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= 0025.0180.p (350 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310565|ref|YP_003774657.1| response regulator containing a... 259 2e-70 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 110 2e-25 gi|300313030|ref|YP_003777122.1| two component response regulato... 107 1e-24 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 107 1e-24 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 105 4e-24 >gi|300310565|ref|YP_003774657.1| response regulator containing a CheY-like receiver domain and an HD-GYP domain [Herbaspirillum seropedicae SmR1] Length = 348 Score = 259 bits (663), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 146/339 (43%), Positives = 195/339 (57%), Gaps = 16/339 (4%) Query: 15 SRQTLLLVDDEPTNLHVLRHTLQS--DYRLLFAKSGQAALDLARSDPPDLILLDVMMPAM 72 S +L+VDD+ TNL + H L R+ + ALD + PDLILLD MMP M Sbjct: 2 SNMNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGM 61 Query: 73 SGYEVCAALKQESSMAEIPVIFVTALADAENEQQGLELGAVDYITKPFSPHIVQATTSPN 132 G + + + PVI +TA + L++ A D+++KP + + A Sbjct: 62 DGLDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNM 121 Query: 133 LLARTLSLVRAQEL--------QETR------LKIVQCLGAAAEYKDNETGLHVIRMSNY 178 L R L +Q++ Q+ R L V L AA Y+D ETG H+ RM+NY Sbjct: 122 LAMRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANY 181 Query: 179 AKIIAIAAGYSSREANDLLHAAPMHDVGKIGIPDAILCKPGALTADEWRVMQQHSEIGAK 238 A+IIA G S++ LL+AAPMHD+GK+GIPD IL KPG L +E +VM+ H+ IGA Sbjct: 182 ARIIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGAD 241 Query: 239 IIGNHTSRMLRMAASIALGHHEKWDGSGYPNRLARDDIPHAARIVAIADVFDALTSVRPY 298 I+ S +L+ A+ IAL HHEKWDGSGYPN L + IP RIVA+ADVFDALTS RPY Sbjct: 242 ILVASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPY 301 Query: 299 KNAWSPEDAAAHIRSESGKHFDPELVEIFMECLPQILEV 337 K WS E A+ ++R +SG HFDP VE F ++LE+ Sbjct: 302 KPGWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEI 340 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 59/167 (35%), Positives = 97/167 (58%), Gaps = 2/167 (1%) Query: 165 DNETGLHVIRMSNYAKIIAIAAGYSSREANDLLHAAPMHDVGKIGIPDAILCKPGALTAD 224 DN T +H + + +A G S++E A +HD+GK+ +P +IL KP LT + Sbjct: 162 DNYTYMHSVAVCAMMISLADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEE 221 Query: 225 EWRVMQQHSEIGAKIIGNHTSRMLRMAASIALGHHEKWDGSGYPNRLARDDIPHAARIVA 284 E+ +Q H G +++ + ++L HHEK DG+GYP +L+ DI AR+ A Sbjct: 222 EFVSVQSHPLAGHRLL-QELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGA 280 Query: 285 IADVFDALTSVRPYKNAWSPEDAAAHIRSESGKHFDPELVEIFMECL 331 I DV+DA+TS RPYK+ W P + H+ ++S HFD ++++ F++ + Sbjct: 281 ICDVYDAITSDRPYKSGWDPSRSIQHM-AQSKGHFDFDVLQAFVKAV 326 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 49/116 (42%), Positives = 74/116 (63%) Query: 12 LNDSRQTLLLVDDEPTNLHVLRHTLQSDYRLLFAKSGQAALDLARSDPPDLILLDVMMPA 71 L R +LL DD+P N+ ++ L+ DY + A SG A++L+ PDLIL+DV MP Sbjct: 11 LRGGRPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSERVTPDLILMDVNMPG 70 Query: 72 MSGYEVCAALKQESSMAEIPVIFVTALADAENEQQGLELGAVDYITKPFSPHIVQA 127 ++GY+ CA LKQ + IPVIF+T L E+E + E+G VD+I+KP + +++A Sbjct: 71 LNGYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKA 126 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 107 bits (267), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 62/168 (36%), Positives = 92/168 (54%), Gaps = 2/168 (1%) Query: 164 KDNETGLHVIRMSNYAKIIAIAAGYSSREANDLLHAAPMHDVGKIGIPDAILCKPGALTA 223 D T LH + + + G S + + +HDVGK I D IL KPG LTA Sbjct: 152 NDEYTYLHSVSVCALVIGLGRTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKPGKLTA 211 Query: 224 DEWRVMQQHSEIGAKIIGNHTSRMLRMAASIALGHHEKWDGSGYPNRLARDDIPHAARIV 283 +E+ ++++H E+G + + T M A+ + HHE+ DG GYP+ L + I AR+ Sbjct: 212 EEFALIKRHPELGYQYL-IQTPDMPAYASDVCRHHHERLDGRGYPDALPAESITLYARMT 270 Query: 284 AIADVFDALTSVRPYKNAWSPEDAAAHIRSESGKHFDPELVEIFMECL 331 A+ DV+DALTS RPYK+ W P +A + + G HFD L+ F++ L Sbjct: 271 AVCDVYDALTSERPYKHGWDPAEAISQMARWEG-HFDRRLLLAFVKTL 317 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 105 bits (263), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 59/167 (35%), Positives = 93/167 (55%), Gaps = 2/167 (1%) Query: 165 DNETGLHVIRMSNYAKIIAIAAGYSSREANDLLHAAPMHDVGKIGIPDAILCKPGALTAD 224 D+ T LH + + +A G + ++ A +HDVGK+ +P IL KP LT + Sbjct: 159 DDYTYLHSVAVCAMMISLANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEE 218 Query: 225 EWRVMQQHSEIGAKIIGNHTSRMLRMAASIALGHHEKWDGSGYPNRLARDDIPHAARIVA 284 E+ ++ H+ G I+ + +A ++L HHEK DGSGYP L D I A++ A Sbjct: 219 EFASVRMHTVQGHGIL-QQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGA 277 Query: 285 IADVFDALTSVRPYKNAWSPEDAAAHIRSESGKHFDPELVEIFMECL 331 + DV+DA+TS RPYK W P + H+ + +G HFDP ++ F++ + Sbjct: 278 VCDVYDAITSNRPYKAGWDPARSIRHMAASAG-HFDPITMQAFVKAI 323 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 0.133 0.388 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: 1,091,698 Number of extensions: 44721 Number of successful extensions: 287 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 275 Number of HSP's successfully gapped: 43 Length of query: 350 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 264 Effective length of database: 1,212,660 Effective search space: 320142240 Effective search space used: 320142240 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: 131 (55.1 bits)