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= 0002.0114.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 ... 476 e-135 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 127 7e-31 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 110 1e-25 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 110 1e-25 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 102 4e-23 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 476 bits (1224), Expect = e-135, Method: Compositional matrix adjust. Identities = 243/271 (89%), Positives = 263/271 (97%) Query: 1 MNDQKKSPLWVGLLAWTCAIILFFPIFWVAVTAFKTEHQAYMPSLIFMPTLDTFREVFER 60 M+D KKSPLWV +L W CAI+LFFPIFWVAVTAFKTE QAY PSL+F+PTL+TFREVF R Sbjct: 1 MSDPKKSPLWVAVLGWACAIVLFFPIFWVAVTAFKTESQAYTPSLVFLPTLETFREVFSR 60 Query: 61 SNYLAFVKNSMIVSLGSTLLSLLIAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLV 120 S+YL +V+NS+IVSLGSTLLSLL+AVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVL+ Sbjct: 61 SHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLI 120 Query: 121 PIYLLAKNSGMLDSVTGLTLIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM 180 PIYL+AKN+G+LD+VTGLT+IYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM Sbjct: 121 PIYLMAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEM 180 Query: 181 LYLLLPTAMPGLASTALLLIILSWNEAFWSLNLTSVDAAPLTVFIASYSNPEGLFWAKLS 240 +YLLLPTAMPGLASTALLL+ILSWNEAFWSLNLTSV+AAPLTVFIASYSNPEGLFWAKLS 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 = 127 bits (320), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 132/248 (53%), Gaps = 2/248 (0%) Query: 25 PIFWVAVTAFKTEHQAYMPSLIF--MPTLDTFREVFERSNYLAFVKNSMIVSLGSTLLSL 82 P++W+ T+ KT + ++ PTL+ ++ +F ++ + NS+I +T++SL Sbjct: 25 PLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIFTDPSWYSGYINSIIYVAMNTVMSL 84 Query: 83 LIAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLVPIYLLAKNSGMLDSVTGLTLIY 142 L+A+PAAY+ + + + + W+L+ +M P L+P + L G+ D+ + L + Sbjct: 85 LVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGLSDTHIAVALAH 144 Query: 143 TLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMLYLLLPTAMPGLASTALLLIIL 202 L N+P+AVW+ + + VP+EI E A IDG + + L + LP G+ TA + Sbjct: 145 MLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSGVGVTAFFCFMF 204 Query: 203 SWNEAFWSLNLTSVDAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQKQLV 262 SW E + LTSV+A P++ + ++ G+ W L+AA +L I P + W + + Sbjct: 205 SWVELLLARTLTSVNAKPISAIMTRTASAAGMDWGILAAAGVLTIVPGALVIWFVRNHIA 264 Query: 263 RGLTFGAV 270 +G G V Sbjct: 265 KGFAMGRV 272 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 110 bits (275), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 129/252 (51%), Gaps = 9/252 (3%) Query: 27 FWVAVTAFKTEH----QAYMPSLIFMPTLDTFREVFERSNYLAFVKNSMIVSLGSTLLSL 82 +W+ +TAFK ++ Q+ P + PTL F+++ + Y A++ N++IVS+ ST SL Sbjct: 43 YWMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 83 LIAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLVPIYLLAKNSGMLDSVTGLTLIY 142 +V AAY++ ++++ L + ++P + +P+ + G+ D+ L L Y Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 143 TLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMLYLLLPTAMPGLASTALLLIIL 202 +P W+ YF +P E+ E A IDGA W+ ++ ++LP A+PGL S + L Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 203 SWNEAFWSLNLTS---VDAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMALGWLAQK 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|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 110 bits (275), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 120/222 (54%), Gaps = 1/222 (0%) Query: 51 LDTFREVFERSNYLAFVKNSMIVSLGSTLLSLLIAVPAAYSMAFFPTGRTQKLLLWMLST 110 L+ +RE S L + NS ++++ S + ++ +A A ++++ + L ++ Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 111 KMMPAVGVLVPIYLLAKNSGMLDSVTGLTLIYTLINLPIAVWMAFTYFNDVPKEILEAAR 170 +P +++P+ L+ + G+ +++TG+ L + + + +P E++EAAR Sbjct: 121 NFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 Query: 171 IDGANAWQEMLYLLLPTAMPGLASTALLLIILSWNEAFWSLNLTS-VDAAPLTVFIASYS 229 I+GA+ W ++LP P LA+ A+L+ WN+ FW+L LT D 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|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 102 bits (253), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 128/251 (50%), Gaps = 8/251 (3%) Query: 16 WTCAIILF----FPIFWVAVTAFKT--EHQAYMPSLIFMPTLDTFREVFERSNYLAFVKN 69 W I+L FP+ W + + KT + P +F PTL+ +R+V L + N Sbjct: 11 WGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLTN 70 Query: 70 SMIVSLGSTLLSLLIAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLVPIYLLAKNS 129 S ++ + LL + VPAAY +A + + + ++LS + +P V V +P+ + + Sbjct: 71 SAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDL 130 Query: 130 GMLDSVTGLTLIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMLYLLLPTAM 189 G+ D+ + + Y L L W++ F +P+EI EAA +DG + + LP Sbjct: 131 GLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCA 190 Query: 190 PGLASTALLLIILSWNEAFWSLNLTSVDAAPLTVFIASYSN-PEGLFWAKLSAAS-LLAI 247 L + +L WNE +L LTS ++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 0.326 0.136 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: 754,778 Number of extensions: 27656 Number of successful extensions: 201 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 193 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 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 130 (54.7 bits)