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= 0014.0042.p (340 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... 480 e-137 gi|300313030|ref|YP_003777122.1| two component response regulato... 103 3e-23 gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 99 4e-22 gi|300313896|ref|YP_003777988.1| two component transcription res... 87 2e-18 gi|300310849|ref|YP_003774941.1| two component transcription reg... 77 2e-15 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 480 bits (1236), Expect = e-137, Method: Compositional matrix adjust. Identities = 246/336 (73%), Positives = 271/336 (80%), Gaps = 22/336 (6%) Query: 1 MMSTTFDRHVVLIVDDKPDNLAMLSDSLDESGHIVLVATDGISALERLDYITPDLILLDA 60 M+STTFDRHVVLIVDD PDNLAMLSD+LD+SGHIVLVATDG+SALERLD+ITPDLILLDA Sbjct: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDA 60 Query: 61 MMPGIDGFETCKRIKLIKSVNHVPVVFMTGLTETEHVVRGFEVGGIDYVTKPIKPQEVVA 120 MMPGIDGFETC+RIK ++ V HVPVVFMTGL+ETEHVVRGFEVGGIDYVTKPI+PQEVVA Sbjct: 61 MMPGIDGFETCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 Query: 121 RIGAHIKTARMMSQARGMLEHAAHAVIVLSANGLPLWQTSKASLWLEKYFPPGAAAVNAG 180 RIGAHI+TARMM QARG LEHAAHAVIVL NGLP+W TSKAS WLEKY+ P A A Sbjct: 121 RIGAHIRTARMMVQARGALEHAAHAVIVLGGNGLPMWLTSKASQWLEKYYGPAAP---AS 177 Query: 181 HRLPTMLQSWLNESLVRQRQGNG--DIRPLVTTQGDSELRVALSAPGQGHEITLLLEEKN 238 H+LP LQ WLNE LVRQRQG + PL+ Q EL + LS PGQGH ++L+LEEK Sbjct: 178 HKLPAALQVWLNEQLVRQRQGESLDQVAPLIVRQPQGELHITLSGPGQGHGVSLVLEEKP 237 Query: 239 IGAEIAAATTATLLQSASQGGETLLPG--SVHLTPRESDVLMWLGKGKTNRDIADILGMS 296 GA + + G TL P LTPRESDVL+WLGKGKTNRDIADILGMS Sbjct: 238 TGA-----------AARPEDGATLPPTLEGCRLTPRESDVLLWLGKGKTNRDIADILGMS 286 Query: 297 PRTVNKHLEHIFVKLGVETRSAAAVMASGVQQASTL 332 PRTVNKHLEHIFVKLGVETRSAAAV+A +ASTL Sbjct: 287 PRTVNKHLEHIFVKLGVETRSAAAVLA----RASTL 318 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 103 bits (256), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 47/119 (39%), Positives = 80/119 (67%), Gaps = 1/119 (0%) Query: 8 RHVVLIVDDKPDNLAMLSDSLDESGHIVLVATDGISALERLDYITPDLILLDAMMPGIDG 67 R +L+ DD+P N+ ++ ++L + + + +AT G+ A+E + +TPDLIL+D MPG++G Sbjct: 15 RPRILLCDDQPINIRLV-NALLKGDYEIFMATSGLQAIELSERVTPDLILMDVNMPGLNG 73 Query: 68 FETCKRIKLIKSVNHVPVVFMTGLTETEHVVRGFEVGGIDYVTKPIKPQEVVARIGAHI 126 ++TC R+K +PV+F+TGL E V+ FEVGG+D+++KPI + AR+ H+ Sbjct: 74 YDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHL 132 >gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid sensor/regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 262 Score = 99.4 bits (246), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 45/119 (37%), Positives = 69/119 (57%) Query: 11 VLIVDDKPDNLAMLSDSLDESGHIVLVATDGISALERLDYITPDLILLDAMMPGIDGFET 70 +L+VDD D+ +LS L G + + TDG + + PDLIL+D MPG DG + Sbjct: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 Query: 71 CKRIKLIKSVNHVPVVFMTGLTETEHVVRGFEVGGIDYVTKPIKPQEVVARIGAHIKTA 129 C+ +K S ++PV+F++ T TE V G G +DY+TKP +EV R+ H+++A Sbjct: 79 CRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLRSA 137 >gi|300313896|ref|YP_003777988.1| two component transcription response regulator protein [Herbaspirillum seropedicae SmR1] Length = 244 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 76/125 (60%), Gaps = 4/125 (3%) Query: 11 VLIVDDKPDNLAMLSDSLDESGHIVLVATDGISALERLDYITPDLILLDAMMPGIDGFET 70 +LIV+D+P +L L +G+ G +AL+ + PDLILLD M+PG+DG+E Sbjct: 18 ILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRPDLILLDIMLPGMDGWEI 77 Query: 71 CKRIKLIKSVNHVPVVFMTGLTETEHVVRGFEVGGIDYVTK-PIKPQEVVARIGAHIKTA 129 C++ +++ + VPV+ +T E E +RG E+G DY+ K P P+E+VAR+ + ++ Sbjct: 78 CRQ---LRTFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRRN 134 Query: 130 RMMSQ 134 ++ Q Sbjct: 135 ALVQQ 139 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 42/117 (35%), Positives = 66/117 (56%), Gaps = 3/117 (2%) Query: 11 VLIVDDKPDNLAMLSDSLDESGHIVLVATDGISALERLDYITPDLILLDAMMPGIDGFET 70 +L+VDD D +L++ LD +G L AT+G L+ DLI+LD +PG DG Sbjct: 10 ILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGLTL 69 Query: 71 CKRIKLIKSVNHVPVVFMTGLTETEHVVRGFEVGGIDYVTKPIKPQEVVARIGAHIK 127 C+ ++ S VPV+ +T E + G E+G DY+ KP +P+E+ ARI + ++ Sbjct: 70 CRNLRATSS---VPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLR 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 0.317 0.133 0.380 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: 1,074,709 Number of extensions: 43980 Number of successful extensions: 302 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 294 Number of HSP's successfully gapped: 34 Length of query: 340 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 254 Effective length of database: 1,212,660 Effective search space: 308015640 Effective search space used: 308015640 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: 131 (55.1 bits)