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= 0034.0041.p (336 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... 560 e-161 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 267 8e-73 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 243 1e-65 gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPa... 234 7e-63 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 189 2e-49 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 560 bits (1443), Expect = e-161, Method: Compositional matrix adjust. Identities = 269/326 (82%), Positives = 295/326 (90%) Query: 1 MSVLLDVKNLRVDLPTENGMLHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLLPR 60 MSVLLDVKNL+VDLPTENGMLHAVRGIDFQV+RGEMLCLVGESGCGKSMTSLALMGLLPR Sbjct: 1 MSVLLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPR 60 Query: 61 KAVGTADRMTFDGVELLGLPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAMLEK 120 KA +AD + FDGV+L G+P+K+L QLRG+RM+MIFQEPMTSLNPSYTLGNQLCEAML++ Sbjct: 61 KAQCSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQ 120 Query: 121 PGVTRAEARDRAIYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLIIADE 180 PGV+RAEAR+RA+YLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAM+LMC PDLIIADE Sbjct: 121 PGVSRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADE 180 Query: 181 PTTALDVTIQAQILRMIRELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETADVG 240 PTTALDVTIQAQILRMIRELQ+EFG AV+FITHDLGVVSRIADRVAVMYAGQVVET DV Sbjct: 181 PTTALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVA 240 Query: 241 QLFASPRHPYTRGLLDCIPVRGKTLPGSKLQAIPGVVPSLVGNIGGCVFRNRCSLADATC 300 QLFA PRHPYT+GLL+CIPVRGKTLPGS LQAIPGVVPSLVG + GC FRNRC+ AD+ C Sbjct: 241 QLFAQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGC 300 Query: 301 EQDPPMLNTAGGDKTHHVRCHKVTAA 326 E+DP M+ H RC K+ A Sbjct: 301 ERDPQMVQQGSVTAPHQARCLKLDVA 326 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 267 bits (683), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 148/327 (45%), Positives = 211/327 (64%), Gaps = 10/327 (3%) Query: 1 MSVL-LDVKNLRVDLPTENGMLHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLL- 58 MS L L+V+NLR T G+L AV + V RG +L LVGESG GKS+T +++G++ Sbjct: 1 MSALTLEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVD 60 Query: 59 -PRKAVGTADRMTFDGVELLGLPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAM 117 P + VG + F G +L+ + + L +L+G R++MIFQ+PM +LNP + Q+ +A+ Sbjct: 61 APGRIVG--GEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 Query: 118 LEKPGVTRAEARDRAIYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLII 177 L V+R +AR+ A L GI++ E+RL+ YPHQLSGG+RQRV IA+A++ PDLII Sbjct: 119 LAHSKVSRQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLII 178 Query: 178 ADEPTTALDVTIQAQILRMIRELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETA 237 ADEPTTALDVTIQAQIL +++L R+ GTA+++ITHDL VV+ +AD VAVMYAG++VE Sbjct: 179 ADEPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQG 238 Query: 238 DVGQLFASPRHPYTRGLLDCIPVRGKTLPGSKLQAIPGVVPSLVGNIGGCVFRNRCSLAD 297 V + +P HPYT+GL+ +P + G++L+ IPG+ P+L+ C F RC Sbjct: 239 SVDAVLDAPLHPYTQGLIGSLPSNNRR--GARLRQIPGMTPNLLHLPPTCAFAARCERLS 296 Query: 298 ATCEQDPPMLNTAGGDKTHHVRCHKVT 324 C P + H VRC+ T Sbjct: 297 QQCLVAPAISEPL---PAHRVRCYHPT 320 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 243 bits (620), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 131/262 (50%), Positives = 175/262 (66%), Gaps = 6/262 (2%) Query: 4 LLDVKNLRVDLPTENGMLHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLLP---- 59 +LDV +L V T + AVR + F V +GE L +VGESG GKS++SLA+M L+ Sbjct: 7 VLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGG 66 Query: 60 RKAVGTADRMTFDG--VELLGLPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAM 117 + A G+ + G ++L + +RG ++MIFQEPMTSLNP +T+G Q+ E++ Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 118 LEKPGVTRAEARDRAIYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLII 177 G+ RA A+ A+ +L I A+ L ++PHQLSGG+RQRVMIAMAL C P L+I Sbjct: 127 RLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLI 186 Query: 178 ADEPTTALDVTIQAQILRMIRELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETA 237 ADEPTTALDVTIQAQIL++IR LQ+E V+FITHD+GVV+ +ADRV VM G+ VE Sbjct: 187 ADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEEN 246 Query: 238 DVGQLFASPRHPYTRGLLDCIP 259 V LFA+P HPYT+ LL +P Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVP 268 Score = 201 bits (512), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 118/291 (40%), Positives = 172/291 (59%), Gaps = 20/291 (6%) Query: 4 LLDVKNLRVDLPTENGML-------HAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMG 56 +L V++L ++G+ HAV + F + GE L +VGESGCGKS T +L+ Sbjct: 312 ILKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLLR 371 Query: 57 LLPRKAVGTADRMTFDGVELLGLPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEA 116 L+ ++ F G +L LP +L QLR + + IFQ+P SL+P T+G + E Sbjct: 372 LVDI----AGGKVEFGGRDLAQLPRSELRQLR-RDIQFIFQDPFASLDPRMTVGYSIMEP 426 Query: 117 MLEKPGVTRAEARDRAIYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLI 176 ML + A++R LL R G++ + +YPH+ SGG RQR+ IA AL P ++ Sbjct: 427 MLVHG--MKEGAQERVDALLTRVGLTPEHGQ--RYPHEFSGGQRQRICIARALALNPKIV 482 Query: 177 IADEPTTALDVTIQAQILRMIRELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVET 236 IADE +ALDV+IQAQI+ ++ +LQ E G + +FI+HD+ VV RI+ RVAVMY GQ+VE Sbjct: 483 IADESVSALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEI 542 Query: 237 ADVGQLFASPRHPYTRGLLDCIPVRGKTL--PGSKLQAIPGVVPSLVGNIG 285 +F +P+HPYTR L+ +PV TL PG KL + +PS + +G Sbjct: 543 GPRRAIFENPQHPYTRKLMAAVPVADPTLRQPGKKL--LTDEIPSPIRRVG 591 >gi|300312716|ref|YP_003776808.1| ABC transporter duplicated ATPase [Herbaspirillum seropedicae SmR1] Length = 529 Score = 234 bits (597), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 127/261 (48%), Positives = 169/261 (64%), Gaps = 6/261 (2%) Query: 2 SVLLDVKNLRVDLPTENGMLHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLLPRK 61 + LL+V NL V G V + F + GE LVGESG GK+++SLA+M L + Sbjct: 3 AALLEVNNLTVRF----GDTVVVDRVSFAIAPGEKFALVGESGSGKTVSSLAVMQL--NQ 56 Query: 62 AVGTADRMTFDGVELLGLPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAMLEKP 121 + DG ++L E+++ Q+RG ++MIFQEPMT+LNP +T+GNQ+ E ++ Sbjct: 57 DARYEGSILLDGQDVLAKSERQMQQVRGNDVAMIFQEPMTALNPLFTIGNQIAEVLMHHE 116 Query: 122 GVTRAEARDRAIYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLIIADEP 181 G+ +A RA+ LL +TGI R YPH+LSGG RQR MIAMAL C P L+IADEP Sbjct: 117 GLNARDAARRAVALLEKTGIPEPARRALSYPHELSGGQRQRAMIAMALACKPKLLIADEP 176 Query: 182 TTALDVTIQAQILRMIRELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETADVGQ 241 TTALDVTIQ QIL ++ +LQRE AV+ I+HDL +V ADRV VM G++VE+A V + Sbjct: 177 TTALDVTIQVQILALLNQLQREENMAVLIISHDLNLVRHFADRVGVMEKGKLVESASVAE 236 Query: 242 LFASPRHPYTRGLLDCIPVRG 262 LFA+P+ PYTR LL P R Sbjct: 237 LFANPQQPYTRKLLQSRPQRN 257 Score = 177 bits (450), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 104/236 (44%), Positives = 147/236 (62%), Gaps = 7/236 (2%) Query: 21 LHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLLPRKAVGTADRMTFDGVELLGLP 80 HAV G+D Q++RGE L +VGESG GKS +AL+ L A A + FDGV + P Sbjct: 290 FHAVDGVDLQLRRGETLGIVGESGSGKSTLGMALLRL---SAASVAGSIRFDGVPISERP 346 Query: 81 EKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAM-LEKPGVTRAEARDRAIYLLHRT 139 +++L LR RM ++FQ+P SL+P T+ + E + L P + + R + L Sbjct: 347 QRELRPLRS-RMQVVFQDPFASLSPRRTVEQIVGEGLELHHPDRSAEQQRQAIVAALEEV 405 Query: 140 GISNAEDRLRQYPHQLSGGLRQRVMIAMALMCGPDLIIADEPTTALDVTIQAQILRMIRE 199 G+S A L +YPH+ SGG RQR+ IA AL+ P+L++ DEPT+ALDVT+Q Q+L+++ E Sbjct: 406 GLSAAV--LERYPHEFSGGQRQRIAIARALVLQPELLLLDEPTSALDVTVQQQVLQLLAE 463 Query: 200 LQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETADVGQLFASPRHPYTRGLL 255 LQR G A +FITHDL VV +A +V VM G+VVE+ Q+ P+ YTR L+ Sbjct: 464 LQRRHGLAYLFITHDLAVVQAMAHQVIVMKDGKVVESGATAQVLQQPQQEYTRRLV 519 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 189 bits (481), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 119/304 (39%), Positives = 163/304 (53%), Gaps = 14/304 (4%) Query: 19 GMLHAVRGIDFQVKRGEMLCLVGESGCGKSMTSLALMGLLPRKAVGTADRMTFDGVELLG 78 + HA+ +D +V GE++ LVGESGCGKS GLL + ++ +G + Sbjct: 40 AITHALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLD----PSDGQVLVNGRDRAS 95 Query: 79 LPEKKLNQLRGQRMSMIFQEPMTSLNPSYTLGNQLCEAMLEKPGVTRAEARDRAIYLLHR 138 L ++ + R Q + MIFQ P SLNP + + EA + G + D L R Sbjct: 96 LSSREEAEARLQ-VQMIFQNPYASLNPRLRIDQIVGEAA-QVNGKVEGDLDDYVCQQLLR 153 Query: 139 TGISNA-EDRLRQYPHQLSGGLRQRVMIAMALMCGPDLIIADEPTTALDVTIQAQILRMI 197 G+ A DR YPHQ SGG RQR+ IA AL P +++ DE ALDV+IQAQIL + Sbjct: 154 AGLDPALRDR---YPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQILNLF 210 Query: 198 RELQREFGTAVVFITHDLGVVSRIADRVAVMYAGQVVETADVGQLFASPRHPYTRGLLDC 257 +L+ E G +FI+HDLGVV ++DRV +MY G+VVE+A V +LF P HPYT+ LL Sbjct: 211 MDLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQALLAE 270 Query: 258 IPVRGKTLPGSKLQAIPGVVPSLVGNIGGCVFRNRCSLADATCEQDPPMLNTAGGDKTHH 317 +P G + AI G +PS + GC F RC A C ++ P+L H Sbjct: 271 VPRMGAR--KKEFTAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLREIA--PGHM 326 Query: 318 VRCH 321 CH Sbjct: 327 SACH 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 0.137 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: 1,029,675 Number of extensions: 42629 Number of successful extensions: 474 Number of sequences better than 1.0e-08: 114 Number of HSP's gapped: 351 Number of HSP's successfully gapped: 121 Length of query: 336 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 250 Effective length of database: 1,212,660 Effective search space: 303165000 Effective search space used: 303165000 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)