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= 0002.0125.p (334 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel A... 682 0.0 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 273 2e-74 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 248 4e-67 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 235 5e-63 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 193 2e-50 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 682 bits (1759), Expect = 0.0, Method: Compositional matrix adjust. Identities = 333/334 (99%), Positives = 334/334 (100%) Query: 1 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR 60 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR Sbjct: 1 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR 60 Query: 61 KAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQ 120 KAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQ Sbjct: 61 KAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQ 120 Query: 121 PGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADE 180 PGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADE Sbjct: 121 PGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADE 180 Query: 181 PTTALDVTIQAQILRMIRELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA 240 PTTALDVTIQAQILRMIRELQ+EFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA Sbjct: 181 PTTALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA 240 Query: 241 QLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGC 300 QLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGC Sbjct: 241 QLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGC 300 Query: 301 ERDPQMVQQGSVTAPHQARCLKLDVAMDAMEVAA 334 ERDPQMVQQGSVTAPHQARCLKLDVAMDAMEVAA Sbjct: 301 ERDPQMVQQGSVTAPHQARCLKLDVAMDAMEVAA 334 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 273 bits (697), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 150/324 (46%), Positives = 207/324 (63%), Gaps = 12/324 (3%) Query: 1 MSVL-LDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLP 59 MS L L+V+NL+ T G+L AV + V RG +L LVGESG GKS+T +++G++ Sbjct: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 Query: 60 RKAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQ 119 + ILF G DL M L +L+G R+AMIFQ+PM +LNP + Q+ +A+L Sbjct: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 Query: 120 QPGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIAD 179 VSR +ARE A L GI++ E+RL+ YPHQLSGG+RQRV IA++++ PDLIIAD Sbjct: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 Query: 180 EPTTALDVTIQAQILRMIRELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDV 239 EPTTALDVTIQAQIL +++L ++ G A+I+ITHDL VV+ +AD VAVMYAG++VE V Sbjct: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 Query: 240 AQLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSG 299 + P HPYTQGL+ +P + G+ L+ IPG+ P+L+ CAF RC + Sbjct: 241 DAVLDAPLHPYTQGLIGSLPSNNRR--GARLRQIPGMTPNLLHLPPTCAFAARCERLSQQ 298 Query: 300 CERDPQMVQQGSVTAP---HQARC 320 C P +++ P H+ RC Sbjct: 299 CLVAP------AISEPLPAHRVRC 316 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 248 bits (634), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 136/265 (51%), Positives = 175/265 (66%), Gaps = 6/265 (2%) Query: 4 LLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLP---- 59 +LDV +L V T + AVR + F V +GE L +VGESG GKS++SLA+M L+ Sbjct: 7 VLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGG 66 Query: 60 RKAQCSADHILFDG--VDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAM 117 + A S + G +DL + + +RG +AMIFQEPMTSLNP +T+G Q+ E++ Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 118 LQQPGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLII 177 G+ RA A+ AL +L I A+ L ++PHQLSGG+RQRVMIAM+L C P L+I Sbjct: 127 RLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLI 186 Query: 178 ADEPTTALDVTIQAQILRMIRELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETT 237 ADEPTTALDVTIQAQIL++IR LQ+E VIFITHD+GVV+ +ADRV VM G+ VE Sbjct: 187 ADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEEN 246 Query: 238 DVAQLFAQPRHPYTQGLLNCIPVRG 262 V LFA P HPYTQ LL +P G Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVPRLG 271 Score = 202 bits (514), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 116/276 (42%), Positives = 165/276 (59%), Gaps = 18/276 (6%) Query: 4 LLDVKNLKVDLPTENGML-------HAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMG 56 +L V++L ++G+ HAV + F + GE L +VGESGCGKS T +L+ Sbjct: 312 ILKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLLR 371 Query: 57 LLPRKAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEA 116 L+ + + F G DL +P +L QLR + + IFQ+P SL+P T+G + E Sbjct: 372 LV----DIAGGKVEFGGRDLAQLPRSELRQLR-RDIQFIFQDPFASLDPRMTVGYSIMEP 426 Query: 117 MLQQPGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLI 176 ML G+ A+ER LL R G++ + +YPH+ SGG RQR+ IA +L NP ++ Sbjct: 427 MLVH-GMKEG-AQERVDALLTRVGLTPEHGQ--RYPHEFSGGQRQRICIARALALNPKIV 482 Query: 177 IADEPTTALDVTIQAQILRMIRELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVET 236 IADE +ALDV+IQAQI+ ++ +LQ E G + IFI+HD+ VV RI+ RVAVMY GQ+VE Sbjct: 483 IADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEI 542 Query: 237 TDVAQLFAQPRHPYTQGLLNCIPVRGKTL--PGSHL 270 +F P+HPYT+ L+ +PV TL PG L Sbjct: 543 GPRRAIFENPQHPYTRKLMAAVPVADPTLRQPGKKL 578 >gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPase [Herbaspirillum seropedicae SmR1] Length = 529 Score = 235 bits (599), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 128/261 (49%), Positives = 171/261 (65%), Gaps = 6/261 (2%) Query: 2 SVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRK 61 + LL+V NL V G V + F + GE LVGESG GK+++SLA+M L + Sbjct: 3 AALLEVNNLTVRF----GDTVVVDRVSFAIAPGEKFALVGESGSGKTVSSLAVMQL-NQD 57 Query: 62 AQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQP 121 A+ IL DG D+ ++Q+ Q+RG +AMIFQEPMT+LNP +T+GNQ+ E ++ Sbjct: 58 ARYEGS-ILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMHHE 116 Query: 122 GVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEP 181 G++ +A RA+ LL +TGI R YPH+LSGG RQR MIAM+L C P L+IADEP Sbjct: 117 GLNARDAARRAVALLEKTGIPEPARRALSYPHELSGGQRQRAMIAMALACKPKLLIADEP 176 Query: 182 TTALDVTIQAQILRMIRELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQ 241 TTALDVTIQ QIL ++ +LQ+E AV+ I+HDL +V ADRV VM G++VE+ VA+ Sbjct: 177 TTALDVTIQVQILALLNQLQREENMAVLIISHDLNLVRHFADRVGVMEKGKLVESASVAE 236 Query: 242 LFAQPRHPYTQGLLNCIPVRG 262 LFA P+ PYT+ LL P R Sbjct: 237 LFANPQQPYTRKLLQSRPQRN 257 Score = 178 bits (451), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 106/236 (44%), Positives = 149/236 (63%), Gaps = 7/236 (2%) Query: 21 LHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQCSADHILFDGVDLHGMP 80 HAV G+D Q+RRGE L +VGESG GKS +AL+ L A A I FDGV + P Sbjct: 290 FHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRL---SAASVAGSIRFDGVPISERP 346 Query: 81 DKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAM-LQQPGVSRAEARERALYLLHRT 139 ++L LR RM ++FQ+P SL+P T+ + E + L P S + R+ + L Sbjct: 347 QRELRPLRS-RMQVVFQDPFASLSPRRTVEQIVGEGLELHHPDRSAEQQRQAIVAALEEV 405 Query: 140 GISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTTALDVTIQAQILRMIRE 199 G+S A L +YPH+ SGG RQR+ IA +L+ P+L++ DEPT+ALDVT+Q Q+L+++ E Sbjct: 406 GLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLLDEPTSALDVTVQQQVLQLLAE 463 Query: 200 LQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFAQPRHPYTQGLL 255 LQ+ G A +FITHDL VV +A +V VM G+VVE+ AQ+ QP+ YT+ L+ Sbjct: 464 LQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGATAQVLQQPQQEYTRRLV 519 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 193 bits (490), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 118/301 (39%), Positives = 166/301 (55%), Gaps = 15/301 (4%) Query: 20 MLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQCSADHILFDGVDLHGM 79 + HA+ +D +V GE++ LVGESGCGKS GLL S +L +G D + Sbjct: 41 ITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLL----DPSDGQVLVNGRDRASL 96 Query: 80 PDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQPGVSRAEARERALYLLHRT 139 ++ + R ++ MIFQ P SLNP + +Q+ Q G + + L R Sbjct: 97 SSREEAEAR-LQVQMIFQNPYASLNPRLRI-DQIVGEAAQVNGKVEGDLDDYVCQQLLRA 154 Query: 140 GISNA-EDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTTALDVTIQAQILRMIR 198 G+ A DR YPHQ SGG RQR+ IA +L P +++ DE ALDV+IQAQIL + Sbjct: 155 GLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQILNLFM 211 Query: 199 ELQKEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFAQPRHPYTQGLLNCI 258 +L+ E G +FI+HDLGVV ++DRV +MY G+VVE+ VA+LF QP HPYTQ LL + Sbjct: 212 DLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQALLAEV 271 Query: 259 PVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGCERDPQMVQQ---GSVTAP 315 P G AI G +PS + +GC F RC A C + ++++ G ++A Sbjct: 272 PRMGAR--KKEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLREIAPGHMSAC 329 Query: 316 H 316 H Sbjct: 330 H 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 0.323 0.136 0.400 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: 971,772 Number of extensions: 38791 Number of successful extensions: 473 Number of sequences better than 1.0e-08: 118 Number of HSP's gapped: 331 Number of HSP's successfully gapped: 132 Length of query: 334 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 248 Effective length of database: 1,212,660 Effective search space: 300739680 Effective search space used: 300739680 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 131 (55.1 bits)