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= 0026.0012.p (345 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 591 e-170 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 117 2e-27 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 74 2e-14 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 64 2e-11 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 59 5e-10 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 591 bits (1523), Expect = e-170, Method: Compositional matrix adjust. Identities = 287/308 (93%), Positives = 305/308 (99%) Query: 38 DKVRIAMVVKSLGNGFFDAAHEGAKEAARQLGDVDIIYTGPTTPTAEGQIEIVNSLISQK 97 +KVRIAMVVKSLGNGFFDAAHEGAKEAAR+LGDV++IYTGPTTPTAEGQIEIVNSLISQK Sbjct: 37 EKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGPTTPTAEGQIEIVNSLISQK 96 Query: 98 VDAIVISANDANALIPITKKAMQRGIKVLSFDSGIAKGGRLMQLNPSNAELIGVKQIQMA 157 VDAIVISANDANAL+PITK+AMQRG+KVLSFDSGIAKGGRLMQLNPSNAELIG+KQIQMA Sbjct: 97 VDAIVISANDANALVPITKRAMQRGVKVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQMA 156 Query: 158 SDAIGGAGEVAILSATAQATNQNIWIAEMKKALARPEFSKIKLIATVYGDDQSDKSYREA 217 ++AIGGAG+VAILSATAQATNQNIWI EMKKALARPEFS++KL+ATVYGDDQSDKSYREA Sbjct: 157 AEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEFSRMKLVATVYGDDQSDKSYREA 216 Query: 218 IGLLRSNPNLKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSF 277 IGLLRS+P LKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSF Sbjct: 217 IGLLRSHPGLKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSF 276 Query: 278 AIWNPIDLGYAATYAAYQFVKGKAQGKDGESISVGRMGSIKLDASGEAALAPPFTYDAGN 337 AIWNPIDLGYAATYAAYQFVKGKAQGK+GESI+VGRMGSIKLDA+GEAALAPPFTYDA N Sbjct: 277 AIWNPIDLGYAATYAAYQFVKGKAQGKEGESIAVGRMGSIKLDAAGEAALAPPFTYDASN 336 Query: 338 VDKFAKIF 345 VDKFAKIF Sbjct: 337 VDKFAKIF 344 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 90/277 (32%), Positives = 144/277 (51%), Gaps = 4/277 (1%) Query: 26 AAIGFSLPAAAADK-VRIAMVVKSLGNGFFDAAHEGAKEAARQLGDVDIIYTGPTTPTAE 84 AA+GF+ A +K + I VVK G +F+ G KE A V GP A Sbjct: 15 AAVGFASALQAQNKPIDIVTVVKITGISWFNRMEVGVKEFAAANPGVTTRQIGPAQSDAA 74 Query: 85 GQIEIVNSLISQKVDAIVISANDANALIPITKKAMQRGIKVLSFDSGIAKGGRLMQLNPS 144 Q +V L+++KVDAI + + D L P+ K+A+ RGIKV++ ++ K L+ + Sbjct: 75 QQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEADNQKN-TLVDIEAF 133 Query: 145 NAELIGVKQIQMASDAIGGAGEVAILSATAQATNQNIWIAEMKKALARPEFSKIKLI-AT 203 + G + + +G AG+ + L + + +Q W A+ A A ++ K+ L+ A Sbjct: 134 DNTAYGARLNDRLAACMGQAGKWSSLVGSLGSQSQVQW-ADGGAANAAKKYPKMTLVDAK 192 Query: 204 VYGDDQSDKSYREAIGLLRSNPNLKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPS 263 + ++K+Y +A +LR +P++K +++ + G+AV + L GKV V G GLPS Sbjct: 193 NESANDAEKAYAKAKEILRKHPDIKGFQGSSSLDVLGIGRAVEEAGLQGKVCVYGTGLPS 252 Query: 264 EMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGK 300 E A ++SGAV A W+P D G A AA V+GK Sbjct: 253 EAAKFLESGAVGGIAFWDPKDAGLAMNKAAMMLVQGK 289 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/287 (25%), Positives = 137/287 (47%), Gaps = 18/287 (6%) Query: 23 VLSAAIGFSL----PAAAADKVRIAMVVKSLGNGFFDAAHEGAKEAARQLGDVDIIYTGP 78 +L AA+G + AA A + I ++ K + F+ A GA +A + V + + GP Sbjct: 6 LLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDY-KVKVTFEGP 64 Query: 79 TTP-TAEGQIEIVNSLISQKVDAIVISANDANALIPITKKAMQRGIKVLSFDSGIAKGGR 137 T + QI+++++ +++K AI +A D+ A IP+ KKA I V++FDSG+ Sbjct: 65 ETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIP 124 Query: 138 LMQLNPSNAELIGVKQIQMASDAIGGAGEVAIL----SATAQATNQNIWIAEMKKALARP 193 + N + +MA + +G GEVA++ ++ ++ ++ +K A Sbjct: 125 VTTATTDNRAAAALAADKMA-ELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSA---- 179 Query: 194 EFSKIKLIATVYGDDQSDKSYREAIGLLRSNPNLKAIIAPTTVGINAAGKAVVDEKLVGK 253 + KIK+++ YG KS +L++ P +K I T G +A G +++ K Sbjct: 180 -YPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFG-TNEG-SAIGVVNGVKEMKRK 236 Query: 254 VYVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGK 300 + + G + ++ G + NP+ +GY AA + +KG+ Sbjct: 237 IIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGE 283 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 80/281 (28%), Positives = 129/281 (45%), Gaps = 45/281 (16%) Query: 16 AALALTLVLSAAIGFSLPAAAADKVRIAMVVKSLGNGFFDAAHEGAKEAAR-QLGDVDII 74 AALA ++ AA+ PA K ++A+V+KSL N FF GA+E + D+I Sbjct: 12 AALACAVLPGAAMA-QTPA----KPKVALVMKSLANEFFLNMENGAREYQKANASKFDLI 66 Query: 75 YTG-PTTPTAEGQIEIVNSLISQKVDAIVISANDANALIPITKKAMQRGIKVLSFDSGI- 132 G QI+IV +I KV+A+VI+ D+ AL+P+ KKA+ GI V++ D+ + Sbjct: 67 ANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLD 126 Query: 133 -----AKGGRLMQLNPSNAELIGVKQIQMASDAIG----GAGEVAIL---SATAQATNQN 180 KG + + P N K ++A D +G +VAI+ S T A + Sbjct: 127 DAALKEKGITVPFVGPDNR-----KGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRT 181 Query: 181 IWIAEMKKALARPEFSKIKLIATVYGDDQSDKSYREAIGLLRSNPNLKAIIAPT------ 234 + + K + ++ G + D+ + A +L ++P++KAI+A Sbjct: 182 LGFQDAMKDVGA------NVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALG 235 Query: 235 -TVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAV 274 I AAGK GKV + G + + +K G V Sbjct: 236 AVAAIRAAGK-------TGKVQLVGYDNINAIKPMLKDGRV 269 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 59/196 (30%), Positives = 98/196 (50%), Gaps = 11/196 (5%) Query: 39 KVRIAMVVKSLGNGFFDAAHEGAKEAARQLGDVDIIYTGPTTPTAEGQIEIVNSLISQKV 98 K++I M + + N +F + + EAA+ LG +I T A+ QI + ++ Q + Sbjct: 25 KLKIGMSFQEMNNPYFVSMKKALDEAAKSLG-AKVIATDAAHNVAK-QIADIEDMLQQNI 82 Query: 99 DAIVISANDANALIPITKKAMQRGIKVLSFDSGIAKGGRLMQLNPSNAELIGVKQIQMAS 158 D ++I+ D+ + K A R + V++ D+ A G M + N + G + + + Sbjct: 83 DILLINPTDSAGVEAAVKAAKARNVIVVAVDAN-ASGPVDMFVGSKNKDA-GYQSCRALA 140 Query: 159 DAIGGAGEVAILSATAQATNQNIWIAEMKKALARPEFSKIKLIATVYGDDQSDKSYREAI 218 DAIGG GEVAIL + K+ALA E+ IKL+AT G + D+S + Sbjct: 141 DAIGGKGEVAILDGIPVVPILQ-RVEGCKQALA--EYKDIKLVATQNG--RQDRSVALGV 195 Query: 219 --GLLRSNPNLKAIIA 232 +++S PNLK I + Sbjct: 196 VENMIQSRPNLKGIFS 211 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 0.315 0.131 0.357 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: 1,012,175 Number of extensions: 42173 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 6 Length of query: 345 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 259 Effective length of database: 1,212,660 Effective search space: 314078940 Effective search space used: 314078940 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 (21.6 bits) S2: 131 (55.1 bits)