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= 0030.0043.p (338 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 584 e-168 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 201 5e-53 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 167 1e-42 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 159 3e-40 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 158 6e-40 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 584 bits (1506), Expect = e-168, Method: Compositional matrix adjust. Identities = 316/342 (92%), Positives = 325/342 (95%), Gaps = 4/342 (1%) Query: 1 MAHPTPLHNNAA----AARSSSTASQWLLHRLGMLPVLVVLYLLFYALTIYLSGDGSSNF 56 MA H + A A RSSST +QWLLHRLGMLPVLVVLYLLFY LT+YLSGDG+SNF Sbjct: 1 MADTKMTHTHDAVPPGARRSSSTTAQWLLHRLGMLPVLVVLYLLFYGLTLYLSGDGTSNF 60 Query: 57 ATAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQISLSAAPGWSI 116 A+AENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQ+SL AAPGW+I Sbjct: 61 ASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWAI 120 Query: 117 PMFIVSGLLMGMVNGAMVAFLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPSFEWI 176 PMFI SGL+MGMVNGAMVA LNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPSFEWI Sbjct: 121 PMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPSFEWI 180 Query: 177 GNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVY 236 GNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVY Sbjct: 181 GNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVY 240 Query: 237 SISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGTIWGTVVGALI 296 SISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVG+IWGTVVGALI Sbjct: 241 SISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGTVVGALI 300 Query: 297 IGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKDAAQ 338 IGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKDAAQ Sbjct: 301 IGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKDAAQ 342 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 201 bits (512), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 137/339 (40%), Positives = 208/339 (61%), Gaps = 24/339 (7%) Query: 6 PLHNNAAAARSSSTAS--QW--LLHRLGMLPV--LVVLYLLFYALTIYLSGDGSSNFATA 59 P NA A S TA+ +W L+H LP+ LVV+ LL G S NF T Sbjct: 2 PHDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLM--------GLASDNFFTL 53 Query: 60 ENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQISLSAAPGWSIPMF 119 N N+LRQV+I +LA GM+FVILT GIDLSVG+ +A++ + + +++ G P+ Sbjct: 54 SNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNS--GLPAPLA 111 Query: 120 IVSGL----LMGMVNGAMVAFLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPS-FE 174 ++ G+ +G++NGA+VA+ + A +VTL TM RG + + G + + +P Sbjct: 112 LLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPI--SGLPGWIS 169 Query: 175 WIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLF 234 W G G VP + + + V L+W++L++T G H+YAIGGN AARL+G++ + L Sbjct: 170 WFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLA 229 Query: 235 VYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGTIWGTVVGA 294 VY+ISG SGLA + RL N G G+ELDAIAAVVLGGT++ GG G + GT++GA Sbjct: 230 VYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGA 289 Query: 295 LIIGVMNNGLTILGLSSFWQYVAKGAVIVLAV-ILDKWR 332 +++G++NNGL ++G++ + Q + +G +I+LA+ I +WR Sbjct: 290 VLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 167 bits (423), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 123/318 (38%), Positives = 182/318 (57%), Gaps = 28/318 (8%) Query: 35 VVLYLLFYALTIYLSGDGSSNFATAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGS 94 ++L +LF++ S NF +N ++IL+ A+N VLA T+VI+T+GIDLSVG+ Sbjct: 43 LLLMILFFSF-------ASPNFMEVDNLVSILQSTAVNGVLAIACTYVIITSGIDLSVGT 95 Query: 95 VLAVSAVL--------GMQISLSAAPGWSIPMFIVSGLLMGMVNGAMVAFLNINAFVVTL 146 ++ AV+ GM + L A I G L G ++G ++A L + F+ TL Sbjct: 96 MMTFCAVMAGVVLTNWGMPLPLGIAAA------IFFGALSGWISGMVIAKLKVPPFIATL 149 Query: 147 GTMTAFRGAAYLLADGTTVLNNDIPSFEWIGN----GDF---LHVPWLIWVAVAVVLLSW 199 G M +G + +++ + ND F I GD L +P + + V + + Sbjct: 150 GMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLIGDLIPSLPIPNAVLILFLVAIGAS 209 Query: 200 VILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANG 259 +IL KTV G + +A+G N +A RL+G++V + VY+ SG G+AG + ASRL A Sbjct: 210 IILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTFSGAICGIAGLIIASRLNSAQP 269 Query: 260 NWGSGYELDAIAAVVLGGTSLMGGVGTIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKG 319 G GYELDAIAAVV+GGTSL GG GTI GT++GA I+ V+ NGL I+ ++ WQ V G Sbjct: 270 ALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLVNGLRIMSVAQEWQTVVTG 329 Query: 320 AVIVLAVILDKWRQKDAA 337 +I+LAV LD R++ A Sbjct: 330 VIIILAVYLDILRRRRRA 347 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 159 bits (403), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 110/295 (37%), Positives = 167/295 (56%), Gaps = 19/295 (6%) Query: 56 FATAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLG--MQISLSAAP- 112 F +A++ N+L AI ++LA VILT GIDLSV S LA+S ++ + + A P Sbjct: 49 FLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGMMSALLAMHFPALPV 108 Query: 113 GWSIPMFIVSGLLMGMVNGAMVAFLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPS 172 G I M ++ GL++G++NG ++ +L + VVTLG+M+ +RG ++L+ G V + ++P+ Sbjct: 109 GVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRNMPA 168 Query: 173 FEWIGNGDFLHVP--------WLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLT 224 DF+ P L+W+ V+ W + R T G +YAIG + AA Sbjct: 169 -------DFIAFPLARLGGLTHLVWLGALAVVAIWFLARHTRFGRDLYAIGNDPAAAAYV 221 Query: 225 GIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGV 284 GI LL+ Y +SG +GLAG + +R A G+EL IAA V+GG S+ GGV Sbjct: 222 GIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSIAGGV 281 Query: 285 GTIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILD-KWRQKDAAQ 338 G + G V+GAL + V+NN L I+ +S FWQ G VI+ AV+L+ + +Q Q Sbjct: 282 GQVSGAVLGALFLSVINNALPIMRISPFWQSALTGLVILCAVVLNARGKQGRRKQ 336 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 158 bits (399), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 112/319 (35%), Positives = 181/319 (56%), Gaps = 32/319 (10%) Query: 28 LGMLPVLVVLYLLFYALTIYLSGDGSSNFATAENTMNILRQVAINLVLAAGMTFVILTAG 87 LG++ L+ + ++F L S NF +A + + + +V++ GMTF+++ G Sbjct: 24 LGLMAALLAMCVMFAFL--------SENFLSAATFITLSNDIPPLVVMSVGMTFILIIGG 75 Query: 88 IDLSVGSVLAVSAVLGMQISLSAAP-GWSI----PMFIVSGLLMGMVNGAMVAFLNINAF 142 IDLSVGSV+A++A + +S++ GW + P+ +V L G + G + I +F Sbjct: 76 IDLSVGSVMALAASM---LSMAMVRWGWPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSF 132 Query: 143 VVTLGTMTAFRGAAYLLADGTTVLNNDIPSFEWIGNG-DFLHVPWLIWV------AVAVV 195 +V+LG + RG AY + + T E+IG+ D + P L + A+A+V Sbjct: 133 IVSLGVLEIARGLAYQVTNSRT---------EYIGSAVDVISSPILFGMSPAFLSAIAIV 183 Query: 196 LLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLY 255 +++ ++L +TVLG + IG N +A RL+G+ + +++ G +G+A SRL Sbjct: 184 IIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLE 243 Query: 256 GANGNWGSGYELDAIAAVVLGGTSLMGGVGTIWGTVVGALIIGVMNNGLTILGLSSFWQY 315 A+ N G G EL IAAVV+GGTSLMGG G+I T +G LII V+ GL +G+S + Sbjct: 244 AADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKR 303 Query: 316 VAKGAVIVLAVILDKWRQK 334 + GAVIV+AVILD +R++ Sbjct: 304 IITGAVIVVAVILDTYRRR 322 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 0.325 0.138 0.416 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: 832,429 Number of extensions: 28792 Number of successful extensions: 267 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 254 Number of HSP's successfully gapped: 21 Length of query: 338 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 252 Effective length of database: 1,212,660 Effective search space: 305590320 Effective search space used: 305590320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)