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= 0029.0108.p (330 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 669 0.0 gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel A... 272 3e-74 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 215 4e-57 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 198 6e-52 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 179 3e-46 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 669 bits (1726), Expect = 0.0, Method: Compositional matrix adjust. Identities = 330/330 (100%), Positives = 330/330 (100%) Query: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD Sbjct: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 Query: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA Sbjct: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 Query: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD Sbjct: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 Query: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV Sbjct: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 Query: 241 DAVLDAPLHPYTQGLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCL 300 DAVLDAPLHPYTQGLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCL Sbjct: 241 DAVLDAPLHPYTQGLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCL 300 Query: 301 VAPAISEPLPAHRVRCYHPTPSTQSSEQHG 330 VAPAISEPLPAHRVRCYHPTPSTQSSEQHG Sbjct: 301 VAPAISEPLPAHRVRCYHPTPSTQSSEQHG 330 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 272 bits (696), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 150/324 (46%), Positives = 207/324 (63%), Gaps = 12/324 (3%) Query: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 MS L L+V+NL+ T G+L AV + V RG +L LVGESG GKS+T +++G++ Sbjct: 1 MSVL-LDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLP 59 Query: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 + ILF G DL M L +L+G R+AMIFQ+PM +LNP + Q+ +A+L Sbjct: 60 RKAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQ 119 Query: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 VSR +ARE A L GI++ E+RL+ YPHQLSGG+RQRV IA++++ PDLIIAD Sbjct: 120 QPGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIAD 179 Query: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 EPTTALDVTIQAQIL +++L ++ G A+I+ITHDL VV+ +AD VAVMYAG++VE V Sbjct: 180 EPTTALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDV 239 Query: 241 DAVLDAPLHPYTQGLIGSLPSNNRR--GARLRQIPGMTPNLLHLPPTCAFAARCERLSQQ 298 + P HPYTQGL+ +P + G+ L+ IPG+ P+L+ CAF RC + Sbjct: 240 AQLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSG 299 Query: 299 CLVAP------AISEPLPAHRVRC 316 C P +++ P H+ RC Sbjct: 300 CERDPQMVQQGSVTAP---HQARC 320 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 215 bits (548), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 119/262 (45%), Positives = 167/262 (63%), Gaps = 6/262 (2%) Query: 5 TLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD-APG 63 L+V +L F T E + AV D+S V +G L +VGESGSGKSV+ +I+ +++ G Sbjct: 7 VLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGG 66 Query: 64 RIVGGEILFQGR-----DLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 +I G + F R DL + D ++R ++G IAMIFQ+PM +LNPV V Q+ +++ Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 119 LAHSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLII 178 H + R A+ A L M+ I + L +PHQLSGGMRQRV IA+A+ KP L+I Sbjct: 127 RLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLI 186 Query: 179 ADEPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQG 238 ADEPTTALDVTIQAQIL ++ L ++ +I+ITHD+ VVA +AD V VM G VE+ Sbjct: 187 ADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEEN 246 Query: 239 SVDAVLDAPLHPYTQGLIGSLP 260 +V+ + AP HPYTQ L+ ++P Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVP 268 Score = 183 bits (465), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/262 (41%), Positives = 163/262 (62%), Gaps = 16/262 (6%) Query: 6 LEVRNLRTHFFTPEGVLP-------AVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGM 58 L+VR+L T F G+ AV+ VS + G L +VGESG GKS TG S+L + Sbjct: 313 LKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLLRL 372 Query: 59 VDAPGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 VD I GG++ F GRDL ++ ++ LR+L+ + I IFQDP +L+P + V +++ + Sbjct: 373 VD----IAGGKVEFGGRDLAQLPRSELRQLRRD-IQFIFQDPFASLDPRMTVGYSIMEPM 427 Query: 119 LAHSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLII 178 L H ++ A+E L +G+ +PE Q YPH+ SGG RQR+ IA A+ P ++I Sbjct: 428 LVHGM--KEGAQERVDALLTRVGL-TPEHG-QRYPHEFSGGQRQRICIARALALNPKIVI 483 Query: 179 ADEPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQG 238 ADE +ALDV+IQAQI++ + L + G + I+I+HD++VV ++ VAVMY G+IVE G Sbjct: 484 ADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEIG 543 Query: 239 SVDAVLDAPLHPYTQGLIGSLP 260 A+ + P HPYT+ L+ ++P Sbjct: 544 PRRAIFENPQHPYTRKLMAAVP 565 >gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPase [Herbaspirillum seropedicae SmR1] Length = 529 Score = 198 bits (503), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 111/263 (42%), Positives = 159/263 (60%), Gaps = 6/263 (2%) Query: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 MSA LEV NL F G VD VS ++ G LVGESGSGK+V+ +++ + + Sbjct: 1 MSAALLEVNNLTVRF----GDTVVVDRVSFAIAPGEKFALVGESGSGKTVSSLAVMQL-N 55 Query: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 R G IL G+D++ + +++++GN +AMIFQ+PM LNP+ + Q+ + ++ Sbjct: 56 QDARY-EGSILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMH 114 Query: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 H ++ + A A L GI P R +YPH+LSGG RQR IA+A+ KP L+IAD Sbjct: 115 HEGLNARDAARRAVALLEKTGIPEPARRALSYPHELSGGQRQRAMIAMALACKPKLLIAD 174 Query: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 EPTTALDVTIQ QIL+ + +L R+ A++ I+HDL++V AD V VM G++VE SV Sbjct: 175 EPTTALDVTIQVQILALLNQLQREENMAVLIISHDLNLVRHFADRVGVMEKGKLVESASV 234 Query: 241 DAVLDAPLHPYTQGLIGSLPSNN 263 + P PYT+ L+ S P N Sbjct: 235 AELFANPQQPYTRKLLQSRPQRN 257 Score = 159 bits (401), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 103/257 (40%), Positives = 154/257 (59%), Gaps = 12/257 (4%) Query: 6 LEVRNLRTHFFTPEG-----VLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 L+ LR + +G AVD V L + RG LG+VGESGSGKS G ++L + Sbjct: 269 LQAERLRCTYHIKQGWFAKRAFHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRLSA 328 Query: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV-L 119 A V G I F G + + LR L+ +R+ ++FQDP +L+P VE + + + L Sbjct: 329 AS---VAGSIRFDGVPISERPQRELRPLR-SRMQVVFQDPFASLSPRRTVEQIVGEGLEL 384 Query: 120 AHSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIA 179 H S +Q R+ L +G+++ L+ YPH+ SGG RQR+AIA A++ +P+L++ Sbjct: 385 HHPDRSAEQQRQAIVAALEEVGLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLL 442 Query: 180 DEPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGS 239 DEPT+ALDVT+Q Q+L + +L R+HG A ++ITHDL+VV +A +V VM G++VE G+ Sbjct: 443 DEPTSALDVTVQQQVLQLLAELQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGA 502 Query: 240 VDAVLDAPLHPYTQGLI 256 VL P YT+ L+ Sbjct: 503 TAQVLQQPQQEYTRRLV 519 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 179 bits (453), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 110/305 (36%), Positives = 160/305 (52%), Gaps = 11/305 (3%) Query: 15 FFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRIVGGEILFQG 74 + P + A+D V L V G ++GLVGESG GKS G G++D G++L G Sbjct: 35 WSRPPAITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSD----GQVLVNG 90 Query: 75 RDLVRMDKTSLRELQGN-RIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVSRQQARELA 133 RD R +S E + ++ MIFQ+P +LNP L+++ + +A + KV + Sbjct: 91 RD--RASLSSREEAEARLQVQMIFQNPYASLNPRLRIDQIVGEAAQVNGKVEGDLDDYVC 148 Query: 134 RDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTALDVTIQAQ 193 + L + +R YPHQ SGG RQR+ IA A+ +P +++ DE ALDV+IQAQ Sbjct: 149 QQLLRAGLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQ 205 Query: 194 ILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLDAPLHPYTQ 253 IL+ L + G ++I+HDL VV ++D V +MY GR+VE V + P HPYTQ Sbjct: 206 ILNLFMDLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQ 265 Query: 254 GLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCLVA-PAISEPLPAH 312 L+ +P R I G P+ L+ P C F RC +Q+C P + E P H Sbjct: 266 ALLAEVPRMGARKKEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLREIAPGH 325 Query: 313 RVRCY 317 C+ Sbjct: 326 MSACH 330 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 0.320 0.135 0.391 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: 1,103,561 Number of extensions: 49877 Number of successful extensions: 530 Number of sequences better than 1.0e-08: 121 Number of HSP's gapped: 387 Number of HSP's successfully gapped: 134 Length of query: 330 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 244 Effective length of database: 1,212,660 Effective search space: 295889040 Effective search space used: 295889040 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 (21.8 bits) S2: 131 (55.1 bits)