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= 0001.3854.p (249 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313259|ref|YP_003777351.1| ABC transporter ATPase [Herbasp... 476 e-136 gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPa... 151 4e-38 gi|300313935|ref|YP_003778027.1| branched-chain amino acid ABC t... 149 2e-37 gi|300311769|ref|YP_003775861.1| branched-chain amino acid ABC t... 147 1e-36 gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC t... 145 4e-36 >gi|300313259|ref|YP_003777351.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 247 Score = 476 bits (1224), Expect = e-136, Method: Compositional matrix adjust. Identities = 239/247 (96%), Positives = 243/247 (98%) Query: 3 MATSSLVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGG 62 MA SSLVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGG Sbjct: 1 MAASSLVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGG 60 Query: 63 QIDLDGAPISRLPIHKRATLGLSYLPQEASVFRKLSVEDNIRAVLELRKEEGKALSRDEI 122 +IDLDG PISRL IHKRATLGLSYLPQEASVFRKL+VEDNIRAVLELR+E+GK LSRDEI Sbjct: 61 EIDLDGEPISRLAIHKRATLGLSYLPQEASVFRKLTVEDNIRAVLELRQEDGKPLSRDEI 120 Query: 123 EGRLNNLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGIDPIAVI 182 EGRLNNLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGIDPIAVI Sbjct: 121 EGRLNNLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGIDPIAVI 180 Query: 183 EIQRIVRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANESVRRVY 242 EIQRIVRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANESVRRVY Sbjct: 181 EIQRIVRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANESVRRVY 240 Query: 243 LGEHFRM 249 LGEHFRM Sbjct: 241 LGEHFRM 247 >gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 253 Score = 151 bits (382), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 84/248 (33%), Positives = 140/248 (56%), Gaps = 10/248 (4%) Query: 8 LVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGGQIDLD 67 L + + K++G QV++ V+ VR GE+ GL+GPNGAGKTT F +I GL+ + G I + Sbjct: 3 LQLNDISKNFGGLQVLQGVNFNVRQGEIFGLIGPNGAGKTTVFNLITGLLRASSGSIRFN 62 Query: 68 GAPISRLPIHKRATLGLSYLPQEASVFRKLSVEDNIRAVLELRKEEGKAL---------- 117 I + HK G++ Q VF+++++ +N+ + G A Sbjct: 63 DDDIGAVAPHKITERGIARTFQNIRVFKEMTLLENVVVGMHDHLNYGVASMLLNLGGFRN 122 Query: 118 SRDEIEGRLNNLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGID 177 + E R LL ++++ A SLS GE+R++E ARALAT P+ +LLDEP AG++ Sbjct: 123 AEKEARERALELLSWVRLDHKAHMLADSLSYGEQRKLEFARALATKPKLLLLDEPVAGMN 182 Query: 178 PIAVIEIQRIVRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANES 237 P E+ + +K+RG + + +H++R +G+C+R ++N G ++A G P++I N+ Sbjct: 183 PAEKTELMSEIVNIKQRGFTIFMIEHDMRFVMGLCERIAVLNFGKIIAEGTPDQIKNNQE 242 Query: 238 VRRVYLGE 245 V YLG+ Sbjct: 243 VIEAYLGK 250 >gi|300313935|ref|YP_003778027.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 234 Score = 149 bits (376), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 89/237 (37%), Positives = 139/237 (58%), Gaps = 10/237 (4%) Query: 8 LVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGGQIDLD 67 L V + YG +++ VS++V +GEVV LLG NGAGKTT+ IVG+VP G++ + Sbjct: 3 LQVEDVHGYYGKSHILQGVSLQVDAGEVVTLLGRNGAGKTTTLKSIVGVVPPVQGRVLFE 62 Query: 68 GAPISRLPIHKRATLGLSYLPQEASVFRKLSVEDNIRAVLELRKEEGKALSRDEIEGRLN 127 G IS LP +K A G+ +P+ +F+ L+VE+N+ + RKE L +EI Sbjct: 63 GQLISGLPSYKIAARGVCLVPEHRGIFKLLTVEENL--TMAARKESAWGL--EEIYAIFP 118 Query: 128 NLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGIDPIAVIEIQRI 187 L ++ R++ LSGGE++ + IARAL T PR ++LDEP G+ P+ V EI Sbjct: 119 RL------KERRKNGGGQLSGGEQQMLAIARALMTHPRVLMLDEPVEGLAPVIVDEIVAQ 172 Query: 188 VRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANESVRRVYLG 244 +R +K G+ +++ + N+ + DR YI+ QG ++ G+ E +A+E V+ YLG Sbjct: 173 IRQIKATGMSIILVEQNLEVCTQLADRHYIVEQGRIVYHGSNAEFLADEGVKDRYLG 229 >gi|300311769|ref|YP_003775861.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 233 Score = 147 bits (370), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 136/237 (57%), Gaps = 10/237 (4%) Query: 3 MATSSLVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGG 62 M+ L V+GL Y ++ + +E+R+GEVV L+G NGAGK+T+ ++GL+ G Sbjct: 1 MSQCLLQVQGLHGWYADAHILFGLDLEIRAGEVVALMGRNGAGKSTTLKALMGLLERRQG 60 Query: 63 QIDLDGAPISRLPIHKRATLGLSYLPQEASVFRKLSVEDNIRAVLELRKEEGKALSRDEI 122 QI L G I +L H+RA LGL Y+P++ +F +LSV +N+ E G+ R Sbjct: 61 QIRLAGRDIGKLAPHQRARLGLGYVPEDRRIFTELSVLENL--------ETGRQPPRPGA 112 Query: 123 EGRLNNLLHEL--QIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAGIDPIA 180 L EL + + + +SGGE++ + IAR L +PR +LLDEP G+ P+ Sbjct: 113 PHWTPQALFELFPNLGAMPQRLGGRMSGGEQQMLTIARTLMGNPRLLLLDEPSEGVAPVI 172 Query: 181 VIEIQRIVRFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIANES 237 V ++ +++ LK GI +L+ + N+ +CDR Y+++QG ++A+G P + A++ Sbjct: 173 VEQMAAMIQELKRSGIAILLCEQNLHFASLVCDRGYLLDQGRIVAAGTPASLQAHQQ 229 >gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 258 Score = 145 bits (365), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 90/251 (35%), Positives = 134/251 (53%), Gaps = 11/251 (4%) Query: 6 SSLVVRGLKKSYGARQVVRDVSMEVRSGEVVGLLGPNGAGKTTSFYMIVGLVPSDGGQID 65 + L V L +G V VS+ V+ EV ++GPNGAGKTT F I G G+I Sbjct: 7 TMLEVSNLSMRFGGLLAVDGVSLAVQEREVFAIIGPNGAGKTTVFNCISGFYRPTSGEIM 66 Query: 66 LDGAPISRLPIHKRATLGLSYLPQEASVFRKLSVEDNIRAVLE----------LRKEEGK 115 LDGA I+R P H+ A GL Q +F+ ++V +N+ L K Sbjct: 67 LDGASIARQPSHQVAQQGLVRTFQNIRLFKSMTVVENLLVAQHQQVNTNLLSGLLKTPAY 126 Query: 116 ALSRDEIEGRLNNLLHELQIEKLRESQALSLSGGERRRVEIARALATDPRFVLLDEPFAG 175 S E R L +L + L +A +LS G +RRVEIAR + T PR +LLDEP AG Sbjct: 127 RKSEQEALQRAAYWLDQLGLTALANREAGTLSYGLQRRVEIARCMITKPRLLLLDEPAAG 186 Query: 176 IDPIAVIEIQRIV-RFLKERGIGVLITDHNVRETLGICDRAYIINQGTVLASGNPEEIIA 234 ++P E+ +++ R +E G+ VL+ +H++ +GI DR ++ G + +G PE++ + Sbjct: 187 LNPQEKQELSQLIDRLRREHGVAVLLIEHDMSLIMGISDRILVMEHGKPIVTGTPEQVRS 246 Query: 235 NESVRRVYLGE 245 +E V + YLGE Sbjct: 247 DERVIKAYLGE 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 0.319 0.139 0.381 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: 759,594 Number of extensions: 33249 Number of successful extensions: 513 Number of sequences better than 1.0e-08: 133 Number of HSP's gapped: 306 Number of HSP's successfully gapped: 152 Length of query: 249 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 166 Effective length of database: 1,226,865 Effective search space: 203659590 Effective search space used: 203659590 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)