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= 0001.2485.p (327 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 ... 628 0.0 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 171 1e-43 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 154 1e-38 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 151 7e-38 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 104 8e-24 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 628 bits (1620), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/328 (98%), Positives = 326/328 (99%), Gaps = 1/328 (0%) Query: 1 MQTSS-TPAASRQAAYLAGVKNYLGLIAALLAMCVMFAFLSENFLSAATFITLSNDIPPL 59 MQTSS TPAASRQAAYLAG KNYLGL+AALLAMCVMFAFLSENFLSAATFITLSNDIPPL Sbjct: 1 MQTSSSTPAASRQAAYLAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPL 60 Query: 60 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT 119 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT Sbjct: 61 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT 120 Query: 120 GMVAVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI 179 GMV+VHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI Sbjct: 121 GMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI 180 Query: 180 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS 239 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS Sbjct: 181 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVS 240 Query: 240 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSVVSTFIGVLIISVLEAGLAQVGVSEP 299 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGS+VSTFIGVLIISVLEAGLAQVGVSEP Sbjct: 241 RLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEP 300 Query: 300 MKRIITGAVIVVAVILDTYRRRGQRHAR 327 MKRIITGAVIVVAVILDTYRRRGQRHAR Sbjct: 301 MKRIITGAVIVVAVILDTYRRRGQRHAR 328 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 171 bits (432), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 126/338 (37%), Positives = 189/338 (55%), Gaps = 25/338 (7%) Query: 1 MQTSSTPAASRQAAYLAGVKNYLGLIAALLAMCVMFAFLSENFLSAATFITLSNDIPPLV 60 M +++ R + + L A+LL M + F+F S NF+ +++ Sbjct: 15 MANTASAQGLRARLFNPAARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQSTAVNG 74 Query: 61 VMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVA----ALCG 116 V+++ T+++I GIDLSVG++M A M + + WG PL PLG+ A AL G Sbjct: 75 VLAIACTYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPL----PLGIAAAIFFGALSG 130 Query: 117 TLTGMVAVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIG-----SAV-------DVIS 164 ++GMV ++P FI +LG++ + +GL+ ++ +R Y SA+ D+I Sbjct: 131 WISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLIGDLIP 190 Query: 165 S-PILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAF 223 S PI + FL AI A ++L +TV GRY +G+NEEA+RLSGV + K+ + Sbjct: 191 SLPIPNAVLILFLVAIG----ASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVY 246 Query: 224 ALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSVVSTFIGVLI 283 GA+ GIA L SRL +A P G G EL IAAVVIGGTSL GG G+++ T IG I Sbjct: 247 TFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFI 306 Query: 284 ISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRR 321 +SVL GL + V++ + ++TG +I++AV LD RRR Sbjct: 307 MSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRR 344 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 154 bits (388), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 106/291 (36%), Positives = 168/291 (57%), Gaps = 18/291 (6%) Query: 40 SENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGW 99 + NF SA + + + +V++ GMTF+++ GIDLSVGSV+A++A +L M + Sbjct: 57 TSNFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSA-VLGMQVSLGAA 115 Query: 100 PLYAAAPLGVVVAALCGTLTGMVAVHWRIPSFIVSLGVLEIARGLAYQVTNSRT------ 153 P +A P+ + + G + G + I +F+V+LG + RG AY + + T Sbjct: 116 PGWAI-PMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDI 174 Query: 154 ---EYIGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRL 210 E+IG+ D + P L + A+A+V+++ ++L +TVLG + IG N +A RL Sbjct: 175 PSFEWIGNG-DFLHVPWLIWV------AVAVVLLSWVILRKTVLGMHIYAIGGNLQAARL 227 Query: 211 SGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGG 270 +G+ + +++ G +G+A SRL A+ N G G EL IAAVV+GGTSLMGG Sbjct: 228 TGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGG 287 Query: 271 RGSVVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRR 321 GS+ T +G LII V+ GL +G+S + + GAVIV+AVILD +R++ Sbjct: 288 VGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQK 338 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 151 bits (381), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 108/333 (32%), Positives = 183/333 (54%), Gaps = 22/333 (6%) Query: 2 QTSSTPAASRQAA----YLAGVKNYLGL-IAALLAMCVMFAFLSENFLSAATFITLSNDI 56 ++ PAAS A + + + + L L +A L+ + ++ S+NF + + + + + Sbjct: 4 DANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLRQV 63 Query: 57 PPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCG 116 + +++VGM+F+++ GGIDLSVG+ MALA ++ + +V G P A GV +A G Sbjct: 64 SIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCIG 123 Query: 117 TLTGMVAVHWRIPSFIVSLGVLEIARGLA------YQVTN--SRTEYIG-SAVDVISSPI 167 L G + R+P+ IV+L + +ARG+ Y ++ + G + ++ P+ Sbjct: 124 LLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGVGRIGMVPVPV 183 Query: 168 LFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMG 227 + + + +A L+L RT GR+ IG NE A RLSGV K+ +A+ G Sbjct: 184 IL--------MLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISG 235 Query: 228 ALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSVVSTFIGVLIISVL 287 +G+AA+ RL + PN GVG EL IAAVV+GGT++ GGRG VV T IG +++ +L Sbjct: 236 FTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGIL 295 Query: 288 EAGLAQVGVSEPMKRIITGAVIVVAVILDTYRR 320 GL +G++ ++ II G +I++A+ + R Sbjct: 296 NNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 104 bits (260), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/310 (28%), Positives = 151/310 (48%), Gaps = 29/310 (9%) Query: 33 CVMFAFLSENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVMALAASMLSM 92 C + L +F + + ++++ M ++I ID+SV +++ALA+ + + Sbjct: 47 CAVNGLLLPHFFDPYNLADSTFNFSEKAMIALPMALLIICREIDISVSAIIALASVAMGL 106 Query: 93 AMVRWGWPLYAAAPLGVVVAAL-----CGTLTGMVAVHWRIPSFIVSLGVLEIARGLAYQ 147 A + G P PLG+++ A+ CG L G + +PS +V++G + + RGLA Sbjct: 107 AN-QAGVP-----PLGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASV 160 Query: 148 VTNSR--TEY--------IGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRY 197 V + T+Y G DV+ P F+ + ++ ++L T GR Sbjct: 161 VLGDQAFTQYPEVLGDWGQGYFFDVLPRP--------FVVWLLAAVVFAVLLHVTRWGRR 212 Query: 198 WIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVI 257 IG N A R SGV + ++ F L GA+AG+AA F R+ + PN +G EL++I Sbjct: 213 LYAIGNNPVAARFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEII 272 Query: 258 AAVVIGGTSLMGGRGSVVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDT 317 V++GG S+ GG GS+ + VL++ +L GLA + + I+ GA+++ + + Sbjct: 273 TVVILGGVSIAGGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPR 332 Query: 318 YRRRGQRHAR 327 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 0.138 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: 785,614 Number of extensions: 26096 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 23 Length of query: 327 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 242 Effective length of database: 1,217,395 Effective search space: 294609590 Effective search space used: 294609590 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)