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= 0061.0004.p (209 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313824|ref|YP_003777916.1| GntR family transcription regul... 318 3e-88 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 110 6e-26 gi|300313540|ref|YP_003777632.1| transcription regulator protein... 99 4e-22 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 66 2e-12 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 60 1e-10 >gi|300313824|ref|YP_003777916.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 228 Score = 318 bits (814), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 163/203 (80%), Positives = 177/203 (87%) Query: 1 MTEAAHPPDSSEAIARARTIAIAEQRLPPGAKLREEALARVYRVSRTKIRAALVMLAKDK 60 MT++A PDSS+AIA IA QRLPPGAKL EEALARVY+VSRTKIRAALVMLAKDK Sbjct: 1 MTDSAPAPDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDK 60 Query: 61 LIDLIPDKGAFVSKPTVEETRNIFFVRRTLEAAMVREFVARATAADYATLEAHLREERRA 120 L+DLIPDKGAFVSKPTVEETRNIFFVRRTLE+AMVREFVARAT DYA LEAHL ER+A Sbjct: 61 LVDLIPDKGAFVSKPTVEETRNIFFVRRTLESAMVREFVARATPEDYARLEAHLELERQA 120 Query: 121 IEENNPQVRSTLLSDFHILLANIVGNDVLTDILVKLAGRSSLITMLYQSTRDAICSTEEH 180 + ++N QVRSTLLSDFHILLA IVGNDVLTDIL KLAGRS+LITMLYQSTRDA CS+EEH Sbjct: 121 VSDDNMQVRSTLLSDFHILLARIVGNDVLTDILEKLAGRSALITMLYQSTRDAACSSEEH 180 Query: 181 CAFIAAAKAGKVEEAVELMLHXL 203 AFIAAA+AG E A+ELM H L Sbjct: 181 RAFIAAARAGDTERAMELMEHHL 203 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 110 bits (276), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 69/191 (36%), Positives = 103/191 (53%), Gaps = 1/191 (0%) Query: 10 SSEAIARARTIAIAEQRLPPGAKLREEALARVYRVSRTKIRAALVMLAKDKLIDLIPDKG 69 SS IA T AI ++L PG +L E+ LA +++VSRT++R AL L ++ + +G Sbjct: 9 SSSQIAVRITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVSARRG 68 Query: 70 AFVSKPTVEETRNIFFVRRTLEAAMVREFVARATA-ADYATLEAHLREERRAIEENNPQV 128 FV +PT + R F RR +E ++R+ R L H+ E AI + Sbjct: 69 WFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIAREEAAIAGADVGA 128 Query: 129 RSTLLSDFHILLANIVGNDVLTDILVKLAGRSSLITMLYQSTRDAICSTEEHCAFIAAAK 188 RS LL DFH+ LA +GN +L + L L R++L ML+QS+ A S EH + A + Sbjct: 129 RSYLLGDFHVCLAECLGNSLLAETLRDLTARTTLTAMLHQSSEQAEDSCSEHVLIVEALE 188 Query: 189 AGKVEEAVELM 199 G +E+A +LM Sbjct: 189 RGDLEQAEQLM 199 >gi|300313540|ref|YP_003777632.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 98.6 bits (244), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 59/183 (32%), Positives = 95/183 (51%) Query: 21 AIAEQRLPPGAKLREEALARVYRVSRTKIRAALVMLAKDKLIDLIPDKGAFVSKPTVEET 80 AI E RLPP KL E+ L ++Y +R +R L LA + ++DL ++GAF++ P+ E Sbjct: 38 AIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLARLAAEGMVDLEANRGAFIASPSPAEV 97 Query: 81 RNIFFVRRTLEAAMVREFVARATAADYATLEAHLREERRAIEENNPQVRSTLLSDFHILL 140 R++F +R LE A++ + A A L + EER + L + FH+ L Sbjct: 98 RDMFELRNILEHAVLEKLGHTAGTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQFHLAL 157 Query: 141 ANIVGNDVLTDILVKLAGRSSLITMLYQSTRDAICSTEEHCAFIAAAKAGKVEEAVELML 200 A + GN +L + L KL R++L+ ++ CS +EH + A + G ++ A M Sbjct: 158 AELTGNALLVETLRKLVSRTTLMIAKTEAPGHNACSFDEHETVLEALEKGDIKAAQAHMA 217 Query: 201 HXL 203 H L Sbjct: 218 HHL 220 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 65.9 bits (159), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/194 (30%), Positives = 92/194 (47%), Gaps = 1/194 (0%) Query: 7 PPDSSEAIARARTIAIAEQRLPPGAKLREEALARVYRVSRTKIRAALVMLAKDKLIDLIP 66 P +EA+ + IA +L PG L E +LA + VSRT IR AL+ LA ++++ P Sbjct: 4 PKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRP 63 Query: 67 DKGAFVSKPTVEETRNIFFVRRTLEAAMVREFVARATAADYATLEAHLREERRAIEENNP 126 +GA V++ ++ +F V EA R R T A++A L A + + A + N+P Sbjct: 64 RRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDANDP 123 Query: 127 QVRSTLLSDFHILLANIVGNDVLTDILVKLAGRSSLITMLYQSTRDAICST-EEHCAFIA 185 L FH + N L D L R L RD + S+ +EH A + Sbjct: 124 DAYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSFDEHQAVVD 183 Query: 186 AAKAGKVEEAVELM 199 A +G E+ V+L+ Sbjct: 184 AIISGDAEKTVDLL 197 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 60.5 bits (145), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 6/148 (4%) Query: 11 SEAIARARTIAIAEQRLPPGAKLREEALARVYRVSRTKIRAALVMLAKDKLIDLIPDKGA 70 SE + R AI + + PG+K+ E LAR Y +SR +R A+ L L+ +P GA Sbjct: 18 SEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPHVGA 77 Query: 71 FVSKPTVEETRNIFFVRRTLEAAMVREFVARATAADYA----TLEAHLREERRAIEENNP 126 V T+E +F +R +LE R R + A+ L+ H ++E A + Sbjct: 78 RVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEKDE--AFQAGRG 135 Query: 127 QVRSTLLSDFHILLANIVGNDVLTDILV 154 + DFH + GN +LT IL Sbjct: 136 YYQQEGDYDFHYKIIQASGNQILTRILC 163 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 0.354 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: 449,264 Number of extensions: 14207 Number of successful extensions: 85 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 87 Number of HSP's successfully gapped: 6 Length of query: 209 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 128 Effective length of database: 1,236,335 Effective search space: 158250880 Effective search space used: 158250880 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: 128 (53.9 bits)