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= 0035.0056.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312102|ref|YP_003776194.1| LysR family transcription regul... 585 e-168 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 93 2e-20 gi|300312835|ref|YP_003776927.1| LysR family transcription regul... 83 2e-17 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 79 6e-16 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 76 4e-15 >gi|300312102|ref|YP_003776194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 585 bits (1509), Expect = e-168, Method: Compositional matrix adjust. Identities = 305/305 (100%), Positives = 305/305 (100%) Query: 1 MRELSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRP 60 MRELSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRP Sbjct: 1 MRELSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRP 60 Query: 61 SGIGETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAYLLPQALEQLGRSH 120 SGIGETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAYLLPQALEQLGRSH Sbjct: 61 SGIGETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAYLLPQALEQLGRSH 120 Query: 121 PGIDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPASWRAP 180 PGIDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPASWRAP Sbjct: 121 PGIDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPASWRAP 180 Query: 181 RVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGAGYGAT 240 RVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGAGYGAT Sbjct: 181 RVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGAGYGAT 240 Query: 241 LLPHEASAQGAAVALDPRIVMRPLRPALWRPLGIAHRTGQPEPATRHVLEALWALKQLRQ 300 LLPHEASAQGAAVALDPRIVMRPLRPALWRPLGIAHRTGQPEPATRHVLEALWALKQLRQ Sbjct: 241 LLPHEASAQGAAVALDPRIVMRPLRPALWRPLGIAHRTGQPEPATRHVLEALWALKQLRQ 300 Query: 301 PRTAG 305 PRTAG Sbjct: 301 PRTAG 305 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 93.2 bits (230), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/301 (28%), Positives = 141/301 (46%), Gaps = 20/301 (6%) Query: 4 LSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRPSGI 63 L LR + I + GS A+ H+A + S I +E+ +G PLL R R V+ + Sbjct: 5 FELSDLRLFLHIVESGSITGGAQRAHMALASASARIRNMEDALGTPLLERGRRGVQTTDA 64 Query: 64 GETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAYLLPQALEQLGRSHPGI 123 G L AR + +Q +E+G+ +GL G +RL +T A+ LP+ L + HP Sbjct: 65 GRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHT 124 Query: 124 DVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPASWRAP--- 180 D+++ S E + + G D+G++A L P+R+D ++A L S R P Sbjct: 125 DIELEEKLSYEVVQAVIDGVADVGIIA-DSTDSGPLQTYPFRQDHLVAVL--SKRHPLAR 181 Query: 181 -RVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGAGYGA 239 + + A L + + + ++ L + + R G+ R++L D I +V G Sbjct: 182 RKSLAFAELLGEDFVGLSGDSALQQHLSGHATRAGKRLQYRVRLRSFDGICRMVEHQVGV 241 Query: 240 TLLPHEASAQGAAVALDPRIVMR--PLRPALW--RPLGIAHR--TGQPEPATRHVLEALW 293 +LP + AA+A P + +R PL W R L I R G P P TR +++AL Sbjct: 242 AVLP-----ETAALASTPHMDIRAIPLSDG-WSRRQLLICVRGLEGLPGP-TRELIQALQ 294 Query: 294 A 294 A Sbjct: 295 A 295 >gi|300312835|ref|YP_003776927.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 51/146 (34%), Positives = 79/146 (54%), Gaps = 2/146 (1%) Query: 1 MRELSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRP 60 M+ L LD L +VA+AD G+F+ AA +H VS+ I LE +G PL LR+ V P Sbjct: 1 MKTLDLDVLAMIVAVADTGNFSRAAELVHRTQSAVSMQIKTLELALGKPLFLRKPRSVVP 60 Query: 61 SGIGETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAYLLPQALEQLGRSH 120 + GE L+ AR++L D+A V R + GRV +G + LLP L++ ++ Sbjct: 61 TQDGEVLLTYARRMLTLRDEAWAAVVR--PDVTGRVVIGVPDDYASSLLPSILKKFSATY 118 Query: 121 PGIDVQVMVLTSQETLARLAAGALDI 146 P +++QV+ L S + G +D+ Sbjct: 119 PKVEIQVVGLPSSALAPMVKDGTVDL 144 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 78.6 bits (192), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 95/288 (32%), Positives = 128/288 (44%), Gaps = 15/288 (5%) Query: 4 LSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRPSGI 63 L L ++R V A +F AA L++ P +S I LE R+G L R VR + Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 64 GETLIARARQLLAAADQALEEVGRQVQGLAGRVRLGASTGAIAY-LLPQALEQLGRSHPG 122 G +A A +LL ++QA V R QG GRVR+G TGA Y L+P+ L Q S P Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVG-FTGAAGYELIPELLMQARTSLPE 120 Query: 123 IDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPA--SWRAP 180 IDV + L S L A +DIG + P A L +Q + ++ +P + A Sbjct: 121 IDVVLFELISVAQLEAFTANTIDIGFLR-PVASRQPLELQLVDEEALVLAMPQGHALAAY 179 Query: 181 RVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFND---AIKSLVGAGY 237 + L QP I+++P T A G V + D I SLV AG Sbjct: 180 DRIATTQLDGQPFIMHSP-THGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGL 238 Query: 238 GATLLPHEASAQGAAVALDPRIVMRPLRPALWR-PLGIAHRTGQPEPA 284 G +LP ASAQ R+ RPL R + +A R Q PA Sbjct: 239 GVGILP--ASAQRFHY---DRVEFRPLADEAPRAEMSMAWRPDQDNPA 281 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 75.9 bits (185), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 111/243 (45%), Gaps = 5/243 (2%) Query: 4 LSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRPSGI 63 + + LR SF+ AA LH+ TVS + +LEE + APLL+R +++ + Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 64 GETLIARARQLLAAADQALEEVGRQVQGL-AGRVRLGASTGAIAYLLPQALEQLGRSHPG 122 G + + +Q+LAA + EV R + L +GR+ +G I L L+ HP Sbjct: 61 GRVVYEQGQQILAAMQRLHAEV-RDTKALRSGRLEIGIPP-MINILCTPVLKAFRERHPD 118 Query: 123 IDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPA-SWRAPR 181 I V + T + R+A G L+IG+ LP P GL P P+ A A S++ R Sbjct: 119 IAVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNR 178 Query: 182 V-VTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGAGYGAT 240 + A L PL+L E L+R F G P Q D + ++ AG G Sbjct: 179 ASLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTA 238 Query: 241 LLP 243 LLP Sbjct: 239 LLP 241 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 0.399 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: 1,056,423 Number of extensions: 47717 Number of successful extensions: 361 Number of sequences better than 1.0e-08: 66 Number of HSP's gapped: 337 Number of HSP's successfully gapped: 66 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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)