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= 0001.3779.p (216 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313167|ref|YP_003777259.1| amino acid ABC transporter perm... 411 e-116 gi|300313888|ref|YP_003777980.1| amino acid ABC transporter perm... 265 2e-72 gi|300310828|ref|YP_003774920.1| amino acid ABC transporter perm... 253 1e-68 gi|300309584|ref|YP_003773676.1| amino acid ABC transporter perm... 204 6e-54 gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm... 132 2e-32 >gi|300313167|ref|YP_003777259.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 411 bits (1057), Expect = e-116, Method: Compositional matrix adjust. Identities = 205/216 (94%), Positives = 211/216 (97%) Query: 1 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGGLAGFVIALWRVSPHASLRTIASLYIQVVQ 60 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGG+AGFVIALWRVSP+A LR IAS YIQVVQ Sbjct: 1 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGGVAGFVIALWRVSPNAVLRGIASGYIQVVQ 60 Query: 61 GIPLLVILFVAYFGLAIAGLKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEAAQ 120 GIPLLVILFVAYFGLAIAG KLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEA++ Sbjct: 61 GIPLLVILFVAYFGLAIAGFKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEASE 120 Query: 121 CLGLNRFEQLSKVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDLARAGQIINNSTF 180 CLG NRFEQL+KVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDL+RAGQIINNSTF Sbjct: 121 CLGFNRFEQLTKVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDLSRAGQIINNSTF 180 Query: 181 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR Sbjct: 181 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 >gi|300313888|ref|YP_003777980.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 217 Score = 265 bits (678), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 126/216 (58%), Positives = 167/216 (77%) Query: 1 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGGLAGFVIALWRVSPHASLRTIASLYIQVVQ 60 M FS+ + +++Q+ WT+VLS +AFV GG GF++ L R+SPHA LR A L+I+ VQ Sbjct: 2 MGGFSWTYFFFMVQSIGWTLVLSALAFVLGGAGGFLVMLARISPHAWLRRPAILFIECVQ 61 Query: 61 GIPLLVILFVAYFGLAIAGLKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEAAQ 120 GIPLL++LF+ YFGL++ GL L LVAAG++ IY +A+LG+IWRGC++A+P+ QWEA++ Sbjct: 62 GIPLLILLFIVYFGLSVYGLVLPALVAAGLAMMIYTSAYLGDIWRGCVEAMPRPQWEASE 121 Query: 121 CLGLNRFEQLSKVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDLARAGQIINNSTF 180 CL L R++ L VI+PQA +++ PPT+GF+VQ++K TSLASVIGFV+L RAGQIINNS F Sbjct: 122 CLSLTRWQTLRLVIIPQATRLSLPPTIGFLVQLIKMTSLASVIGFVELTRAGQIINNSIF 181 Query: 181 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 QPF VF V YF LC+PLS S ERKLNVSHR Sbjct: 182 QPFLVFLLVGSFYFLLCYPLSRWSASMERKLNVSHR 217 >gi|300310828|ref|YP_003774920.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 253 bits (645), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 122/216 (56%), Positives = 171/216 (79%), Gaps = 1/216 (0%) Query: 1 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGGLAGFVIALWRVSPHASLRTIASLYIQVVQ 60 + FSF + +LL+AA WT++LS +AF+ GG+AGF++AL R S A LR ++++YIQ++Q Sbjct: 2 LAEFSFDNFVFLLEAARWTLLLSALAFLGGGIAGFIVALMRTSHLAPLRLLSAVYIQIIQ 61 Query: 61 GIPLLVILFVAYFGLAIAGLKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEAAQ 120 G P+L++LF++++GLAI G KL P+VAA I+ IY +A+LGEIWRGCI+AVP QWEA+ Sbjct: 62 GTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAST 121 Query: 121 CLGLNRFEQLSKVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDLARAGQIINNSTF 180 L + R++QL VILPQAV+I+ PPTVGF+VQIVKNTS+AS+IG V+LA+AG++++N+TF Sbjct: 122 ALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNATF 181 Query: 181 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 QPF VF VA IYF C+PLS + ERK + +HR Sbjct: 182 QPFLVFPIVAGIYFVFCYPLSRFAFALERKYH-AHR 216 >gi|300309584|ref|YP_003773676.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 215 Score = 204 bits (518), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 96/178 (53%), Positives = 137/178 (76%), Gaps = 2/178 (1%) Query: 41 RVSPHASLRTIASLYIQVVQGIPLLVILFVAYFGLAIAGL-KLTPLVAAGISFAIYCAAF 99 RVS LR +A+ +IQ++QG PLLV++ V ++G A+AG+ + L AA + IY +AF Sbjct: 38 RVSALRPLRRLAAAWIQLIQGTPLLVLMGVCFYGPALAGVGTVEALPAAATAMLIYTSAF 97 Query: 100 LGEIWRGCIQAVPKTQWEAAQCLGLNRFEQLSKVILPQAVKIATPPTVGFMVQIVKNTSL 159 LGEIWRGCIQ+V K+QWEAA+C+GL+R++++ ++LPQA+++ATPPTVGF VQ++KNTS+ Sbjct: 98 LGEIWRGCIQSVHKSQWEAAECIGLSRWQRMRMIVLPQALRMATPPTVGFAVQVIKNTSV 157 Query: 160 AS-VIGFVDLARAGQIINNSTFQPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 AS VIGF +L+ +++NNSTFQPF FG AL+YF +C+PLS S+ ERKL+ R Sbjct: 158 ASLVIGFAELSYNAKVLNNSTFQPFLYFGSAALLYFAMCYPLSRWSRALERKLHAHRR 215 >gi|300311471|ref|YP_003775563.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 132 bits (332), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 70/199 (35%), Positives = 119/199 (59%) Query: 18 WTVVLSLVAFVFGGLAGFVIALWRVSPHASLRTIASLYIQVVQGIPLLVILFVAYFGLAI 77 +T++ +L + + G + GFV+A+ R+ P + A++Y+ +++G PLLV +FV Y+GL Sbjct: 22 YTLLFALASMLGGLVLGFVLAVARIVPWRPIHWPAAIYVSMMRGTPLLVQIFVVYYGLPG 81 Query: 78 AGLKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEAAQCLGLNRFEQLSKVILPQ 137 G++ +PL A ++ ++ +A+L E RG I V + QW AA +GL F+ L +I+PQ Sbjct: 82 MGIEFSPLTAGVLTLSLNASAYLSESLRGAILGVTRGQWNAAFSVGLTYFQTLRYIIVPQ 141 Query: 138 AVKIATPPTVGFMVQIVKNTSLASVIGFVDLARAGQIINNSTFQPFTVFGCVALIYFCLC 197 AV+IA P ++ ++K+TSL SVI +L A + + TF+P ++ A IY+ L Sbjct: 142 AVRIAVPSMSNTLISLIKDTSLVSVITVTELMLATKEVIAVTFRPLPLYVAAAAIYWMLS 201 Query: 198 FPLSALSKHFERKLNVSHR 216 AL E+KL +H+ Sbjct: 202 LCFEALQHRLEKKLGKAHQ 220 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 0.331 0.142 0.441 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: 634,389 Number of extensions: 23987 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 19 Length of query: 216 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 135 Effective length of database: 1,236,335 Effective search space: 166905225 Effective search space used: 166905225 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 128 (53.9 bits)