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= 0017.0007.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 ... 524 e-150 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 108 3e-25 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 104 9e-24 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 100 1e-22 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 77 2e-15 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 524 bits (1349), Expect = e-150, Method: Compositional matrix adjust. Identities = 268/270 (99%), Positives = 269/270 (99%) Query: 1 MGRLITRSAVWGVGILLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIG 60 MGRLITR AVWGVGI+LVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIG Sbjct: 1 MGRLITRCAVWGVGIVLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIG 60 Query: 61 SPEVLVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA 120 SPEVLVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA Sbjct: 61 SPEVLVGLTNSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVA 120 Query: 121 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV 180 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV Sbjct: 121 IPLIAIWVDLGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAV 180 Query: 181 FWKIALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGV 240 FWKIALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGV Sbjct: 181 FWKIALPNCATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGV 240 Query: 241 INASTVLLALPPLIFVGVLSRLLNSMLKGK 270 INASTVLLALPPLIFVGVLSRLLNSMLKGK Sbjct: 241 INASTVLLALPPLIFVGVLSRLLNSMLKGK 270 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 108 bits (271), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 119/242 (49%), Gaps = 7/242 (2%) Query: 13 VGILLVLVAVFPLLWALLNSVKT---LLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLT 69 V +L + + PL W L S+KT L + T P PTL NY+ + P G Sbjct: 14 VMLLYIAFTLVPLYWLLNTSLKTNEETLSVFTLWPN---APTLNNYKTIFTDPSWYSGYI 70 Query: 70 NSAVIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVD 129 NS + V ++ + +PAAY +RY G + + F+LL+ R PP +P ++ Sbjct: 71 NSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPAVFLLPFFQLYST 130 Query: 130 LGLYDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNC 189 +GL DT ++ + ++L + W+ +PREI+E A +DG+ F +I LP Sbjct: 131 IGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSFPRFFLRIFLPLI 190 Query: 190 ATTLLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLA 249 + + F F+ W EL++A LTS N+ + + + T+ + WG++ A+ VL Sbjct: 191 KSGVGVTAFFCFMFSWVELLLARTLTSVNAKPISAIMTR-TASAAGMDWGILAAAGVLTI 249 Query: 250 LP 251 +P Sbjct: 250 VP 251 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 104 bits (259), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 129/249 (51%), Gaps = 4/249 (1%) Query: 13 VGILLVLVAVFPLLWALLNSVKTLLDIVTPTPRFLFTPTLENYRQVIGSPEVLVGLTNSA 72 +G +V FP+ W + + KT + TP +F PTLE +R+V L + NS Sbjct: 14 LGWACAIVLFFPIFWVAVTAFKT--ESQAYTPSLVFLPTLETFREVFSRSHYLGYVQNSL 71 Query: 73 VIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGL 132 ++ + LL + VPAAY +A + + + ++LS + +P V V IP+ + + GL Sbjct: 72 IVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGL 131 Query: 133 YDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATT 192 DT + + Y L L W++ F +P+EI EAA +DG + + LP Sbjct: 132 LDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPG 191 Query: 193 LLGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLALPP 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 = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 116/228 (50%), Gaps = 3/228 (1%) Query: 27 WALLNSVKTLLDIVTPT--PRFLFTPTLENYRQVIGSPEVLVGLTNSAVIVGSAVLLGTF 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 LTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATTLLGGIIFSFVLV 204 + TWL + F+ +P E+EE A +DG + + KI LP L+ IF+F L Sbjct: 164 TFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLS 223 Query: 205 WNELMIALA-LTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLALP 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 = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 61/249 (24%), Positives = 119/249 (47%), Gaps = 8/249 (3%) Query: 18 VLVAVFPLLWALLNSVKTLLDIVTPT----PRFLFTPTLENYRQVIGSPEVLVGLTNSAV 73 +L+ + P+L AL+ S+++ +++ P+ LENYR+ + + +L NS + Sbjct: 25 LLIWLLPMLAALVTSIRSNDELMAGNYWGWPQDF--AMLENYREALTASPMLHYFWNSCL 82 Query: 74 IVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGLY 133 I +V+ + A + ++ Y G + ++ F+P + IP+ + + LGL+ Sbjct: 83 ITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVACNFVPQQILMIPVRDLSLSLGLF 142 Query: 134 DTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATTL 193 +T M++ ++ T +++P E+ EAA ++G + VF++I LP L Sbjct: 143 NTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPAL 202 Query: 194 LGGIIFSFVLVWNELMIALALTSSNSATLPVVASAFTSMGQ-EVPWGVINASTVLLALPP 252 + F VWN+ AL LT + P+ GQ W +++A ++L ALP Sbjct: 203 AALAVLVFTFVWNDYFWALVLTQGDDVA-PITVGVAALRGQWTTAWNLVSAGSILAALPS 261 Query: 253 LIFVGVLSR 261 +I V+ + Sbjct: 262 VILFFVMQK 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 0.141 0.430 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: 756,811 Number of extensions: 28377 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 190 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)