DLVLAPLIQ Sbjct: 129 ISDFEIGQVDLDIRCGVPHWPDLEIEAVLSERVIPMASPDFLARHRIDTPDDLVLAPLIQ 188 Query: 181 SRGSLLQWPEWFARYAPDLRPERVALRFDRAMMSIEAAVQGLGVVFESDAFGAAHLASGR 240 SRGSLLQWPEWFARYAPDLRPER+ALRFDRAMMSIEAAVQGLGVVFESDAFGA LASGR Sbjct: 189 SRGSLLQWPEWFARYAPDLRPERIALRFDRAMMSIEAAVQGLGVVFESDAFGAVALASGR 248 Query: 241 LQPVFADGMTLEITQHFAVCPARNKSRPEVVLFLQWLREESG 282 LQPVFADG+ LEITQH+AVCPARNKSRPEV+LFLQWLREESG Sbjct: 249 LQPVFADGLALEITQHYAVCPARNKSRPEVMLFLQWLREESG 290 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 321 bits (823), Expect = 4e-89, Method: Compositional matrix adjust. Identities = 152/280 (54%), Positives = 203/280 (72%) Query: 2 AFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLNR 61 AFEA+ARRKSF LAAAELHLT SA+SHQVARLE LG+RLFERS GV +T AG++YL R Sbjct: 12 AFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAGEAYLAR 71 Query: 62 VAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQRYPEIAFGLSASPEI 121 + GA+ AI +A+ D+R GV N+L IHS+PS ASLWLM R+ F + YPEI F LSA+ Sbjct: 72 IQGAISAITAASMDVRQGVSNTLYIHSAPSIASLWLMARLNDFARSYPEITFNLSAAHSQ 131 Query: 122 SDFEIGQVDLDIRCGVPHWPDLEIEPVLSEQVIPMASPDFLARHRIETPEDLVLAPLIQS 181 S+FE+G+VD+DIR G+P+WP L +EP+ E+++P+ASP F+ +R+ P DL+ LI+S Sbjct: 132 SNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAFIREYRLRKPADLLGVKLIRS 191 Query: 182 RGSLLQWPEWFARYAPDLRPERVALRFDRAMMSIEAAVQGLGVVFESDAFGAAHLASGRL 241 S++QW +WF +A PE+ A+RFDRA MS++AA QGLGV ES A HL +L Sbjct: 192 NVSVVQWADWFGEFADVRAPEQFAVRFDRAQMSLDAATQGLGVALESATVAARHLEEKKL 251 Query: 242 QPVFADGMTLEITQHFAVCPARNKSRPEVVLFLQWLREES 281 +P+F +++ HFAV PA + RP V FL+WLRE++ Sbjct: 252 KPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLREQA 291 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 95/280 (33%), Positives = 143/280 (51%), Gaps = 5/280 (1%) Query: 2 AFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLNR 61 AFEA AR SF +AA EL +TPSA+SH++ LE+ +G RLF R + + L+ G+ YL+ Sbjct: 13 AFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSIGLSEFGRRYLDV 72 Query: 62 VAGALGAINSATDDLRH-GVENSLQIHSSPSFASLWLMPRIGRFTQRYPEIAFGLSASPE 120 V AL + R+ V+ +++ P+FA LMPRI FTQR+PEI L S Sbjct: 73 VRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEIVVELYLSVP 132 Query: 121 ISDFEIGQVDLDIRCGVPHWPDLEIEPVLSEQVIPMASPDFLAR-HRIETPEDLVLAPLI 179 + D + + D++IR G ++P++ E + E +ASP +L +++P DL A L+ Sbjct: 133 LYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYLKTLPPMKSPADLKQATLL 192 Query: 180 QSRGSLLQWPEWF-ARYAPDLRPERVALRFDRAMMSIEAAVQGLGVVFESDAFGAAHLAS 238 R +L W WF A D LR D + +EA G GV F LA Sbjct: 193 --RSALEPWQPWFEAAGLKDWVEPSAGLRVDDLGLLLEAVRHGYGVGLTRQHFAEELLAR 250 Query: 239 GRLQPVFADGMTLEITQHFAVCPARNKSRPEVVLFLQWLR 278 G + +F + ++ V + RPEV F+ W++ Sbjct: 251 GEIVELFDIRLRTPPHAYYVVYERAVRERPEVDTFISWMQ 290 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 127 bits (320), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 95/285 (33%), Positives = 141/285 (49%), Gaps = 9/285 (3%) Query: 2 AFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLNR 61 AF A AR +SF LAA EL++T AIS Q+ LE LG+ LFER T+ V LT G+ + Sbjct: 13 AFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERGRQFFEE 72 Query: 62 VAGALGAI-NSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQRYPEIAFGLSASPE 120 + AL + N+A +R ++ I+ PSFA WL+P + F +RYP IA + S Sbjct: 73 ASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGIAPQVVTSTA 132 Query: 121 ISDFEIGQVDLDIRCGVPHWPD-LEIEPVLSEQVIPMASPDFLARHRIETPEDLVLAPLI 179 D+ +R G +WP+ L+++ + ++++ +ASP L +E L ++ Sbjct: 133 TVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSGLARHTVL 192 Query: 180 QSRGSLLQWPEWFARYAPDLRPER--VALRFDRAMMSIEAAVQGLGVVFESDAFGAAHLA 237 SR W +W R L+ R L FD ++A V GLGV + L Sbjct: 193 LSRSRRNDWEDW--RKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLADNDLR 250 Query: 238 SGRLQPVFADGMTLEITQHFAVCPARNKSRPEVVLFLQWLREESG 282 SGRL F D + L + ++ A+ S E LF +WL E G Sbjct: 251 SGRLVCPFPD-LRLTLAPYYLGINAQAGS--EAQLFARWLAEYRG 292 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 137/276 (49%), Gaps = 9/276 (3%) Query: 10 KSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTPAGQSYLNRVAGALGAI 69 + F+ AA E+H+TP AISHQV LE+ LGL+LF R K + +T GQ + + +L I Sbjct: 23 ECFSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISITETGQRFAATIRKSLSEI 82 Query: 70 NSATDDLR-HGVENSLQIHSSPSFASLWLMPRIGRFTQRYPEIAFGLSASPEISDFEIGQ 128 A + LR + L I ++PSFAS WL PR+ RF +PE+ L ++ ++D + Sbjct: 83 ALAAEHLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQSAAHLNDLRLDG 142 Query: 129 VDLDIRCGVPHWPDLEIEPVLSEQVIPMASPDFLAR--HRIETPEDLVLAPL--IQSRGS 184 +D+ +R G ++ L E + + P+A+P + + ++ P DL L + SR S Sbjct: 143 IDVGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVDSRES 202 Query: 185 LLQWPEWFARYAPDLRPERVALRFDRAMMSIEAAVQGLGVVFESDAFGAAHLASGRLQPV 244 W W A +L L + + +++ A +G GV + +++G L + Sbjct: 203 ---WQPWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALARHVIASQEISTGELVRL 259 Query: 245 FADGMTLEITQHFAVCPARNKSRPEVVLFLQWLREE 280 F + E +F P +P V F +W+ EE Sbjct: 260 FDVVVPSEDAHYFVHLP-EALEKPGVAAFKEWIFEE 294 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 0.135 0.404 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: 962,518 Number of extensions: 42188 Number of successful extensions: 266 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 55 Length of query: 287 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 203 Effective length of database: 1,222,130 Effective search space: 248092390 Effective search space used: 248092390 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)