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= 0013.0012.p (278 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 546 e-156 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 123 2e-29 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 117 1e-27 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 109 3e-25 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 84 1e-17 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 546 bits (1406), Expect = e-156, Method: Compositional matrix adjust. Identities = 270/272 (99%), Positives = 271/272 (99%) Query: 7 MNKTQDKTLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIF 66 MN TQDK+LTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIF Sbjct: 1 MNNTQDKSLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIF 60 Query: 67 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 126 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF Sbjct: 61 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 120 Query: 127 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 186 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR Sbjct: 121 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 180 Query: 187 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 246 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI Sbjct: 181 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 240 Query: 247 LAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV 278 LAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV Sbjct: 241 LAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV 272 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 80/251 (31%), Positives = 136/251 (54%), Gaps = 8/251 (3%) Query: 31 PLYWLLNTSLKTNEE--TLSVFTLWPNAPTLNNYKTIFTDPSWYSGYI-NSIIYVAMNTV 87 P++W+ T+ KT + T S+ L PTL ++ +F+ S Y GY+ NS+I +T+ Sbjct: 25 PIFWVAVTAFKTESQAYTPSLVFL----PTLETFREVFSR-SHYLGYVQNSLIVSLGSTL 79 Query: 88 MSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVA 147 +SLL+A+PAAY+ + + + + W+L+ +M P L+P + + GL DT + Sbjct: 80 LSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVTGLT 139 Query: 148 LAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFC 207 + + L N+P+AVW+ + + VP+EI E A IDG + + + + LP G+ TA Sbjct: 140 IIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLL 199 Query: 208 FMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRN 267 + SW E + LTSVNA P++ + ++ G+ W L+AA +L I P + W + Sbjct: 200 VILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 259 Query: 268 HIAKGFAMGRV 278 + +G G V Sbjct: 260 QLVRGLTFGAV 270 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 117 bits (292), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 76/245 (31%), Positives = 119/245 (48%), Gaps = 6/245 (2%) Query: 33 YWLLNTSLKTNEETLSVFT--LWPNAPTLNNYKTIFTDPSWYSGYINSIIYVAMNTVMSL 90 YW++ T+ K + E LS W APTL ++K + D + + +N++I ++T SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 91 LVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVALAH 150 ++ AAYA R RF G K + + + PP++ +P + +GL DT A+ L + Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 151 MLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFCFMF 210 F +P W+L G+ +P E++E A IDG + ++I LPL G+ F F Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 211 SWVELLLARTLTS---VNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRN 267 SW E + A T S V P+ I+T WG L A +L +P A+V F Sbjct: 223 SWNEFIYALTFISSSEVKTVPV-GIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVE 281 Query: 268 HIAKG 272 + G Sbjct: 282 YYVSG 286 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 109 bits (272), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 75/253 (29%), Positives = 123/253 (48%), Gaps = 10/253 (3%) Query: 12 DKTLTRLLVMLLYIAFTLV---PLYWLLNTSLKTNEETLSVFTLWPN---APTLNNYKTI 65 + +TR V + I LV PL W L S+KT L + T P PTL NY+ + Sbjct: 2 GRLITRCAVWGVGIVLVLVAVFPLLWALLNSVKT---LLDIVTPTPRFLFTPTLENYRQV 58 Query: 66 FTDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAV 125 P G NS + V ++ + +PAAY +RY G + + F+LL+ R PP Sbjct: 59 IGSPEVLVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVA 118 Query: 126 FLLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFP 185 +P ++ +GL DT ++ + ++L + W+ +PREI+E A +DG+ Sbjct: 119 VAIPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPY 178 Query: 186 RFFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTR-TASAAGMDW 244 F +I LP + + F F+ W EL++A LTS N+ + + + T+ + W Sbjct: 179 AVFWKIALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPW 238 Query: 245 GILAAAGVLTIVP 257 G++ A+ VL +P Sbjct: 239 GVINASTVLLALP 251 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/262 (24%), Positives = 113/262 (43%), Gaps = 3/262 (1%) Query: 20 VMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLN--NYKTIFTDPSWYSGYIN 77 V+ LY L P+ +L S+KT P A TL ++ + + + N Sbjct: 38 VLCLYAVIALFPIALILINSVKTRNAIFEGPMALPTAETLTFAGFQKVLAGTHFLLYFGN 97 Query: 78 SIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTI 137 S+ + +L AA+A + YRF G++ + F++ M P + + QL + Sbjct: 98 SLAVTVAALFLIVLFGAMAAWALTEYRFFGNRALNFFIAIGIMIPIRLGTVSILQLVVAL 157 Query: 138 GLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIK 197 L +T A+ L + +PLAV IL FM +P E+ + A DG F R+ LPL++ Sbjct: 158 DLINTRTALVLVYTAQGLPLAVMILSEFMRQIPGELKDAARCDGVGELSIFFRVILPLLR 217 Query: 198 SGVGVTAFFCFMFSWVELLLARTLT-SVNAKPISAIMTRTASAAGMDWGILAAAGVLTIV 256 + A F + +W +L L + + ++ + + DW + AA + ++ Sbjct: 218 PAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQFIGQYATDWNSVLAALSMAVI 277 Query: 257 PGALVIWFVRNHIAKGFAMGRV 278 P L+ + +G G V Sbjct: 278 PVLLLYMAFSRQLIRGLTSGAV 299 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 0.140 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: 813,162 Number of extensions: 30652 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 125 Number of HSP's successfully gapped: 9 Length of query: 278 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 194 Effective length of database: 1,222,130 Effective search space: 237093220 Effective search space used: 237093220 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)