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= 0001.3658.p (236 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313043|ref|YP_003777135.1| two component response regulato... 432 e-122 gi|300309981|ref|YP_003774073.1| two component response regulato... 82 3e-17 gi|300312688|ref|YP_003776780.1| response regulator consisting o... 80 2e-16 gi|300313069|ref|YP_003777161.1| two component response regulato... 79 3e-16 gi|300313680|ref|YP_003777772.1| two component response regulato... 79 4e-16 >gi|300313043|ref|YP_003777135.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 432 bits (1110), Expect = e-122, Method: Compositional matrix adjust. Identities = 205/235 (87%), Positives = 223/235 (94%) Query: 1 MKVLIVESDLDWRNTLSTHVGELGYEISVCSSLGQARDILRCRQPDMLLSDIGLPDGSLS 60 MKVLIVESDLDWRN+LS H+G+LGYE SVC++LGQAR++LR RQPD+LL+D+GLPDGSL Sbjct: 1 MKVLIVESDLDWRNSLSAHMGDLGYETSVCATLGQAREVLRGRQPDILLTDVGLPDGSLL 60 Query: 61 PELASLRQHFPSMGIVILTAATRSEERLRCMSDGADYYLVKPVKLDEVSATLTALARRMK 120 PELASLRQHFPSMGIV+LTAA R EER+RCMSDGADYYL +PVKL+EVSATLTALARRMK Sbjct: 61 PELASLRQHFPSMGIVVLTAAQRMEERIRCMSDGADYYLARPVKLEEVSATLTALARRMK 120 Query: 121 TAPHQSSPQSEKWAFNRKSGRLSSNGKVALQFTDKESTALAALLQSPNYPVSHTQLFDLL 180 T PHQSSPQSEKWAFNR+SGRLSSNG ALQFTDKESTALAALLQSPNYPVSH QLFDLL Sbjct: 121 TVPHQSSPQSEKWAFNRRSGRLSSNGVTALQFTDKESTALAALLQSPNYPVSHGQLFDLL 180 Query: 181 RSGGEEYDAHRIDALIYRVRQKLRSLPEAPMQIRNIYGEGFLMLRRSSAVDIVLE 235 RSGGEEYDAHRIDALIYRVRQKLRSL E+PMQIRNIYGEGFLMLRR+S+VDIVLE Sbjct: 181 RSGGEEYDAHRIDALIYRVRQKLRSLEESPMQIRNIYGEGFLMLRRNSSVDIVLE 235 >gi|300309981|ref|YP_003774073.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 82.0 bits (201), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 64/223 (28%), Positives = 110/223 (49%), Gaps = 5/223 (2%) Query: 1 MKVLIVESDLDWRNTLSTHVGELGYEISVCSSLGQARDILRCRQPDMLLSDIGLPDGSLS 60 M++L+ E D + L+ + GY + +A L + D+L+ D+GLP S Sbjct: 1 MRILLAEDDSVLADGLTRSLRHSGYAADCVKNGVEADSALSTQDFDLLILDLGLPKMSGL 60 Query: 61 PELASLRQHFPSMGIVILTAATRSEERLRCMSDGADYYLVKPVKLDEVSATLTALARRMK 120 L LR + ++ILTAA E+R++ + GAD Y+ KP L E+ A + AL RR Sbjct: 61 EVLRRLRARNSRLPVLILTAADSVEQRVQGLDLGADDYMAKPFALSELEARVRALTRR-G 119 Query: 121 TAPHQSSPQSEKWAFNRKSGRLSSNGKVALQFTDKESTALAALLQSPNYPVSHTQLFDLL 180 + + +++ + GR++ G+ L+ + +E L LLQ VS QL D L Sbjct: 120 AGGGPTVIRHGPLSYD-QVGRIAYIGEQMLELSARELGLLEVLLQRTGRLVSKEQLVDHL 178 Query: 181 RSGGEEYDAHRIDALIYRVRQKLRSLPEAPMQIRNIYGEGFLM 223 GEE + I+ ++R+R+K+ ++I + G G+ + Sbjct: 179 CEWGEEVSNNAIEVYVHRLRKKIEV---GGVRIATVRGLGYCL 218 >gi|300312688|ref|YP_003776780.1| response regulator consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 79.7 bits (195), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 109/226 (48%), Gaps = 5/226 (2%) Query: 1 MKVLIVESDLDWRNTLSTHVGELGYEISVCSSLGQARDILRCRQPDMLLSDIGLPDGSLS 60 MK+L++E + + L + E +++ + + A +LR D++L D+ LP Sbjct: 1 MKLLLIEDNPQLAHWLEQILKEHKFKVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 Query: 61 PELASLRQHFPSMGIVILTAATRSEERLRCMSDGADYYLVKPVKLDEVSATLTALARRMK 120 L LR+ + ++ILTA+ +E++ C+ GAD YLVKP ++ E+ A + L RR + Sbjct: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRR-Q 119 Query: 121 TAPHQSSPQSEKWAFNRKSGRLSSNGKVALQFTDKESTALAALLQSPNYPVSHTQLFDLL 180 T + ++ + + + G V L +E L L+ VS T L + Sbjct: 120 TPDKAAEIHCGNLVYDSNTRQFAVGG-VTLALPAREHDVLEVLILRQGKTVSKTALMKGV 178 Query: 181 RSGGEEYDAHRIDALIYRVRQKLRSLPEAPMQIRNIYGEGFLMLRR 226 S EE A I+ I R+R+KL A M +R G G+L+ +R Sbjct: 179 FSLSEEPSADAIEVYISRLRKKLDRSGAAIMTLR---GLGYLLRQR 221 >gi|300313069|ref|YP_003777161.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 79.0 bits (193), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 107/226 (47%), Gaps = 10/226 (4%) Query: 2 KVLIVESDLDWRNTLSTHVGELGYEISVCSSLGQARDILRCRQPDMLLSDIGLPDGSLSP 61 ++ +E D R + + + + G+ + S + R+PD+++ D+GLPDG Sbjct: 7 NIVFIEDDPHIRKLVRSALEQEGFVVHEAKSAREGVTEAGTRKPDLIILDLGLPDGDGKQ 66 Query: 62 ELASLRQHFPSMGIVILTAATRSEERLRCMSDGADYYLVKPVKLDEVSATLTALARRMKT 121 ++ +R ++ S+ IVIL+A T+ E++ + GAD YLVKP + E+ A + A RR Sbjct: 67 VISEIR-NWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQLRRHAR 125 Query: 122 APHQSSPQSE------KWAFNRKSGRLSSNGKVALQFTDKESTALAALLQSPNYPVSHTQ 175 A S+ QS + + +S +G+ AL T E L+ LL+ ++H Q Sbjct: 126 A--SSAGQSSGRYRLGDVVVDLPARSVSRHGE-ALHLTQIEYRLLSTLLRDAGRVITHRQ 182 Query: 176 LFDLLRSGGEEYDAHRIDALIYRVRQKLRSLPEAPMQIRNIYGEGF 221 L D H + + R+RQKL P+ I G G+ Sbjct: 183 LLVAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGY 228 >gi|300313680|ref|YP_003777772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 218 Score = 79.0 bits (193), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 64/224 (28%), Positives = 115/224 (51%), Gaps = 9/224 (4%) Query: 1 MKVLIVESDLDWRNTLSTHVGELGYEISVCSSLGQARDI-LRCRQPDMLLSDIGLPDGSL 59 M+VL+VE D + + + G+ I G++ D+ LR MLL D+GLP Sbjct: 1 MRVLLVEDDPMVGEAVRKGLRQDGFAIDWVQD-GKSADVALRTEDYAMLLLDLGLPQKDG 59 Query: 60 SPELASLRQHFPSMGIVILTAATRSEERLRCMSDGADYYLVKPVKLDEVSATLTALARRM 119 L +LR+ ++ ++I TA +R+ + GAD YL+KP L+E+SA + AL+RR Sbjct: 60 LAVLRTLRERGNAIPVLITTARDAVADRVAGLDAGADDYLIKPFDLEELSARMRALSRR- 118 Query: 120 KTAPHQSSPQSEKWAFNRKSGRLSSNGKVALQFTDKESTALAALLQSPNYPVSHTQLFDL 179 + +S Q + N + ++ +GK + + +E T L A + P +S QL + Sbjct: 119 QAGRAESLVQVREVILNPATHEVTVSGK-PVNLSAREFTLLQAFMDRPGVVLSRAQLEEK 177 Query: 180 LRSGGEEYDAHRIDALIYRVRQKLRSLPEAPMQIRNIYGEGFLM 223 L + +++ ++ I+ +R+K+ S I+N+ G G+L+ Sbjct: 178 LYGWDDSIESNAVEVHIHALRKKVGS-----DFIKNVRGVGYLV 216 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 0.318 0.133 0.377 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: 710,455 Number of extensions: 27787 Number of successful extensions: 178 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 20 Length of query: 236 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 154 Effective length of database: 1,231,600 Effective search space: 189666400 Effective search space used: 189666400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)