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= 0001.4584.p (199 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313980|ref|YP_003778072.1| two component response regulato... 348 1e-97 gi|300310565|ref|YP_003774657.1| response regulator containing a... 112 2e-26 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 100 1e-22 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 99 2e-22 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 98 5e-22 >gi|300313980|ref|YP_003778072.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 199 Score = 348 bits (894), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 164/199 (82%), Positives = 181/199 (90%) Query: 1 MPVSEQNKIYQEIIDALIAMHRLTDGYTPNHEDQTAELAVMIGQHLNLPRGRIDVLHMAA 60 MPVSE NKIYQE+IDA+IA+HRLTDGYTPNHEDQTAELAVMIG+HL+L RID LHMA+ Sbjct: 1 MPVSESNKIYQEVIDAMIAVHRLTDGYTPNHEDQTAELAVMIGRHLDLATERIDALHMAS 60 Query: 61 QVHDIGKARIPLDLLTKPGRITADEYGVLKTHVQFGYEILNKISFPFNLAEIVWCHHEYL 120 QVHDIGKARIPL LLTKPGRI+ +EY VLKTHVQFGYEILNKISFPFNLAEIV CHHEYL Sbjct: 61 QVHDIGKARIPLALLTKPGRISVEEYDVLKTHVQFGYEILNKISFPFNLAEIVHCHHEYL 120 Query: 121 DGSGYPRGIGAEALPLEARILTVADIVESMSADRPYRKSLGMRVALEEIQRQSGSRLDPM 180 DGSGYPRGI + +PLEARILTVADIVESMSADRPYRKSLGM AL+EIQRQSG RLD + Sbjct: 121 DGSGYPRGISGDEIPLEARILTVADIVESMSADRPYRKSLGMSAALDEIQRQSGVRLDAV 180 Query: 181 VVEACVQVVKQQNWRPLAN 199 VV+AC+ VVK+ NWRP++N Sbjct: 181 VVDACLDVVKRSNWRPISN 199 >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 = 112 bits (280), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 63/184 (34%), Positives = 98/184 (53%), Gaps = 2/184 (1%) Query: 3 VSEQNKIYQEIIDALIAMHRLTDGYTPNHEDQTAELAVMIGQHLNLPRGRIDVLHMAAQV 62 V + + + +D L D T H + A A +I + L + ++L AA + Sbjct: 146 VRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYARIIAARMGLDSQQQELLLNAAPM 205 Query: 63 HDIGKARIPLDLLTKPGRITADEYGVLKTHVQFGYEILNKISFPF--NLAEIVWCHHEYL 120 HDIGK IP +L KPGR+ +E V++ H + G +IL P ++I HHE Sbjct: 206 HDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADILVASPSPLLQTASQIALTHHEKW 265 Query: 121 DGSGYPRGIGAEALPLEARILTVADIVESMSADRPYRKSLGMRVALEEIQRQSGSRLDPM 180 DGSGYP G+ E +PL RI+ VAD+ +++++ RPY+ + A + ++ QSG+ DP Sbjct: 266 DGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPR 325 Query: 181 VVEA 184 VEA Sbjct: 326 CVEA 329 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 100 bits (248), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 50/154 (32%), Positives = 87/154 (56%), Gaps = 1/154 (0%) Query: 22 RLTDGYTPNHEDQTAELAVMIGQHLNLPRGRIDVLHMAAQVHDIGKARIPLDLLTKPGRI 81 +L D YT H L + +G+ L L ++ +HD+GKA I ++L KPG++ Sbjct: 150 KLNDEYTYLHSVSVCALVIGLGRTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKPGKL 209 Query: 82 TADEYGVLKTHVQFGYEILNKI-SFPFNLAEIVWCHHEYLDGSGYPRGIGAEALPLEARI 140 TA+E+ ++K H + GY+ L + P +++ HHE LDG GYP + AE++ L AR+ Sbjct: 210 TAEEFALIKRHPELGYQYLIQTPDMPAYASDVCRHHHERLDGRGYPDALPAESITLYARM 269 Query: 141 LTVADIVESMSADRPYRKSLGMRVALEEIQRQSG 174 V D+ ++++++RPY+ A+ ++ R G Sbjct: 270 TAVCDVYDALTSERPYKHGWDPAEAISQMARWEG 303 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 99.4 bits (246), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 100/178 (56%), Gaps = 4/178 (2%) Query: 15 DALIAMHRL--TDGYTPNHEDQTAELAVMIGQHLNLPRGRIDVLHMAAQVHDIGKARIPL 72 DALI++ RL TD YT H + + + L + + MA +HD+GK +PL Sbjct: 147 DALISLARLKTTDDYTYLHSVAVCAMMISLANQLGMTPQQTKQAGMAGLLHDVGKMAVPL 206 Query: 73 DLLTKPGRITADEYGVLKTHVQFGYEILNKISFPFNLA-EIVWCHHEYLDGSGYPRGIGA 131 D+L KP ++T +E+ ++ H G+ IL +I +A ++ HHE +DGSGYP + A Sbjct: 207 DILNKPAKLTEEEFASVRMHTVQGHGILQQIEGIGEVALDVSLHHHEKIDGSGYPFNLKA 266 Query: 132 EALPLEARILTVADIVESMSADRPYRKSLGMRVALEEIQRQSGSRLDPMVVEACVQVV 189 +++ + A++ V D+ ++++++RPY+ ++ + +G DP+ ++A V+ + Sbjct: 267 DSISIMAKMGAVCDVYDAITSNRPYKAGWDPARSIRHMAASAG-HFDPITMQAFVKAI 323 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 97.8 bits (242), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 49/154 (31%), Positives = 88/154 (57%), Gaps = 1/154 (0%) Query: 22 RLTDGYTPNHEDQTAELAVMIGQHLNLPRGRIDVLHMAAQVHDIGKARIPLDLLTKPGRI 81 +L D YT H L V +G+ L L + +HD+GKA IP +LL KPG++ Sbjct: 153 KLADEYTYLHSVAVCALMVALGRTLGLDETACREAGLGGFLHDVGKAFIPHELLNKPGKL 212 Query: 82 TADEYGVLKTHVQFGYEILNKI-SFPFNLAEIVWCHHEYLDGSGYPRGIGAEALPLEARI 140 + +E+ +K H + GY+ L++ + P ++ HHE +DG+GYP G+ A A+ L +R+ Sbjct: 213 SDEEFSQIKKHPELGYKYLSQDPNVPDYARDVCLHHHEKIDGNGYPEGLRAGAITLYSRM 272 Query: 141 LTVADIVESMSADRPYRKSLGMRVALEEIQRQSG 174 + D+ +++++DRPY+++ A+ + +G Sbjct: 273 AAICDVYDALTSDRPYKRAWDPAEAISAMASWTG 306 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 0.321 0.137 0.406 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: 625,593 Number of extensions: 25279 Number of successful extensions: 79 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 70 Number of HSP's successfully gapped: 11 Length of query: 199 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 118 Effective length of database: 1,236,335 Effective search space: 145887530 Effective search space used: 145887530 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: 128 (53.9 bits)