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= 0030.0170.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 ... 505 e-144 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 124 1e-29 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 114 1e-26 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 104 9e-24 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 86 3e-18 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 505 bits (1300), Expect = e-144, Method: Compositional matrix adjust. Identities = 247/272 (90%), Positives = 259/272 (95%) Query: 1 MSKNKQGNWPRMLTLALYIAFTLIPLYWLFNTSLKTNEETLAVFTLWPNQPTLDNYKVIF 60 M+ + + R+L + LYIAFTL+PLYWL NTSLKTNEETL+VFTLWPN PTL+NYK IF Sbjct: 1 MNNTQDKSLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIF 60 Query: 61 TDASWYSGYINSIIYVAINTVLSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 120 TD SWYSGYINSIIYVA+NTV+SLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF Sbjct: 61 TDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVF 120 Query: 121 LLPFFQLYSTVGLMDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 180 LLPFFQLYST+GL DTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR Sbjct: 121 LLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPR 180 Query: 181 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 240 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI Sbjct: 181 FFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGI 240 Query: 241 LAAAGVLTIIPGALVIWFVRNHIAKGFAMGRV 272 LAAAGVLTI+PGALVIWFVRNHIAKGFAMGRV Sbjct: 241 LAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV 272 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 80/252 (31%), Positives = 136/252 (53%), Gaps = 10/252 (3%) Query: 25 PLYWLFNTSLKTNEETLA---VFTLWPNQPTLDNYKVIFTDASWYSGYI-NSIIYVAINT 80 P++W+ T+ KT + VF PTL+ ++ +F+ S Y GY+ NS+I +T Sbjct: 25 PIFWVAVTAFKTESQAYTPSLVFL-----PTLETFREVFSR-SHYLGYVQNSLIVSLGST 78 Query: 81 VLSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTVGLMDTHIAV 140 +LSLL+A+PAAY+ + + + + W+L+ +M P L+P + + GL+DT + Sbjct: 79 LLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVTGL 138 Query: 141 ALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFF 200 + + L N+P+AVW+ + + VP+EI E A IDG + + + + LP G+ TA Sbjct: 139 TIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALL 198 Query: 201 CFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIIPGALVIWFVR 260 + SW E + LTSVNA P++ + ++ G+ W L+AA +L I P + W + Sbjct: 199 LVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQ 258 Query: 261 NHIAKGFAMGRV 272 + +G G V Sbjct: 259 KQLVRGLTFGAV 270 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 114 bits (284), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 117/245 (47%), Gaps = 6/245 (2%) Query: 27 YWLFNTSLKTNEETLAVF--TLWPNQPTLDNYKVIFTDASWYSGYINSIIYVAINTVLSL 84 YW+ T+ K + E L+ W PTL ++K + D + + +N++I ++T SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 85 LVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTVGLMDTHIAVALAH 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---VNAKPISAIMTRTASAAGMDWGILAAAGVLTIIPGALVIWFVRN 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 = 104 bits (259), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 25 PLYWLFNTSLKTNEETLAVFTLWPN---QPTLDNYKVIFTDASWYSGYINSIIYVAINTV 81 PL W S+KT L + T P PTL+NY+ + G NS + V + Sbjct: 24 PLLWALLNSVKT---LLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLTNSAVIVGSAVL 80 Query: 82 LSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTVGLMDTHIAVA 141 L + +PAAY +RY G + + F+LL+ R PP +P ++ +GL DT ++ Sbjct: 81 LGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGLYDTRFSMI 140 Query: 142 LAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFC 201 + ++L + W+ +PREI+E A +DG+ F +I LP + + F Sbjct: 141 VTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATTLLGGIIFS 200 Query: 202 FMFSWVELLLARTLTSVNAKPISAIMTR-TASAAGMDWGILAAAGVLTIIP 251 F+ W EL++A LTS N+ + + + T+ + WG++ A+ VL +P Sbjct: 201 FVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLALP 251 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 85.9 bits (211), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 62/251 (24%), Positives = 113/251 (45%), Gaps = 3/251 (1%) Query: 23 LIPLYWLFNTSLKTNEETLA-VFTLWPNQ-PTLDNYKVIFTDASWYSGYINSIIYVAINT 80 L+P+ TS+++N+E +A + WP L+NY+ T + + NS + + Sbjct: 29 LLPMLAALVTSIRSNDELMAGNYWGWPQDFAMLENYREALTASPMLHYFWNSCLITIPSV 88 Query: 81 VLSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTVGLMDTHIAV 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-VNAKPISAIMTRTASAAGMDWGILAAAGVLTIIPGALVIWFV 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 0.452 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: 820,091 Number of extensions: 31327 Number of successful extensions: 142 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 135 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)