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= 0001.0873.p (277 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310411|ref|YP_003774503.1| spermidine/putrescine ABC trans... 486 e-138 gi|300311432|ref|YP_003775524.1| molybdate ABC transporter perme... 70 3e-13 gi|300310985|ref|YP_003775077.1| sulfate ABC transporter permeas... 64 2e-11 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 62 4e-11 gi|300309935|ref|YP_003774027.1| spermidine/putrescine ABC trans... 62 5e-11 >gi|300310411|ref|YP_003774503.1| spermidine/putrescine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 486 bits (1250), Expect = e-138, Method: Compositional matrix adjust. Identities = 267/277 (96%), Positives = 274/277 (98%) Query: 1 MHKPPLFPPYTSLVERAWFFASRSFNLLVLLFLVLPILVMIPLSFSDSSFLMYPIQGFSL 60 M+KPPLFPPYTSLVERAWFFASR FNLLVLLFLV PILVMIPLSFSDSSFLMYPI+ FSL Sbjct: 1 MNKPPLFPPYTSLVERAWFFASRGFNLLVLLFLVSPILVMIPLSFSDSSFLMYPIKSFSL 60 Query: 61 RWYQNLFTSDDWIRAAQNSFIVAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPM 120 RWY+NLF+SDDW+RAAQNSFIVAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPM Sbjct: 61 RWYENLFSSDDWVRAAQNSFIVAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPM 120 Query: 121 IVPVVVVGVGVYLFFARIGLSDSYLGLILAHAALGAPFVVTTVLATLQGFNHNLVRASLS 180 IVPVVVVGVGVYLFFARIGLSDSYLGLILAHAALGAPFVVTTVLATLQGFNHNLVRASLS Sbjct: 121 IVPVVVVGVGVYLFFARIGLSDSYLGLILAHAALGAPFVVTTVLATLQGFNHNLVRASLS 180 Query: 181 LGASPLRTFFRITLPVIAPGLISGALFAFATSFDEVVLTLFVAGPEQATLPRQMFAGIKD 240 LGASPLRTFFR+TLPVIAPGLISGALFAFATSFDEVVLTLFVAGPEQATLPRQMFAGIKD Sbjct: 181 LGASPLRTFFRVTLPVIAPGLISGALFAFATSFDEVVLTLFVAGPEQATLPRQMFAGIKD 240 Query: 241 NISPTIAALATILILFSTCLLLALEWLRGRNKAAARF 277 NISPTIAALATILI+FSTCLLLALEWLRGRNKAAARF Sbjct: 241 NISPTIAALATILIIFSTCLLLALEWLRGRNKAAARF 277 >gi|300311432|ref|YP_003775524.1| molybdate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 224 Score = 69.7 bits (169), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 58/201 (28%), Positives = 99/201 (49%), Gaps = 21/201 (10%) Query: 79 SFIVAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPMIVPVVVVGVGVYLFFARI 138 S VA AT++ VLG AA GL++ + + ++L P+++P V+G + + F R Sbjct: 11 SLKVAGLATLLNLVLGVAAAYGLSRWRSALRDFIDSVLTLPLVLPPTVLGYYLLVLFGRR 70 Query: 139 GLSDSYL------------GLILAHAALGAPFVVTTVLATLQGFNHNLVRASLSLGASPL 186 G ++L G +LA + P V+ + A + +H + A+ LG S Sbjct: 71 GALGAWLERMGIELVFTWQGAVLASTVVAFPLVLKSARAAFESVDHQMEDAARVLGVSEA 130 Query: 187 RTFFRITLPVIAPGLISGALFAFATSFDEVVLTLFVAGPEQATLP---RQMFAGIKDNIS 243 FFR++LP+ G+++G L AFA + E TL VAG LP + + I + + Sbjct: 131 GVFFRVSLPLAMRGIMAGVLLAFARALGEFGATLMVAG----NLPGRTQTLSVAIYEAVQ 186 Query: 244 PTIAALATILILFS--TCLLL 262 AT+L++ + TC++L Sbjct: 187 AGDDGSATLLVVITSITCIVL 207 >gi|300310985|ref|YP_003775077.1| sulfate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 102/227 (44%), Gaps = 19/227 (8%) Query: 68 TSDDWIRAAQNSFIVAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPMIVPVVVV 127 +D W A + + I A A + V G AA + K +FRGK +L+ ++ P V V+ Sbjct: 72 EADAW-SAIKLTLITAAIAVPLNLVFGVAAAWAIAKFEFRGKNLLLTLIDLPFSVSPVIS 130 Query: 128 GVGVYLFFARIGLSDSYL------------GLILAHAALGAPFVVTTVLATLQGFNHNLV 175 G+ L F G +L G++LA + PFV ++ +Q Sbjct: 131 GLIYVLLFGLQGYLGPWLREHDIKILFAVPGIVLATIFVTFPFVARELIPLMQSQGSEEE 190 Query: 176 RASLSLGASPLRTFFRITLPVIAPGLISGALFAFATSFDEVVLTLFVAGP---EQATLPR 232 A+L LGAS RTF+ +TLP I GL+ G + A + E V+G E T+P Sbjct: 191 EAALVLGASGWRTFWHVTLPNIKWGLLYGVILCNARAMGEFGAVSVVSGHIRGETNTIPL 250 Query: 233 QMFAGIKD-NISP--TIAALATILILFSTCLLLALEWLRGRNKAAAR 276 Q+ + NI+ +A+L L L + + +EW + +A+ Sbjct: 251 QVEILYNEFNITGAFAVASLLAFLALVTLAIKSVIEWRLHQQHSASE 297 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 62.4 bits (150), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 59/223 (26%), Positives = 98/223 (43%), Gaps = 10/223 (4%) Query: 27 LLVLLFLVLPILVMIPLSFSD-----SSFLMYPIQGFSLRWYQNLFTSDDWIRAAQNSFI 81 LL + F ++P+ ++ S S F ++P +L Y+ +FT W NS I Sbjct: 16 LLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWP-NAPTLNNYKTIFTDPSWYSGYINSII 74 Query: 82 VAPAATVIATVLGTLAAVGLNKADFRGKGILMAILISPMIVPVVVVGVGVYLFFARIGLS 141 TV++ ++ AA ++ F G + L++ + P V + + ++ IGLS Sbjct: 75 YVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLS 134 Query: 142 DSYLGLILAHAALGAPFVVTTVLATLQGFNHNLVRASLSLGASPLRTFFRITLPVIAPGL 201 D+++ + LAH P V + + G + + G S R F RI LP+I G+ Sbjct: 135 DTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGV 194 Query: 202 ISGALFAFATSFDEVV----LTLFVAGPEQATLPRQMFAGIKD 240 A F F S+ E++ LT A P A + R A D Sbjct: 195 GVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMD 237 >gi|300309935|ref|YP_003774027.1| spermidine/putrescine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 267 Score = 62.0 bits (149), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 71/262 (27%), Positives = 116/262 (44%), Gaps = 26/262 (9%) Query: 19 FFASRSFNLLVLLFLVLPILVMIPLSFSDSSFLMYPIQGFSLRWYQN---LFTSDDWIRA 75 F+ F LLV FLV+P+ V+ L+ +F + G +LRW ++ W Sbjct: 7 FYLQLGFTLLVCAFLVVPV-VLSMLAGVTENFFVGLSSGLTLRWVAQVWEMYQPTIW--- 62 Query: 76 AQNSFIVAPAATVIATVLGTLAAVGLNKADFRGKG-----ILMAILISPMIVPVVVVGVG 130 S +A A + G A L A +RG ++ +L+ P+ VP + + Sbjct: 63 --RSLFIALACLAVTLAAGVPLAYML--ARYRGGNSRLARVIEELLMMPVAVPGLATALA 118 Query: 131 VYLFFARIGLSDSYLGLIL-AHAALGAPFVVTTVLATLQGFN-HNLVRASLSLGASPLRT 188 + + + + + L IL H PF+V VLA +Q L A+ SLGA +R Sbjct: 119 LIMAYGQYREFRASLWFILVGHVIFTLPFMVRPVLAVMQSSQLAQLEEAAASLGAGRMRR 178 Query: 189 FFRITLPVIAPGLISGALFAFATSFDEVVLTLFVAGPEQATLPRQMFAGIKD---NISPT 245 FF I +P A G+++GAL S E +T + P TLP G+ D ++ Sbjct: 179 FFGIVIPNAASGILAGALMVVTLSIGEFNITWMLHTPLTQTLP----VGLADAYASMRLE 234 Query: 246 IAALATILILFSTC-LLLALEW 266 + + T++ F LL+ ++W Sbjct: 235 VGSAYTLIFFFMIIPLLIGMQW 256 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 0.330 0.142 0.426 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: 661,250 Number of extensions: 20927 Number of successful extensions: 124 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 123 Number of HSP's successfully gapped: 19 Length of query: 277 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 193 Effective length of database: 1,222,130 Effective search space: 235871090 Effective search space used: 235871090 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 130 (54.7 bits)