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= 0020.0494.p (328 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 622 e-179 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 194 6e-51 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 184 7e-48 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 152 3e-38 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 150 2e-37 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 622 bits (1603), Expect = e-179, Method: Compositional matrix adjust. Identities = 328/328 (100%), Positives = 328/328 (100%) Query: 1 MPHDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVL 60 MPHDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVL Sbjct: 1 MPHDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVL 60 Query: 61 RQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLAT 120 RQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLAT Sbjct: 61 RQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLAT 120 Query: 121 CIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVP 180 CIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVP Sbjct: 121 CIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVP 180 Query: 181 VPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGL 240 VPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGL Sbjct: 181 VPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGL 240 Query: 241 AAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLN 300 AAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLN Sbjct: 241 AAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLN 300 Query: 301 LMGINPYLQDIIRGVIILLAIYIAREWR 328 LMGINPYLQDIIRGVIILLAIYIAREWR Sbjct: 301 LMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 194 bits (494), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 133/341 (39%), Positives = 203/341 (59%), Gaps = 23/341 (6%) Query: 1 MPHDANALP-AASLHTAASARWRSLIHS--------PLALPLAGLVVVSLLMGLASDNFF 51 M H +A+P A ++ +A+W L+H L L GL + L G + NF Sbjct: 6 MTHTHDAVPPGARRSSSTTAQW--LLHRLGMLPVLVVLYLLFYGLTL--YLSGDGTSNFA 61 Query: 52 TLSNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTI--SAGLIVNSGLPAP 109 + N N+LRQV+I +LA GM+FVILT GIDLSVG+ +A++ + L G P Sbjct: 62 SAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWAIP 121 Query: 110 LALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPI--SGLPGW 167 + + G+ +G++NGA+VA + A +VTL TM RG + + G + + +P Sbjct: 122 MFIFSGL----VMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPS- 176 Query: 168 ISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIK 227 W G G VP + + + V L+W++L++T G H+YAIGGN AARL+G++ + Sbjct: 177 FEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVL 236 Query: 228 LAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLI 287 L VY+ISG SGLA + RL N G G+ELDAIAAVVLGGT++ GG G + GT++ Sbjct: 237 LFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGTVV 296 Query: 288 GAVLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 GA+++G++NNGL ++G++ + Q + +G +I+LA+ I +WR Sbjct: 297 GALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAV-ILDKWR 336 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 184 bits (468), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 126/340 (37%), Positives = 200/340 (58%), Gaps = 14/340 (4%) Query: 3 HDANALPAASLHTAASARWRSLIHSPLA----LPLAGLVVVSLLMGLASDNFFTLSNWFN 58 H A + +TA++ R+ + +P A L A L+++ L AS NF + N + Sbjct: 6 HSATSASTTMANTASAQGLRARLFNPAARQKLLAFASLLLMILFFSFASPNFMEVDNLVS 65 Query: 59 VLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGL 118 +L+ ++ G+LA+ ++VI+T GIDLSVG M ++ ++ N G+P PL + + Sbjct: 66 ILQSTAVNGVLAIACTYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPLPLGIAAAIFF 125 Query: 119 ATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPI--SGLPGWISWFGVGRI 176 G ++G ++A ++P I TL M + +G+ L+ SG PI + G+ + I Sbjct: 126 GALSGWISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLI 185 Query: 177 G----MVPVP--VILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAV 230 G +P+P V+++ +V A ++L +T FGR+ +A+G NE A RLSGVK K+AV Sbjct: 186 GDLIPSLPIPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAV 245 Query: 231 YAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAV 290 Y SG G+A +I+ RL S QP G G+ELDAIAAVV+GGT+++GG G ++GT+IGA Sbjct: 246 YTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAF 305 Query: 291 LLGILNNGLNLMGINPYLQDIIRGVIILLAIY--IAREWR 328 ++ +L NGL +M + Q ++ GVII+LA+Y I R R Sbjct: 306 IMSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 152 bits (385), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 106/334 (31%), Positives = 183/334 (54%), Gaps = 22/334 (6%) Query: 3 HDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLRQ 62 +++ PAAS A A +++ + +A L+ + ++ S+NF + + + + Sbjct: 2 QTSSSTPAASRQAAYLAGFKNYLGL-----MAALLAMCVMFAFLSENFLSAATFITLSND 56 Query: 63 VSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCI 122 + + +++VGM+F+++ GGIDLSVG+ MALA ++ + +V G P A GV +A Sbjct: 57 IPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALC 116 Query: 123 GLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVPVP 182 G L G + R+P+ IV+L + +ARG+ Y ++ + G + ++ P Sbjct: 117 GTLTGMVSVHWRIPSFIVSLGVLEIARGLA------YQVTN--SRTEYIG-SAVDVISSP 167 Query: 183 VIL--------MLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAIS 234 ++ + + +A L+L RT GR+ IG NE A RLSGV K+ +A+ Sbjct: 168 ILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALM 227 Query: 235 GFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGI 294 G +G+AA+ RL + PN GVG EL IAAVV+GGT++ GGRG +V T IG +++ + Sbjct: 228 GALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISV 287 Query: 295 LNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 L GL +G++ ++ II G +I++A+ + R Sbjct: 288 LEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRR 321 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 104/286 (36%), Positives = 165/286 (57%), Gaps = 2/286 (0%) Query: 44 GLASDNFFTLSNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVN 103 GL +FF N + S ++A+ M+ +I+ ID+SV A +ALA +++ GL Sbjct: 51 GLLLPHFFDPYNLADSTFNFSEKAMIALPMALLIICREIDISVSAIIALA-SVAMGLANQ 109 Query: 104 SGLPAPLALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISG 163 +G+P LL + T GLLNGALV +P+I+VT+ +M + RG+ + G + Sbjct: 110 AGVPPLGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFTQ 169 Query: 164 LPGWISWFGVGRI-GMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVK 222 P + +G G ++P P ++ L+ + +LL T +GR +YAIG N +AAR SGV Sbjct: 170 YPEVLGDWGQGYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNPVAARFSGVA 229 Query: 223 TTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLV 282 R +LA++ ++G +GLAA LTGR+ S +PN +G+EL+ I V+LGG +IAGG G + Sbjct: 230 VDRYRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEIITVVILGGVSIAGGTGSI 289 Query: 283 VGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 G ++ +++G+L GL L I + I+ G ++L I I R R Sbjct: 290 GGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRLLR 335 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 0.326 0.143 0.431 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: 1,041,458 Number of extensions: 47827 Number of successful extensions: 402 Number of sequences better than 1.0e-08: 25 Number of HSP's gapped: 387 Number of HSP's successfully gapped: 26 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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 (21.6 bits) S2: 131 (55.1 bits)