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= 0127.0006.p (294 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 ... 535 e-153 gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease ... 117 9e-28 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 113 2e-26 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 112 5e-26 gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease ... 108 7e-25 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 535 bits (1379), Expect = e-153, Method: Compositional matrix adjust. Identities = 278/291 (95%), Positives = 285/291 (97%) Query: 4 KSKDLQQETQGMDFLQSVPRRWITTYIPLGIFVFVLLFPFYWMVITAFKPDNELLRQTGN 63 K KD QQETQGMDFLQS PR+W+T YIPL IF+FVLLFPFYWMVITAFKPDNELL Q+GN Sbjct: 3 KKKDDQQETQGMDFLQSTPRKWVTIYIPLLIFLFVLLFPFYWMVITAFKPDNELLSQSGN 62 Query: 64 PFWVVAPTLAHFKKLLFETQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQ 123 PFWV+APTLAHFKKLLF+TQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQ Sbjct: 63 PFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQ 122 Query: 124 VGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIP 183 VGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIP Sbjct: 123 VGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIP 182 Query: 184 YELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTV 243 YELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTV Sbjct: 183 YELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTV 242 Query: 244 PVGIVTELVDGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE 294 PVGIVTELV+GDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE Sbjct: 243 PVGIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGMTGAVKE 293 >gi|300310303|ref|YP_003774395.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 272 Score = 117 bits (294), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 77/271 (28%), Positives = 130/271 (47%), Gaps = 6/271 (2%) Query: 18 LQSVPRRWITTYIPLGIFVFVLLFPFYWMVITAFKPDNELLRQTGNPFWVVAPTLAHFKK 77 + + + +T + + +++ L P YW++ T+ K + E L W APTL ++K Sbjct: 1 MNNTQDKSLTRLLVMLLYIAFTLVPLYWLLNTSLKTNEETLSVF--TLWPNAPTLNNYKT 58 Query: 78 LLFETQYPAWLLNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPS 137 + + + + +N++I ++T SL ++ AAYA R RF G K + + + PP+ Sbjct: 59 IFTDPSWYSGYINSIIYVAMNTVMSLLVALPAAYAFSRYRFLGDKHMFFWLLTNRMTPPA 118 Query: 138 ILFIPLAAIVFKLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATR 197 + +P + +GL DT A+ L + F +P W+L G+ +P E++E A IDG + Sbjct: 119 VFLLPFFQLYSTIGLSDTHIAVALAHMLFNVPLAVWILEGFMSGVPREIDETAYIDGFSF 178 Query: 198 WEILVKIILPLAVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTVPV-GIVTELVDGDV 256 ++I LPL G+ F F SW E + A T S V P+ I+T Sbjct: 179 PRFFLRIFLPLIKSGVGVTAFFCFMFSWVELLLARTLTS---VNAKPISAIMTRTASAAG 235 Query: 257 YHWGALMAGALLGSLPVAVVYSFFVEYYVSG 287 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 = 113 bits (282), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 81/258 (31%), Positives = 132/258 (51%), Gaps = 9/258 (3%) Query: 38 VLLFPFYWMVITAFKPDNELLRQTGNPFWVVAPTLAHFKKLLFETQYPAWLLNTVIVSVV 97 VL FP +W+ +TAFK ++ Q P V PTL F+++ + Y ++ N++IVS+ Sbjct: 21 VLFFPIFWVAVTAFKTES----QAYTPSLVFLPTLETFREVFSRSHYLGYVQNSLIVSLG 76 Query: 98 STFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRW 157 ST SL +V AAY++ ++++ L + ++P + IP+ + GL DT Sbjct: 77 STLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLSTKMMPAVGVLIPIYLMAKNTGLLDTVT 136 Query: 158 ALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAG 217 L + Y +P W+ YF +P E+ E A IDGA W+ ++ ++LP A+PGL S Sbjct: 137 GLTIIYTLINLPIAVWMAFTYFNDVPKEILEAARIDGANAWQEMIYLLLPTAMPGLASTA 196 Query: 218 IFAFTLSWNEFIYALTFISSSEVKTVPVGI-VTELVDGDVYHWGALMAGALLGSLPVAVV 276 + LSWNE ++L S V P+ + + + + W L A +LL P+ + Sbjct: 197 LLLVILSWNEAFWSLNLTS---VNAAPLTVFIASYSNPEGLFWAKLSAASLLAIAPIMAL 253 Query: 277 YSFFVEYYVSGMT-GAVK 293 + V G+T GAVK Sbjct: 254 GWLAQKQLVRGLTFGAVK 271 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 112 bits (279), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 69/266 (25%), Positives = 136/266 (51%), Gaps = 8/266 (3%) Query: 32 LGIFVFVLLFPFYWMVITAFKPDNELLRQTGNPFWVVAPTLA---HFKKLLFETQYPAWL 88 L + + + L P ++T+ + ++EL+ GN +W A ++++ L + + Sbjct: 21 LPVALLIWLLPMLAALVTSIRSNDELM--AGN-YWGWPQDFAMLENYREALTASPMLHYF 77 Query: 89 LNTVIVSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVF 148 N+ ++++ S +++ + A +A+ +F+G+ + +P IL IP+ + Sbjct: 78 WNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVACNFVPQQILMIPVRDLSL 137 Query: 149 KLGLFDTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPL 208 LGLF+T ++L + FCT L + + +P+E+ E A I+GA+ W + +I+LPL Sbjct: 138 SLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPL 197 Query: 209 AVPGLISAGIFAFTLSWNEFIYALTFISSSEVKTVPVGIVTELVDGDVYHWGALMAGALL 268 P L + + FT WN++ +AL +V + VG V L W + AG++L Sbjct: 198 IRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVG-VAALRGQWTTAWNLVSAGSIL 256 Query: 269 GSLPVAVVYSFFVEYYVSGMT-GAVK 293 +LP +++ + +V+G+T GA K Sbjct: 257 AALPSVILFFVMQKQFVAGLTFGASK 282 >gi|300312692|ref|YP_003776784.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 270 Score = 108 bits (269), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 121/239 (50%), Gaps = 3/239 (1%) Query: 34 IFVFVLLFPFYWMVITAFKPDNELLRQTGNPFWVVAPTLAHFKKLLFETQYPAWLLNTVI 93 + V V +FP W ++ + K +++ T P ++ PTL ++++++ + L N+ + Sbjct: 16 VLVLVAVFPLLWALLNSVKTLLDIVTPT--PRFLFTPTLENYRQVIGSPEVLVGLTNSAV 73 Query: 94 VSVVSTFASLAASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLF 153 + + V AAY I R G + + + +PP + IPL AI LGL+ Sbjct: 74 IVGSAVLLGTFMGVPAAYVIARYHVPGKRDIQFFLLSLRFLPPVAVAIPLIAIWVDLGLY 133 Query: 154 DTRWALILTYPTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGL 213 DTR+++I+TY + TWL + F+ +P E+EE A +DG + + KI LP L Sbjct: 134 DTRFSMIVTYLLTTLSTITWLSIPVFQRMPREIEEAATLDGYGPYAVFWKIALPNCATTL 193 Query: 214 ISAGIFAFTLSWNEFIYALTFISSSEVKTVPVGIVTELVDGDVYHWGALMAGALLGSLP 272 + IF+F L WNE + AL ++SS T+PV G WG + A +L +LP Sbjct: 194 LGGIIFSFVLVWNELMIALA-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 0.328 0.143 0.450 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: 806,982 Number of extensions: 31276 Number of successful extensions: 163 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 156 Number of HSP's successfully gapped: 11 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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)