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= 0001.2190.p (222 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311331|ref|YP_003775423.1| transcription regulator protein... 172 3e-44 gi|300313616|ref|YP_003777708.1| TetR family transcription regul... 72 3e-14 gi|300310597|ref|YP_003774689.1| transcription regulator protein... 59 3e-10 >gi|300311331|ref|YP_003775423.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 172 bits (435), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 92/196 (46%), Positives = 125/196 (63%), Gaps = 7/196 (3%) Query: 30 GRPREFDYDEVLERAIRLFRQRGYGATSIADLVEATGLTRGSLYKAFKDKKSIYMTAFER 89 GRPREFD D+ L+ A+R+F +RGY SI+DL EA L +GSLYKAF+DK+S+++ A ER Sbjct: 32 GRPREFDADQALDGAVRVFSERGYAGASISDLSEAMQLAQGSLYKAFRDKQSLFLAALER 91 Query: 90 YVASGHERIRAIARAEGSGRERVARLLAHYLEQSSGEPGRLGCLVVATGVEASVLEEEIA 149 Y E++R A +GRER+ +L Y E + G GR GCLVV++ V + E +A Sbjct: 92 YRTQRSEKLRRAIDAGATGRERLRNMLLFYAESAQGAAGRQGCLVVSSAVAITGFEPSVA 151 Query: 150 QLFEQALKRLEAVLAELIRVGMEDHSIAAQLNAPVAAKSLLCFLQGLRVVGKSDAHRPHL 209 L R EA+L ELIR G +D S+AA + P A+ LLC QG+RVVGK+ R Sbjct: 152 TQIASTLARNEALLGELIRQGQQDGSVAAHADPPSTARLLLCLTQGMRVVGKAGRSR--- 208 Query: 210 NKKMLAM---AMKMLD 222 K+MLA+ A+K+LD Sbjct: 209 -KEMLALVEVALKVLD 223 >gi|300313616|ref|YP_003777708.1| TetR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 210 Score = 72.4 bits (176), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 55/176 (31%), Positives = 85/176 (48%), Gaps = 10/176 (5%) Query: 29 RGRPREFDYDEVLERAIRLFRQRGYGATSIADLVEATGLTRGSLYKAFKDKKSIYMTAFE 88 RGRPR FD D+ L++A+++F +GY T++ADL EA G+ SLY AF DK +++ E Sbjct: 5 RGRPRSFDRDQALQQAMQVFWSKGYEGTTMADLTEAIGVKAPSLYAAFGDKDALFREVVE 64 Query: 89 RYVAS-GHERIRAIARAEGSGRERVARLLAHYLEQSSGE------PGRLGCLVVATGVEA 141 Y + E +R + +G RE + +L + SG+ P GC+VV + + Sbjct: 65 VYARTVSAEPLRLLQAGKGI-REDLQAMLRASVRMYSGKSTVPGLPAGKGCMVVISAINC 123 Query: 142 SVLEEEIAQLFEQAL-KRLEAVLAELIRVGMEDHSIAAQLNAPVAAKSLLCFLQGL 196 + E + Q KR + A L++ E I A + FL GL Sbjct: 124 APENSEHSDALSQRRHKRRNEIRARLLQAQREGE-IRADADVTALGDFYTSFLNGL 178 >gi|300310597|ref|YP_003774689.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 198 Score = 58.9 bits (141), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 52/193 (26%), Positives = 88/193 (45%), Gaps = 19/193 (9%) Query: 33 REFDYDEVLERAIRLFRQRGYGATSIADLVEATGLTRGSLYKAFKDKKSIYMTAFER-YV 91 ++ +D +++ A R R+ G +AD+++ GLT G Y F+ + ++ A + Sbjct: 12 KQVSHDRIVDVASRAIRRAGANGVGVADIMKEAGLTHGGFYAHFESRNALVSEAMRHAWQ 71 Query: 92 ASGHERIRAIARAEGSGRERVARLLAHYLEQSSGEPGRLGCLVVATGVEASVLEEEIAQL 151 + + A+AR +G R A L+ YL S E GC++ A L E+ +L Sbjct: 72 DTSQALMNAMARRVAAGESRFAALVNCYLHDSHLEKVEQGCVIAA-------LSSEMTRL 124 Query: 152 FEQA---LKRLEAVLAELIRVGMEDHSIAAQLNAPVAAKSLLCFLQGLRVVGKSDAHRPH 208 E A KRL A L L+R + A N + A +++ LQ R +G Sbjct: 125 DEAARGDAKRLVAQLIALVRSCLPPGCDPA--NGAIVASTMMGALQLARTLGGKQ----- 177 Query: 209 LNKKMLAMAMKML 221 +++LA+A K L Sbjct: 178 -GRELLALARKQL 189 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 0.134 0.366 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: 597,704 Number of extensions: 22918 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 4 Length of query: 222 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 140 Effective length of database: 1,231,600 Effective search space: 172424000 Effective search space used: 172424000 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)