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= 0025.0003.p (320 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313308|ref|YP_003777400.1| sugar ABC transporter permease ... 551 e-158 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 83 3e-17 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 83 3e-17 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 82 5e-17 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 79 5e-16 >gi|300313308|ref|YP_003777400.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 316 Score = 551 bits (1419), Expect = e-158, Method: Compositional matrix adjust. Identities = 305/320 (95%), Positives = 311/320 (97%), Gaps = 4/320 (1%) Query: 1 MSAARATMGAALQQRPWVWSFMGAALLWLATLAVAGPEAAFNIGLSAFSFGALMVLVGLG 60 MS R+T L+QRPWVWSF+GAALLWLATLAVAGP+AA NIGLSAFSFGALMVLVGLG Sbjct: 1 MSRLRST----LEQRPWVWSFLGAALLWLATLAVAGPDAAVNIGLSAFSFGALMVLVGLG 56 Query: 61 QMLVVTTGPGNIDLSIPSTIAQAGALGLRTMGGEDGGILLGLLVTLGVGVGIGLANYLLI 120 QMLVVTTGPGNIDLSIPSTIA AGALGLRTMGGEDGGILLGL+VTLGVGVGIGLANYLLI Sbjct: 57 QMLVVTTGPGNIDLSIPSTIALAGALGLRTMGGEDGGILLGLVVTLGVGVGIGLANYLLI 116 Query: 121 RLLQIPPIIATMSSSFILQSLAIHVGQGLKITPPQLLASFATGWLLHLPQLAWLVLAVAL 180 RLLQIPPIIATMSSSFILQSLAIHVGQGLKITPPQLLASFATGWLLH+PQLAWLVLAVAL Sbjct: 117 RLLQIPPIIATMSSSFILQSLAIHVGQGLKITPPQLLASFATGWLLHVPQLAWLVLAVAL 176 Query: 181 GLAWILGRTLFGRFLSAVGQNARAAWLAGIGVERIRCPCYVLCAVFAALCALLIAGFSGG 240 GLAWILGRTLFGRFLSAVGQNARAAWLAGIGVERIRC CYVLCAVFAALCALLIAGFSGG Sbjct: 177 GLAWILGRTLFGRFLSAVGQNARAAWLAGIGVERIRCLCYVLCAVFAALCALLIAGFSGG 236 Query: 241 ASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTLLNVVGLSAGERSV 300 ASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTLLNVVGLSAGERSV Sbjct: 237 ASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTLLNVVGLSAGERSV 296 Query: 301 LSGLIIIAVIVCSGRRRQYR 320 LSGLIIIAVIVCSGRRRQYR Sbjct: 297 LSGLIIIAVIVCSGRRRQYR 316 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 82.8 bits (203), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 134/273 (49%), Gaps = 6/273 (2%) Query: 52 ALMVLVGLGQMLVVTTGPGNIDLSIPSTIAQAGAL-GLRTMGGEDGGILLGLLVTLGVGV 110 A+ +++ L QMLV+ T IDLS+ S +A +G + L M + + +L+ + +G+ Sbjct: 63 AITIMLALAQMLVILTR--GIDLSVASNLALSGMMSALLAMHFPALPVGVFILMAVLIGL 120 Query: 111 GIGLANYLLIRLLQIPPIIATMSSSFILQSLAIHVGQGLKITPPQLLASFATGWLLHLPQ 170 +GL N LI L++PPI+ T+ S + + + + G ++ + A F L L Sbjct: 121 MLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRNMPADFIAFPLARLGG 180 Query: 171 LAWLVL--AVALGLAWILGR-TLFGRFLSAVGQNARAAWLAGIGVERIRCPCYVLCAVFA 227 L LV A+A+ W L R T FGR L A+G + AA GI Y L A Sbjct: 181 LTHLVWLGALAVVAIWFLARHTRFGRDLYAIGNDPAAAAYVGIASRGRLLWTYGLSGAMA 240 Query: 228 ALCALLIAGFSGGASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTL 287 L L A ++ + L +A VIGG S+ GG V+G ALFL N Sbjct: 241 GLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSIAGGVGQVSGAVLGALFLSVINNA 300 Query: 288 LNVVGLSAGERSVLSGLIIIAVIVCSGRRRQYR 320 L ++ +S +S L+GL+I+ +V + R +Q R Sbjct: 301 LPIMRISPFWQSALTGLVILCAVVLNARGKQGR 333 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 82.8 bits (203), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 79/252 (31%), Positives = 132/252 (52%), Gaps = 9/252 (3%) Query: 72 IDLSIPSTIAQAGALGLRTMGGEDGGILLGLLVTLGVGVGIGLANYLLIRLLQIPPIIAT 131 IDLS+ S +A + LG++ G G + + + G+ +G+ N ++ LL I + T Sbjct: 92 IDLSVGSVLAVSAVLGMQVSLGAAPGWAIPMFIF--SGLVMGMVNGAMVALLNINAFVVT 149 Query: 132 MSSSFILQSLAIHVGQGLKITPPQLLASFA---TGWLLHLPQLAWLVLAVALGLAW-ILG 187 + + + A + G + + SF G LH+P L W+ +AV L L+W IL Sbjct: 150 LGTMTAFRGAAYLLADGTTVLNNDI-PSFEWIGNGDFLHVPWLIWVAVAVVL-LSWVILR 207 Query: 188 RTLFGRFLSAVGQNARAAWLAGIGVERIRCPCYVLCAVFAALCALLIAGFSGGASLDMGN 247 +T+ G + A+G N +AA L GI V + Y + +F+ L + A GA+ + G+ Sbjct: 208 KTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGS 267 Query: 248 EYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTLLNVVGLSAGERSVLSG-LII 306 Y L ++A VV+GGTS+ GG S+ G AL + N L ++GLS+ + V G +I+ Sbjct: 268 GYELDAIAAVVLGGTSLMGGVGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIV 327 Query: 307 IAVIVCSGRRRQ 318 +AVI+ R++ Sbjct: 328 LAVILDKWRQKD 339 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 82.0 bits (201), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 138/267 (51%), Gaps = 8/267 (2%) Query: 56 LVGLGQMLVVTTGPGNIDLSIPSTIAQAGALGLRTMGGEDGGILLGLLVTLGVGVGIGLA 115 ++ +G V+ TG IDLS+ + +A AG + + L LL +G+ IGL Sbjct: 68 ILAVGMSFVILTG--GIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCIGLL 125 Query: 116 NYLLIRLLQIPPIIATMSSSFILQSLAIHVGQGLKITP-PQLLASFATGWLLHLPQLAWL 174 N L+ ++P II T+++ + + + + G I+ P ++ F G + +P L Sbjct: 126 NGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVPVPVIL 185 Query: 175 VLAVALGLAWIL-GRTLFGRFLSAVGQNARAAWLAGIGVERIRCPCYVLCAVFAALCALL 233 +L V LAW+L RT FGR + A+G N AA L+G+ RI+ Y + + L A++ Sbjct: 186 MLIV-YALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGLAAII 244 Query: 234 IAGFSGGASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGIWGAALFLYFTNTLLNVVGL 293 + G + G + L ++A VV+GGT++ GGR V G A+ L N LN++G+ Sbjct: 245 LTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLNLMGI 304 Query: 294 SAGERSVLSGLIIIAVIVCSGRRRQYR 320 + + ++ G+II+ I + R++R Sbjct: 305 NPYLQDIIRGVIILLAIYIA---REWR 328 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 79.0 bits (193), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 118/240 (49%), Gaps = 14/240 (5%) Query: 41 FNIGLSAFSFGALMVLVGLGQMLVVTTGPGNIDLSIPSTIAQAG-ALGLRTMGGEDGGIL 99 +N+ S F+F ++ +L++ ID+S+ + IA A A+GL G Sbjct: 61 YNLADSTFNFSEKAMIALPMALLIICR---EIDISVSAIIALASVAMGLANQAGVPP--- 114 Query: 100 LGLL-VTLGVGVGIGLANYLLIRLLQIPPIIATMSSSFILQSLA-IHVGQGLKITPPQLL 157 LGLL V + G GL N L+ L +P I+ T+ S + + LA + +G P++L Sbjct: 115 LGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFTQYPEVL 174 Query: 158 ASFATGWLLHL---PQLAWLVLAVALGLAWILGRTLFGRFLSAVGQNARAAWLAGIGVER 214 + G+ + P + WL+ AV A +L T +GR L A+G N AA +G+ V+R Sbjct: 175 GDWGQGYFFDVLPRPFVVWLLAAVVF--AVLLHVTRWGRRLYAIGNNPVAARFSGVAVDR 232 Query: 215 IRCPCYVLCAVFAALCALLIAGFSGGASLDMGNEYLLMSVAVVVIGGTSVTGGRPSVAGI 274 R +VL A L A + G G ++ + L + VV++GG S+ GG S+ G+ Sbjct: 233 YRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEIITVVILGGVSIAGGTGSIGGV 292 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 0.432 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: 649,028 Number of extensions: 17465 Number of successful extensions: 138 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 134 Number of HSP's successfully gapped: 14 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 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)