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= 0001.1337.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|300310828|ref|YP_003774920.1| amino acid ABC transporter perm... 421 e-119 gi|300313888|ref|YP_003777980.1| amino acid ABC transporter perm... 260 7e-71 gi|300313167|ref|YP_003777259.1| amino acid ABC transporter perm... 250 8e-68 gi|300309584|ref|YP_003773676.1| amino acid ABC transporter perm... 204 5e-54 gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm... 130 8e-32 >gi|300310828|ref|YP_003774920.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 421 bits (1082), Expect = e-119, Method: Compositional matrix adjust. Identities = 211/216 (97%), Positives = 214/216 (99%) Query: 1 MLAEFSWDNFLFLLEAARWTLLLSALAFIGGGIAGFIVALMRTSHLAPLRLLSAVYIQII 60 MLAEFS+DNF+FLLEAARWTLLLSALAF+GGGIAGFIVALMRTSHLAPLRLLSAVYIQII Sbjct: 1 MLAEFSFDNFVFLLEAARWTLLLSALAFLGGGIAGFIVALMRTSHLAPLRLLSAVYIQII 60 Query: 61 QGTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAS 120 QGTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAS Sbjct: 61 QGTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAS 120 Query: 121 TALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNAT 180 TALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNAT Sbjct: 121 TALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNAT 180 Query: 181 FQPFLVFPIVAAIYFVFCYPLSRFAFVLERKYHAHR 216 FQPFLVFPIVA IYFVFCYPLSRFAF LERKYHAHR Sbjct: 181 FQPFLVFPIVAGIYFVFCYPLSRFAFALERKYHAHR 216 >gi|300313888|ref|YP_003777980.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 217 Score = 260 bits (664), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 123/217 (56%), Positives = 172/217 (79%), Gaps = 1/217 (0%) Query: 1 MLAEFSWDNFLFLLEAARWTLLLSALAFIGGGIAGFIVALMRTSHLAPLRLLSAVYIQII 60 M+ FSW F F++++ WTL+LSALAF+ GG GF+V L R S A LR + ++I+ + Sbjct: 1 MMGGFSWTYFFFMVQSIGWTLVLSALAFVLGGAGGFLVMLARISPHAWLRRPAILFIECV 60 Query: 61 QGTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAS 120 QG P+LILLF+ ++GL+++G LP +VAA +AM IY+SAYLG+IWRGC+EA+P PQWEAS Sbjct: 61 QGIPLLILLFIVYFGLSVYGLVLPALVAAGLAMMIYTSAYLGDIWRGCVEAMPRPQWEAS 120 Query: 121 TALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNAT 180 L++TRWQ LR VI+PQA R+SLPPT+GFLVQ++K TS+AS+IG VEL +AG++++N+ Sbjct: 121 ECLSLTRWQTLRLVIIPQATRLSLPPTIGFLVQLIKMTSLASVIGFVELTRAGQIINNSI 180 Query: 181 FQPFLVFPIVAAIYFVFCYPLSRFAFVLERKYH-AHR 216 FQPFLVF +V + YF+ CYPLSR++ +ERK + +HR Sbjct: 181 FQPFLVFLLVGSFYFLLCYPLSRWSASMERKLNVSHR 217 >gi|300313167|ref|YP_003777259.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 250 bits (638), Expect = 8e-68, Method: Compositional matrix adjust. Identities = 121/216 (56%), Positives = 170/216 (78%), Gaps = 1/216 (0%) Query: 2 LAEFSWDNFLFLLEAARWTLLLSALAFIGGGIAGFIVALMRTSHLAPLRLLSAVYIQIIQ 61 + FS+ + +LL+AA WT++LS +AF+ GG+AGF++AL R S A LR +++ YIQ++Q Sbjct: 1 MNAFSFLHVEYLLQAAVWTVVLSLVAFVFGGVAGFVIALWRVSPNAVLRGIASGYIQVVQ 60 Query: 62 GTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEAST 121 G P+L++LF++++GLAI G+KL P+VAA I+ IY +A+LGEIWRGCI+AVP QWEAS Sbjct: 61 GIPLLVILFVAYFGLAIAGFKLTPLVAAGISFAIYCAAFLGEIWRGCIQAVPKTQWEASE 120 Query: 122 ALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNATF 181 L R++QL VILPQAV+I+ PPTVGF+VQIVKNTS+AS+IG V+L++AG++++N+TF Sbjct: 121 CLGFNRFEQLTKVILPQAVKIATPPTVGFMVQIVKNTSLASVIGFVDLSRAGQIINNSTF 180 Query: 182 QPFLVFPIVAAIYFVFCYPLSRFAFVLERKYH-AHR 216 QPF VF VA IYF C+PLS + ERK + +HR Sbjct: 181 QPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 >gi|300309584|ref|YP_003773676.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 215 Score = 204 bits (518), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 97/177 (54%), Positives = 134/177 (75%), Gaps = 2/177 (1%) Query: 42 RTSHLAPLRLLSAVYIQIIQGTPVLILLFLSFYGLAIFGY-KLPPMVAATIAMTIYSSAY 100 R S L PLR L+A +IQ+IQGTP+L+L+ + FYG A+ G + + AA AM IY+SA+ Sbjct: 38 RVSALRPLRRLAAAWIQLIQGTPLLVLMGVCFYGPALAGVGTVEALPAAATAMLIYTSAF 97 Query: 101 LGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSI 160 LGEIWRGCI++V QWEA+ + ++RWQ++R ++LPQA+R++ PPTVGF VQ++KNTS+ Sbjct: 98 LGEIWRGCIQSVHKSQWEAAECIGLSRWQRMRMIVLPQALRMATPPTVGFAVQVIKNTSV 157 Query: 161 AS-IIGLVELAQAGKLVSNATFQPFLVFPIVAAIYFVFCYPLSRFAFVLERKYHAHR 216 AS +IG EL+ K+++N+TFQPFL F A +YF CYPLSR++ LERK HAHR Sbjct: 158 ASLVIGFAELSYNAKVLNNSTFQPFLYFGSAALLYFAMCYPLSRWSRALERKLHAHR 214 >gi|300311471|ref|YP_003775563.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 130 bits (327), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 72/205 (35%), Positives = 123/205 (60%), Gaps = 1/205 (0%) Query: 13 LLEAARWTLLLSALAFIGGGIAGFIVALMRTSHLAPLRLLSAVYIQIIQGTPVLILLFLS 72 L + +TLL + + +GG + GF++A+ R P+ +A+Y+ +++GTP+L+ +F+ Sbjct: 16 LAKGVGYTLLFALASMLGGLVLGFVLAVARIVPWRPIHWPAAIYVSMMRGTPLLVQIFVV 75 Query: 73 FYGLAIFGYKLPPMVAATIAMTIYSSAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLR 132 +YGL G + P+ A + +++ +SAYL E RG I V QW A+ ++ +T +Q LR Sbjct: 76 YYGLPGMGIEFSPLTAGVLTLSLNASAYLSESLRGAILGVTRGQWNAAFSVGLTYFQTLR 135 Query: 133 YVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELAQAGKLVSNATFQPFLVFPIVAA 192 Y+I+PQAVRI++P L+ ++K+TS+ S+I + EL A K V TF+P ++ AA Sbjct: 136 YIIVPQAVRIAVPSMSNTLISLIKDTSLVSVITVTELMLATKEVIAVTFRPLPLYVAAAA 195 Query: 193 IYFVFCYPLSRFAFVLERKY-HAHR 216 IY++ LE+K AH+ Sbjct: 196 IYWMLSLCFEALQHRLEKKLGKAHQ 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 0.440 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: 570,185 Number of extensions: 20075 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 121 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)