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= 0001.4429.p (228 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... 430 e-122 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 130 1e-31 gi|300313540|ref|YP_003777632.1| transcription regulator protein... 108 4e-25 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 70 1e-13 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 65 4e-12 >gi|300313824|ref|YP_003777916.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 228 Score = 430 bits (1105), Expect = e-122, Method: Compositional matrix adjust. Identities = 213/228 (93%), Positives = 223/228 (97%) Query: 1 MTDSVPAPDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDK 60 MTDS PAPDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDK Sbjct: 1 MTDSAPAPDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDK 60 Query: 61 LVDLIPDKGAFVSKPTVEETRNIFFVRRTLEAAMVRQFVACATPEDYARLDAHLEQEAQA 120 LVDLIPDKGAFVSKPTVEETRNIFFVRRTLE+AMVR+FVA ATPEDYARL+AHLE E QA Sbjct: 61 LVDLIPDKGAFVSKPTVEETRNIFFVRRTLESAMVREFVARATPEDYARLEAHLELERQA 120 Query: 121 VKEDNMQVRSSLLSDFHILLARIVGNEVLTDILEKLAGRSALITMLYQSTRDAACSSDEH 180 V +DNMQVRS+LLSDFHILLARIVGN+VLTDILEKLAGRSALITMLYQSTRDAACSS+EH Sbjct: 121 VSDDNMQVRSTLLSDFHILLARIVGNDVLTDILEKLAGRSALITMLYQSTRDAACSSEEH 180 Query: 181 RAFIAAARAGDTERAVQLMEHHLLHVEQALAFEPKSGPRKDLLRELLS 228 RAFIAAARAGDTERA++LMEHHLLHVEQALAFEPK+GPRKDLLRELLS Sbjct: 181 RAFIAAARAGDTERAMELMEHHLLHVEQALAFEPKAGPRKDLLRELLS 228 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 130 bits (326), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 83/224 (37%), Positives = 119/224 (53%), Gaps = 1/224 (0%) Query: 6 PAPDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLI 65 P+ SS IA I I A++L PG +L E+ LA +++VSRT++R AL L +V + Sbjct: 5 PSLKSSSQIAVRITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVS 64 Query: 66 PDKGAFVSKPTVEETRNIFFVRRTLEAAMVRQF-VACATPEDYARLDAHLEQEAQAVKED 124 +G FV +PT + R F RR +E ++RQ + +L H+ +E A+ Sbjct: 65 ARRGWFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIAREEAAIAGA 124 Query: 125 NMQVRSSLLSDFHILLARIVGNEVLTDILEKLAGRSALITMLYQSTRDAACSSDEHRAFI 184 ++ RS LL DFH+ LA +GN +L + L L R+ L ML+QS+ A S EH + Sbjct: 125 DVGARSYLLGDFHVCLAECLGNSLLAETLRDLTARTTLTAMLHQSSEQAEDSCSEHVLIV 184 Query: 185 AAARAGDTERAVQLMEHHLLHVEQALAFEPKSGPRKDLLRELLS 228 A GD E+A QLM HL HVE L S P + L + L S Sbjct: 185 EALERGDLEQAEQLMHDHLQHVESGLNQVRSSDPLEPLRQALAS 228 >gi|300313540|ref|YP_003777632.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 108 bits (270), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 67/204 (32%), Positives = 102/204 (50%), Gaps = 6/204 (2%) Query: 6 PAPDSSDAIA------SDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKD 59 PA + +A+A DI I RLPP KL E+ L ++Y +R +R L LA + Sbjct: 17 PARERDNAVAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLARLAAE 76 Query: 60 KLVDLIPDKGAFVSKPTVEETRNIFFVRRTLEAAMVRQFVACATPEDYARLDAHLEQEAQ 119 +VDL ++GAF++ P+ E R++F +R LE A++ + A A L +E+E Sbjct: 77 GMVDLEANRGAFIASPSPAEVRDMFELRNILEHAVLEKLGHTAGTRQIAGLRRMVEEERD 136 Query: 120 AVKEDNMQVRSSLLSDFHILLARIVGNEVLTDILEKLAGRSALITMLYQSTRDAACSSDE 179 + L + FH+ LA + GN +L + L KL R+ L+ ++ ACS DE Sbjct: 137 CYLNGDRPRWIRLSAQFHLALAELTGNALLVETLRKLVSRTTLMIAKTEAPGHNACSFDE 196 Query: 180 HRAFIAAARAGDTERAVQLMEHHL 203 H + A GD + A M HHL Sbjct: 197 HETVLEALEKGDIKAAQAHMAHHL 220 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 70.5 bits (171), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/196 (32%), Positives = 94/196 (47%), Gaps = 3/196 (1%) Query: 11 SDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLIPDKGA 70 ++A+ I IA +L PG L E +LA + VSRT IR AL+ LA +V++ P +GA Sbjct: 8 AEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGA 67 Query: 71 FVSKPTVEETRNIFFVRRTLEAAMVRQFVACATPEDYARLDAHLEQEAQAVKEDNMQVRS 130 V++ ++ +F V EA R TP ++A L A Q QA ++ N Sbjct: 68 IVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLA-AHQACQAARDANDPDAY 126 Query: 131 SLLSD-FHILLARIVGNEVLTDILEKLAGRSALITMLYQSTRDAACSS-DEHRAFIAAAR 188 L++ FH + N L D L R L RD SS DEH+A + A Sbjct: 127 FYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSFDEHQAVVDAII 186 Query: 189 AGDTERAVQLMEHHLL 204 +GD E+ V L+ H++ Sbjct: 187 SGDAEKTVDLLREHIM 202 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 65.5 bits (158), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/212 (30%), Positives = 97/212 (45%), Gaps = 15/212 (7%) Query: 4 SVPAPDS-----SDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAK 58 S+P D S+ + I + I + PG+K+ E LAR Y +SR +R A+ L Sbjct: 6 SLPGNDREGETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEG 65 Query: 59 DKLVDLIPDKGAFVSKPTVEETRNIFFVRRTLEAAMVR---QFVACATPEDYAR-LDAHL 114 L+ +P GA V T+E +F +R +LE R Q ++ A ++ R LD H Sbjct: 66 QNLLVRVPHVGARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHE 125 Query: 115 EQEAQAVKEDNMQVRSSLLSDFHILLARIVGNEVLTDIL-EKLAGRSALITMLYQST--R 171 + EA Q DFH + + GN++LT IL +L + + + Y +T R Sbjct: 126 KDEAFQAGRGYYQQEGDY--DFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHR 183 Query: 172 DAACSSDEHRAFIAAARAGDTERAVQLMEHHL 203 ++ HR A A GD E A LM H+ Sbjct: 184 PRQAFAEHHRILDALA-DGDGELADLLMRRHI 214 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 0.319 0.131 0.356 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: 575,081 Number of extensions: 19962 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 8 Length of query: 228 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 146 Effective length of database: 1,231,600 Effective search space: 179813600 Effective search space used: 179813600 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 (21.8 bits) S2: 129 (54.3 bits)