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= 0001.0075.p (321 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311949|ref|YP_003776041.1| two component response regulato... 617 e-178 gi|300313030|ref|YP_003777122.1| two component response regulato... 107 9e-25 gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 96 3e-21 gi|300313896|ref|YP_003777988.1| two component transcription res... 88 1e-18 gi|300313665|ref|YP_003777757.1| two component transcription reg... 79 4e-16 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 617 bits (1590), Expect = e-178, Method: Compositional matrix adjust. Identities = 304/306 (99%), Positives = 305/306 (99%) Query: 1 VVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFE 60 VVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFE Sbjct: 10 VVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFE 69 Query: 61 TCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTA 120 TCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTA Sbjct: 70 TCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTA 129 Query: 121 RMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAPASHKLPAALQVWLN 180 RMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAPASHKLPAALQVWLN Sbjct: 130 RMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAPASHKLPAALQVWLN 189 Query: 181 EQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKPTGAAARPEDGAT 240 EQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKPTGAAARPEDGAT Sbjct: 190 EQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKPTGAAARPEDGAT 249 Query: 241 LPPTLEGCRLTPRESDVLLWLGKGKTNRDIADILGMSPRTVNKHLEHIFVKLGVETRSAA 300 LPPTLEGCRLTPRESDVLLWLGKGKTNRDIADILGMSPRTVNKHLEHIFVKLGVETRSAA Sbjct: 250 LPPTLEGCRLTPRESDVLLWLGKGKTNRDIADILGMSPRTVNKHLEHIFVKLGVETRSAA 309 Query: 301 AVLASS 306 AVLA + Sbjct: 310 AVLARA 315 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 107 bits (268), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 49/116 (42%), Positives = 78/116 (67%), Gaps = 1/116 (0%) Query: 2 VLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFET 61 +L+ DD P N+ ++ +AL + + +AT GL A+E + +TPDLIL+D MPG++G++T Sbjct: 18 ILLCDDQPINIRLV-NALLKGDYEIFMATSGLQAIELSERVTPDLILMDVNMPGLNGYDT 76 Query: 62 CRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHI 117 C R+KQ +PV+F+TGL E V+ FEVGG+D+++KPI + AR+ H+ Sbjct: 77 CARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHL 132 >gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid sensor/regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 262 Score = 96.3 bits (238), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 45/119 (37%), Positives = 68/119 (57%) Query: 2 VLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFET 61 +L+VDD D+ +LS L G + + TDG + + PDLIL+D MPG DG + Sbjct: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 Query: 62 CRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTA 120 CR +K ++PV+F++ + TE V G G +DY+TKP +EV R+ H+R+A Sbjct: 79 CRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLRSA 137 >gi|300313896|ref|YP_003777988.1| two component transcription response regulator protein [Herbaspirillum seropedicae SmR1] Length = 244 Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 52/129 (40%), Positives = 77/129 (59%), Gaps = 5/129 (3%) Query: 2 VLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFET 61 +LIV+D P +L L +G+ G +AL+ + PDLILLD M+PG+DG+E Sbjct: 18 ILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRPDLILLDIMLPGMDGWEI 77 Query: 62 CRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTK-PIRPQEVVARIGAHIRTA 120 CR Q+R + VPV+ +T +E E +RG E+G DY+ K P P+E+VAR+ + +R Sbjct: 78 CR---QLRTFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRR- 133 Query: 121 RMMVQARGA 129 +VQ R A Sbjct: 134 NALVQQRTA 142 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 79.3 bits (194), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 47/120 (39%), Positives = 66/120 (55%), Gaps = 3/120 (2%) Query: 2 VLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFET 61 VLIVDD PD +L+D L+ + + A G L D+I+LD MMPG DG E Sbjct: 7 VLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGEDGLEL 66 Query: 62 CRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTAR 121 CR +++ R + P+V +T + G EVG DY+ KP P+E++ARI +R AR Sbjct: 67 CRELRKKR---NTPLVMLTARGTLIDRIVGLEVGADDYLPKPFDPRELLARIKVILRRAR 123 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 0.135 0.395 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: 1,107,948 Number of extensions: 51336 Number of successful extensions: 320 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 315 Number of HSP's successfully gapped: 36 Length of query: 321 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 236 Effective length of database: 1,217,395 Effective search space: 287305220 Effective search space used: 287305220 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: 130 (54.7 bits)