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= 0020.0508.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 618 e-178 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 87 1e-18 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 72 9e-14 gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 70 3e-13 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 70 3e-13 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 618 bits (1594), Expect = e-178, Method: Compositional matrix adjust. Identities = 311/312 (99%), Positives = 312/312 (100%) Query: 1 VFKNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDYKVKVT 60 +FKNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDYKVKVT Sbjct: 1 MFKNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDYKVKVT 60 Query: 61 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD 120 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD Sbjct: 61 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD 120 Query: 121 SDIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAY 180 SDIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAY Sbjct: 121 SDIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAY 180 Query: 181 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKRKIIII 240 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKRKIIII Sbjct: 181 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKRKIIII 240 Query: 241 GYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN 300 GYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN Sbjct: 241 GYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN 300 Query: 301 IDDAKIAAVLYD 312 IDDAKIAAVLYD Sbjct: 301 IDDAKIAAVLYD 312 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 87.4 bits (215), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 85/290 (29%), Positives = 137/290 (47%), Gaps = 14/290 (4%) Query: 9 AALGLAFAMGASAAQAQ-EAYIPLISKGFQHQFWQAVKAGAD--QAGKDYKVKVTFEGPE 65 AAL A GA+ AQ + + L+ K ++F+ ++ GA Q K + G + Sbjct: 12 AALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIANGIK 71 Query: 66 TEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDS---- 121 E QI ++ + K A+ A DSKA +P++KKA A I VV D+ +D Sbjct: 72 DEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALK 131 Query: 122 --DIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSA 179 I V DNR A LA D + + + K +VA++ T+ R GF + +K Sbjct: 132 EKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAMKDV 191 Query: 180 YPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKR--KI 237 VV+VQ G + + +V SIL A+P IK I N+ A+G V ++ + K+ Sbjct: 192 GA--NVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGKV 249 Query: 238 IIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPK 287 ++GYD+ K +++G + + Q +E A+KA+ EK P+ Sbjct: 250 QLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAL-SEKKPQ 298 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 71.6 bits (174), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 87/312 (27%), Positives = 148/312 (47%), Gaps = 34/312 (10%) Query: 3 KNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQH----QFWQ-----AVKAGADQAGK 53 + LLGAA+ L+ A + A A PL + GF W+ ++K A QAG Sbjct: 5 RRALLGAAICLSLGSSAMSLPAFAADKPL-TMGFSQVGAESEWRTANTVSIKDAAKQAGV 63 Query: 54 DYKVKVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVV 113 + K + + + Q+ + + +A+K I F+ + +L++A+AAKIPV+ Sbjct: 64 NLKFA------DAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVI 117 Query: 114 AFDSGV---DSDIPVTTATTD----NRAAAALAADKMAELVGKEGEVAVVAHDQT--SRT 164 D V D + VT +D R A +K + G++ +V T S Sbjct: 118 LTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPA--GDINIVELQGTVGSAP 175 Query: 165 GVDRRDGFLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSA 223 +DR+ GF E IK P++K++ Q G + K EV ++ L+A KI ++ N+ A Sbjct: 176 AIDRKAGFEEVIK-GEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMA 234 Query: 224 IGVVNGVKE--MK--RKIIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKA 279 IG + ++E MK + IIII D K +A+ G + + +P+ +G + ++ A Sbjct: 235 IGAIQAIEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMQIAKDI 293 Query: 280 IKGEKLPKVIDT 291 G+++PK I T Sbjct: 294 KAGKEVPKRITT 305 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 69.7 bits (169), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 66/269 (24%), Positives = 131/269 (48%), Gaps = 16/269 (5%) Query: 25 QEAYIPLISKGFQHQFWQAVKAGADQAGKDY-KVKVTFEGPETEAMVDKQIDMLSAALAK 83 ++ I ++ K + F+ A GA +A ++ V+V + GP T + QI+++++ +++ Sbjct: 37 EKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGPTTPT-AEGQIEIVNSLISQ 95 Query: 84 KPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIPVTTATTDNRAAAALAADKM 143 K AI +A D+ A +P+ K+A + V++FDSG+ + N L +M Sbjct: 96 KVDAIVISANDANALVPITKRAMQRGVKVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQM 155 Query: 144 -AELVGKEGEVAVV-AHDQTSRTGVDRRDGFLERIKSA-----YPKIKVVSVQYGAGDQL 196 AE +G G+VA++ A Q + + ++ +K A + ++K+V+ YG Sbjct: 156 AAEAIGGAGDVAILSATAQATNQNI-----WIGEMKKALARPEFSRMKLVATVYGDDQSD 210 Query: 197 KSTEVTKSILQAYPKIKGIFG-TNEG-SAIGVVNGVKEMKRKIIIIGYDSGKQQKDAIRE 254 KS +L+++P +K I T G +A G +++ K+ + G + ++ Sbjct: 211 KSYREAIGLLRSHPGLKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKS 270 Query: 255 GIMAGAITQNPVGIGYKTVEAAVKAIKGE 283 G + NP+ +GY AA + +KG+ Sbjct: 271 GAVKSFAIWNPIDLGYAATYAAYQFVKGK 299 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 69.7 bits (169), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 107/233 (45%), Gaps = 3/233 (1%) Query: 72 KQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIPVTTATTD 131 +Q ++ +AKK AI ++D P+LK+A I VV ++ + V D Sbjct: 75 QQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEADNQKNTLVDIEAFD 134 Query: 132 NRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAYPKIKVVSVQY- 190 N A A D++A +G+ G+ + + S++ V DG YPK+ +V + Sbjct: 135 NTAYGARLNDRLAACMGQAGKWSSLVGSLGSQSQVQWADGGAANAAKKYPKMTLVDAKNE 194 Query: 191 GAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKE--MKRKIIIIGYDSGKQQ 248 A D K+ K IL+ +P IKG G++ +G+ V+E ++ K+ + G + Sbjct: 195 SANDAEKAYAKAKEILRKHPDIKGFQGSSSLDVLGIGRAVEEAGLQGKVCVYGTGLPSEA 254 Query: 249 KDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSNI 301 + G + G +P G +AA+ ++G+K+ +D G Y+K + Sbjct: 255 AKFLESGAVGGIAFWDPKDAGLAMNKAAMMLVQGKKITDGMDLGIPGYNKVTV 307 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 0.361 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: 809,009 Number of extensions: 30882 Number of successful extensions: 151 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 143 Number of HSP's successfully gapped: 9 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 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 (21.5 bits) S2: 130 (54.7 bits)