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= 0225.0021.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 345 3e-96 gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasm... 160 8e-41 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 103 2e-23 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 87 2e-18 gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl... 62 9e-11 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 345 bits (885), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 171/278 (61%), Positives = 219/278 (78%), Gaps = 2/278 (0%) Query: 35 LKIGLSLQEMNNPYFVTMKKAAEEAATSIGATLIVTDARHDIAKQTSDVEDLIQKKIDIL 94 LKIG+S QEMNNPYFV+MKKA +EAA S+GA +I TDA H++AKQ +D+ED++Q+ IDIL Sbjct: 26 LKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIATDAAHNVAKQIADIEDMLQQNIDIL 85 Query: 95 LLNPTDSVGIQSAVKSAKKAGIVVVTVDANAQGPVDSFVGSKNFDAGQAACTYLANTLKG 154 L+NPTDS G+++AVK+AK ++VV VDANA GPVD FVGSKN DAG +C LA+ + G Sbjct: 86 LINPTDSAGVEAAVKAAKARNVIVVAVDANASGPVDMFVGSKNKDAGYQSCRALADAIGG 145 Query: 155 KGDVAILDGIPVVPILERVRGCKAAFTNFPGIKLVATQNGKQERDQALSVTENILQSHPR 214 KG+VAILDGIPVVPIL+RV GCK A + IKLVATQNG+Q+R AL V EN++QS P Sbjct: 146 KGEVAILDGIPVVPILQRVEGCKQALAEYKDIKLVATQNGRQDRSVALGVVENMIQSRPN 205 Query: 215 LQGMFSVNDIGALGALSAIESSGKDVKLVSVDGAPDAIKAILKSNAKFIATAAQYPRDQI 274 L+G+FSVND GA+GAL+AI+ SGKD+KL SVDGAP+A+KAI F+ T AQ+PRDQ+ Sbjct: 206 LKGIFSVNDGGAMGALAAIQGSGKDIKLTSVDGAPEAVKAI-ADGGPFVETTAQFPRDQV 264 Query: 275 RLALGVALAKKWGA-TPPATIPVDIKLIDREQAASFRW 311 R+ L +ALAKKWGA P +P+D+ + ++ AA F W Sbjct: 265 RVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGFSW 302 >gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 160 bits (406), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 109/286 (38%), Positives = 171/286 (59%), Gaps = 9/286 (3%) Query: 34 PLK-IGLSLQEMNNPYFVTMKKAAEEAATSIG--ATLIVTDARHDIAKQTSDVEDLIQKK 90 PLK +G+++ ++ NP+FV + K AE A I A + V +++D+ Q +E+ I K Sbjct: 28 PLKSVGVTVGDLANPFFVAIAKGAESGAHKINPDAKVTVVSSKYDLNTQVGQIENFIANK 87 Query: 91 IDILLLNPTDSVGIQSAVKSAKKAGIVVVTVDANAQGPVDSFVGSKNFDAGQAACTYLAN 150 +D+++LN DS G+ AVK A+KAGIVVV VD A G + + S N AG +C +LA Sbjct: 88 VDLIVLNAADSKGVGPAVKKAQKAGIVVVAVDVAAAGADVTVM-SDNTMAGAESCKFLAE 146 Query: 151 TLKGKGDVAILDGIPVVPILERVRGCKAAFTNFPGIKLVA-TQNGKQERDQALSVTENIL 209 L+GKG+V I++G PV +++RV GCKA F PGIK+++ QN RD ++ N+L Sbjct: 147 KLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQNAGGSRDGGMTTMSNLL 206 Query: 210 QSHPRLQGMFSVNDIGALGALSAIESSGK-DVKLVS-VDGAPDAIKAILKSNAKFIATAA 267 + P++ +F++ND A+GA AI + + D+K +S VDGAPDA +A+ S + F A+ A Sbjct: 207 AAQPKIDAVFAINDPTAIGAELAIRQAKRSDIKWISGVDGAPDAERALKDSKSLFAASPA 266 Query: 268 QYPRDQIRLALGVALAKKWGATPPATIP-VDIKLIDREQAASFR-W 311 Q P ++ + A G P + + +KLI R+ A ++ W Sbjct: 267 QDPYGMAAESVAIGYAVMNGRAPQQKVKLLPVKLITRDNVADYQGW 312 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 103 bits (258), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 90/291 (30%), Positives = 145/291 (49%), Gaps = 21/291 (7%) Query: 6 RSHFCKFVSSICMAFGFTGLSFSVSAAPPLKIGLSLQEMNNPYFVTMKKAAEE--AATSI 63 R HF ++++ A G + + + A P K+ L ++ + N +F+ M+ A E A + Sbjct: 6 RRHFA--IAALACAV-LPGAAMAQTPAKP-KVALVMKSLANEFFLNMENGAREYQKANAS 61 Query: 64 GATLIVTDAR--HDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVVTV 121 LI + D A Q VE +I K++ L++ P DS + VK A AGI+VV + Sbjct: 62 KFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNI 121 Query: 122 DAN-------AQGPVDSFVGSKNFDAGQAACTYLANTLKGKGDVAILDGIPVV-PILERV 173 D +G FVG N + A YL L+ VAI++G+ +R Sbjct: 122 DNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRT 181 Query: 174 RGCKAAFTNFPGIKLVATQNGKQERDQALSVTENILQSHPRLQGMFSVNDIGALGALSAI 233 G + A + G +V Q+G+ E DQ V +IL +HP ++ + + ND ALGA++AI Sbjct: 182 LGFQDAMKDV-GANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAI 240 Query: 234 ESSGK--DVKLVSVDGAPDAIKAILKSNAKFIATAAQYPRDQIRLALGVAL 282 ++GK V+LV D +AIK +LK + + +AT Q+ + Q + AL Sbjct: 241 RAAGKTGKVQLVGYDNI-NAIKPMLK-DGRVLATVDQFAQQQAVFGIETAL 289 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 65/258 (25%), Positives = 126/258 (48%), Gaps = 15/258 (5%) Query: 14 SSICMAFGFTGLSFSVSAA-PPLKIGLSLQEMNNPYFVTMKKAAEEAATSIGATLIVTDA 72 ++IC++ G + +S AA PL +G S + + + ++AA G L DA Sbjct: 11 AAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQAGVNLKFADA 70 Query: 73 RHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVV----TVDANAQGP 128 + Q + I +K+D++ +P G ++ ++ AK A I V+ V+ + + Sbjct: 71 QQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTDRAVNVSDKSL 130 Query: 129 VDSFVGSKNFDAGQAACTYLANTLKG--KGDVAILD---GIPVVPILERVRGCKAAFTNF 183 +F+GS + G+ A +L K GD+ I++ + P ++R G + Sbjct: 131 YVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRKAGFEEVIKGE 190 Query: 184 PGIKLVATQNGKQERDQALSVTENILQSH-PRLQGMFSVNDIGALGALSAIESSG----K 238 P +K++ +Q G R + V E L++ ++ +++ ND A+GA+ AIE +G K Sbjct: 191 PRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQAIEEAGMKPGK 250 Query: 239 DVKLVSVDGAPDAIKAIL 256 D+ ++S+DG A +A++ Sbjct: 251 DIIIISIDGVKGAFEAMM 268 >gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 61.6 bits (148), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 67/251 (26%), Positives = 120/251 (47%), Gaps = 26/251 (10%) Query: 13 VSSICMAFGFTGLSFSVSAAPPLKIGLSLQEMNNPYFVTMKKAAEEAATSIGATLIVTDA 72 V+++ M G S A P KIG S+ ++ + + AA +GA + V A Sbjct: 15 VTTLSMVAG----SAMADAKNP-KIGFSIDDLRVERWARDRDFFTAAAEKLGAKVYVQSA 69 Query: 73 RHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVVTVDA---NAQGPV 129 +Q S +E+LI + +D++++ P ++ + + +K AKKAGI V++ D NA V Sbjct: 70 DASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDRLILNAD--V 127 Query: 130 DSFVGSKNFDAGQAACTYLANTLKGKGDVAILDGIPVVPILERVRGCKAA----FTNFPG 185 D+++ N G+ + +K KG+ +L G P + R + + + Sbjct: 128 DAYISFDNEKVGEMQAEGILK-VKNKGNFFLLGGSPTDNNAKMFREGQMKALKPYIDKGD 186 Query: 186 IKLVATQNGKQER-DQALSVTENILQ-SHPRLQGMFSVNDIGALGALSAIES-------- 235 IK+V Q K+ +ALS+ EN L ++ ++ + + ND A GA+ A+ + Sbjct: 187 IKIVGQQWVKEWNPTEALSIVENALTANNNKIDAIVASNDGTAGGAIQALAAQKLAGKVP 246 Query: 236 -SGKDVKLVSV 245 SG+D L +V Sbjct: 247 VSGQDADLAAV 257 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 0.318 0.133 0.377 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: 863,710 Number of extensions: 32527 Number of successful extensions: 146 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 9 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)