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= 0001.0562.p (267 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309935|ref|YP_003774027.1| spermidine/putrescine ABC trans... 505 e-144 gi|300310985|ref|YP_003775077.1| sulfate ABC transporter permeas... 60 2e-10 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 56 3e-09 gi|300311432|ref|YP_003775524.1| molybdate ABC transporter perme... 55 8e-09 >gi|300309935|ref|YP_003774027.1| spermidine/putrescine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 267 Score = 505 bits (1300), Expect = e-144, Method: Compositional matrix adjust. Identities = 254/267 (95%), Positives = 260/267 (97%) Query: 1 MQNRFRFYVQLAFTLLVCAFLVVPVVLSMLAGVTENFFVGLSSGLTLRWVAQVWDMYQPT 60 MQNRFRFY+QL FTLLVCAFLVVPVVLSMLAGVTENFFVGLSSGLTLRWVAQVW+MYQPT Sbjct: 1 MQNRFRFYLQLGFTLLVCAFLVVPVVLSMLAGVTENFFVGLSSGLTLRWVAQVWEMYQPT 60 Query: 61 IWRSLIIALACLVVTLVAGVPLAYMLARYRGGHSRLARVIEELLMMPVAVPGLATALALI 120 IWRSL IALACL VTL AGVPLAYMLARYRGG+SRLARVIEELLMMPVAVPGLATALALI Sbjct: 61 IWRSLFIALACLAVTLAAGVPLAYMLARYRGGNSRLARVIEELLMMPVAVPGLATALALI 120 Query: 121 MAYGQWRDFRASILFILVGHVIFTLPFMVRPVLAVMQSSQLAQLEEAAASLGAGRMRRFF 180 MAYGQ+R+FRAS+ FILVGHVIFTLPFMVRPVLAVMQSSQLAQLEEAAASLGAGRMRRFF Sbjct: 121 MAYGQYREFRASLWFILVGHVIFTLPFMVRPVLAVMQSSQLAQLEEAAASLGAGRMRRFF 180 Query: 181 GIVIPNCASGILAGALMVVTLSIGEFNITWMLHTPLTQTLPVGLADAYASMRLEVGSAYT 240 GIVIPN ASGILAGALMVVTLSIGEFNITWMLHTPLTQTLPVGLADAYASMRLEVGSAYT Sbjct: 181 GIVIPNAASGILAGALMVVTLSIGEFNITWMLHTPLTQTLPVGLADAYASMRLEVGSAYT 240 Query: 241 LIFFFMIIPLLIGMQWVTQATRKKVSL 267 LIFFFMIIPLLIGMQW TQATRKKVSL Sbjct: 241 LIFFFMIIPLLIGMQWATQATRKKVSL 267 >gi|300310985|ref|YP_003775077.1| sulfate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 60.1 bits (144), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 51/174 (29%), Positives = 88/174 (50%), Gaps = 24/174 (13%) Query: 54 WDMYQPTI-----WR----SLIIALACLVVTLVAGVPLAYMLARYRGGHSRLARVIEELL 104 WD+Y +I W +LI A + + LV GV A+ +A++ R ++ L+ Sbjct: 63 WDVYVASITEADAWSAIKLTLITAAIAVPLNLVFGVAAAWAIAKFE---FRGKNLLLTLI 119 Query: 105 MMPVAVPGLATALALIMAYG------QW-RDFRASILF----ILVGHVIFTLPFMVRPVL 153 +P +V + + L ++ +G W R+ ILF I++ + T PF+ R ++ Sbjct: 120 DLPFSVSPVISGLIYVLLFGLQGYLGPWLREHDIKILFAVPGIVLATIFVTFPFVARELI 179 Query: 154 AVMQSSQLAQLEEAAASLGAGRMRRFFGIVIPNCASGILAGALMVVTLSIGEFN 207 +MQS Q ++ EEAA LGA R F+ + +PN G+L G ++ ++GEF Sbjct: 180 PLMQS-QGSEEEEAALVLGASGWRTFWHVTLPNIKWGLLYGVILCNARAMGEFG 232 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 56.2 bits (134), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 52/159 (32%), Positives = 78/159 (49%), Gaps = 10/159 (6%) Query: 79 GVPLAYMLARYRGGHSRLARVIEELLMMPVAVPGLATALALIMAYGQW--RDFRASILFI 136 GVP AY++ARY H R I+ L+ +P +A A+ LI + D R S++ Sbjct: 86 GVPAAYVIARY---HVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGLYDTRFSMIVT 142 Query: 137 LVGHVIFTLPFMVRPVLAVMQSSQLAQLEEAAASLGAGRMRRFFGIVIPNCASGILAGAL 196 + + T+ ++ PV M ++EEAA G G F+ I +PNCA+ +L G + Sbjct: 143 YLLTTLSTITWLSIPVFQRMPR----EIEEAATLDGYGPYAVFWKIALPNCATTLLGGII 198 Query: 197 MVVTLSIGEFNITWMLHTPLTQTLPVGLADAYASMRLEV 235 L E I L + + TLPV +A A+ SM EV Sbjct: 199 FSFVLVWNELMIALALTSSNSATLPV-VASAFTSMGQEV 236 >gi|300311432|ref|YP_003775524.1| molybdate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 224 Score = 54.7 bits (130), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 57/193 (29%), Positives = 92/193 (47%), Gaps = 20/193 (10%) Query: 64 SLIIALACLVVTLVAGVPLAYMLARYRGGHSRLARVIEELLMMPVAVPGLATALALIMAY 123 SL +A ++ LV GV AY L+R+R S L I+ +L +P+ +P L++ + Sbjct: 11 SLKVAGLATLLNLVLGVAAAYGLSRWR---SALRDFIDSVLTLPLVLPPTVLGYYLLVLF 67 Query: 124 GQWRDFRA-------SILFILVGHV----IFTLPFMVRPVLAVMQSSQLAQLEEAAASLG 172 G+ A ++F G V + P +++ A +S Q+E+AA LG Sbjct: 68 GRRGALGAWLERMGIELVFTWQGAVLASTVVAFPLVLKSARAAFESVD-HQMEDAARVLG 126 Query: 173 AGRMRRFFGIVIPNCASGILAGALMVVTLSIGEFNITWMLHTPL---TQTLPVGLADAYA 229 FF + +P GI+AG L+ ++GEF T M+ L TQTL V + +A Sbjct: 127 VSEAGVFFRVSLPLAMRGIMAGVLLAFARALGEFGATLMVAGNLPGRTQTLSVAIYEAVQ 186 Query: 230 SMRLEVGSAYTLI 242 + + GSA L+ Sbjct: 187 AG--DDGSATLLV 197 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 0.332 0.141 0.431 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: 737,988 Number of extensions: 27958 Number of successful extensions: 177 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 177 Number of HSP's successfully gapped: 8 Length of query: 267 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 183 Effective length of database: 1,222,130 Effective search space: 223649790 Effective search space used: 223649790 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 (22.0 bits) S2: 130 (54.7 bits)