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= 0022.0137.p (344 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... 686 0.0 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 119 4e-28 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 71 1e-13 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 64 2e-11 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 56 4e-09 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 686 bits (1770), Expect = 0.0, Method: Compositional matrix adjust. Identities = 343/344 (99%), Positives = 344/344 (100%) Query: 1 MTRNTFNAAARPLRAALLALAAGAIGLIAAAPAHAAEKVRIAMVVKSLGNGFFDAAHEGA 60 MTRNTFNAAARPLRAALLALAAGAIGLIAAAPAHAAEKVRIAMVVKSLGNGFFDAAHEGA Sbjct: 1 MTRNTFNAAARPLRAALLALAAGAIGLIAAAPAHAAEKVRIAMVVKSLGNGFFDAAHEGA 60 Query: 61 KEAARELGDVEVIYTGPTTPTAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQR 120 KEAARELGDVEVIYTGPTTPTAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQR Sbjct: 61 KEAARELGDVEVIYTGPTTPTAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQR 120 Query: 121 GMKVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQMAAEAIGGAGDVAILSATAQATNQNI 180 G+KVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQMAAEAIGGAGDVAILSATAQATNQNI Sbjct: 121 GVKVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQMAAEAIGGAGDVAILSATAQATNQNI 180 Query: 181 WIGEMKKALARPEFSRMKLVATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPTTVGINAA 240 WIGEMKKALARPEFSRMKLVATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPTTVGINAA Sbjct: 181 WIGEMKKALARPEFSRMKLVATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPTTVGINAA 240 Query: 241 GKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGKA 300 GKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGKA Sbjct: 241 GKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGKA 300 Query: 301 QGKEGESIAVGRMGSIKLDAAGEAALAPPFTYDASNVDKFAKIF 344 QGKEGESIAVGRMGSIKLDAAGEAALAPPFTYDASNVDKFAKIF Sbjct: 301 QGKEGESIAVGRMGSIKLDAAGEAALAPPFTYDASNVDKFAKIF 344 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 119 bits (298), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 93/286 (32%), Positives = 143/286 (50%), Gaps = 4/286 (1%) Query: 15 AALLALAAGAIGLIAAAPAHAAEKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIY 74 A +L A A+G +A A + + I VVK G +F+ G KE A V Sbjct: 7 ACVLVSALAAVGFASALQAQN-KPIDIVTVVKITGISWFNRMEVGVKEFAAANPGVTTRQ 65 Query: 75 TGPTTPTAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQRGMKVLSFDSGIAKG 134 GP A Q +V L+++KVDAI + + D L P+ KRA+ RG+KV++ ++ K Sbjct: 66 IGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEADNQKN 125 Query: 135 GRLMQLNPSNAELIGLKQIQMAAEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEF 194 L+ + + G + A +G AG + L + + +Q W + A A ++ Sbjct: 126 -TLVDIEAFDNTAYGARLNDRLAACMGQAGKWSSLVGSLGSQSQVQW-ADGGAANAAKKY 183 Query: 195 SRMKLV-ATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPTTVGINAAGKAVVDEKLVGKV 253 +M LV A + ++K+Y +A +LR HP +K +++ + G+AV + L GKV Sbjct: 184 PKMTLVDAKNESANDAEKAYAKAKEILRKHPDIKGFQGSSSLDVLGIGRAVEEAGLQGKV 243 Query: 254 YVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGK 299 V G GLPSE A ++SGAV A W+P D G A AA V+GK Sbjct: 244 CVYGTGLPSEAAKFLESGAVGGIAFWDPKDAGLAMNKAAMMLVQGK 289 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/287 (25%), Positives = 140/287 (48%), Gaps = 16/287 (5%) Query: 20 LAAGAIGLIAA--APAHAAEKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGP 77 L A+GL A A A A++ I ++ K + F+ A GA +A ++ V+V + GP Sbjct: 6 LLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDY-KVKVTFEGP 64 Query: 78 TTP-TAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQRGMKVLSFDSGIAKGGR 136 T + QI+++++ +++K AI +A D+ A +P+ K+A + V++FDSG+ Sbjct: 65 ETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIP 124 Query: 137 LMQLNPSNAELIGLKQIQMAAEAIGGAGDVAIL----SATAQATNQNIWIGEMKKALARP 192 + N L +M AE +G G+VA++ ++ ++ ++ +K A Sbjct: 125 VTTATTDNRAAAALAADKM-AELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSA---- 179 Query: 193 EFSRMKLVATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPTTVGINAAGKAVVDEKLVGK 252 + ++K+V+ YG KS +L+++P +K I T G +A G +++ K Sbjct: 180 -YPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFG-TNEG-SAIGVVNGVKEMKRK 236 Query: 253 VYVTGLGLPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKGK 299 + + 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 = 83/282 (29%), Positives = 129/282 (45%), Gaps = 47/282 (16%) Query: 18 LALAAGAIGLI-AAAPAHAAEKVRIAMVVKSLGNGFFDAAHEGAKEAAR-ELGDVEVIYT 75 A+AA A ++ AA A K ++A+V+KSL N FF GA+E + ++I Sbjct: 9 FAIAALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIAN 68 Query: 76 G-PTTPTAEGQIEIVNSLISQKVDAIVISANDANALVPITKRAMQRGMKVLSFDSGI--- 131 G QI+IV +I KV+A+VI+ D+ ALVP+ K+A+ G+ V++ D+ + Sbjct: 69 GIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDA 128 Query: 132 ---AKGGRLMQLNPSN---AELIGL---KQIQMAAEAIGGAGD-VAIL---SATAQATNQ 178 KG + + P N A+L G KQ+Q GD VAI+ S T A + Sbjct: 129 ALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQ--------KGDKVAIIEGVSTTFNAQQR 180 Query: 179 NIWIGEMKKALARPEFSRMKLVATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPT----- 233 + + K + +V G + D+ + A +L +HP +KAI+A Sbjct: 181 TLGFQDAMKDVG------ANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMAL 234 Query: 234 --TVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAV 273 I AAGK GKV + G + + +K G V Sbjct: 235 GAVAAIRAAGK-------TGKVQLVGYDNINAIKPMLKDGRV 269 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 60/201 (29%), Positives = 99/201 (49%), Gaps = 11/201 (5%) Query: 33 AHAAEKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGPTTPTAEGQIEIVNSL 92 A K++I M + + N +F + + EAA+ LG +VI T A+ QI + + Sbjct: 20 AQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLG-AKVIATDAAHNVAK-QIADIEDM 77 Query: 93 ISQKVDAIVISANDANALVPITKRAMQRGMKVLSFDSGIAKGGRLMQLNPSNAELIGLKQ 152 + Q +D ++I+ D+ + K A R + V++ D+ A G M + N + G + Sbjct: 78 LQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVDAN-ASGPVDMFVGSKNKDA-GYQS 135 Query: 153 IQMAAEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEFSRMKLVATVYGDDQSDKS 212 + A+AIGG G+VAIL G K+ALA E+ +KLVAT G + D+S Sbjct: 136 CRALADAIGGKGEVAILDGIPVVPILQRVEG-CKQALA--EYKDIKLVATQNG--RQDRS 190 Query: 213 YREAI--GLLRSHPGLKAIIA 231 + +++S P LK I + Sbjct: 191 VALGVVENMIQSRPNLKGIFS 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 0.316 0.131 0.363 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: 968,819 Number of extensions: 40301 Number of successful extensions: 177 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 6 Length of query: 344 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 258 Effective length of database: 1,212,660 Effective search space: 312866280 Effective search space used: 312866280 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)