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= 0001.1460.p (327 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... 620 e-179 gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel A... 270 1e-73 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 219 2e-58 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 194 1e-50 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 183 1e-47 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 620 bits (1598), Expect = e-179, Method: Compositional matrix adjust. Identities = 308/330 (93%), Positives = 314/330 (95%), Gaps = 3/330 (0%) Query: 1 VSATTLDVRHLRTHFFTPDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 +SA TL+VR+LRTHFFTP+GVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD Sbjct: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 Query: 61 APGRIVGGEILFQGRDLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 APGRIVGGEILFQGRDLVRMDK SLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA Sbjct: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 Query: 121 HSKVSRQQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 HSKVSRQQARELAR TLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD Sbjct: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 Query: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV Sbjct: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 Query: 241 DAVLDSPLHPYTQGLIGSLPSNNRRATRLRQIPGMTPNLLHLPPTCAFAARCERLSQHCL 300 DAVLD+PLHPYTQGLIGSLPSNNRR RLRQIPGMTPNLLHLPPTCAFAARCERLSQ CL Sbjct: 241 DAVLDAPLHPYTQGLIGSLPSNNRRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCL 300 Query: 301 TAPAISEPRPAHLVRCYHP---ISMNEHHG 327 APAISEP PAH VRCYHP +E HG Sbjct: 301 VAPAISEPLPAHRVRCYHPTPSTQSSEQHG 330 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 270 bits (691), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 145/316 (45%), Positives = 201/316 (63%), Gaps = 5/316 (1%) Query: 6 LDVRHLRTHFFTPDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRI 65 LDV++L+ T +G+L AV + V RG +L LVGESG GKS+T +++G++ + Sbjct: 5 LDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQC 64 Query: 66 VGGEILFQGRDLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVS 125 ILF G DL M L +L+G R+AMIFQ+PM +LNP + Q+ +A+L VS Sbjct: 65 SADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQPGVS 124 Query: 126 RQQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTA 185 R +ARE A L GI++ E+RL+ YPHQLSGG+RQRV IA++++ PDLIIADEPTTA Sbjct: 125 RAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTTA 184 Query: 186 LDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLD 245 LDVTIQAQIL +++L ++ G A+I+ITHDL VV+ +AD VAVMYAG++VE V + Sbjct: 185 LDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFA 244 Query: 246 SPLHPYTQGLIGSLPSNNRR--ATRLRQIPGMTPNLLHLPPTCAFAARCERLSQHCLTAP 303 P HPYTQGL+ +P + + L+ IPG+ P+L+ CAF RC + C P Sbjct: 245 QPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGCERDP 304 Query: 304 AISEPRPA---HLVRC 316 + + H RC Sbjct: 305 QMVQQGSVTAPHQARC 320 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 120/262 (45%), Positives = 169/262 (64%), Gaps = 6/262 (2%) Query: 5 TLDVRHLRTHFFTPDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD-APG 63 LDV HL F T + + AV D+S V +G L +VGESGSGKSV+ +I+ +++ G Sbjct: 7 VLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGG 66 Query: 64 RIVGGEILFQGR-----DLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 +I G + F R DL + D A++R ++G IAMIFQ+PM +LNPV V Q+ +++ Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 119 LAHSKVSRQQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLII 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 SVDAVLDSPLHPYTQGLIGSLP 260 +V+ + +P HPYTQ L+ ++P Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVP 268 Score = 182 bits (462), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 108/262 (41%), Positives = 162/262 (61%), Gaps = 16/262 (6%) Query: 6 LDVRHLRTHFFTPDGVLP-------AVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGM 58 L VR L T F G+ AV+ VS + G L +VGESG GKS TG S+L + Sbjct: 313 LKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLLRL 372 Query: 59 VDAPGRIVGGEILFQGRDLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 VD I GG++ F GRDL ++ ++ LR+L+ + I IFQDP +L+P + V +++ + Sbjct: 373 VD----IAGGKVEFGGRDLAQLPRSELRQLRRD-IQFIFQDPFASLDPRMTVGYSIMEPM 427 Query: 119 LAHSKVSRQQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLII 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 SVDAVLDSPLHPYTQGLIGSLP 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 = 194 bits (492), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 108/263 (41%), Positives = 160/263 (60%), Gaps = 6/263 (2%) Query: 1 VSATTLDVRHLRTHFFTPDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 +SA L+V +L F G VD VS ++ G LVGESGSGK+V+ +++ + + Sbjct: 1 MSAALLEVNNLTVRF----GDTVVVDRVSFAIAPGEKFALVGESGSGKTVSSLAVMQL-N 55 Query: 61 APGRIVGGEILFQGRDLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 R G IL G+D++ + +++++GN +AMIFQ+PM LNP+ + Q+ + ++ Sbjct: 56 QDARY-EGSILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMH 114 Query: 121 HSKVSRQQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 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 DAVLDSPLHPYTQGLIGSLPSNN 263 + +P PYT+ L+ S P N Sbjct: 235 AELFANPQQPYTRKLLQSRPQRN 257 Score = 159 bits (401), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 101/248 (40%), Positives = 152/248 (61%), Gaps = 8/248 (3%) Query: 10 HLRTHFFTPDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRIVGGE 69 H++ +F AVD V L + RG LG+VGESGSGKS G ++L + A V G Sbjct: 279 HIKQGWFAKRA-FHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRLSAAS---VAGS 334 Query: 70 ILFQGRDLVRMDKASLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV-LAHSKVSRQQ 128 I F G + + LR L+ +R+ ++FQDP +L+P VE + + + L H S +Q Sbjct: 335 IRFDGVPISERPQRELRPLR-SRMQVVFQDPFASLSPRRTVEQIVGEGLELHHPDRSAEQ 393 Query: 129 ARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTALDV 188 R+ L +G+++ L+ YPH+ SGG RQR+AIA A++ +P+L++ DEPT+ALDV Sbjct: 394 QRQAIVAALEEVGLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLLDEPTSALDV 451 Query: 189 TIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLDSPL 248 T+Q Q+L + +L R+HG A ++ITHDL+VV +A +V VM G++VE G+ VL P Sbjct: 452 TVQQQVLQLLAELQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGATAQVLQQPQ 511 Query: 249 HPYTQGLI 256 YT+ L+ Sbjct: 512 QEYTRRLV 519 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 183 bits (465), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 113/312 (36%), Positives = 165/312 (52%), Gaps = 12/312 (3%) Query: 9 RHLRTHFFT-PDGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRIVG 67 R L+ ++ P + A+D V L V G ++GLVGESG GKS G G++D Sbjct: 28 RQLQARGWSRPPAITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSD---- 83 Query: 68 GEILFQGRDLVRMDKASLRELQGN-RIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVSR 126 G++L GRD R +S E + ++ MIFQ+P +LNP L+++ + +A + KV Sbjct: 84 GQVLVNGRD--RASLSSREEAEARLQVQMIFQNPYASLNPRLRIDQIVGEAAQVNGKVEG 141 Query: 127 QQARELARQTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTAL 186 + +Q L + +R YPHQ SGG RQR+ IA A+ +P +++ DE AL Sbjct: 142 DLDDYVCQQLLRAGLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAAL 198 Query: 187 DVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLDS 246 DV+IQAQIL+ L + G ++I+HDL VV ++D V +MY GR+VE V + Sbjct: 199 DVSIQAQILNLFMDLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQ 258 Query: 247 PLHPYTQGLIGSLPSNNRRATRLRQIPGMTPNLLHLPPTCAFAARCERLSQHCLTA-PAI 305 P HPYTQ L+ +P R I G P+ L+ P C F RC +Q C P + Sbjct: 259 PNHPYTQALLAEVPRMGARKKEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLL 318 Query: 306 SEPRPAHLVRCY 317 E P H+ C+ Sbjct: 319 REIAPGHMSACH 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 0.322 0.136 0.396 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: 1,101,900 Number of extensions: 48961 Number of successful extensions: 533 Number of sequences better than 1.0e-08: 121 Number of HSP's gapped: 389 Number of HSP's successfully gapped: 134 Length of query: 327 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 242 Effective length of database: 1,217,395 Effective search space: 294609590 Effective search space used: 294609590 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)