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= 0001.4609.p (289 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313998|ref|YP_003778090.1| urea transport system, ATPase c... 580 e-167 gi|300311944|ref|YP_003776036.1| branched-chain amino acid ABC t... 258 3e-70 gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPa... 151 7e-38 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 144 8e-36 gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPa... 144 8e-36 >gi|300313998|ref|YP_003778090.1| urea transport system, ATPase component protein [Herbaspirillum seropedicae SmR1] Length = 289 Score = 580 bits (1495), Expect = e-167, Method: Compositional matrix adjust. Identities = 284/289 (98%), Positives = 286/289 (98%) Query: 1 MSAVEPGKNATGIGGLGGNVDTPRADHGTSYERIKPEGVDTTHGAILYLENITVSFDGFK 60 MSAVEPGKN IGGLGGNVDTPRADHGTSYERIKPEGVDTTHGAILYLENITVSFDGFK Sbjct: 1 MSAVEPGKNPVAIGGLGGNVDTPRADHGTSYERIKPEGVDTTHGAILYLENITVSFDGFK 60 Query: 61 AINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTRPTSGTAFFGQTIDLTKMTEYEIA 120 AINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTRPTSGTAFFGQTIDLTKMTEYEIA Sbjct: 61 AINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTRPTSGTAFFGQTIDLTKMTEYEIA 120 Query: 121 HAGIGRKFQRPTVFEQHTVFENLELAMKMDKRVKTTLFARLSSEQIGKIEEILKLIRLSG 180 HAGIGRKFQRPTVFEQHTVFENLELAMKMDKRVKTTLFARLSSEQIGKIEEILKLIRL+G Sbjct: 121 HAGIGRKFQRPTVFEQHTVFENLELAMKMDKRVKTTLFARLSSEQIGKIEEILKLIRLNG 180 Query: 181 QEQRMAGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAGMSDAETARTAELLNELRGKHSI 240 QEQR+AGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAGMSDAETARTAELLNELRGKHSI Sbjct: 181 QEQRVAGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAGMSDAETARTAELLNELRGKHSI 240 Query: 241 MVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQSNERVIEVYLGR 289 MVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQSNERVIEVYLGR Sbjct: 241 MVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQSNERVIEVYLGR 289 >gi|300311944|ref|YP_003776036.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 258 bits (660), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 133/251 (52%), Positives = 182/251 (72%), Gaps = 3/251 (1%) Query: 38 GVDTTHGAILYLENITVSFDGFKAINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTR 97 G ++ +L +E++TVSFDGFKA++ LNL + E+R +IGPNGAGKTT++D+I GKTR Sbjct: 7 GFESDAHPVLAIEDLTVSFDGFKAVDKLNLYVQRNEVRVVIGPNGAGKTTVLDLICGKTR 66 Query: 98 PTSGTAFFGQTIDLTKMTEYEIAHAGIGRKFQRPTVFEQHTVFENLELAMKMDKRVKTTL 157 TSG+ F +LTKM+E+ I G+GRKFQ P+++E +VFENLE++ ++V L Sbjct: 67 ATSGSIKFNNH-ELTKMSEHAIVRVGVGRKFQTPSIYENLSVFENLEMSFPRGRKVFGAL 125 Query: 158 FARLSSEQIGKIEEILKLIRLSGQEQRMAGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVA 217 + S + + ++E + I L Q A LLSHGQKQWLEIGMLLMQEP+LL+LDEPVA Sbjct: 126 TFKRSPDVVARVEAVAAEIFLEEQLHTQADLLSHGQKQWLEIGMLLMQEPELLMLDEPVA 185 Query: 218 GMSDAETARTAELLNELRGKHSIMVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQ 277 GMS +E +TAELL + S++V+EHDM FV+ IA KVTVLH+G +LAEG+M +VQ Sbjct: 186 GMSVSEREKTAELLGRISQGRSVVVIEHDMDFVKSIAH--KVTVLHQGKILAEGSMEKVQ 243 Query: 278 SNERVIEVYLG 288 S+ +VI+VYLG Sbjct: 244 SDPKVIDVYLG 254 >gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 253 Score = 151 bits (381), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 150/252 (59%), Gaps = 11/252 (4%) Query: 46 ILYLENITVSFDGFKAINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTRPTSGTAFF 105 +L L +I+ +F G + + +N ++ GE+ +IGPNGAGKTT+ ++ITG R +SG+ F Sbjct: 2 LLQLNDISKNFGGLQVLQGVNFNVRQGEIFGLIGPNGAGKTTVFNLITGLLRASSGSIRF 61 Query: 106 GQTIDLTKMTEYEIAHAGIGRKFQRPTVFEQHTVFENLELAM--KMDKRVKTTL-----F 158 D+ + ++I GI R FQ VF++ T+ EN+ + M ++ V + L F Sbjct: 62 NDD-DIGAVAPHKITERGIARTFQNIRVFKEMTLLENVVVGMHDHLNYGVASMLLNLGGF 120 Query: 159 ARLSSEQIGKIEEILKLIRLSGQEQRMAGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAG 218 E + E+L +RL + +A LS+G+++ LE L +P+LLLLDEPVAG Sbjct: 121 RNAEKEARERALELLSWVRLDHKAHMLADSLSYGEQRKLEFARALATKPKLLLLDEPVAG 180 Query: 219 MSDAE-TARTAELLNELRGKHSIMVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQ 277 M+ AE T +E++N + +I ++EHDM FV + + ++ VL+ G ++AEG Q++ Sbjct: 181 MNPAEKTELMSEIVNIKQRGFTIFMIEHDMRFVMGLCE--RIAVLNFGKIIAEGTPDQIK 238 Query: 278 SNERVIEVYLGR 289 +N+ VIE YLG+ Sbjct: 239 NNQEVIEAYLGK 250 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 144 bits (363), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 101/284 (35%), Positives = 152/284 (53%), Gaps = 27/284 (9%) Query: 20 VDTPRADHGTSYERIKPEGVDTTHGAILYLENITVSFDGFKAINNLNLDISVGELRCIIG 79 V T R E + + T +L + ++T F G A NN++L + GE+ +IG Sbjct: 329 VRTRRLVIDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIG 388 Query: 80 PNGAGKTTMMDVITGKTRPTSGTA-FFGQTIDLTKMTEYEIAHAGIGRKFQRPTVFEQHT 138 PNGAGK+T+ + I+G PTSG+ F GQ ++T IA G+ R FQ + + T Sbjct: 389 PNGAGKSTLFNQISGVDTPTSGSVQFRGQ--EVTGRGSRHIAGLGMSRSFQHVRLMPRMT 446 Query: 139 VFENLELA-------------MKMDKRVKTTLFARLSSEQIGKIEEILKLIRLSGQEQRM 185 V EN+ + +++D++ + AR+ +E +IE + L Q + Sbjct: 447 VLENVAIGAYLRGQRGVLASMLRLDRKEE----ARILAEAARQIER----VGLKAQMYEL 498 Query: 186 AGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAGMSDAETARTAELLNELRGK-HSIMVVE 244 AG LS GQ++ LEI L +P LLLLDEP AG+ E AELL +LRG+ +I++VE Sbjct: 499 AGALSLGQQRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVE 558 Query: 245 HDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQSNERVIEVYLG 288 HDM FV E+ ++ V+ G +AEG +Q+N V+E YLG Sbjct: 559 HDMDFVMELVD--RIVVMDFGQKIAEGLPADIQNNPAVLEAYLG 600 >gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 256 Score = 144 bits (363), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 85/247 (34%), Positives = 138/247 (55%), Gaps = 9/247 (3%) Query: 46 ILYLENITVSFDGFKAINNLNLDISVGELRCIIGPNGAGKTTMMDVITGKTRPTSGTAFF 105 IL N+T F GF A++ +NL I G + +IGPNGAGKTT +++T PTSG F Sbjct: 5 ILETRNLTKEFKGFTAVSAVNLQIERGHIHALIGPNGAGKTTCFNLLTKFLVPTSGQILF 64 Query: 106 GQTIDLTKMTEYEIAHAGIGRKFQRPTVFEQHTVFENLELAMKMDKRVKTTLFARLSSEQ 165 D+T +IA GI R FQ VF +V EN+ + ++ +++ T+ + E Sbjct: 65 NGR-DITMDAPAQIARQGIIRSFQISAVFPHMSVLENVRIGLQ--RKLGTSFHFWKNGES 121 Query: 166 IGKIEE----ILKLIRLSGQEQRMAGLLSHGQKQWLEIGMLLMQEPQLLLLDEPVAGMSD 221 + +++E +L+ + L+ L +G+K+ LEI L EP+L+LLDEP GM Sbjct: 122 LKQLDERAMQLLEEVDLTSFAHTTTVDLPYGRKRALEIATTLAMEPELMLLDEPTQGMGH 181 Query: 222 AETARTAELLNELRGKHSIMVVEHDMGFVEEIAQGGKVTVLHEGSVLAEGNMRQVQSNER 281 + R L+ ++ +I++VEH+M + I +++VL G++LAEG+ +V N + Sbjct: 182 EDVDRVTALIKKVSAGRTILMVEHNMSVIAGICD--RISVLQRGALLAEGSYEEVSRNPQ 239 Query: 282 VIEVYLG 288 V+E Y+G Sbjct: 240 VMEAYMG 246 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 0.317 0.135 0.378 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: 840,895 Number of extensions: 32576 Number of successful extensions: 392 Number of sequences better than 1.0e-08: 116 Number of HSP's gapped: 305 Number of HSP's successfully gapped: 119 Length of query: 289 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 205 Effective length of database: 1,222,130 Effective search space: 250536650 Effective search space used: 250536650 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: 130 (54.7 bits)