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= 0255.0019.p (390 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... 239 3e-64 gi|300313030|ref|YP_003777122.1| two component response regulato... 106 3e-24 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 97 2e-21 gi|300313980|ref|YP_003778072.1| two component response regulato... 97 2e-21 gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 97 3e-21 >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 = 239 bits (610), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 142/363 (39%), Positives = 200/363 (55%), Gaps = 21/363 (5%) Query: 12 VTKQTILLVDDTADNLTLMNDLLKD--RYKIKIANNGAKALRIAQAEAPPDLILLDIMMP 69 ++ IL+VDD NL+L + +L + +I + +AL Q AP DLILLD MMP Sbjct: 1 MSNMNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAP-DLILLDYMMP 59 Query: 70 EMDGYEVCRILKADVKTRDIPVIFLTAKSDPADEKMGLELGAVDYLTKPISPPIALARVK 129 MDG + +A PVI +TA L++ A D+L+KP++ LARVK Sbjct: 60 GMDGLDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVK 119 Query: 130 NHLLLKASADFLRDKSKFLEQEVESRTR--EVLAIQDVTILAMASLAETRDQETGNHIRR 187 N L ++ S + K L ++V+ + R + LA+ V +LA A A RD ETG H+ R Sbjct: 120 NMLAMRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARA--AGYRDPETGEHLTR 177 Query: 188 TQFYVKTLAEKLKDHPRFRAVLTESYINILFKSAPLHDIGKVGIPDRILLKPGRFEPHEF 247 Y + +A ++ L +L +AP+HDIGK+GIPD ILLKPGR + E Sbjct: 178 MANYARIIAARMG--------LDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEEL 229 Query: 248 EIMKTHTTLGRDAIEHAERALGTPVPFLSMAKEIAYGHQEKWDGSGYPQGLSGEDIPLSA 307 ++M+ H +G D + + +P P L A +IA H EKWDGSGYP GL GE IPL Sbjct: 230 KVMRMHARIGADIL------VASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYG 283 Query: 308 RLMAVADVYDALISRRVYKEGMPHDKAIQIIIDGKGKHFDPDLVDAFIELQDEFRAIAVR 367 R++AVADV+DAL S R YK G ++A Q + + G HFDP V+AF +E I R Sbjct: 284 RIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEIFNR 343 Query: 368 FHD 370 + + Sbjct: 344 YQE 346 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 106 bits (265), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 55/124 (44%), Positives = 78/124 (62%), Gaps = 1/124 (0%) Query: 17 ILLVDDTADNLTLMNDLLKDRYKIKIANNGAKALRIAQAEAPPDLILLDIMMPEMDGYEV 76 ILL DD N+ L+N LLK Y+I +A +G +A+ +++ PDLIL+D+ MP ++GY+ Sbjct: 18 ILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSE-RVTPDLILMDVNMPGLNGYDT 76 Query: 77 CRILKADVKTRDIPVIFLTAKSDPADEKMGLELGAVDYLTKPISPPIALARVKNHLLLKA 136 C LK + T IPVIFLT DE E+G VD+++KPI+ + ARV HL LK Sbjct: 77 CARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHLTLKL 136 Query: 137 SADF 140 +DF Sbjct: 137 QSDF 140 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 52/134 (38%), Positives = 77/134 (57%), Gaps = 8/134 (5%) Query: 223 LHDIGKVGIPDRILLKPGRFEPHEFEIMKTHTTLGRDAIEHAERALGTPVPFLSMAKEIA 282 LHDIGK+ +P IL KP + EF +++H G ++ P+ +++ Sbjct: 199 LHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQELPGIGDAPL-------DVS 251 Query: 283 YGHQEKWDGSGYPQGLSGEDIPLSARLMAVADVYDALISRRVYKEGMPHDKAIQIIIDGK 342 H EK DG+GYP LSG DI ++AR+ A+ DVYDA+ S R YK G ++IQ + K Sbjct: 252 LHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSGWDPSRSIQHMAQSK 311 Query: 343 GKHFDPDLVDAFIE 356 G HFD D++ AF++ Sbjct: 312 G-HFDFDVLQAFVK 324 >gi|300313980|ref|YP_003778072.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 199 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 61/199 (30%), Positives = 100/199 (50%), Gaps = 18/199 (9%) Query: 169 AMASLAETRDQETGNHIRRTQFYVKTLAEKLKDHPRFRAVLTESYINILFKSAPLHDIGK 228 AM ++ D T NH +T + L L I+ L ++ +HDIGK Sbjct: 16 AMIAVHRLTDGYTPNHEDQTAELAVMIGRHLD--------LATERIDALHMASQVHDIGK 67 Query: 229 VGIPDRILLKPGRFEPHEFEIMKTHTTLGRDAIEHAERALGTPVPFLSMAKEIAYGHQEK 288 IP +L KPGR E++++KTH G + + + F EI + H E Sbjct: 68 ARIPLALLTKPGRISVEEYDVLKTHVQFGYEIL--------NKISFPFNLAEIVHCHHEY 119 Query: 289 WDGSGYPQGLSGEDIPLSARLMAVADVYDALISRRVYKEGMPHDKAIQIIIDGKGKHFDP 348 DGSGYP+G+SG++IPL AR++ VAD+ +++ + R Y++ + A+ I G D Sbjct: 120 LDGSGYPRGISGDEIPLEARILTVADIVESMSADRPYRKSLGMSAALDEIQRQSGVRLDA 179 Query: 349 DLVDAFIEL--QDEFRAIA 365 +VDA +++ + +R I+ Sbjct: 180 VVVDACLDVVKRSNWRPIS 198 >gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid sensor/regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 262 Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 51/108 (47%), Positives = 69/108 (63%), Gaps = 2/108 (1%) Query: 13 TKQTILLVDDTADNLTLMND-LLKDRYKIKIANNGAKALRIAQAEAPPDLILLDIMMPEM 71 + Q IL+VDD D+ TL++ LL+ ++ I +G R AQ PDLIL+DI MP Sbjct: 15 SGQRILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQT-VRPDLILMDIRMPGY 73 Query: 72 DGYEVCRILKADVKTRDIPVIFLTAKSDPADEKMGLELGAVDYLTKPI 119 DG CR+LKA+ TR+IPVIFL+A + ++ GL GAVDY+TKP Sbjct: 74 DGLTSCRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPF 121 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 0.391 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: 1,171,920 Number of extensions: 49322 Number of successful extensions: 297 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 286 Number of HSP's successfully gapped: 45 Length of query: 390 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 303 Effective length of database: 1,207,925 Effective search space: 366001275 Effective search space used: 366001275 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)