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= 0001.3138.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... 627 0.0 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 272 2e-74 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 243 2e-65 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 236 2e-63 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 201 9e-53 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 627 bits (1617), Expect = 0.0, Method: Compositional matrix adjust. Identities = 307/334 (91%), Positives = 316/334 (94%) Query: 1 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR 60 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR Sbjct: 1 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR 60 Query: 61 KAQCSADHILFDGADLNGMSEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAMLQQ 120 KAQCSADHILFDG DL+GM +KQ MQLRGKRM+MIFQEPMTSLNPSYTLGNQLCEAMLQQ Sbjct: 61 KAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQ 120 Query: 121 PGVTRGEARERALYLLHRTGIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLIIADE 180 PGV+R EARERALYLLHRTGI+NAEDRLRQYPHQLSGGLRQRVMIAMSLMC+PDLIIADE Sbjct: 121 PGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADE 180 Query: 181 PTTALDVTIQAQILRMIRELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA 240 PTTALDVTIQAQILRMIRELQQEFG AVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA Sbjct: 181 PTTALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA 240 Query: 241 QLFAQPRHPYTRGLLNCIPVRGKTLPGSRLQAIPGVVPSLVGQVSGCAFRNRCALADGAC 300 QLFAQPRHPYT+GLLNCIPVRGKTLPGS LQAIPGVVPSLVGQVSGCAFRNRCA AD C Sbjct: 241 QLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGC 300 Query: 301 ESDPPMMQQGPRNAPHQARCCKLDVPVSEMEVAA 334 E DP M+QQG APHQARC KLDV + MEVAA Sbjct: 301 ERDPQMVQQGSVTAPHQARCLKLDVAMDAMEVAA 334 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 272 bits (696), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 149/321 (46%), Positives = 207/321 (64%), Gaps = 6/321 (1%) 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 RKAQCSADHILFDGADLNGMSEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAMLQ 119 + ILF G DL M + +L+G R++MIFQ+PM +LNP + Q+ +A+L Sbjct: 61 APGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLA 120 Query: 120 QPGVTRGEARERALYLLHRTGIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLIIAD 179 V+R +ARE A L GIA+ E+RL+ YPHQLSGG+RQRV IA++++ PDLIIAD Sbjct: 121 HSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIAD 180 Query: 180 EPTTALDVTIQAQILRMIRELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETTDV 239 EPTTALDVTIQAQIL +++L ++ GTA+I+ITHDL VV+ +AD VAVMYAG++VE V Sbjct: 181 EPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSV 240 Query: 240 AQLFAQPRHPYTRGLLNCIPVRGKTLPGSRLQAIPGVVPSLVGQVSGCAFRNRCALADGA 299 + P HPYT+GL+ +P + G+RL+ IPG+ P+L+ CAF RC Sbjct: 241 DAVLDAPLHPYTQGLIGSLPSNNRR--GARLRQIPGMTPNLLHLPPTCAFAARCERLSQQ 298 Query: 300 CESDPPMMQQGPRNAPHQARC 320 C P + + P H+ RC Sbjct: 299 CLVAPAISEPLP---AHRVRC 316 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 243 bits (620), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 133/262 (50%), Positives = 170/262 (64%), Gaps = 6/262 (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 RKAQCSADHILFDGA--DLNGMSEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAM 117 + A S + G DL +RG ++MIFQEPMTSLNP +T+G Q+ E++ Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 118 LQQPGVTRGEARERALYLLHRTGIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLII 177 G+ R A+ AL +L I A+ L ++PHQLSGG+RQRVMIAM+L C P L+I Sbjct: 127 RLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLI 186 Query: 178 ADEPTTALDVTIQAQILRMIRELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETT 237 ADEPTTALDVTIQAQIL++IR LQQE VIFITHD+GVV+ +ADRV VM G+ VE Sbjct: 187 ADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEEN 246 Query: 238 DVAQLFAQPRHPYTRGLLNCIP 259 V LFA P HPYT+ LL +P Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVP 268 Score = 200 bits (508), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 115/276 (41%), 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 LLPRKAQCSADHILFDGADLNGMSEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEA 116 L+ + + F G DL + + QLR + + IFQ+P SL+P T+G + E Sbjct: 372 LV----DIAGGKVEFGGRDLAQLPRSELRQLR-RDIQFIFQDPFASLDPRMTVGYSIMEP 426 Query: 117 MLQQPGVTRGEARERALYLLHRTGIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLI 176 ML G+ G A+ER LL R G+ + ++YPH+ SGG RQR+ IA +L +P ++ Sbjct: 427 MLVH-GMKEG-AQERVDALLTRVGLT--PEHGQRYPHEFSGGQRQRICIARALALNPKIV 482 Query: 177 IADEPTTALDVTIQAQILRMIRELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVET 236 IADE +ALDV+IQAQI+ ++ +LQ E G + IFI+HD+ VV RI+ RVAVMY GQ+VE Sbjct: 483 IADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEI 542 Query: 237 TDVAQLFAQPRHPYTRGLLNCIPVRGKTL--PGSRL 270 +F P+HPYTR 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 = 236 bits (601), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 130/261 (49%), Positives = 170/261 (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 AQCSADHILFDGADLNGMSEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAMLQQP 121 A+ IL DG D+ SE+Q Q+RG ++MIFQEPMT+LNP +T+GNQ+ E ++ Sbjct: 58 ARYEGS-ILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMHHE 116 Query: 122 GVTRGEARERALYLLHRTGIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLIIADEP 181 G+ +A RA+ LL +TGI R YPH+LSGG RQR MIAM+L C P L+IADEP Sbjct: 117 GLNARDAARRAVALLEKTGIPEPARRALSYPHELSGGQRQRAMIAMALACKPKLLIADEP 176 Query: 182 TTALDVTIQAQILRMIRELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQ 241 TTALDVTIQ QIL ++ +LQ+E AV+ I+HDL +V ADRV VM G++VE+ VA+ Sbjct: 177 TTALDVTIQVQILALLNQLQREENMAVLIISHDLNLVRHFADRVGVMEKGKLVESASVAE 236 Query: 242 LFAQPRHPYTRGLLNCIPVRG 262 LFA P+ PYTR LL P R Sbjct: 237 LFANPQQPYTRKLLQSRPQRN 257 Score = 171 bits (432), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 102/236 (43%), Positives = 148/236 (62%), Gaps = 7/236 (2%) Query: 21 LHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQCSADHILFDGADLNGMS 80 HAV G+D Q+RRGE L +VGESG GKS +AL+ L A A I FDG ++ Sbjct: 290 FHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRL---SAASVAGSIRFDGVPISERP 346 Query: 81 EKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAM-LQQPGVTRGEARERALYLLHRT 139 +++ LR RM ++FQ+P SL+P T+ + E + L P + + R+ + L Sbjct: 347 QRELRPLRS-RMQVVFQDPFASLSPRRTVEQIVGEGLELHHPDRSAEQQRQAIVAALEEV 405 Query: 140 GIANAEDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLIIADEPTTALDVTIQAQILRMIRE 199 G++ A L +YPH+ SGG RQR+ IA +L+ P+L++ DEPT+ALDVT+Q Q+L+++ E Sbjct: 406 GLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLLDEPTSALDVTVQQQVLQLLAE 463 Query: 200 LQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFAQPRHPYTRGLL 255 LQ+ G A +FITHDL VV +A +V VM G+VVE+ AQ+ QP+ YTR L+ Sbjct: 464 LQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGATAQVLQQPQQEYTRRLV 519 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 201 bits (510), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 122/306 (39%), Positives = 169/306 (55%), Gaps = 15/306 (4%) Query: 20 MLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQCSADHILFDGADLNGM 79 + HA+ +D +V GE++ LVGESGCGKS GLL S +L +G D + Sbjct: 41 ITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLL----DPSDGQVLVNGRDRASL 96 Query: 80 SEKQRMQLRGKRMSMIFQEPMTSLNPSYTLGNQLCEAMLQQPGVTRGEARERALYLLHRT 139 S ++ + R ++ MIFQ P SLNP + + EA Q G G+ + L R Sbjct: 97 SSREEAEAR-LQVQMIFQNPYASLNPRLRIDQIVGEAA-QVNGKVEGDLDDYVCQQLLRA 154 Query: 140 GIANA-EDRLRQYPHQLSGGLRQRVMIAMSLMCSPDLIIADEPTTALDVTIQAQILRMIR 198 G+ A DR YPHQ SGG RQR+ IA +L P +++ DE ALDV+IQAQIL + Sbjct: 155 GLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQILNLFM 211 Query: 199 ELQQEFGTAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLFAQPRHPYTRGLLNCI 258 +L+ E G +FI+HDLGVV ++DRV +MY G+VVE+ VA+LF QP HPYT+ LL + Sbjct: 212 DLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQALLAEV 271 Query: 259 PVRGKTLPGSRLQAIPGVVPSLVGQVSGCAFRNRCALADGACESDPPMMQQGPRNAPHQA 318 P G AI G +PS + +GC F RC A C + P++++ AP Sbjct: 272 PRMGAR--KKEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLRE---IAPGHM 326 Query: 319 RCCKLD 324 C L+ Sbjct: 327 SACHLN 332 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 0.402 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: 992,376 Number of extensions: 40228 Number of successful extensions: 467 Number of sequences better than 1.0e-08: 118 Number of HSP's gapped: 325 Number of HSP's successfully gapped: 131 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)