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= 0037.0077.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 481 e-137 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 158 5e-40 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 104 1e-23 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 102 4e-23 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 80 2e-16 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 481 bits (1238), Expect = e-137, Method: Compositional matrix adjust. Identities = 234/283 (82%), Positives = 258/283 (91%) Query: 20 RGPSLIQRSFGPAGHIWVHIVLCLYAVIALFPIALILINSVKSRQAIFDNPMALPTVDSF 79 R P+LIQRSFG AGH+WVH VLCLYAVIALFPIALILINSVK+R AIF+ PMALPT ++ Sbjct: 18 RKPTLIQRSFGQAGHLWVHTVLCLYAVIALFPIALILINSVKTRNAIFEGPMALPTAETL 77 Query: 80 SLIGFHKVLSNTNFLLYFGNSLVVTIGSLVLIVLFGAMAGWALSEYKFRGNRLMTLFMAI 139 + GF KVL+ T+FLLYFGNSL VT+ +L LIVLFGAMA WAL+EY+F GNR + F+AI Sbjct: 78 TFAGFQKVLAGTHFLLYFGNSLAVTVAALFLIVLFGAMAAWALTEYRFFGNRALNFFIAI 137 Query: 140 GIMIPIRLGTVSILQLVVALDLINTRTALILVYTAQGLPLAVMILSEFIRQIPTELKDAA 199 GIMIPIRLGTVSILQLVVALDLINTRTAL+LVYTAQGLPLAVMILSEF+RQIP ELKDAA Sbjct: 138 GIMIPIRLGTVSILQLVVALDLINTRTALVLVYTAQGLPLAVMILSEFMRQIPGELKDAA 197 Query: 200 RCDGVGEFKIFFQIILPLIRPAIATVAVFTMIPAWNDLWFPLILAPGDQTKTVTLGVQQF 259 RCDGVGE IFF++ILPL+RPAIATVAVFTMIPAWNDLWFPLILAPG+ T+TVTLGVQQF Sbjct: 198 RCDGVGELSIFFRVILPLLRPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQF 257 Query: 260 IGQYATDWNSVLAALSMAVIPILILYTLFSRQLIRGLTSGAVK 302 IGQYATDWNSVLAALSMAVIP+L+LY FSRQLIRGLTSGAVK Sbjct: 258 IGQYATDWNSVLAALSMAVIPVLLLYMAFSRQLIRGLTSGAVK 300 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 158 bits (399), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 94/259 (36%), Positives = 148/259 (57%), Gaps = 4/259 (1%) Query: 46 VIALFPIALILINSVKSRQAIF-DNPMALPTVDSFSLIGFHKVLSNTNFLLYFGNSLVVT 104 +I L P+ L+ S++S + N P D L + + L+ + L YF NS ++T Sbjct: 26 LIWLLPMLAALVTSIRSNDELMAGNYWGWPQ-DFAMLENYREALTASPMLHYFWNSCLIT 84 Query: 105 IGSLVLIVLFGAMAGWALSEYKFRGNR-LMTLFMAIGIMIPIRLGTVSILQLVVALDLIN 163 I S++ + AMAG+ALS Y+FRGN L F+A +P ++ + + L ++L L N Sbjct: 85 IPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVACNF-VPQQILMIPVRDLSLSLGLFN 143 Query: 164 TRTALILVYTAQGLPLAVMILSEFIRQIPTELKDAARCDGVGEFKIFFQIILPLIRPAIA 223 T T ++L + A + L FI+Q+P E+ +AAR +G E+ +F++I+LPLIRPA+A Sbjct: 144 TITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALA 203 Query: 224 TVAVFTMIPAWNDLWFPLILAPGDQTKTVTLGVQQFIGQYATDWNSVLAALSMAVIPILI 283 +AV WND ++ L+L GD +T+GV GQ+ T WN V A +A +P +I Sbjct: 204 ALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALRGQWTTAWNLVSAGSILAALPSVI 263 Query: 284 LYTLFSRQLIRGLTSGAVK 302 L+ + +Q + GLT GA K Sbjct: 264 LFFVMQKQFVAGLTFGASK 282 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 117/224 (52%), Gaps = 2/224 (0%) Query: 80 SLIGFHKVLSNTNFLLYFGNSLVVTIGSLVLIVLFGAMAGWALSEYKFRGNRLMTLFMAI 139 +L F K+L +T + + N+++V++ S + A +A+ +F+G++ + L + + Sbjct: 70 TLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFL 129 Query: 140 GIMIPIRLGTVSILQLVVALDLINTRTALILVYTAQGLPLAVMILSEFIRQIPTELKDAA 199 +IP + + + +V L L +TR ALIL Y +P +L + R IP EL++ A Sbjct: 130 AYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECA 189 Query: 200 RCDGVGEFKIFFQIILPLIRPAIATVAVFTMIPAWNDLWFPLILAPGDQTKTVTLG-VQQ 258 DG ++I +IILPL P + + +F +WN+ + L + KTV +G V + Sbjct: 190 LIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTVPVGIVTE 249 Query: 259 FIGQYATDWNSVLAALSMAVIPILILYTLFSRQLIRGLTSGAVK 302 + W +++A + +P+ ++Y+ F + G+T GAVK Sbjct: 250 LVEGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMT-GAVK 292 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 102 bits (254), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 148/280 (52%), Gaps = 29/280 (10%) Query: 35 IWVHIVLCLYAVIALFPIALILINSVKSR-QAIFDNPMALPTVDSFSLIGFHKVLSNTNF 93 +WV ++ A++ FPI + + + K+ QA + + LPT+++F +V S +++ Sbjct: 9 LWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETF-----REVFSRSHY 63 Query: 94 LLYFGNSLVVTIGSLVLIVLFGAMAGWALSEYKFRGNRLMTLFM-------AIGIMIPIR 146 L Y NSL+V++GS +L +L A ++++ + + + L+M A+G++IPI Sbjct: 64 LGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIY 123 Query: 147 LGTVSILQLVVALDLINTRTALILVYTAQGLPLAVMILSEFIRQIPTELKDAARCDGVGE 206 L + L++T T L ++YT LP+AV + + +P E+ +AAR DG Sbjct: 124 L-------MAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANA 176 Query: 207 FKIFFQIILPLIRPAIATVAVFTMIPAWNDLWFPLILAPGDQTKTVTLGVQQFIGQYATD 266 ++ ++LP P +A+ A+ +I +WN+ ++ L + T + FI Y+ Sbjct: 177 WQEMIYLLLPTAMPGLASTALLLVILSWNEAFWSL-----NLTSVNAAPLTVFIASYSNP 231 Query: 267 ----WNSVLAALSMAVIPILILYTLFSRQLIRGLTSGAVK 302 W + AA +A+ PI+ L L +QL+RGLT GAVK Sbjct: 232 EGLFWAKLSAASLLAIAPIMALGWLAQKQLVRGLTFGAVK 271 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 80.1 bits (196), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 61/263 (23%), Positives = 117/263 (44%), Gaps = 3/263 (1%) Query: 39 IVLCLYAVIALFPIALILINSVKSRQAIFDNPMALPTVDSFSLIGFHKVLSNTNFLLYFG 98 +V+ LY L P+ +L S+K+ + P + L + + ++ ++ + Sbjct: 13 LVMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPT--LNNYKTIFTDPSWYSGYI 70 Query: 99 NSLVVTIGSLVLIVLFGAMAGWALSEYKFRGNRLMTLFMAIGIMIPIRLGTVSILQLVVA 158 NS++ + V+ +L A +A S Y+F G++ M ++ M P + + QL Sbjct: 71 NSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYST 130 Query: 159 LDLINTRTALILVYTAQGLPLAVMILSEFIRQIPTELKDAARCDGVGEFKIFFQIILPLI 218 + L +T A+ L + +PLAV IL F+ +P E+ + A DG + F +I LPLI Sbjct: 131 IGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLI 190 Query: 219 RPAIATVAVFTMIPAWNDLWFPLILAPGDQTKTVTLGVQQFIGQYATDWNSVLAALSMAV 278 + + A F + +W +L L K ++ + + DW + AA + + Sbjct: 191 KSGVGVTAFFCFMFSWVELLLARTLT-SVNAKPISAIMTRTASAAGMDWGILAAAGVLTI 249 Query: 279 IPILILYTLFSRQLIRGLTSGAV 301 +P ++ + +G G V Sbjct: 250 VPGALVIWFVRNHIAKGFAMGRV 272 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 0.329 0.142 0.423 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: 881,753 Number of extensions: 35209 Number of successful extensions: 201 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 14 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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 (21.8 bits) S2: 130 (54.7 bits)