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= 0001.4596.p (333 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... 271 7e-74 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 243 2e-65 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 243 2e-65 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 237 1e-63 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 182 3e-47 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 271 bits (692), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 140/319 (43%), Positives = 199/319 (62%), Gaps = 3/319 (0%) Query: 9 MVSLRDLRVTFQAPGKTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRSIMRLHPEQRT 68 ++ +++L+V + AV G+D V GE++ L+GESG GKS+T ++M L P + Sbjct: 4 LLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQ 63 Query: 69 RIEGRLQVDGRDVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIETIRRHKKV 128 + DG D+ M ++L LRG +AMIFQEP+ +L+P YT+G Q+ E + + V Sbjct: 64 CSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQPGV 123 Query: 129 SAAQARAQALALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKVLLADEPTT 188 S A+AR +AL L + I + E RL Y H++SGG+RQR MIA++L C+P +++ADEPTT Sbjct: 124 SRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTT 183 Query: 189 ALDATVQIQILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVEQGPAAQLL 248 ALD T+Q QIL ++RELQ+E G ++IF+THD+G +ADR+AVMYAG++VE AQL Sbjct: 184 ALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLF 243 Query: 249 SQPRHPYTMSLLQSRS-HGALQKGQRLPTIAGAPPDLARLPAGCAFAERCAHAQAACQ-- 305 +QPRHPYT LL G G L I G P L +GCAF RCA A + C+ Sbjct: 244 AQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGCERD 303 Query: 306 SQQPPEQRLDAQHTVRCLR 324 Q + + A H RCL+ Sbjct: 304 PQMVQQGSVTAPHQARCLK 322 >gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPase [Herbaspirillum seropedicae SmR1] Length = 529 Score = 243 bits (620), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 125/256 (48%), Positives = 179/256 (69%), Gaps = 6/256 (2%) Query: 8 AMVSLRDLRVTFQAPGKTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRSIMRLHPEQR 67 A++ + +L V F G T+ V V +A GE AL+GESGSGK+V+ ++M+L+ Q Sbjct: 4 ALLEVNNLTVRF---GDTV-VVDRVSFAIAPGEKFALVGESGSGKTVSSLAVMQLN--QD 57 Query: 68 TRIEGRLQVDGRDVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIETIRRHKK 127 R EG + +DG+DVL + R++ +RG+DVAMIFQEP+ AL+P++T+G QI E + H+ Sbjct: 58 ARYEGSILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMHHEG 117 Query: 128 VSAAQARAQALALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKVLLADEPT 187 ++A A +A+AL EK IP P RR +Y HE+SGG RQRAMIA+AL+C PK+L+ADEPT Sbjct: 118 LNARDAARRAVALLEKTGIPEPARRALSYPHELSGGQRQRAMIAMALACKPKLLIADEPT 177 Query: 188 TALDATVQIQILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVEQGPAAQL 247 TALD T+Q+QIL LL +LQRE ++++ ++HD+ ADR+ VM G++VE A+L Sbjct: 178 TALDVTIQVQILALLNQLQREENMAVLIISHDLNLVRHFADRVGVMEKGKLVESASVAEL 237 Query: 248 LSQPRHPYTMSLLQSR 263 + P+ PYT LLQSR Sbjct: 238 FANPQQPYTRKLLQSR 253 Score = 149 bits (375), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 140/238 (58%), Gaps = 7/238 (2%) Query: 24 KTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRSIMRLHPEQRTRIEGRLQVDGRDVLQ 83 + AV GVDL + GE + ++GESGSGKS +++RL + G ++ DG + + Sbjct: 288 RAFHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRLSA---ASVAGSIRFDGVPISE 344 Query: 84 MTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIETIR-RHKKVSAAQARAQALALFE 142 REL LR + ++FQ+P +L P TV + + E + H SA Q R +A E Sbjct: 345 RPQRELRPLRSR-MQVVFQDPFASLSPRRTVEQIVGEGLELHHPDRSAEQQRQAIVAALE 403 Query: 143 KVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKVLLADEPTTALDATVQIQILLLL 202 +V + + L+ Y HE SGG RQR IA AL P++LL DEPT+ALD TVQ Q+L LL Sbjct: 404 EVGLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLLDEPTSALDVTVQQQVLQLL 461 Query: 203 RELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVEQGPAAQLLSQPRHPYTMSLL 260 ELQR GL+ +F+THD+ +A ++ VM G++VE G AQ+L QP+ YT L+ Sbjct: 462 AELQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGATAQVLQQPQQEYTRRLV 519 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 243 bits (619), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 136/313 (43%), Positives = 187/313 (59%), Gaps = 2/313 (0%) Query: 10 VSLRDLRVTFQAPGKTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRSIMRLHPEQRTR 69 + +R+LR F P + AV V L V G ++ L+GESGSGKSVT SI+ + Sbjct: 6 LEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRI 65 Query: 70 IEGRLQVDGRDVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIETIRRHKKVS 129 + G + GRD+++M L L+G+ +AMIFQ+P++ L+PV V Q+++ + H KVS Sbjct: 66 VGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVS 125 Query: 130 AAQARAQALALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKVLLADEPTTA 189 QAR A + I SPE RL AY H++SGGMRQR IA+A+ P +++ADEPTTA Sbjct: 126 RQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTA 185 Query: 190 LDATVQIQILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVEQGPAAQLLS 249 LD T+Q QIL +++L R+ G ++I++THD+ +AD +AVMYAGRIVEQG +L Sbjct: 186 LDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLD 245 Query: 250 QPRHPYTMSLLQSRSHGALQKGQRLPTIAGAPPDLARLPAGCAFAERCAHAQAACQSQQP 309 P HPYT L+ S ++G RL I G P+L LP CAFA RC C Sbjct: 246 APLHPYTQGLIGSLPSNN-RRGARLRQIPGMTPNLLHLPPTCAFAARCERLSQQCLVAPA 304 Query: 310 PEQRLDAQHTVRC 322 + L A H VRC Sbjct: 305 ISEPLPA-HRVRC 316 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 237 bits (604), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 137/307 (44%), Positives = 188/307 (61%), Gaps = 7/307 (2%) Query: 7 QAMVSLRDLRVTFQAPGKTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRSIMRLHPEQ 66 Q ++ + L V F +T+ AV + V GE +A++GESGSGKSV+ +IMRL Sbjct: 5 QRVLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHG 64 Query: 67 RTRI-EGRLQVDGR-----DVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIE 120 +I G +Q R D+ Q + ++RG ++AMIFQEP+ +L+PV+TVGEQI E Sbjct: 65 GGKIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAE 124 Query: 121 TIRRHKKVSAAQARAQALALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKV 180 +IR H+ + A A+A+AL + E VRIP +R L + H++SGGMRQR MIA+ALSC P + Sbjct: 125 SIRLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSL 184 Query: 181 LLADEPTTALDATVQIQILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVE 240 L+ADEPTTALD T+Q QIL L+R LQ+E+ + +IF+THD+G EVADR+ VM G VE Sbjct: 185 LIADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVE 244 Query: 241 QGPAAQLLSQPRHPYTMSLLQSRSHGALQKGQRLPTIAGAPPDLARLPAGCAFAERCAHA 300 + L + P HPYT SLL + +G P G P P A +E A A Sbjct: 245 ENAVNPLFAAPAHPYTQSLLAAVPRLGSMRGTDKPLRFGIAPQAEARPDLIA-SELQAQA 303 Query: 301 QAACQSQ 307 + A Q Q Sbjct: 304 EIAAQRQ 310 Score = 185 bits (469), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 108/262 (41%), Positives = 155/262 (59%), Gaps = 16/262 (6%) Query: 6 KQAMVSLRDLRVTFQAPG-------KTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLRS 58 +Q ++ +RDL F + + AV V D+ AGE +A++GESG GKS T RS Sbjct: 309 RQPILKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRS 368 Query: 59 IMRLHPEQRTRIEGRLQVDGRDVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQI 118 ++RL G+++ GRD+ Q+ EL LR D+ IFQ+P +LDP TVG I Sbjct: 369 LLRL----VDIAGGKVEFGGRDLAQLPRSELRQLR-RDIQFIFQDPFASLDPRMTVGYSI 423 Query: 119 IETIRRHKKVSAAQARAQALALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSP 178 +E + H AQ R AL +V + +PE Y HE SGG RQR IA AL+ +P Sbjct: 424 MEPMLVHGMKEGAQERVDAL--LTRVGL-TPEHG-QRYPHEFSGGQRQRICIARALALNP 479 Query: 179 KVLLADEPTTALDATVQIQILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRI 238 K+++ADE +ALD ++Q QI+ L+ +LQ ELG+S IF++HD+ ++ R+AVMY G+I Sbjct: 480 KIVIADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQI 539 Query: 239 VEQGPAAQLLSQPRHPYTMSLL 260 VE GP + P+HPYT L+ Sbjct: 540 VEIGPRRAIFENPQHPYTRKLM 561 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 182 bits (462), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 113/305 (37%), Positives = 158/305 (51%), Gaps = 11/305 (3%) Query: 19 FQAPGKTIRAVSGVDLDVAAGEVVALIGESGSGKSVTLR-SIMRLHPEQRTRIEGRLQVD 77 + P A+ VDL V GEVV L+GESG GKS R + L P +G++ V+ Sbjct: 35 WSRPPAITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPS-----DGQVLVN 89 Query: 78 GRDVLQMTGRELSALRGHDVAMIFQEPLLALDPVYTVGEQIIETIRRHKKVSAAQARAQA 137 GRD ++ RE + R V MIFQ P +L+P + + + E + + KV Sbjct: 90 GRDRASLSSREEAEAR-LQVQMIFQNPYASLNPRLRIDQIVGEAAQVNGKVEGDLDDYVC 148 Query: 138 LALFEKVRIPSPERRLDAYAHEMSGGMRQRAMIALALSCSPKVLLADEPTTALDATVQIQ 197 L P+ D Y H+ SGG RQR IA AL+ P++L+ DE ALD ++Q Q Sbjct: 149 QQLLRAGLDPALR---DRYPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQ 205 Query: 198 ILLLLRELQRELGLSIIFVTHDIGAAVEVADRIAVMYAGRIVEQGPAAQLLSQPRHPYTM 257 IL L +L+ ELGL+ +F++HD+G V+DR+ +MY GR+VE P A+L QP HPYT Sbjct: 206 ILNLFMDLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQ 265 Query: 258 SLLQSRSHGALQKGQRLPTIAGAPPDLARLPAGCAFAERCAHAQAACQSQQPPEQRLDAQ 317 +LL +K + I G P P GC F RC HA C+ +QP + + Sbjct: 266 ALLAEVPRMGARK-KEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLREIAPG 324 Query: 318 HTVRC 322 H C Sbjct: 325 HMSAC 329 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 0.134 0.375 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: 895,083 Number of extensions: 33261 Number of successful extensions: 537 Number of sequences better than 1.0e-08: 126 Number of HSP's gapped: 356 Number of HSP's successfully gapped: 140 Length of query: 333 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 247 Effective length of database: 1,212,660 Effective search space: 299527020 Effective search space used: 299527020 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)