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= 0041.0009.p (179 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... 339 8e-95 gi|300313888|ref|YP_003777980.1| amino acid ABC transporter perm... 228 2e-61 gi|300313167|ref|YP_003777259.1| amino acid ABC transporter perm... 223 5e-60 gi|300309584|ref|YP_003773676.1| amino acid ABC transporter perm... 207 6e-55 gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm... 117 5e-28 >gi|300310828|ref|YP_003774920.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 339 bits (869), Expect = 8e-95, Method: Compositional matrix adjust. Identities = 167/179 (93%), Positives = 174/179 (97%) Query: 1 VALMRTSHLQILRTLSAVYIQIIQGTPVLIILFLSFYGLAIYGFKLPPMVAATIAMTIYT 60 VALMRTSHL LR LSAVYIQIIQGTPVLI+LFLSFYGLAI+G+KLPPMVAATIAMTIY+ Sbjct: 38 VALMRTSHLAPLRLLSAVYIQIIQGTPVLILLFLSFYGLAIFGYKLPPMVAATIAMTIYS 97 Query: 61 SAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKN 120 SAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKN Sbjct: 98 SAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKN 157 Query: 121 TSIASIIGLVELTQAGKLVSNATFQPFLVFPIVAAIYFIFCYPLSRFSFALERKFHAHR 179 TSIASIIGLVEL QAGKLVSNATFQPFLVFPIVA IYF+FCYPLSRF+FALERK+HAHR Sbjct: 158 TSIASIIGLVELAQAGKLVSNATFQPFLVFPIVAGIYFVFCYPLSRFAFALERKYHAHR 216 >gi|300313888|ref|YP_003777980.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 217 Score = 228 bits (582), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 106/180 (58%), Positives = 146/180 (81%), Gaps = 1/180 (0%) Query: 1 VALMRTSHLQILRTLSAVYIQIIQGTPVLIILFLSFYGLAIYGFKLPPMVAATIAMTIYT 60 V L R S LR + ++I+ +QG P+LI+LF+ ++GL++YG LP +VAA +AM IYT Sbjct: 38 VMLARISPHAWLRRPAILFIECVQGIPLLILLFIVYFGLSVYGLVLPALVAAGLAMMIYT 97 Query: 61 SAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKN 120 SAYLG+IWRGC+EA+P PQWEAS L++TRWQ LR VI+PQA R+SLPPT+GFLVQ++K Sbjct: 98 SAYLGDIWRGCVEAMPRPQWEASECLSLTRWQTLRLVIIPQATRLSLPPTIGFLVQLIKM 157 Query: 121 TSIASIIGLVELTQAGKLVSNATFQPFLVFPIVAAIYFIFCYPLSRFSFALERKFH-AHR 179 TS+AS+IG VELT+AG++++N+ FQPFLVF +V + YF+ CYPLSR+S ++ERK + +HR Sbjct: 158 TSLASVIGFVELTRAGQIINNSIFQPFLVFLLVGSFYFLLCYPLSRWSASMERKLNVSHR 217 >gi|300313167|ref|YP_003777259.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 216 Score = 223 bits (569), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 106/180 (58%), Positives = 142/180 (78%), Gaps = 1/180 (0%) Query: 1 VALMRTSHLQILRTLSAVYIQIIQGTPVLIILFLSFYGLAIYGFKLPPMVAATIAMTIYT 60 +AL R S +LR +++ YIQ++QG P+L+ILF++++GLAI GFKL P+VAA I+ IY Sbjct: 37 IALWRVSPNAVLRGIASGYIQVVQGIPLLVILFVAYFGLAIAGFKLTPLVAAGISFAIYC 96 Query: 61 SAYLGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKN 120 +A+LGEIWRGCI+AVP QWEAS L R++QL VILPQAV+I+ PPTVGF+VQIVKN Sbjct: 97 AAFLGEIWRGCIQAVPKTQWEASECLGFNRFEQLTKVILPQAVKIATPPTVGFMVQIVKN 156 Query: 121 TSIASIIGLVELTQAGKLVSNATFQPFLVFPIVAAIYFIFCYPLSRFSFALERKFH-AHR 179 TS+AS+IG V+L++AG++++N+TFQPF VF VA IYF C+PLS S ERK + +HR Sbjct: 157 TSLASVIGFVDLSRAGQIINNSTFQPFTVFGCVALIYFCLCFPLSALSKHFERKLNVSHR 216 >gi|300309584|ref|YP_003773676.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 215 Score = 207 bits (526), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 98/177 (55%), Positives = 135/177 (76%), Gaps = 2/177 (1%) Query: 5 RTSHLQILRTLSAVYIQIIQGTPVLIILFLSFYGLAIYGFK-LPPMVAATIAMTIYTSAY 63 R S L+ LR L+A +IQ+IQGTP+L+++ + FYG A+ G + + AA AM IYTSA+ Sbjct: 38 RVSALRPLRRLAAAWIQLIQGTPLLVLMGVCFYGPALAGVGTVEALPAAATAMLIYTSAF 97 Query: 64 LGEIWRGCIEAVPVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSI 123 LGEIWRGCI++V QWEA+ + ++RWQ++R ++LPQA+R++ PPTVGF VQ++KNTS+ Sbjct: 98 LGEIWRGCIQSVHKSQWEAAECIGLSRWQRMRMIVLPQALRMATPPTVGFAVQVIKNTSV 157 Query: 124 AS-IIGLVELTQAGKLVSNATFQPFLVFPIVAAIYFIFCYPLSRFSFALERKFHAHR 179 AS +IG EL+ K+++N+TFQPFL F A +YF CYPLSR+S ALERK HAHR Sbjct: 158 ASLVIGFAELSYNAKVLNNSTFQPFLYFGSAALLYFAMCYPLSRWSRALERKLHAHR 214 >gi|300311471|ref|YP_003775563.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 117 bits (293), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 61/165 (36%), Positives = 101/165 (61%), Gaps = 1/165 (0%) Query: 16 SAVYIQIIQGTPVLIILFLSFYGLAIYGFKLPPMVAATIAMTIYTSAYLGEIWRGCIEAV 75 +A+Y+ +++GTP+L+ +F+ +YGL G + P+ A + +++ SAYL E RG I V Sbjct: 56 AAIYVSMMRGTPLLVQIFVVYYGLPGMGIEFSPLTAGVLTLSLNASAYLSESLRGAILGV 115 Query: 76 PVPQWEASTALAMTRWQQLRYVILPQAVRISLPPTVGFLVQIVKNTSIASIIGLVELTQA 135 QW A+ ++ +T +Q LRY+I+PQAVRI++P L+ ++K+TS+ S+I + EL A Sbjct: 116 TRGQWNAAFSVGLTYFQTLRYIIVPQAVRIAVPSMSNTLISLIKDTSLVSVITVTELMLA 175 Query: 136 GKLVSNATFQPFLVFPIVAAIYFIFCYPLSRFSFALERKF-HAHR 179 K V TF+P ++ AAIY++ LE+K AH+ Sbjct: 176 TKEVIAVTFRPLPLYVAAAAIYWMLSLCFEALQHRLEKKLGKAHQ 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 0.141 0.430 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: 506,327 Number of extensions: 18601 Number of successful extensions: 99 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 92 Number of HSP's successfully gapped: 19 Length of query: 179 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 100 Effective length of database: 1,245,805 Effective search space: 124580500 Effective search space used: 124580500 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: 127 (53.5 bits)