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= 0020.0033.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 513 e-147 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 131 6e-32 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 114 1e-26 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 114 1e-26 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 110 2e-25 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 513 bits (1321), Expect = e-147, Method: Compositional matrix adjust. Identities = 261/261 (100%), Positives = 261/261 (100%) Query: 1 VAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSRSHYLGYVQNS 60 VAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSRSHYLGYVQNS Sbjct: 11 VAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSRSHYLGYVQNS 70 Query: 61 LIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTG 120 LIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTG Sbjct: 71 LIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTG 130 Query: 121 LLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMP 180 LLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMP Sbjct: 131 LLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMP 190 Query: 181 GLASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPI 240 GLASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPI Sbjct: 191 GLASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPI 250 Query: 241 MALGWLAQKQLVRGLTFGAVK 261 MALGWLAQKQLVRGLTFGAVK Sbjct: 251 MALGWLAQKQLVRGLTFGAVK 271 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 131 bits (329), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 79/252 (31%), Positives = 135/252 (53%), Gaps = 10/252 (3%) Query: 15 PIFWVAVTAFKTESQAYTPSLVFL-----PTLETFREVFSR-SHYLGYVQNSLIVSLGST 68 P++W+ T+ KT + + VF PTL ++ +F+ S Y GY+ NS+I +T Sbjct: 25 PLYWLLNTSLKTNEETLS---VFTLWPNAPTLNNYKTIFTDPSWYSGYI-NSIIYVAMNT 80 Query: 69 LLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVTGL 128 ++SLL+A+PAAY+ + + + + W+L+ +M P L+P + + GL DT + Sbjct: 81 VMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAV 140 Query: 129 TIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALL 188 + + L N+P+AVW+ + + VP+EI E A IDG + + + + LP G+ TA Sbjct: 141 ALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFF 200 Query: 189 LVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQ 248 + SW E + LTSVNA P++ + ++ G+ W L+AA +L I P + W + Sbjct: 201 CFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVR 260 Query: 249 KQLVRGLTFGAV 260 + +G G V Sbjct: 261 NHIAKGFAMGRV 272 >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 = 78/252 (30%), Positives = 128/252 (50%), Gaps = 9/252 (3%) Query: 17 FWVAVTAFKTE----SQAYTPSLVFLPTLETFREVFSRSHYLGYVQNSLIVSLGSTLLSL 72 +W+ +TAFK + SQ+ P V PTL F+++ + Y ++ N++IVS+ ST SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 73 LLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVTGLTIIY 132 +V AAY++ ++++ L + ++P + IP+ + GL DT L + Y Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 133 TLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLLVIL 192 +P W+ YF +P E+ E A IDGA W+ ++ ++LP A+PGL S + L Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 193 SWNEAFWSLNLTS---VNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 249 SWNE ++L S V P+ + + + W L A +LL P+ + + Sbjct: 223 SWNEFIYALTFISSSEVKTVPVGI-VTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVE 281 Query: 250 QLVRGLTFGAVK 261 V G+T GAVK Sbjct: 282 YYVSGMT-GAVK 292 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (284), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 121/222 (54%), Gaps = 1/222 (0%) Query: 41 LETFREVFSRSHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLST 100 LE +RE + S L Y NS ++++ S + ++ LA A ++++ + L ++ Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 101 KMMPAVGVLIPIYLMAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAAR 160 +P ++IP+ ++ + GL +T+TG+ + + + + +P E++EAAR Sbjct: 121 NFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 Query: 161 IDGANAWQEMIYLLLPTAMPGLASTALLLVILSWNEAFWSLNLTS-VNAAPLTVFIASYS 219 I+GA+ W ++LP P LA+ A+L+ WN+ FW+L LT + AP+TV +A+ Sbjct: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR 240 Query: 220 NPEGLFWAKLSAASLLAIAPIMALGWLAQKQLVRGLTFGAVK 261 W +SA S+LA P + L ++ QKQ V GLTFGA K Sbjct: 241 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASK 282 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 129/251 (51%), Gaps = 8/251 (3%) Query: 6 WACAIVLF----FPIFWVAVTAFKT--ESQAYTPSLVFLPTLETFREVFSRSHYLGYVQN 59 W IVL FP+ W + + KT + TP +F PTLE +R+V L + N Sbjct: 11 WGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLTN 70 Query: 60 SLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNT 119 S ++ + LL + VPAAY +A + + + ++LS + +P V V IP+ + + Sbjct: 71 SAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDL 130 Query: 120 GLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAM 179 GL DT + + Y L L W++ F +P+EI EAA +DG + + LP Sbjct: 131 GLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCA 190 Query: 180 PGLASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSN-PEGLFWAKLSAAS-LLAI 237 L + +L WNE +L LTS N+A L V +++++ + + W ++A++ LLA+ Sbjct: 191 TTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLAL 250 Query: 238 APIMALGWLAQ 248 P++ +G L++ Sbjct: 251 PPLIFVGVLSR 261 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 0.326 0.137 0.420 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: 728,498 Number of extensions: 26397 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 10 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 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 (21.7 bits) S2: 129 (54.3 bits)