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= 0001.4187.p (213 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313616|ref|YP_003777708.1| TetR family transcription regul... 399 e-113 gi|300311331|ref|YP_003775423.1| transcription regulator protein... 73 2e-14 >gi|300313616|ref|YP_003777708.1| TetR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 210 Score = 399 bits (1025), Expect = e-113, Method: Compositional matrix adjust. Identities = 194/209 (92%), Positives = 202/209 (96%) Query: 1 MIKTRGRPRSFDREQALHQAMQVFWSKGYEGTTMADLTAAIGVKAPSLYAAFGDKDALFR 60 MI+TRGRPRSFDR+QAL QAMQVFWSKGYEGTTMADLT AIGVKAPSLYAAFGDKDALFR Sbjct: 1 MIRTRGRPRSFDRDQALQQAMQVFWSKGYEGTTMADLTEAIGVKAPSLYAAFGDKDALFR 60 Query: 61 EVVEVYARTVSAEPLRLLQAGKGIYQDLLAMLRASVRMYSGKTTLPGLPVGKGCMVVVSA 120 EVVEVYARTVSAEPLRLLQAGKGI +DL AMLRASVRMYSGK+T+PGLP GKGCMVV+SA Sbjct: 61 EVVEVYARTVSAEPLRLLQAGKGIREDLQAMLRASVRMYSGKSTVPGLPAGKGCMVVISA 120 Query: 121 INCAPENSEHSDALSQRRHKRRNEIRARLLQAQREGEIRADADVTALGDFYTSFLNGLAL 180 INCAPENSEHSDALSQRRHKRRNEIRARLLQAQREGEIRADADVTALGDFYTSFLNGLAL Sbjct: 121 INCAPENSEHSDALSQRRHKRRNEIRARLLQAQREGEIRADADVTALGDFYTSFLNGLAL 180 Query: 181 GARDGVSSARLAATLQPAMLPLESVLSGS 209 GA+DGVSSARLAATL PAMLPLESVL G+ Sbjct: 181 GAKDGVSSARLAATLGPAMLPLESVLLGA 209 >gi|300311331|ref|YP_003775423.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 73.2 bits (178), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/201 (32%), Positives = 101/201 (50%), Gaps = 12/201 (5%) Query: 6 GRPRSFDREQALHQAMQVFWSKGYEGTTMADLTAAIGVKAPSLYAAFGDKDALFREVVEV 65 GRPR FD +QAL A++VF +GY G +++DL+ A+ + SLY AF DK +LF +E Sbjct: 32 GRPREFDADQALDGAVRVFSERGYAGASISDLSEAMQLAQGSLYKAFRDKQSLFLAALER 91 Query: 66 YARTVSAEPL-RLLQAGKGIYQDLLAMLRASVRMYSGKTTLPGLPVGKGCMVVVSAINCA 124 Y RT +E L R + AG + L ML ++ ++ G +GC+VV SA+ A Sbjct: 92 Y-RTQRSEKLRRAIDAGATGRERLRNML-----LFYAESA-QGAAGRQGCLVVSSAV--A 142 Query: 125 PENSEHSDALSQRRHKRRNE--IRARLLQAQREGEIRADADVTALGDFYTSFLNGLALGA 182 E S A RNE + + Q Q++G + A AD + G+ + Sbjct: 143 ITGFEPSVATQIASTLARNEALLGELIRQGQQDGSVAAHADPPSTARLLLCLTQGMRVVG 202 Query: 183 RDGVSSARLAATLQPAMLPLE 203 + G S + A ++ A+ L+ Sbjct: 203 KAGRSRKEMLALVEVALKVLD 223 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 0.132 0.372 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: 649,236 Number of extensions: 26239 Number of successful extensions: 103 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 2 Length of query: 213 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 132 Effective length of database: 1,236,335 Effective search space: 163196220 Effective search space used: 163196220 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: 128 (53.9 bits)