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= 0027.0308.p (139 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 280 3e-77 gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR ... 66 1e-12 gi|300309635|ref|YP_003773727.1| biopolymer transport ExbD/TolR ... 62 2e-11 gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 59 2e-10 >gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 144 Score = 280 bits (716), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 139/139 (100%), Positives = 139/139 (100%) Query: 1 MRGGRPRKFKSEINVVPYIDVMLVLLIIFMVATPITNPSVINLPTAGKSTQPPSDYIEIA 60 MRGGRPRKFKSEINVVPYIDVMLVLLIIFMVATPITNPSVINLPTAGKSTQPPSDYIEIA Sbjct: 6 MRGGRPRKFKSEINVVPYIDVMLVLLIIFMVATPITNPSVINLPTAGKSTQPPSDYIEIA 65 Query: 61 LKPNSQATIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVV 120 LKPNSQATIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVV Sbjct: 66 LKPNSQATIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVV 125 Query: 121 QVISEAKKQGIARVGLATK 139 QVISEAKKQGIARVGLATK Sbjct: 126 QVISEAKKQGIARVGLATK 144 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 66.2 bits (160), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 47/132 (35%), Positives = 72/132 (54%), Gaps = 13/132 (9%) Query: 9 FKSEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNSQA 67 F EIN P +DVMLVLLIIF++ P+ N +V I+LP A S+QP +KP S Sbjct: 13 FNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKA--SSQPDQ------VKPES-- 62 Query: 68 TIRINGPKSGG-KKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISEA 126 I ++ SG E +LS R+ P+ + + A++ +Y++V QV+S A Sbjct: 63 -INLSIDASGNVFWNEEKIDSGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVMSAA 121 Query: 127 KKQGIARVGLAT 138 + G+A++G T Sbjct: 122 QSGGLAKIGFVT 133 >gi|300309635|ref|YP_003773727.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 135 Score = 62.4 bits (150), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/134 (30%), Positives = 70/134 (52%), Gaps = 7/134 (5%) Query: 6 PRKFKSEINVVPYIDVMLVLLIIFMVATPITNPSVINLPTAGKSTQPPSDYIEIALKPNS 65 P+K K+ + ++P IDVM+ LL+ F++ S+ +P G TQ PS LKP + Sbjct: 7 PKKRKARVEIIPMIDVMMFLLVFFVLI------SLNVIPALGLKTQLPSSSTAQDLKPQT 60 Query: 66 QATIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISE 125 +A I I + E T L+ RL KL + +L ++I++D+ ++ +V V+ Sbjct: 61 KAVITIAKDEVIQVDGENTTLDA-LTARLDKLRHEGEKLNLIINSDRGVEVQRLVDVMDT 119 Query: 126 AKKQGIARVGLATK 139 KK G + +AT+ Sbjct: 120 LKKGGFDSISIATR 133 >gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 148 Score = 58.5 bits (140), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 38/129 (29%), Positives = 66/129 (51%), Gaps = 11/129 (8%) Query: 11 SEINVVPYIDVMLVLLIIFMVATPI-TNPSVINLPTAGKSTQPPSDYIEIALKPNSQATI 69 ++INV P +DVMLVLL+IF++ P+ T+ ++LPTA +S P I L ++ + Sbjct: 16 ADINVTPMVDVMLVLLVIFIITAPMFTHALKLDLPTA-QSAPAPEKPETITLGIDAAGKL 74 Query: 70 RINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISEAKKQ 129 N + +L RL P+ + + ADK +Y + +V+S A+ Sbjct: 75 YWN---------DQPVSSEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMSAAQGA 125 Query: 130 GIARVGLAT 138 G++++G T Sbjct: 126 GLSKLGFVT 134 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 0.314 0.133 0.365 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: 405,393 Number of extensions: 14415 Number of successful extensions: 42 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 43 Number of HSP's successfully gapped: 4 Length of query: 139 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 63 Effective length of database: 1,260,010 Effective search space: 79380630 Effective search space used: 79380630 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: 42 (21.9 bits) S2: 126 (53.1 bits)