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= 0001.1461.p (335 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 659 0.0 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 246 1e-66 gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter AT... 225 4e-60 gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel A... 192 4e-50 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 181 6e-47 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 659 bits (1700), Expect = 0.0, Method: Compositional matrix adjust. Identities = 322/335 (96%), Positives = 330/335 (98%) Query: 1 MDKAVIPLIETRAVSRRFGQRHQGWLERQLQARGWSRPPAITHALDQVDLKVLPGEVVGL 60 MDKAVIPLIETRAVSRRFG+R QGWL+RQLQARGWSRPPAITHALD+VDLKVLPGEVVGL Sbjct: 1 MDKAVIPLIETRAVSRRFGERRQGWLQRQLQARGWSRPPAITHALDKVDLKVLPGEVVGL 60 Query: 61 VGESGCGKSTLGRVACGLLDPSEGQVLVNGRDRASLTRGEEAQARLQVQMIFQNPYASLN 120 VGESGCGKSTLGRVACGLLDPS+GQVLVNGRDRASL+ EEA+ARLQVQMIFQNPYASLN Sbjct: 61 VGESGCGKSTLGRVACGLLDPSDGQVLVNGRDRASLSSREEAEARLQVQMIFQNPYASLN 120 Query: 121 PRLRVDQIVGEAAQVNGKVEGDLDDYVCRQLLRAGLDPALRDRYPHQFSGGQRQRIGIAR 180 PRLR+DQIVGEAAQVNGKVEGDLDDYVC+QLLRAGLDPALRDRYPHQFSGGQRQRIGIAR Sbjct: 121 PRLRIDQIVGEAAQVNGKVEGDLDDYVCQQLLRAGLDPALRDRYPHQFSGGQRQRIGIAR 180 Query: 181 ALAVQPQMLVCDEAVAALDVSIQAQILNLFMDLREELGLTYLFISHDLGVVEHVSDRVVI 240 ALAVQPQMLVCDEAVAALDVSIQAQILNLFMDLR ELGLTYLFISHDLGVVEHVSDRVVI Sbjct: 181 ALAVQPQMLVCDEAVAALDVSIQAQILNLFMDLRAELGLTYLFISHDLGVVEHVSDRVVI 240 Query: 241 MYLGRVVESAPVAELFGQPNHPYTQALLAEVPRMGARKKEFTAIKGEIPSPLNPPGGCHF 300 MYLGRVVESAPVAELFGQPNHPYTQALLAEVPRMGARKKEFTAIKGEIPSPLNPP GCHF Sbjct: 241 MYLGRVVESAPVAELFGQPNHPYTQALLAEVPRMGARKKEFTAIKGEIPSPLNPPTGCHF 300 Query: 301 NPRCPHATQRCREEQPLLREIAPGHMSACHLNDGR 335 NPRCPHATQRCREEQPLLREIAPGHMSACHLNDGR Sbjct: 301 NPRCPHATQRCREEQPLLREIAPGHMSACHLNDGR 335 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 246 bits (629), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 140/327 (42%), Positives = 195/327 (59%), Gaps = 29/327 (8%) Query: 7 PLIETRAVSRRFGQRHQGWLERQLQARGWSRPPAITHALDQVDLKVLPGEVVGLVGESGC 66 P+++ R ++ RF +++ + R HA+++V + GE + +VGESGC Sbjct: 311 PILKVRDLTTRF----------DVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGC 360 Query: 67 GKSTLGRVACGLLDPSEGQVLVNGRDRASLTRGEEAQARLQVQMIFQNPYASLNPRLRVD 126 GKST GR L+D + G+V GRD A L R E Q R +Q IFQ+P+ASL+PR+ V Sbjct: 361 GKSTTGRSLLRLVDIAGGKVEFGGRDLAQLPRSELRQLRRDIQFIFQDPFASLDPRMTVG 420 Query: 127 QIVGEAAQVNGKVEGDLDDYVCRQLLRAGLDPALRDRYPHQFSGGQRQRIGIARALAVQP 186 + E V+G EG + V L R GL P RYPH+FSGGQRQRI IARALA+ P Sbjct: 421 YSIMEPMLVHGMKEGA-QERVDALLTRVGLTPEHGQRYPHEFSGGQRQRICIARALALNP 479 Query: 187 QMLVCDEAVAALDVSIQAQILNLFMDLREELGLTYLFISHDLGVVEHVSDRVVIMYLGRV 246 ++++ DE+V+ALDVSIQAQI+NL +DL+ ELG++++FISHD+ VVE +S RV +MYLG++ Sbjct: 480 KIVIADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQI 539 Query: 247 VESAPVAELFGQPNHPYTQALLAEVPRMGARKKEFTAIKGEIPSP-LNPPGGCHFNPRCP 305 VE P +F P HPYT+ L+A VP + P L PG P Sbjct: 540 VEIGPRRAIFENPQHPYTRKLMAAVP---------------VADPTLRQPGKKLLTDEIP 584 Query: 306 HATQRCREEQPL--LREIAPGHMSACH 330 +R +E + L+E+APGH A H Sbjct: 585 SPIRRVGDEPKVEPLQEVAPGHFVAQH 611 Score = 162 bits (410), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 97/258 (37%), Positives = 140/258 (54%), Gaps = 14/258 (5%) Query: 35 WSRPPAITHALDQVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSEG-------QVL 87 +S A+ + V GE + +VGESG GKS L++ G Q L Sbjct: 17 FSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGGKIASGSMQFL 76 Query: 88 VNGRDRASLTRGEEAQAR----LQVQMIFQNPYASLNPRLRVDQIVGEAAQVN---GKVE 140 R L + + A R ++ MIFQ P SLNP V + + E+ +++ G+ Sbjct: 77 RRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESIRLHQGLGRAA 136 Query: 141 GDLDDYVCRQLLRAGLDPALRDRYPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDV 200 + +++R + R+PHQ SGG RQR+ IA AL+ +P +L+ DE ALDV Sbjct: 137 AQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLIADEPTTALDV 196 Query: 201 SIQAQILNLFMDLREELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPN 260 +IQAQIL L L++E+ + +FI+HD+GVV V+DRVV+M G VE V LF P Sbjct: 197 TIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEENAVNPLFAAPA 256 Query: 261 HPYTQALLAEVPRMGARK 278 HPYTQ+LLA VPR+G+ + Sbjct: 257 HPYTQSLLAAVPRLGSMR 274 >gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 280 Score = 225 bits (574), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 124/247 (50%), Positives = 162/247 (65%), Gaps = 20/247 (8%) Query: 33 RGWSRPPAITHALDQVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSEGQVLVNGRD 92 RG +PP A++ V L++ GE +GLVGESGCGKSTL ++ GLL P+ G VL+NG++ Sbjct: 29 RGLFQPPGQLKAVNDVSLRLYRGETLGLVGESGCGKSTLAKMLLGLLPPTSGNVLINGQE 88 Query: 93 RASLTRGEEAQARLQVQMIFQNPYASLNPRLRVDQIVG---------EAAQVNGKVEGDL 143 R +A AR +Q IFQ+PY+SLNPR V +IVG AA+ N +V+ L Sbjct: 89 VDPTER--KAHAR-HIQPIFQDPYSSLNPRKTVAEIVGLPLKLHGIGNAAERNRQVKDIL 145 Query: 144 DDYVCRQLLRAGLDPALRDRYPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQ 203 D G+ +YP+Q SGGQRQR+ IARAL ++P +L+CDE +ALDVS+Q Sbjct: 146 D--------LVGMPERTHAQYPNQLSGGQRQRVAIARALILRPDILICDEPTSALDVSVQ 197 Query: 204 AQILNLFMDLREELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPY 263 AQILNL +DL+ E GLTYLFISHDLGVVEH+ DRV +M G +VE +LF +P H Y Sbjct: 198 AQILNLLLDLKAEFGLTYLFISHDLGVVEHLVDRVAVMNQGSIVELQSREQLFSEPQHLY 257 Query: 264 TQALLAE 270 T+ LLA Sbjct: 258 TRMLLAS 264 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 192 bits (487), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 119/301 (39%), Positives = 165/301 (54%), Gaps = 15/301 (4%) Query: 41 ITHALDQVDLKVLPGEVVGLVGESGCGKSTLGRVACGLL----DPSEGQVLVNGRDRASL 96 + HA+ +D +V GE++ LVGESGCGKS GLL S +L +G D + Sbjct: 20 MLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQCSADHILFDGVDLHGM 79 Query: 97 TRGEEAQAR-LQVQMIFQNPYASLNPRLRV-DQIVGEAAQVNGKVEGDLDDYVCRQLLRA 154 + Q R ++ MIFQ P SLNP + +Q+ Q G + + L R Sbjct: 80 PDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQPGVSRAEARERALYLLHRT 139 Query: 155 GLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQILNLFM 211 G+ A DR YPHQ SGG RQR+ IA +L P +++ DE ALDV+IQAQIL + Sbjct: 140 GISNA-EDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTTALDVTIQAQILRMIR 198 Query: 212 DLREELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQALLAEV 271 +L++E G +FI+HDLGVV ++DRV +MY G+VVE+ VA+LF QP HPYTQ LL + Sbjct: 199 ELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFAQPRHPYTQGLLNCI 258 Query: 272 PRMGAR--KKEFTAIKGEIPSPLNPPGGCHFNPRCPHATQRCREEQPLLREIAPGHMSAC 329 P G AI G +PS + GC F RC A C + ++++ G ++A Sbjct: 259 PVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGCERDPQMVQQ---GSVTAP 315 Query: 330 H 330 H Sbjct: 316 H 316 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 181 bits (460), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 113/305 (37%), Positives = 159/305 (52%), Gaps = 11/305 (3%) Query: 35 WSRPPAITHALDQVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSE----GQVLVNG 90 + P + A+D V L V G ++GLVGESG GKS G G++D G++L G Sbjct: 15 FFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRIVGGEILFQG 74 Query: 91 RD--RASLTRGEEAQARLQVQMIFQNPYASLNPRLRVDQIVGEAAQVNGKVEGDLDDYVC 148 RD R T E Q ++ MIFQ+P +LNP L+V+ + +A + KV + Sbjct: 75 RDLVRMDKTSLRELQGN-RIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVSRQQARELA 133 Query: 149 RQLLRAGLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQ 205 R L + +R YPHQ SGG RQR+ IA A+ +P +++ DE ALDV+IQAQ Sbjct: 134 RDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTALDVTIQAQ 193 Query: 206 ILNLFMDLREELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQ 265 IL+ L + G ++I+HDL VV ++D V +MY GR+VE V + P HPYTQ Sbjct: 194 ILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLDAPLHPYTQ 253 Query: 266 ALLAEVPRMGARKKEFTAIKGEIPSPLNPPGGCHFNPRCPHATQRCREEQPLLREIAPGH 325 L+ +P R I G P+ L+ P C F RC +Q+C P + E P H Sbjct: 254 GLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCLVA-PAISEPLPAH 312 Query: 326 MSACH 330 C+ Sbjct: 313 RVRCY 317 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 0.321 0.139 0.418 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: 1,070,040 Number of extensions: 43920 Number of successful extensions: 460 Number of sequences better than 1.0e-08: 118 Number of HSP's gapped: 328 Number of HSP's successfully gapped: 127 Length of query: 335 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 249 Effective length of database: 1,212,660 Effective search space: 301952340 Effective search space used: 301952340 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 (21.9 bits) S2: 131 (55.1 bits)