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= 0002.0068.p (271 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 ... 531 e-152 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 133 2e-32 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 114 9e-27 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 114 1e-26 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 109 3e-25 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 531 bits (1369), Expect = e-152, Method: Compositional matrix adjust. Identities = 267/271 (98%), Positives = 271/271 (100%) Query: 1 MSDPKKSPLWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLIFLPTLDTFREVFSR 60 MSDPKKSPLWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSL+FLPTL+TFREVFSR Sbjct: 1 MSDPKKSPLWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSR 60 Query: 61 SHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI 120 SHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI Sbjct: 61 SHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI 120 Query: 121 PIYLLAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM 180 PIYL+AKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM Sbjct: 121 PIYLMAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM 180 Query: 181 IYLLLPTAMPGLASTALLLIILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLS 240 IYLLLPTAMPGLASTALLL+ILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLS Sbjct: 181 IYLLLPTAMPGLASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLS 240 Query: 241 AASLLAIAPIMALGWLAQKQLVRGLTFGAVK 271 AASLLAIAPIMALGWLAQKQLVRGLTFGAVK Sbjct: 241 AASLLAIAPIMALGWLAQKQLVRGLTFGAVK 271 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 81/251 (32%), Positives = 137/251 (54%), Gaps = 8/251 (3%) Query: 25 PIFWVAVTAFKTESQAYTPSLIFL----PTLDTFREVFSR-SHYLGYVQNSLIVSLGSTL 79 P++W+ T+ KT + T S+ L PTL+ ++ +F+ S Y GY+ NS+I +T+ Sbjct: 25 PLYWLLNTSLKTNEE--TLSVFTLWPNAPTLNNYKTIFTDPSWYSGYI-NSIIYVAMNTV 81 Query: 80 LSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLLAKNTGLLDTVTGLT 139 +SLL+A+PAAY+ + + + + W+L+ +M P L+P + L GL DT + Sbjct: 82 MSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVA 141 Query: 140 IIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLL 199 + + L N+P+AVW+ + + VP+EI E A IDG + + + + LP G+ TA Sbjct: 142 LAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFC 201 Query: 200 IILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 259 + SW E + LTSVNA P++ + ++ G+ W L+AA +L I P + W + Sbjct: 202 FMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRN 261 Query: 260 QLVRGLTFGAV 270 + +G G V Sbjct: 262 HIAKGFAMGRV 272 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (285), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 121/222 (54%), Gaps = 1/222 (0%) Query: 51 LDTFREVFSRSHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLST 110 L+ +RE + S L Y NS ++++ S + ++ LA A ++++ + L ++ Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 111 KMMPAVGVLIPIYLLAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAAR 170 +P ++IP+ L+ + GL +T+TG+ + + + + +P E++EAAR Sbjct: 121 NFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 Query: 171 IDGANAWQEMIYLLLPTAMPGLASTALLLIILSWNEAFWSLNLTS-VNAAPLTVFIASYS 229 I+GA+ W ++LP P LA+ A+L+ WN+ FW+L LT + AP+TV +A+ Sbjct: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR 240 Query: 230 NPEGLFWAKLSAASLLAIAPIMALGWLAQKQLVRGLTFGAVK 271 W +SA S+LA P + L ++ QKQ V GLTFGA K Sbjct: 241 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASK 282 >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 = 77/252 (30%), Positives = 128/252 (50%), Gaps = 9/252 (3%) Query: 27 FWVAVTAFKTE----SQAYTPSLIFLPTLDTFREVFSRSHYLGYVQNSLIVSLGSTLLSL 82 +W+ +TAFK + SQ+ P + PTL F+++ + Y ++ N++IVS+ ST SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 83 LLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLLAKNTGLLDTVTGLTIIY 142 +V AAY++ ++++ L + ++P + IP+ + GL DT L + Y Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 143 TLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLLIIL 202 +P W+ YF +P E+ E A IDGA W+ ++ ++LP A+PGL S + L Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 203 SWNEAFWSLNLTS---VNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 259 SWNE ++L S V P+ + + + W L A +LL P+ + + Sbjct: 223 SWNEFIYALTFISSSEVKTVPVGI-VTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVE 281 Query: 260 QLVRGLTFGAVK 271 V G+T GAVK Sbjct: 282 YYVSGMT-GAVK 292 >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 = 75/251 (29%), Positives = 129/251 (51%), Gaps = 8/251 (3%) Query: 16 WACAIVLF----FPIFWVAVTAFKT--ESQAYTPSLIFLPTLDTFREVFSRSHYLGYVQN 69 W IVL FP+ W + + KT + TP +F PTL+ +R+V L + N Sbjct: 11 WGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLTN 70 Query: 70 SLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLLAKNT 129 S ++ + LL + VPAAY +A + + + ++LS + +P V V IP+ + + Sbjct: 71 SAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDL 130 Query: 130 GLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAM 189 GL DT + + Y L L W++ F +P+EI EAA +DG + + LP Sbjct: 131 GLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCA 190 Query: 190 PGLASTALLLIILSWNEAFWSLNLTSVNAAPLTVFIASYSN-PEGLFWAKLSAAS-LLAI 247 L + +L WNE +L LTS N+A L V +++++ + + W ++A++ LLA+ Sbjct: 191 TTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLAL 250 Query: 248 APIMALGWLAQ 258 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 0.325 0.137 0.424 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: 735,276 Number of extensions: 25727 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 169 Number of HSP's successfully gapped: 10 Length of query: 271 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 187 Effective length of database: 1,222,130 Effective search space: 228538310 Effective search space used: 228538310 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)