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= 0001.2680.p (328 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... 578 e-166 gi|300313030|ref|YP_003777122.1| two component response regulato... 106 3e-24 gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 100 2e-22 gi|300313896|ref|YP_003777988.1| two component transcription res... 90 2e-19 gi|300313665|ref|YP_003777757.1| two component transcription reg... 82 6e-17 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 578 bits (1491), Expect = e-166, Method: Compositional matrix adjust. Identities = 285/315 (90%), Positives = 293/315 (93%) Query: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDA 60 MISTTFDRHVVLIVDDMPDNLAMLSDALD+SGHIVLVATDG +ALERLDHITPDLILLDA Sbjct: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDA 60 Query: 61 MMPGIDGFETCRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 MMPGIDGFETCRRIKQV+RVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA Sbjct: 61 MMPGIDGFETCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 Query: 121 RIGAHIRTARLMTQTRGVLEHAAHAVIVLGGNGLPMWQTSKASQWLEKYYGPAAPTSHKL 180 RIGAHIRTAR+M Q RG LEHAAHAVIVLGGNGLPMW TSKASQWLEKYYGPAAP SHKL Sbjct: 121 RIGAHIRTARMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAPASHKL 180 Query: 181 PAPLQVWLNEQLVRQRQGGSLDHVPPLIVRHQQDALHITLSGPGQGHGVSLVLEEKTASA 240 PA LQVWLNEQLVRQRQG SLD V PLIVR Q LHITLSGPGQGHGVSLVLEEK A Sbjct: 181 PAALQVWLNEQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKPTGA 240 Query: 241 ALRTDEGMSLPPTLESCRLTPRESDVLLWLGKGKTNRDIAEILGMSPRTVNKHLEHIFVK 300 A R ++G +LPPTLE CRLTPRESDVLLWLGKGKTNRDIA+ILGMSPRTVNKHLEHIFVK Sbjct: 241 AARPEDGATLPPTLEGCRLTPRESDVLLWLGKGKTNRDIADILGMSPRTVNKHLEHIFVK 300 Query: 301 LGVETRSAAAVLASA 315 LGVETRSAAAVLA A Sbjct: 301 LGVETRSAAAVLARA 315 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 106 bits (264), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 48/116 (41%), Positives = 78/116 (67%), Gaps = 1/116 (0%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFET 70 +L+ DD P N+ ++ +AL + + + +AT G A+E + +TPDLIL+D MPG++G++T Sbjct: 18 ILLCDDQPINIRLV-NALLKGDYEIFMATSGLQAIELSERVTPDLILMDVNMPGLNGYDT 76 Query: 71 CRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHI 126 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 = 100 bits (249), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 46/119 (38%), Positives = 69/119 (57%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFET 70 +L+VDD D+ +LS L G + + TDGQ + + PDLIL+D MPG DG + Sbjct: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 Query: 71 CRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTA 129 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 = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 50/125 (40%), Positives = 75/125 (60%), Gaps = 4/125 (3%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFET 70 +LIV+D P +L L +G+ G AAL+ + PDLILLD M+PG+DG+E Sbjct: 18 ILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRPDLILLDIMLPGMDGWEI 77 Query: 71 CRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTK-PIRPQEVVARIGAHIRTA 129 CR Q++ + VPV+ +T +E E +RG E+G DY+ K P P+E+VAR+ + +R Sbjct: 78 CR---QLRTFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRRN 134 Query: 130 RLMTQ 134 L+ Q Sbjct: 135 ALVQQ 139 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 82.0 bits (201), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 47/120 (39%), Positives = 67/120 (55%), Gaps = 3/120 (2%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFET 70 VLIVDD PD +L+D L+ + + A GQ L D+I+LD MMPG DG E Sbjct: 7 VLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGEDGLEL 66 Query: 71 CRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTAR 130 CR +++ + + 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 0.319 0.134 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: 1,082,169 Number of extensions: 47944 Number of successful extensions: 290 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 283 Number of HSP's successfully gapped: 35 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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)