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= 0001.3352.p (223 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312688|ref|YP_003776780.1| response regulator consisting o... 427 e-121 gi|300313818|ref|YP_003777910.1| two component transcription reg... 214 4e-57 gi|300309981|ref|YP_003774073.1| two component response regulato... 171 5e-44 gi|300311842|ref|YP_003775934.1| response regulator transcriptio... 168 4e-43 gi|300312680|ref|YP_003776772.1| two component response regulato... 166 1e-42 >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 = 427 bits (1099), Expect = e-121, Method: Compositional matrix adjust. Identities = 209/222 (94%), Positives = 217/222 (97%) Query: 1 MKLLLIEDNPQLAHWLEQILKEHKFTVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 MKLLLIEDNPQLAHWLEQILKEHKF VDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK Sbjct: 1 MKLLLIEDNPQLAHWLEQILKEHKFKVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 Query: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQS 120 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQ+ Sbjct: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQT 120 Query: 121 TDKAAEIHCGDLVYDSNTRQFAVAGVTLALPAREHDVLEVLMLKQGKTVSKTALMKGVFS 180 DKAAEIHCG+LVYDSNTRQFAV GVTLALPAREHDVLEVL+L+QGKTVSKTALMKGVFS Sbjct: 121 PDKAAEIHCGNLVYDSNTRQFAVGGVTLALPAREHDVLEVLILRQGKTVSKTALMKGVFS 180 Query: 181 LSEEPSADAIEIYISRLRKKLEHSSAAIMTLRGLGYLLKQKD 222 LSEEPSADAIE+YISRLRKKL+ S AAIMTLRGLGYLL+Q+D Sbjct: 181 LSEEPSADAIEVYISRLRKKLDRSGAAIMTLRGLGYLLRQRD 222 >gi|300313818|ref|YP_003777910.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 224 Score = 214 bits (546), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 108/222 (48%), Positives = 149/222 (67%), Gaps = 3/222 (1%) Query: 1 MKLLLIEDNPQLAHWLEQILKEHKFTVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 M++LL+ED+ +L+ WL + +++ TV+ A +G AD +L ++Y +V+LDL LP++ G Sbjct: 1 MRILLVEDHIELSRWLAKAMRDAHLTVECAHNGADADSLLLTQDYALVILDLTLPRMDGM 60 Query: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQS 120 VL+R+R R N PV+ILTA G + ++V L GADDYL KPFE+ EL AR+K L+RR Sbjct: 61 EVLKRMRARGNRTPVLILTARGGLADRVSGLNMGADDYLAKPFELEELEARVKALLRRSQ 120 Query: 121 TDKAAEIHCGDLVYDSNTRQFAVAGVTLALPAREHDVLEVLMLKQGKTVSKTALMKGVFS 180 ++A + CG L +D+ +R F G LAL REH VLE L+++ G TV K L + VF+ Sbjct: 121 NNEAVTVSCGALSFDTVSRTFTYGGELLALTPREHAVLEALIVRHGHTVPKEKLFQQVFT 180 Query: 181 LSEEPSADAIEIYISRLRKKLEHSS---AAIMTLRGLGYLLK 219 L + S DAIEIYI RLRKKLEH I TLRGLGYLL+ Sbjct: 181 LEDNASMDAIEIYIHRLRKKLEHEGPGRVGITTLRGLGYLLQ 222 >gi|300309981|ref|YP_003774073.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 171 bits (432), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 94/220 (42%), Positives = 137/220 (62%) Query: 1 MKLLLIEDNPQLAHWLEQILKEHKFTVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 M++LL ED+ LA L + L+ + D +G AD L +++D+++LDL LPK+ G Sbjct: 1 MRILLAEDDSVLADGLTRSLRHSGYAADCVKNGVEADSALSTQDFDLLILDLGLPKMSGL 60 Query: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQS 120 VLRRLR R++ +PV+ILTA+ S++++V+ L GADDY+ KPF + EL AR++ L RR + Sbjct: 61 EVLRRLRARNSRLPVLILTAADSVEQRVQGLDLGADDYMAKPFALSELEARVRALTRRGA 120 Query: 121 TDKAAEIHCGDLVYDSNTRQFAVAGVTLALPAREHDVLEVLMLKQGKTVSKTALMKGVFS 180 I G L YD R + L L ARE +LEVL+ + G+ VSK L+ + Sbjct: 121 GGGPTVIRHGPLSYDQVGRIAYIGEQMLELSARELGLLEVLLQRTGRLVSKEQLVDHLCE 180 Query: 181 LSEEPSADAIEIYISRLRKKLEHSSAAIMTLRGLGYLLKQ 220 EE S +AIE+Y+ RLRKK+E I T+RGLGY L++ Sbjct: 181 WGEEVSNNAIEVYVHRLRKKIEVGGVRIATVRGLGYCLEK 220 >gi|300311842|ref|YP_003775934.1| response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 168 bits (425), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 140/218 (64%), Gaps = 1/218 (0%) Query: 1 MKLLLIEDNPQLAHWLEQILKEHKFTVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 M++LL+ED +A + L TV+ ++G A + L E+YD+++LD+MLP+ G Sbjct: 1 MRILLVEDTADVAEAIVTHLNRIGHTVEWESNGAHASRRL-SESYDLLILDVMLPQQDGF 59 Query: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQS 120 ++L++LR R + PV++LTA ++E+V L GADDYLVKPF+ REL ARI+VL+RR Sbjct: 60 SLLQQLRTRGHHTPVLMLTACAEVEERVRALDLGADDYLVKPFDFRELDARIRVLLRRSG 119 Query: 121 TDKAAEIHCGDLVYDSNTRQFAVAGVTLALPAREHDVLEVLMLKQGKTVSKTALMKGVFS 180 + +HC +L D +R + G + L RE +LE++ + G+ +K LM +F+ Sbjct: 120 GESTNLLHCANLSIDRKSRSATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFT 179 Query: 181 LSEEPSADAIEIYISRLRKKLEHSSAAIMTLRGLGYLL 218 + + PSA+++E Y++RLRKKL ++ I TLRGLGY L Sbjct: 180 VDDNPSANSVEQYVARLRKKLAAAAFEIRTLRGLGYQL 217 >gi|300312680|ref|YP_003776772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 220 Score = 166 bits (420), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 135/222 (60%), Gaps = 3/222 (1%) Query: 1 MKLLLIEDNPQLAHWLEQILKEHKFTVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 M +LL+ED+P L L ++L H FTV +G D + + N V++LD+ LP + G Sbjct: 1 MNVLLVEDDPVLTDGLSRVLNSHGFTVHTVNNGN--DALSQRFNAAVLVLDIGLPGIDGF 58 Query: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQS 120 VLRR+R N PV++LTA +I ++V L GADDYLVKPF ELVARIK L+RR S Sbjct: 59 EVLRRMRAAGNNTPVLLLTARDTIPDRVHGLELGADDYLVKPFATPELVARIKALIRR-S 117 Query: 121 TDKAAEIHCGDLVYDSNTRQFAVAGVTLALPAREHDVLEVLMLKQGKTVSKTALMKGVFS 180 + A++ G L D+ T++ + G + L RE VLE LM + VSK ++ V Sbjct: 118 APQPAQLTVGGLSLDNATKRADIDGRKIELSLREWTVLEYLMQHASRVVSKQQIIDAVLP 177 Query: 181 LSEEPSADAIEIYISRLRKKLEHSSAAIMTLRGLGYLLKQKD 222 E+ + +A+E+Y+SR+R K+ S AI T+RG GY+L++ + Sbjct: 178 WGEDFTINAVEVYVSRIRLKIADSGVAIRTIRGFGYMLEKSE 219 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 0.137 0.380 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: 642,762 Number of extensions: 25072 Number of successful extensions: 202 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 39 Length of query: 223 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 141 Effective length of database: 1,231,600 Effective search space: 173655600 Effective search space used: 173655600 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)