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= 0001.0027.p (178 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311773|ref|YP_003775865.1| two component response regulato... 309 1e-85 gi|300311909|ref|YP_003776001.1| response regulator consisting o... 125 2e-30 gi|300314013|ref|YP_003778105.1| two component response regulato... 64 9e-12 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 63 1e-11 gi|300313916|ref|YP_003778008.1| two component response regulato... 58 5e-10 >gi|300311773|ref|YP_003775865.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 178 Score = 309 bits (791), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 153/178 (85%), Positives = 159/178 (89%) Query: 1 MSTERLLLIIEDDAAFARTLSRSFERRGYVVLHAASQDEAAALLTQHNPGYAVVDLKLNG 60 M +RLLLIIEDDAAFARTL RSFERRGY VL AASQ+EAA L QH PGYAVVDLKL G Sbjct: 1 MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAQHLQQHRPGYAVVDLKLGG 60 Query: 61 NTSGLSCVQMLHQHDEAMLIVVLTGFASIGTAVEAIKLGAIQYLAKPSNTDDIEAAFGQV 120 N SGL+CVQMLH HDE MLIVVLTGFASI TAVEAIKLGA QYLAKPSNTDDIEAAFG V Sbjct: 61 NASGLACVQMLHAHDEDMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHV 120 Query: 121 AGNTEVELTARSTSIKNLEWERIHEVLVETDFNISETARRLGMHRRTLARKLEKQRVK 178 AG +EVEL AR+TSIK LEWERIHEVLV+TDFNISETARRLGMHRRTLARKLEKQRVK Sbjct: 121 AGVSEVELPARATSIKTLEWERIHEVLVDTDFNISETARRLGMHRRTLARKLEKQRVK 178 >gi|300311909|ref|YP_003776001.1| response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Herbaspirillum seropedicae SmR1] Length = 182 Score = 125 bits (315), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/177 (45%), Positives = 103/177 (58%), Gaps = 7/177 (3%) Query: 7 LLIIEDDAAFARTLSRSFERRGYVVLHAASQDEAAALLTQHNPGYAVVDLKLNGNTSGLS 66 LI++D+ FA TL+RS RRG+ A S + A + YA +DL+L + SGL Sbjct: 5 FLILDDNDVFAGTLARSLARRGFRATVAHSGEAALEAARRERFDYATIDLQLEKD-SGLQ 63 Query: 67 CVQMLHQHDEAMLIVVLTGFASIGTAVEAIKLGAIQYLAKPSNTDDIEAAF-----GQVA 121 V L Q ++VLTG+ASI T V+AIK GA YLAKP+N D I +A G+ A Sbjct: 64 WVSPLRQALPHARLLVLTGYASIATTVQAIKSGADNYLAKPANVDSILSALSHSGNGEQA 123 Query: 122 GNTEVELT-ARSTSIKNLEWERIHEVLVETDFNISETARRLGMHRRTLARKLEKQRV 177 T + + A S++ LEWE I VL E + NIS TAR L MHRRTL RKL K+ V Sbjct: 124 AETPLPVEEASPLSLERLEWEHIQRVLAEHEGNISSTARALNMHRRTLQRKLAKRPV 180 >gi|300314013|ref|YP_003778105.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 228 Score = 63.5 bits (153), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 36/108 (33%), Positives = 57/108 (52%), Gaps = 1/108 (0%) Query: 7 LLIIEDDAAFARTLSRSFERRGYVVLHAASQDEAAALLTQHNPGYAVVDLKLNGNTSGLS 66 +L++EDD +R L R+ ERRG+ V H A A + + V+DL + G GL Sbjct: 3 ILLVEDDIDMSRALLRALERRGFQVTHCADGISALSHIKDGIGDLVVLDLNIPG-LDGLH 61 Query: 67 CVQMLHQHDEAMLIVVLTGFASIGTAVEAIKLGAIQYLAKPSNTDDIE 114 +Q + D ++VLT ++G V + GA YLAKP + D+++ Sbjct: 62 LLQRIRSQDIGTPVIVLTARGAVGDRVVGLNAGADDYLAKPFDLDELD 109 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 63.2 bits (152), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 35/106 (33%), Positives = 60/106 (56%), Gaps = 1/106 (0%) Query: 8 LIIEDDAAFARTLSRSFERRGYVVLHAASQDEAAALLTQHNPGYAVVDLKLNGNTSGLSC 67 L+IED+ R +++ E G+ V S +EA L+T+ G V D++L G SGL Sbjct: 11 LLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLPG-LSGLDV 69 Query: 68 VQMLHQHDEAMLIVVLTGFASIGTAVEAIKLGAIQYLAKPSNTDDI 113 + + D + ++V+TG +G AVEA++ GA ++ KP ++D + Sbjct: 70 LARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTL 115 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 57.8 bits (138), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 37/101 (36%), Positives = 57/101 (56%), Gaps = 2/101 (1%) Query: 7 LLIIEDDAAFARTLSRSFERRGYVVLHAASQDEAAALLTQHNPGYAVVDLKLNGNTSGLS 66 +LI++DDAAF +L+ + G+ VL A S LL H A+VDL++ + GL+ Sbjct: 4 ILIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMP-DEDGLA 62 Query: 67 CVQMLHQHDEAMLIVVLTGFASIGTAVEAIKLGAIQYLAKP 107 +Q A+ ++LT +AS +EAI+LGA +L KP Sbjct: 63 FLQRAPAI-AAIPCIMLTAYASGDNTIEAIRLGAFDHLTKP 102 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 0.131 0.357 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: 499,125 Number of extensions: 17950 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 8 Length of query: 178 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 99 Effective length of database: 1,245,805 Effective search space: 123334695 Effective search space used: 123334695 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: 127 (53.5 bits)