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= 0001.2157.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... 348 2e-97 gi|300311909|ref|YP_003776001.1| response regulator consisting o... 130 8e-32 gi|300314013|ref|YP_003778105.1| two component response regulato... 65 5e-12 gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 58 5e-10 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 55 2e-09 >gi|300311773|ref|YP_003775865.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 178 Score = 348 bits (892), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 170/178 (95%), Positives = 174/178 (97%) Query: 1 MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAANQEEAAAHLKDHHPGYAVVDLKLGG 60 MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAA+QEEAA HL+ H PGYAVVDLKLGG Sbjct: 1 MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAQHLQQHRPGYAVVDLKLGG 60 Query: 61 NASGLACVQMLHAHDEHMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHV 120 NASGLACVQMLHAHDE MLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHV Sbjct: 61 NASGLACVQMLHAHDEDMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHV 120 Query: 121 AGVAELELPARATSIKTLEWERIHEVLVDTDFNISETARRLGMHRRTLARKLEKQRVK 178 AGV+E+ELPARATSIKTLEWERIHEVLVDTDFNISETARRLGMHRRTLARKLEKQRVK 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 = 130 bits (326), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 81/177 (45%), Positives = 102/177 (57%), Gaps = 7/177 (3%) Query: 7 LLIIEDDAAFARTLGRSFERRGYTVLLAANQEEAAAHLKDHHPGYAVVDLKLGGNASGLA 66 LI++D+ FA TL RS RRG+ +A + E A + YA +DL+L + SGL Sbjct: 5 FLILDDNDVFAGTLARSLARRGFRATVAHSGEAALEAARRERFDYATIDLQLEKD-SGLQ 63 Query: 67 CVQMLHAHDEHMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHVAG---V 123 V L H ++VLTG+ASI T V+AIK GA YLAKP+N D I +A H Sbjct: 64 WVSPLRQALPHARLLVLTGYASIATTVQAIKSGADNYLAKPANVDSILSALSHSGNGEQA 123 Query: 124 AELELP---ARATSIKTLEWERIHEVLVDTDFNISETARRLGMHRRTLARKLEKQRV 177 AE LP A S++ LEWE I VL + + 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 = 64.7 bits (156), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 37/108 (34%), Positives = 60/108 (55%), Gaps = 1/108 (0%) Query: 7 LLIIEDDAAFARTLGRSFERRGYTVLLAANQEEAAAHLKDHHPGYAVVDLKLGGNASGLA 66 +L++EDD +R L R+ ERRG+ V A+ A +H+KD V+DL + G GL Sbjct: 3 ILLVEDDIDMSRALLRALERRGFQVTHCADGISALSHIKDGIGDLVVLDLNIPG-LDGLH 61 Query: 67 CVQMLHAHDEHMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIE 114 +Q + + D ++VLT ++ V + GA YLAKP + D+++ Sbjct: 62 LLQRIRSQDIGTPVIVLTARGAVGDRVVGLNAGADDYLAKPFDLDELD 109 >gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcription activator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 57.8 bits (138), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 31/105 (29%), Positives = 58/105 (55%), Gaps = 1/105 (0%) Query: 7 LLIIEDDAAFARTLGRSFERRGYTVLLAANQEEAAAHLKDHHPGYAVVDLKLGGNASGLA 66 + I++DD + L ++ R ++ +A A L++ P V D+++ G ASGL Sbjct: 4 IWIVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPG-ASGLE 62 Query: 67 CVQMLHAHDEHMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTD 111 +Q + A + ++++T F+ + +AV A + GA +YLAKP + D Sbjct: 63 LLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVD 107 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 55.5 bits (132), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 33/106 (31%), Positives = 56/106 (52%), Gaps = 1/106 (0%) Query: 8 LIIEDDAAFARTLGRSFERRGYTVLLAANQEEAAAHLKDHHPGYAVVDLKLGGNASGLAC 67 L+IED+ R ++ E G+ V + EEA + G V D++L G SGL Sbjct: 11 LLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLPG-LSGLDV 69 Query: 68 VQMLHAHDEHMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDI 113 + + A D + ++V+TG + AVEA++ GA ++ KP ++D + Sbjct: 70 LARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTL 115 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 0.134 0.383 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: 548,548 Number of extensions: 21114 Number of successful extensions: 154 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 7 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 127 (53.5 bits)