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= 0001.3303.p (293 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 580 e-167 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 125 4e-30 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 114 1e-26 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 113 2e-26 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 107 8e-25 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 580 bits (1496), Expect = e-167, Method: Compositional matrix adjust. Identities = 289/293 (98%), Positives = 292/293 (99%) Query: 1 MAKKKDDQMETQGMDFLQSTPRKWVTIYIPLLIFLFVLLFPFYWMVITAFKPDNELLSQT 60 MAKKKDDQ ETQGMDFLQSTPRKWVTIYIPLLIFLFVLLFPFYWMVITAFKPDNELLSQ+ Sbjct: 1 MAKKKDDQQETQGMDFLQSTPRKWVTIYIPLLIFLFVLLFPFYWMVITAFKPDNELLSQS 60 Query: 61 GNPFWVVAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGS 120 GNPFWV+APTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGS Sbjct: 61 GNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGS 120 Query: 121 KQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRS 180 KQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRS Sbjct: 121 KQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRS 180 Query: 181 IPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVK 240 IPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVK Sbjct: 181 IPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVK 240 Query: 241 TVPVGIVTELVDGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE 293 TVPVGIVTELV+GDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE Sbjct: 241 TVPVGIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE 293 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 125 bits (314), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 82/271 (30%), Positives = 133/271 (49%), Gaps = 6/271 (2%) Query: 17 LQSTPRKWVTIYIPLLIFLFVLLFPFYWMVITAFKPDNELLSQTGNPFWVVAPTLAHFKK 76 + +T K +T + +L+++ L P YW++ T+ K + E LS W APTL ++K Sbjct: 1 MNNTQDKSLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVF--TLWPNAPTLNNYKT 58 Query: 77 LLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPS 136 + D + + +N++I ++T SL ++ AAYA R RF G K + + + PP+ Sbjct: 59 IFTDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPA 118 Query: 137 ILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATR 196 + +P + +GL DT A+ L + F +P W+L G+ +P E++E A IDG + Sbjct: 119 VFLLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSF 178 Query: 197 WEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTVPV-GIVTELVDGDV 255 ++I LPL G+ F F SW E + A T S V P+ I+T Sbjct: 179 PRFFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTS---VNAKPISAIMTRTASAAG 235 Query: 256 YHWGALMAGALLGSLPVAVVYSFFVEYYVSG 286 WG L A +L +P A+V F + G Sbjct: 236 MDWGILAAAGVLTIVPGALVIWFVRNHIAKG 266 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 114 bits (284), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 82/258 (31%), Positives = 132/258 (51%), Gaps = 9/258 (3%) Query: 37 VLLFPFYWMVITAFKPDNELLSQTGNPFWVVAPTLAHFKKLLFDTQYPAWLLNTVIVSVV 96 VL FP +W+ +TAFK + SQ P V PTL F+++ + Y ++ N++IVS+ Sbjct: 21 VLFFPIFWVAVTAFKTE----SQAYTPSLVFLPTLETFREVFSRSHYLGYVQNSLIVSLG 76 Query: 97 STFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRW 156 ST SL +V AAY++ ++++ L + ++P + IP+ + GL DT Sbjct: 77 STLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVT 136 Query: 157 ALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAG 216 L + Y +P W+ YF +P E+ E A IDGA W+ ++ ++LP A+PGL S Sbjct: 137 GLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTA 196 Query: 217 IFAFTLSWNEFIYALTFISSSEVKTVPVGI-VTELVDGDVYHWGALMAGALLGSLPVAVV 275 + LSWNE ++L S V P+ + + + + W L A +LL P+ + Sbjct: 197 LLLVILSWNEAFWSLNLTS---VNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMAL 253 Query: 276 YSFFVEYYVSGMT-GAVK 292 + V G+T GAVK Sbjct: 254 GWLAQKQLVRGLTFGAVK 271 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 113 bits (282), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 69/262 (26%), Positives = 135/262 (51%), Gaps = 8/262 (3%) Query: 35 LFVLLFPFYWMVITAFKPDNELLSQTGNPFWVVAPTLA---HFKKLLFDTQYPAWLLNTV 91 L + L P ++T+ + ++EL++ GN +W A ++++ L + + N+ Sbjct: 25 LLIWLLPMLAALVTSIRSNDELMA--GN-YWGWPQDFAMLENYREALTASPMLHYFWNSC 81 Query: 92 IVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGL 151 ++++ S +++ + A +A+ +F+G+ + +P IL IP+ + LGL Sbjct: 82 LITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVACNFVPQQILMIPVRDLSLSLGL 141 Query: 152 FDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPG 211 F+T ++L + FCT L + + +P+E+ E A I+GA+ W + +I+LPL P Sbjct: 142 FNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPA 201 Query: 212 LISAGIFAFTLSWNEFIYALTFISSSEVKTVPVGIVTELVDGDVYHWGALMAGALLGSLP 271 L + + FT WN++ +AL +V + VG V L W + AG++L +LP Sbjct: 202 LAALAVLVFTFVWNDYFWALVLTQGDDVAPITVG-VAALRGQWTTAWNLVSAGSILAALP 260 Query: 272 VAVVYSFFVEYYVSGMT-GAVK 292 +++ + +V+G+T GA K Sbjct: 261 SVILFFVMQKQFVAGLTFGASK 282 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 107 bits (268), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 123/240 (51%), Gaps = 3/240 (1%) Query: 32 LIFLFVLLFPFYWMVITAFKPDNELLSQTGNPFWVVAPTLAHFKKLLFDTQYPAWLLNTV 91 ++ + V +FP W ++ + K ++++ T P ++ PTL ++++++ + L N+ Sbjct: 15 IVLVLVAVFPLLWALLNSVKTLLDIVTPT--PRFLFTPTLENYRQVIGSPEVLVGLTNSA 72 Query: 92 IVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGL 151 ++ + V AAY I R G + + + +PP + IPL AI LGL Sbjct: 73 VIVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGL 132 Query: 152 FDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPG 211 +DTR+++I+TY + TWL + F+ +P E+EE A +DG + + KI LP Sbjct: 133 YDTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATT 192 Query: 212 LISAGIFAFTLSWNEFIYALTFISSSEVKTVPVGIVTELVDGDVYHWGALMAGALLGSLP 271 L+ IF+F L WNE + AL ++SS T+PV G WG + A +L +LP Sbjct: 193 LLGGIIFSFVLVWNELMIALA-LTSSNSATLPVVASAFTSMGQEVPWGVINASTVLLALP 251 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 0.329 0.143 0.451 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: 755,618 Number of extensions: 26935 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 11 Length of query: 293 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 209 Effective length of database: 1,222,130 Effective search space: 255425170 Effective search space used: 255425170 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 (21.8 bits) S2: 130 (54.7 bits)