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= 0001.3356.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 501 e-143 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 113 2e-26 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 107 8e-25 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 102 2e-23 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 75 7e-15 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 501 bits (1289), Expect = e-143, Method: Compositional matrix adjust. Identities = 257/270 (95%), Positives = 263/270 (97%) Query: 1 MGRLIARGAVWGVGLLLVLVAVFPLLWALLNSLKTLLDIVTPTPRFIFTPTLENYRQVIG 60 MGRLI R AVWGVG++LVLVAVFPLLWALLNS+KTLLDIVTPTPRF+FTPTLENYRQVIG Sbjct: 1 MGRLITRCAVWGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIG 60 Query: 61 SPEVLVGLTNSAVIVGSAVLLGTLMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA 120 SPEVLVGLTNSAVIVGSAVLLGT MGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA Sbjct: 61 SPEVLVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA 120 Query: 121 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV 180 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV Sbjct: 121 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV 180 Query: 181 FCKIALPNCAGTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSLGQEVPWGV 240 F KIALPNCA TLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTS+GQEVPWGV Sbjct: 181 FWKIALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGV 240 Query: 241 INASTVLLALPPLIFVGVLSRLLNTMLNPK 270 INASTVLLALPPLIFVGVLSRLLN+ML K Sbjct: 241 INASTVLLALPPLIFVGVLSRLLNSMLKGK 270 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 113 bits (282), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 119/239 (49%), Gaps = 1/239 (0%) Query: 13 VGLLLVLVAVFPLLWALLNSLKTLLDIVTPTPRFIFTPTLENYRQVIGSPEVLVGLTNSA 72 V LL + + PL W L SLKT + ++ + PTL NY+ + P G NS Sbjct: 14 VMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPNAPTLNNYKTIFTDPSWYSGYINSI 73 Query: 73 VIVGSAVLLGTLMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGL 132 + V ++ L+ +PAAY +RY G + + F+LL+ R PP +P ++ +GL Sbjct: 74 IYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYSTIGL 133 Query: 133 YDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFCKIALPNCAGT 192 DT ++ + ++L + W+ +PREI+E A +DG+ F +I LP Sbjct: 134 SDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLIKSG 193 Query: 193 LLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSLGQEVPWGVINASTVLLALP 251 + F F+ W EL++A LTS N+ + + + T+ + WG++ A+ VL +P Sbjct: 194 VGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTR-TASAAGMDWGILAAAGVLTIVP 251 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 107 bits (268), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 130/249 (52%), Gaps = 4/249 (1%) Query: 13 VGLLLVLVAVFPLLWALLNSLKTLLDIVTPTPRFIFTPTLENYRQVIGSPEVLVGLTNSA 72 +G +V FP+ W + + KT + TP +F PTLE +R+V L + NS Sbjct: 14 LGWACAIVLFFPIFWVAVTAFKT--ESQAYTPSLVFLPTLETFREVFSRSHYLGYVQNSL 71 Query: 73 VIVGSAVLLGTLMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGL 132 ++ + LL L+ VPAAY +A + + + ++LS + +P V V IP+ + + GL Sbjct: 72 IVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGL 131 Query: 133 YDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFCKIALPNCAGT 192 DT + + Y L L W++ F +P+EI EAA +DG + + LP Sbjct: 132 LDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPG 191 Query: 193 LLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSLGQEVPWGVINASTVLLALPP 252 L + +L WNE +L LTS N+A L V +++++ + + W ++A++ LLA+ P Sbjct: 192 LASTALLLVILSWNEAFWSLNLTSVNAAPLTVFIASYSN-PEGLFWAKLSAAS-LLAIAP 249 Query: 253 LIFVGVLSR 261 ++ +G L++ Sbjct: 250 IMALGWLAQ 258 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 102 bits (255), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 116/228 (50%), Gaps = 3/228 (1%) Query: 27 WALLNSLKTLLDIVTPT--PRFIFTPTLENYRQVIGSPEVLVGLTNSAVIVGSAVLLGTL 84 W ++ + K ++++ + P ++ PTL ++++++ + L N+ ++ + Sbjct: 44 WMVITAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLA 103 Query: 85 MGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGLYDTRFSMIVTYL 144 V AAY I R G + + + +PP + IPL AI LGL+DTR+++I+TY Sbjct: 104 ASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYP 163 Query: 145 LTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFCKIALPNCAGTLLGGIIFSFVLV 204 + TWL + F+ +P E+EE A +DG + + KI LP L+ IF+F L Sbjct: 164 TFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLS 223 Query: 205 WNELMIALA-LTSSNSATLPVVASAFTSLGQEVPWGVINASTVLLALP 251 WNE + AL ++SS T+PV G WG + A +L +LP Sbjct: 224 WNEFIYALTFISSSEVKTVPVGIVTELVEGDVYHWGALMAGALLGSLP 271 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 74.7 bits (182), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 99/211 (46%), Gaps = 2/211 (0%) Query: 52 LENYRQVIGSPEVLVGLTNSAVIVGSAVLLGTLMGVPAAYVIARYHVPGKRDIQFFLLSL 111 LENYR+ + + +L NS +I +V+ + A + ++ Y G + ++ Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 112 RFLPPVAVAIPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAAT 171 F+P + IP+ + + LGL++T M++ ++ T +++P E+ EAA Sbjct: 121 NFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 Query: 172 LDGYGPYAVFCKIALPNCAGTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTS 231 ++G + VF +I LP L + F VWN+ AL LT + P+ Sbjct: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVA-PITVGVAAL 239 Query: 232 LGQ-EVPWGVINASTVLLALPPLIFVGVLSR 261 GQ W +++A ++L ALP +I V+ + Sbjct: 240 RGQWTTAWNLVSAGSILAALPSVILFFVMQK 270 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 0.327 0.142 0.433 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: 726,651 Number of extensions: 28416 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 178 Number of HSP's successfully gapped: 11 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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)