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= 0011.0321.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|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 642 0.0 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 170 2e-43 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 154 9e-39 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 152 3e-38 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 105 7e-24 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 642 bits (1655), Expect = 0.0, Method: Compositional matrix adjust. Identities = 328/328 (100%), Positives = 328/328 (100%) Query: 1 MQTSSSTPAASRQAAYLAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPL 60 MQTSSSTPAASRQAAYLAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPL Sbjct: 1 MQTSSSTPAASRQAAYLAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPL 60 Query: 61 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT 120 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT Sbjct: 61 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT 120 Query: 121 GMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI 180 GMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI Sbjct: 121 GMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI 180 Query: 181 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS 240 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS Sbjct: 181 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS 240 Query: 241 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEP 300 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEP Sbjct: 241 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEP 300 Query: 301 MKRIITGAVIVVAVILDTYRRRGQRHAR 328 MKRIITGAVIVVAVILDTYRRRGQRHAR Sbjct: 301 MKRIITGAVIVVAVILDTYRRRGQRHAR 328 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 170 bits (430), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 131/344 (38%), Positives = 193/344 (56%), Gaps = 32/344 (9%) Query: 3 TSSSTPAASRQAA-------YLAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSN 55 TS+ST A+ +A + + L A+LL M + F+F S NF+ +++ Sbjct: 9 TSASTTMANTASAQGLRARLFNPAARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQ 68 Query: 56 DIPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVA-- 113 V+++ T+++I GIDLSVG++M A M + + WG PL PLG+ A Sbjct: 69 STAVNGVLAIACTYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPL----PLGIAAAIF 124 Query: 114 --ALCGTLTGMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIG-----SAV----- 161 AL G ++GMV ++P FI +LG++ + +GL+ ++ +R Y SA+ Sbjct: 125 FGALSGWISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSL 184 Query: 162 --DVISS-PILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNP 218 D+I S PI + FL AI A ++L +TV GRY +G+NEEA+RLSGV + Sbjct: 185 IGDLIPSLPIPNAVLILFLVAIG----ASIILNKTVFGRYTFALGSNEEALRLSGVKVDF 240 Query: 219 SKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVST 278 K+ + GA+ GIA L SRL +A P G G EL IAAVVIGGTSL GG G+I+ T Sbjct: 241 WKVAVYTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGT 300 Query: 279 FIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRR 322 IG I+SVL GL + V++ + ++TG +I++AV LD RRR Sbjct: 301 IIGAFIMSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRR 344 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 154 bits (389), Expect = 9e-39, Method: Compositional matrix adjust. Identities = 107/296 (36%), Positives = 173/296 (58%), Gaps = 28/296 (9%) Query: 41 SENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSM-----AM 95 + NF SA + + + +V++ GMTF+++ GIDLSVGSV+A++A +L M A Sbjct: 57 TSNFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSA-VLGMQVSLGAA 115 Query: 96 VRWGWPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRT- 154 W P++ + G+V+ + G + +++++ +F+V+LG + RG AY + + T Sbjct: 116 PGWAIPMFIFS--GLVMGMVNGAMVALLNIN----AFVVTLGTMTAFRGAAYLLADGTTV 169 Query: 155 --------EYIGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNE 206 E+IG+ D + P L + A+A+V+++ ++L +TVLG + IG N Sbjct: 170 LNNDIPSFEWIGNG-DFLHVPWLIWV------AVAVVLLSWVILRKTVLGMHIYAIGGNL 222 Query: 207 EAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGT 266 +A RL+G+ + +++ G +G+A SRL A+ N G G EL IAAVV+GGT Sbjct: 223 QAARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGT 282 Query: 267 SLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRR 322 SLMGG GSI T +G LII V+ GL +G+S + + GAVIV+AVILD +R++ Sbjct: 283 SLMGGVGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQK 338 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside 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: 2 QTSSSTPAASRQAAYLAGFKNYLGL-----MAALLAMCVMFAFLSENFLSAATFITLSND 56 +++ PAAS A A +++ + +A L+ + ++ S+NF + + + + Sbjct: 3 HDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLRQ 62 Query: 57 IPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALC 116 + + +++VGM+F+++ GGIDLSVG+ MALA ++ + +V G P A GV +A Sbjct: 63 VSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCI 122 Query: 117 GTLTGMVSVHWRIPSFIVSLGVLEIARGLA------YQVTN--SRTEYIG-SAVDVISSP 167 G L G + R+P+ IV+L + +ARG+ Y ++ + G + ++ P Sbjct: 123 GLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVPVP 182 Query: 168 ILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALM 227 ++ + + +A L+L RT GR+ IG NE A RLSGV K+ +A+ Sbjct: 183 VIL--------MLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAIS 234 Query: 228 GALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISV 287 G +G+AA+ RL + PN GVG EL IAAVV+GGT++ GGRG +V T IG +++ + Sbjct: 235 GFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGI 294 Query: 288 LEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRR 321 L GL +G++ ++ II G +I++A+ + R Sbjct: 295 LNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 105 bits (261), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 88/310 (28%), Positives = 151/310 (48%), Gaps = 29/310 (9%) Query: 34 CVMFAFLSENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSM 93 C + L +F + + ++++ M ++I ID+SV +++ALA+ + + Sbjct: 47 CAVNGLLLPHFFDPYNLADSTFNFSEKAMIALPMALLIICREIDISVSAIIALASVAMGL 106 Query: 94 AMVRWGWPLYAAAPLGVVVAAL-----CGTLTGMVSVHWRIPSFIVSLGVLEIARGLAYQ 148 A + G P PLG+++ A+ CG L G + +PS +V++G + + RGLA Sbjct: 107 AN-QAGVP-----PLGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASV 160 Query: 149 VTNSR--TEY--------IGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRY 198 V + T+Y G DV+ P F+ + ++ ++L T GR Sbjct: 161 VLGDQAFTQYPEVLGDWGQGYFFDVLPRP--------FVVWLLAAVVFAVLLHVTRWGRR 212 Query: 199 WIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVI 258 IG N A R SGV + ++ F L GA+AG+AA F R+ + PN +G EL++I Sbjct: 213 LYAIGNNPVAARFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEII 272 Query: 259 AAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDT 318 V++GG S+ GG GSI + VL++ +L GLA + + I+ GA+++ + + Sbjct: 273 TVVILGGVSIAGGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPR 332 Query: 319 YRRRGQRHAR 328 R Q R Sbjct: 333 LLRGRQGAGR 342 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 0.137 0.392 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: 778,984 Number of extensions: 25554 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 23 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 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)