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= 0026.0009.p (229 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... 284 5e-78 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 137 7e-34 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 103 8e-24 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 92 4e-20 gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 87 1e-18 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 284 bits (726), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 137/147 (93%), Positives = 145/147 (98%) Query: 1 MATRLPPVHALSAFEAAARHNSFAVAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI 60 MATRLPPVHALSAFEAAARHNSFA+AAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI Sbjct: 1 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI 60 Query: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNATVQPKVKIMLPPTFARHLLVPRIAEFTQRY 120 GLSEFGRRYLDVVRSALRTLTDFPMPHRNA VQPK+K+MLPPTFARHLL+PRIA+FTQR+ Sbjct: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH 120 Query: 121 PDITVEMYLSVPLYDLSLSESDVEIRF 147 P+I VE+YLSVPLYDLSLSESDVEIRF Sbjct: 121 PEIVVELYLSVPLYDLSLSESDVEIRF 147 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 137 bits (345), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 65/78 (83%), Positives = 71/78 (91%) Query: 150 FSPARQREVVAALKAVVPPHCVLFDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVIAIL 209 F+PARQREVV AL+ VVP HCVL DEEDTRPYECDGLAAYRQLPMVVVLPENEAQV+AI+ Sbjct: 9 FAPARQREVVDALRRVVPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIM 68 Query: 210 KTCNDLKVQIVPRGAPHG 227 KTC+ L+VQIVPRGA G Sbjct: 69 KTCHALQVQIVPRGAGTG 86 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 103 bits (258), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 57/142 (40%), Positives = 87/142 (61%), Gaps = 1/142 (0%) Query: 5 LPPVHALSAFEAAARHNSFAVAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSIGLSE 64 +PP+ +L AFEA AR SF +AA EL +TPSA+SH++ LE+ +G RLF R + + L+ Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 65 FGRRYLDVVRSALRTLTDFPMPHRNATVQPKVKIMLPPTFARHLLVPRIAEFTQRYPDIT 124 G+ YL+ V AL + R+ V+ ++I P+FA L+PRI FTQR+PDI Sbjct: 62 AGQSYLNRVAGALGAINSATDDLRHG-VENSLQIHSSPSFASLWLMPRIGRFTQRHPDIA 120 Query: 125 VEMYLSVPLYDLSLSESDVEIR 146 + + S + D + + D++IR Sbjct: 121 LGLSASPEISDFEIGQVDLDIR 142 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 92.0 bits (227), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 52/143 (36%), Positives = 80/143 (55%), Gaps = 1/143 (0%) Query: 5 LPPVHALSAFEAAARHNSFAVAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSIGLSE 64 LPP+ L AFEA AR SFA+AA EL +T SA+SH++ LE ++G RLF R + ++ Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 65 FGRRYLDVVRSALRTLTDFPMPHRNATVQPKVKIMLPPTFARHLLVPRIAEFTQRYPDIT 124 G YL ++ A+ +T M R V + I P+ A L+ R+ +F + YP+IT Sbjct: 64 AGEAYLARIQGAISAITAASMDVRQG-VSNTLYIHSAPSIASLWLMARLNDFARSYPEIT 122 Query: 125 VEMYLSVPLYDLSLSESDVEIRF 147 + + + L E D++IR+ Sbjct: 123 FNLSAAHSQSNFELGEVDIDIRY 145 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 86.7 bits (213), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 60/152 (39%), Positives = 78/152 (51%), Gaps = 7/152 (4%) Query: 1 MATRLPPVHALSAFEAAARHNSFAVAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI 60 M R+P +L AFEAAARH SFA AAEEL +T A+S +I LE F+G LF R G + Sbjct: 1 MRRRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRV 60 Query: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNATVQP----KVKIMLPPTFARHLLVPRIAEF 116 L G+RY VR TL ++ QP + I + PTFA L+PR+ F Sbjct: 61 RLLPHGQRYASHVRE---TLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWLIPRLPRF 117 Query: 117 TQRYPDITVEMYLSVPLYDLSLSESDVEIRFF 148 +P ITV + + + L S D I F Sbjct: 118 AALHPHITVHLSERMEPFLLPGSGLDAAIHFL 149 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 0.325 0.139 0.412 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: 707,572 Number of extensions: 28263 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 213 Number of HSP's successfully gapped: 35 Length of query: 229 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 147 Effective length of database: 1,231,600 Effective search space: 181045200 Effective search space used: 181045200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)