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= 0001.0761.p (272 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 ... 537 e-154 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 123 1e-29 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 116 2e-27 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 109 2e-25 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 84 1e-17 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 537 bits (1384), Expect = e-154, Method: Compositional matrix adjust. Identities = 264/272 (97%), Positives = 269/272 (98%) Query: 1 MNKNQDQSITRVLVMLLYIAFTLIPLYWLLNTSLKTNEETLSVFTLWPNAPTLDNYKVIF 60 MN QD+S+TR+LVMLLYIAFTL+PLYWLLNTSLKTNEETLSVFTLWPNAPTL+NYK IF Sbjct: 1 MNNTQDKSLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIF 60 Query: 61 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 120 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF Sbjct: 61 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 120 Query: 121 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 180 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR Sbjct: 121 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 180 Query: 181 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 240 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI Sbjct: 181 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 240 Query: 241 LAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV 272 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 = 1e-29, Method: Compositional matrix adjust. Identities = 80/251 (31%), Positives = 137/251 (54%), Gaps = 8/251 (3%) Query: 25 PLYWLLNTSLKTNEE--TLSVFTLWPNAPTLDNYKVIFTDPSWYSGYI-NSIIYVAMNTV 81 P++W+ T+ KT + T S+ L PTL+ ++ +F+ S Y GY+ NS+I +T+ Sbjct: 25 PIFWVAVTAFKTESQAYTPSLVFL----PTLETFREVFSR-SHYLGYVQNSLIVSLGSTL 79 Query: 82 MSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVA 141 +SLL+A+PAAY+ + + + + W+L+ +M P L+P + + GL DT + Sbjct: 80 LSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVTGLT 139 Query: 142 LAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFC 201 + + L N+P+AVW+ + + VP+EI E A IDG + + + + LP G+ TA Sbjct: 140 IIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLL 199 Query: 202 FMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRN 261 + SW E + LTSVNA P++ + ++ G+ W L+AA +L I P + W + Sbjct: 200 VILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 259 Query: 262 HIAKGFAMGRV 272 + +G G V Sbjct: 260 QLVRGLTFGAV 270 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 116 bits (290), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 76/245 (31%), Positives = 119/245 (48%), Gaps = 6/245 (2%) Query: 27 YWLLNTSLKTNEETLSVFT--LWPNAPTLDNYKVIFTDPSWYSGYINSIIYVAMNTVMSL 84 YW++ T+ K + E LS W APTL ++K + D + + +N++I ++T SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 85 LVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVALAH 144 ++ AAYA R RF G K + + + PP++ +P + +GL DT A+ L + Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 145 MLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFCFMF 204 F +P W+L G+ +P E++E A IDG + ++I LPL G+ F F Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 205 SWVELLLARTLTS---VNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRN 261 SW E + A T S V P+ I+T WG L A +L +P A+V F Sbjct: 223 SWNEFIYALTFISSSEVKTVPV-GIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVE 281 Query: 262 HIAKG 266 + G Sbjct: 282 YYVSG 286 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 109 bits (273), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 123/247 (49%), Gaps = 4/247 (1%) Query: 9 ITRVLVMLLYIAFTLI---PLYWLLNTSLKTNEETLSVFTLWPNAPTLDNYKVIFTDPSW 65 ITR V + I L+ PL W L S+KT + ++ + PTL+NY+ + P Sbjct: 5 ITRCAVWGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIGSPEV 64 Query: 66 YSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFF 125 G NS + V ++ + +PAAY +RY G + + F+LL+ R PP +P Sbjct: 65 LVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLI 124 Query: 126 QLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRI 185 ++ +GL DT ++ + ++L + W+ +PREI+E A +DG+ F +I Sbjct: 125 AIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKI 184 Query: 186 FLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTR-TASAAGMDWGILAAA 244 LP + + F F+ W EL++A LTS N+ + + + T+ + WG++ A+ Sbjct: 185 ALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINAS 244 Query: 245 GVLTIVP 251 VL +P Sbjct: 245 TVLLALP 251 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 62/251 (24%), Positives = 113/251 (45%), Gaps = 3/251 (1%) Query: 23 LIPLYWLLNTSLKTNEETLSV-FTLWPNA-PTLDNYKVIFTDPSWYSGYINSIIYVAMNT 80 L+P+ L TS+++N+E ++ + WP L+NY+ T + NS + + Sbjct: 29 LLPMLAALVTSIRSNDELMAGNYWGWPQDFAMLENYREALTASPMLHYFWNSCLITIPSV 88 Query: 81 VMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAV 140 + ++ +A A +A S Y+F G+ +F + P + ++P L ++GL +T + Sbjct: 89 IGAISLAAMAGFALSTYQFRGNTVLFATFVACNFVPQQILMIPVRDLSLSLGLFNTITGM 148 Query: 141 ALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFF 200 L H+ L F+ +P E+ E A I+G S F RI LPLI+ + A Sbjct: 149 MLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALAALAVL 208 Query: 201 CFMFSWVELLLARTLTS-VNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFV 259 F F W + A LT + PI+ + W +++A +L +P ++ + + Sbjct: 209 VFTFVWNDYFWALVLTQGDDVAPITVGVAALRGQWTTAWNLVSAGSILAALPSVILFFVM 268 Query: 260 RNHIAKGFAMG 270 + G G Sbjct: 269 QKQFVAGLTFG 279 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 0.141 0.445 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: 806,128 Number of extensions: 30613 Number of successful extensions: 133 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 124 Number of HSP's successfully gapped: 9 Length of query: 272 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 188 Effective length of database: 1,222,130 Effective search space: 229760440 Effective search space used: 229760440 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)