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= 0001.0426.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 ... 501 e-143 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 130 1e-31 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 114 6e-27 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 114 9e-27 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 110 9e-26 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 501 bits (1290), Expect = e-143, Method: Compositional matrix adjust. Identities = 263/271 (97%), Positives = 269/271 (99%) Query: 1 MSDPKKSPLWVALLGWACAIVLFFPIFWVAVTAFKTEAQAYTPSLVFLPTLETFREVFSR 60 MSDPKKSPLWVA+LGWACAIVLFFPIFWVAVTAFKTE+QAYTPSLVFLPTLETFREVFSR Sbjct: 1 MSDPKKSPLWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSR 60 Query: 61 SNYLAYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI 120 S+YL YVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI Sbjct: 61 SHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI 120 Query: 121 PIYLLAKNTGMLDTVTGLTIIYTLINLPIAVWMTFTYFNDVPKEILEAARIDGANAWQEM 180 PIYL+AKNTG+LDTVTGLTIIYTLINLPIAVWM FTYFNDVPKEILEAARIDGANAWQEM 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 = 130 bits (327), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 82/274 (29%), Positives = 142/274 (51%), Gaps = 11/274 (4%) Query: 2 SDPKKSPLWVALLGWACAIVLFFPIFWVAVTAFKTEAQAYTPSLVFL-----PTLETFRE 56 D + L V LL A +V P++W+ T+ KT + + VF PTL ++ Sbjct: 5 QDKSLTRLLVMLLYIAFTLV---PLYWLLNTSLKTNEETLS---VFTLWPNAPTLNNYKT 58 Query: 57 VFSRSNYLAYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAV 116 +F+ ++ + NS+I +T++SLL+A+PAAY+ + + + + W+L+ +M P Sbjct: 59 IFTDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPA 118 Query: 117 GVLIPIYLLAKNTGMLDTVTGLTIIYTLINLPIAVWMTFTYFNDVPKEILEAARIDGANA 176 L+P + L G+ DT + + + L N+P+AVW+ + + VP+EI E A IDG + Sbjct: 119 VFLLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSF 178 Query: 177 WQEMIYLLLPTAMPGLASTALLLIILSWNEAFWSLNLTSVNAAPLTVFIASYSNPEGLFW 236 + + + LP G+ TA + SW E + LTSVNA P++ + ++ G+ W Sbjct: 179 PRFFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTRTASAAGMDW 238 Query: 237 AKLSAASLLAIAPIMALGWLAQKQLVRGLTFGAV 270 L+AA +L I P + W + + +G G V Sbjct: 239 GILAAAGVLTIVPGALVIWFVRNHIAKGFAMGRV 272 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (286), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 121/222 (54%), Gaps = 1/222 (0%) Query: 51 LETFREVFSRSNYLAYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLST 110 LE +RE + S L Y NS ++++ S + ++ LA A ++++ + L ++ Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 111 KMMPAVGVLIPIYLLAKNTGMLDTVTGLTIIYTLINLPIAVWMTFTYFNDVPKEILEAAR 170 +P ++IP+ L+ + G+ +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 (285), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 77/252 (30%), Positives = 129/252 (51%), Gaps = 9/252 (3%) Query: 27 FWVAVTAFKTE----AQAYTPSLVFLPTLETFREVFSRSNYLAYVQNSLIVSLGSTLLSL 82 +W+ +TAFK + +Q+ P V PTL F+++ + Y A++ N++IVS+ ST SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 83 LLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLLAKNTGMLDTVTGLTIIY 142 +V AAY++ ++++ L + ++P + IP+ + G+ DT L + Y Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 143 TLINLPIAVWMTFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTALLLIIL 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 = 110 bits (276), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 75/251 (29%), Positives = 129/251 (51%), Gaps = 8/251 (3%) Query: 16 WACAIVLF----FPIFWVAVTAFKT--EAQAYTPSLVFLPTLETFREVFSRSNYLAYVQN 69 W IVL FP+ W + + KT + TP +F PTLE +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 GMLDTVTGLTIIYTLINLPIAVWMTFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAM 189 G+ 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 0.136 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: 724,217 Number of extensions: 24776 Number of successful extensions: 182 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 175 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)