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= 0016.0110.p (337 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310352|ref|YP_003774444.1| sugar ABC transporter permease ... 656 0.0 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 105 5e-24 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 95 1e-20 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 91 2e-19 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 90 2e-19 >gi|300310352|ref|YP_003774444.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 337 Score = 656 bits (1693), Expect = 0.0, Method: Compositional matrix adjust. Identities = 336/337 (99%), Positives = 337/337 (100%) Query: 1 MTMKLKISDPQLLFLLVINVAILLVATVFSHGDFLDIYNFQSMASQLPELGLLAIGVALA 60 MTMKLKISDPQLLFLLVINVAILLVATVFSHGDFLDIYNFQSMASQLPELGLLAIGVALA Sbjct: 1 MTMKLKISDPQLLFLLVINVAILLVATVFSHGDFLDIYNFQSMASQLPELGLLAIGVALA 60 Query: 61 MISGNGGIDLSGIGLANLAGVVAAAAMPLLVAAPDAAPWTYTLGFIAVALVTGLLGGALN 120 MISGNGGIDLSGIGLANLAGVVAAAAMPLLVAAPDAAPWTYTLGFIAVALVTGLLGGALN Sbjct: 61 MISGNGGIDLSGIGLANLAGVVAAAAMPLLVAAPDAAPWTYTLGFIAVALVTGLLGGALN 120 Query: 121 GWLISRGNLTPILCTLGTQMIFTGLAVVLTNGSSLRISVVDPISAIGNESVLGVPIPFII 180 GWLISRGNLTPILCTLGTQMIFTGLAVVLTNGSSLRISVVDPISAIGNESVLGVPIPFII Sbjct: 121 GWLISRGNLTPILCTLGTQMIFTGLAVVLTNGSSLRISVVDPISAIGNESVLGVPIPFII 180 Query: 181 FVALLLLVGWLMRYSLFGIKLYLLGTNARAARYSGISQNRLRFATYVISGVLASVAGIII 240 FVALLLLVGWLMRYSLFGIKLYLLGTNARAARY+GISQNRLRFATYVISGVLASVAGIII Sbjct: 181 FVALLLLVGWLMRYSLFGIKLYLLGTNARAARYAGISQNRLRFATYVISGVLASVAGIII 240 Query: 241 AARTASVKADYGNSYLLIAILIAVMAGVRPQGGYGRMVCLFFSALALQLLSSTFNLLEIS 300 AARTASVKADYGNSYLLIAILIAVMAGVRPQGGYGRMVCLFFSALALQLLSSTFNLLEIS Sbjct: 241 AARTASVKADYGNSYLLIAILIAVMAGVRPQGGYGRMVCLFFSALALQLLSSTFNLLEIS 300 Query: 301 NFFRDCAWGLLLLCFLASARVSWRDFFPNSKAQLRKS 337 NFFRDCAWGLLLLCFLASARVSWRDFFPNSKAQLRKS Sbjct: 301 NFFRDCAWGLLLLCFLASARVSWRDFFPNSKAQLRKS 337 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 105 bits (262), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 90/292 (30%), Positives = 152/292 (52%), Gaps = 12/292 (4%) Query: 33 DFLDIYNFQSMASQLPELGLLAIGVALAMISGNGGIDLSGIGLANLAGVVAAAAMPLLVA 92 +F + N+ ++ Q+ +G+LA+G++ +++G GIDLS LAG ++A L+V Sbjct: 49 NFFTLSNWFNVLRQVSIVGILAVGMSFVILTG--GIDLSVGAAMALAGTISAG---LIVN 103 Query: 93 APDAAPWTYTLGFIAVALVTGLLGGALNGWLISRGNLTPILCTLGTQMIFTGLAVVLTNG 152 + AP G + +A GLL GAL W G + I+ TL T + G+ ++ + G Sbjct: 104 SGLPAPLALLCG-VGLATCIGLLNGALVAW----GRMPAIIVTLATMGVARGVGLIYSGG 158 Query: 153 SSLRISVVDPISAIGNESVLGVPIPFIIFVALLLLVGWLMRYSLFGIKLYLLGTNARAAR 212 + + IS G + VP+P I+ + + L L++ + FG +Y +G N AAR Sbjct: 159 YPIS-GLPGWISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAAR 217 Query: 213 YSGISQNRLRFATYVISGVLASVAGIIIAARTASVKADYGNSYLLIAILIAVMAGVRPQG 272 SG+ R++ A Y ISG + +A II+ R S + + G + L AI V+ G G Sbjct: 218 LSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAG 277 Query: 273 GYGRMVCLFFSALALQLLSSTFNLLEISNFFRDCAWGLLLLCFLASARVSWR 324 G G +V A+ L +L++ NL+ I+ + +D G+++L + AR WR Sbjct: 278 GRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIAR-EWR 328 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 94.7 bits (234), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 81/290 (27%), Positives = 140/290 (48%), Gaps = 13/290 (4%) Query: 33 DFLDIYNFQSMASQLPELGLLAIGVALAMISGNGGIDLSGIGLANLAGVVAAAAMPLLVA 92 F D YN E ++A+ +AL +I ID+S ++ ++A A++ + +A Sbjct: 56 HFFDPYNLADSTFNFSEKAMIALPMALLIICRE--IDIS------VSAIIALASVAMGLA 107 Query: 93 APDAAPWTYTLGFIAVALVTGLLGGALNGWLISRGNLTPILCTLGTQMIFTGLAVVLTNG 152 P LG + VA+ TG G LNG L++R L I+ T+G+ +F GLA V+ G Sbjct: 108 NQAGVP---PLGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVL-G 163 Query: 153 SSLRISVVDPISAIGNESVLGV-PIPFIIFVALLLLVGWLMRYSLFGIKLYLLGTNARAA 211 + + G V P PF++++ ++ L+ + +G +LY +G N AA Sbjct: 164 DQAFTQYPEVLGDWGQGYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNPVAA 223 Query: 212 RYSGISQNRLRFATYVISGVLASVAGIIIAARTASVKADYGNSYLLIAILIAVMAGVRPQ 271 R+SG++ +R R A +V++G +A +A + R S + + + L I + ++ GV Sbjct: 224 RFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEIITVVILGGVSIA 283 Query: 272 GGYGRMVCLFFSALALQLLSSTFNLLEISNFFRDCAWGLLLLCFLASARV 321 GG G + + S L + +L+ L I G LLL +A R+ Sbjct: 284 GGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRL 333 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/304 (28%), Positives = 154/304 (50%), Gaps = 20/304 (6%) Query: 27 TVFSHGDFLDIYNFQSMASQLPELGLLAIGVALA----MISGNGGIDLSGIGLANLAGVV 82 T++ GD NF S + + L +AI + LA + GIDLS + V+ Sbjct: 49 TLYLSGD--GTSNFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLS------VGSVL 100 Query: 83 AAAAMPLLVAAPDAAP-WTYTLGFIAVALVTGLLGGALNGWLISRGNLTPILCTLGTQMI 141 A +A+ + + AAP W I + + +GL+ G +NG +++ N+ + TLGT Sbjct: 101 AVSAVLGMQVSLGAAPGWA-----IPMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTA 155 Query: 142 FTGLAVVLTNGSSLRISVVDPISAIGNESVLGVPIPFIIFVALLLLVGWLMRYSLFGIKL 201 F G A +L +G+++ + + IGN L VP + VA++LL ++R ++ G+ + Sbjct: 156 FRGAAYLLADGTTVLNNDIPSFEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHI 215 Query: 202 YLLGTNARAARYSGISQNRLRFATYVISGVLASVAGIIIAARTASVKADYGNSYLLIAIL 261 Y +G N +AAR +GI + Y ISG+ + +AG + A+R ++G+ Y L AI Sbjct: 216 YAIGGNLQAARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIA 275 Query: 262 IAVMAGVRPQGGYGRMVCLFFSALALQLLSSTFNLLEISNFFRDCAWGLLLLCFLASARV 321 V+ G GG G + AL + ++++ +L +S+F++ A G +++ LA Sbjct: 276 AVVLGGTSLMGGVGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIV--LAVILD 333 Query: 322 SWRD 325 WR Sbjct: 334 KWRQ 337 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 71/217 (32%), Positives = 113/217 (52%), Gaps = 13/217 (5%) Query: 105 FIAVALVTGLLGGALNGWLISRGNLTPILCTLGTQMIFTGLAVVLTNGS--SLRISVVD- 161 FI +A++ GL+ G LNGWLI L PI+ TLG+ ++ G+ VL+ G+ S R D Sbjct: 111 FILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRNMPADF 170 Query: 162 ---PISAIGNESVLGVPIPFIIFVALLLLVGW-LMRYSLFGIKLYLLGTNARAARYSGIS 217 P++ +G + L + AL ++ W L R++ FG LY +G + AA Y GI+ Sbjct: 171 IAFPLARLGGLTHL------VWLGALAVVAIWFLARHTRFGRDLYAIGNDPAAAAYVGIA 224 Query: 218 QNRLRFATYVISGVLASVAGIIIAARTASVKADYGNSYLLIAILIAVMAGVRPQGGYGRM 277 TY +SG +A +AG + AR A + + L I V+ GV GG G++ Sbjct: 225 SRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSIAGGVGQV 284 Query: 278 VCLFFSALALQLLSSTFNLLEISNFFRDCAWGLLLLC 314 AL L ++++ ++ IS F++ GL++LC Sbjct: 285 SGAVLGALFLSVINNALPIMRISPFWQSALTGLVILC 321 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 0.142 0.418 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: 789,841 Number of extensions: 27320 Number of successful extensions: 227 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 15 Length of query: 337 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 251 Effective length of database: 1,212,660 Effective search space: 304377660 Effective search space used: 304377660 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: 131 (55.1 bits)