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= 0029.0040.p (258 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... 469 e-133 gi|300313030|ref|YP_003777122.1| two component response regulato... 108 5e-25 gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 97 2e-21 gi|300313896|ref|YP_003777988.1| two component transcription res... 88 9e-19 gi|300313665|ref|YP_003777757.1| two component transcription reg... 79 5e-16 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 469 bits (1206), Expect = e-133, Method: Compositional matrix adjust. Identities = 233/256 (91%), Positives = 238/256 (92%) Query: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDESGHIVLVATDGLAALERLDHITPDLILLDA 60 MISTTFDRHVVLIVDDMPDNLAMLSDALD+SGHIVLVATDGL+ALERLDHITPDLILLDA Sbjct: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDA 60 Query: 61 MMPGIDGFETCRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 MMPGIDGFETCRRIKQV+RVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA Sbjct: 61 MMPGIDGFETCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 Query: 121 RIGAHIRTARMMTQTRGMLEHAAHAVIVLGGNGLPMWQTSKASQWLEKYYGPAAPASHKL 180 RIGAHIRTARMM Q RG LEHAAHAVIVLGGNGLPMW TSKASQWLEKYYGPAAPASHKL Sbjct: 121 RIGAHIRTARMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAPASHKL 180 Query: 181 PGPLQVWLNEQLVRQRQGESLDHVPPLIVRQQQDELHITLSGPGQGHGVSLVLEEKIAGS 240 P LQVWLNEQLVRQRQGESLD V PLIVRQ Q ELHITLSGPGQGHGVSLVLEEK G+ Sbjct: 181 PAALQVWLNEQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKPTGA 240 Query: 241 AQRGEELMALPATLEG 256 A R E+ LP TLEG Sbjct: 241 AARPEDGATLPPTLEG 256 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 108 bits (270), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 49/116 (42%), Positives = 79/116 (68%), Gaps = 1/116 (0%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGLAALERLDHITPDLILLDAMMPGIDGFET 70 +L+ DD P N+ ++ +AL + + + +AT GL 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 = 96.7 bits (239), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 45/119 (37%), Positives = 68/119 (57%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGLAALERLDHITPDLILLDAMMPGIDGFET 70 +L+VDD D+ +LS L G + + TDG + + 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 = 87.8 bits (216), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 49/125 (39%), Positives = 75/125 (60%), Gaps = 4/125 (3%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGLAALERLDHITPDLILLDAMMPGIDGFET 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 RMMTQ 134 ++ Q Sbjct: 135 ALVQQ 139 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 78.6 bits (192), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 46/120 (38%), Positives = 66/120 (55%), Gaps = 3/120 (2%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGLAALERLDHITPDLILLDAMMPGIDGFET 70 VLIVDD PD +L+D L+ + + A G 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 0.320 0.136 0.403 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: 912,638 Number of extensions: 40772 Number of successful extensions: 270 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 259 Number of HSP's successfully gapped: 38 Length of query: 258 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 175 Effective length of database: 1,226,865 Effective search space: 214701375 Effective search space used: 214701375 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: 129 (54.3 bits)