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= 0001.1707.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 298 6e-82 gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 279 2e-76 gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter AT... 242 3e-65 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 209 2e-55 gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel A... 206 3e-54 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 298 bits (762), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 147/291 (50%), Positives = 198/291 (68%), Gaps = 2/291 (0%) Query: 26 AVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVLRLIEPSEGSVRFMGQELTLLPESQLRA 85 A+D V + G+ +GLVGESGCGKST GR L++PS+G V G++ L + Sbjct: 44 ALDKVDLKVLPGEVVGLVGESGCGKSTLGRVACGLLDPSDGQVLVNGRDRASLSSREEAE 103 Query: 86 MRRHMQMVFQDPYASLNPRMTIGEVLEEPLIVHKLHDRATRKRKVAEALEMVGLNPAYAA 145 R +QM+FQ+PYASLNPR+ I +++ E V+ + V + L GL+PA Sbjct: 104 ARLQVQMIFQNPYASLNPRLRIDQIVGEAAQVNGKVE-GDLDDYVCQQLLRAGLDPALRD 162 Query: 146 RHPHEFSGGQRQRVGIARAIITRPKLVVADEAVSALDVSIQAQILNLLRELQQELGLTYL 205 R+PH+FSGGQRQR+GIARA+ +P+++V DEAV+ALDVSIQAQILNL +L+ ELGLTYL Sbjct: 163 RYPHQFSGGQRQRIGIARALAVQPQMLVCDEAVAALDVSIQAQILNLFMDLRAELGLTYL 222 Query: 206 FVSHDLAVIRHVSDHIGVMYLGRMVELGTCEEVYSNPRHPYTQALLSAIPREHPRQKRER 265 F+SHDL V+ HVSD + +MYLGR+VE E++ P HPYTQALL+ +PR R K+E Sbjct: 223 FISHDLGVVEHVSDRVVIMYLGRVVESAPVAELFGQPNHPYTQALLAEVPRMGAR-KKEF 281 Query: 266 IVLQGSIPNPAAPPTGCHFHPRCPSCMEICKTEAPPAIKISPTHTVACHLS 316 ++G IP+P PPTGCHF+PRCP + C+ E P +I+P H ACHL+ Sbjct: 282 TAIKGEIPSPLNPPTGCHFNPRCPHATQRCREEQPLLREIAPGHMSACHLN 332 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 279 bits (714), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 139/279 (49%), Positives = 197/279 (70%), Gaps = 12/279 (4%) Query: 6 PLLDVHGLKKHFAAGGST-------VKAVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVL 58 P+L V L F V AV+ VSF + G+TL +VGESGCGKSTTGRS+L Sbjct: 311 PILKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLL 370 Query: 59 RLIEPSEGSVRFMGQELTLLPESQLRAMRRHMQMVFQDPYASLNPRMTIGEVLEEPLIVH 118 RL++ + G V F G++L LP S+LR +RR +Q +FQDP+ASL+PRMT+G + EP++VH Sbjct: 371 RLVDIAGGKVEFGGRDLAQLPRSELRQLRRDIQFIFQDPFASLDPRMTVGYSIMEPMLVH 430 Query: 119 KLHDRATRKRKVAEALEMVGLNPAYAARHPHEFSGGQRQRVGIARAIITRPKLVVADEAV 178 + + A + +V L VGL P + R+PHEFSGGQRQR+ IARA+ PK+V+ADE+V Sbjct: 431 GMKEGA--QERVDALLTRVGLTPEHGQRYPHEFSGGQRQRICIARALALNPKIVIADESV 488 Query: 179 SALDVSIQAQILNLLRELQQELGLTYLFVSHDLAVIRHVSDHIGVMYLGRMVELGTCEEV 238 SALDVSIQAQI+NL+ +LQ ELG++++F+SHD+AV+ +S + VMYLG++VE+G + Sbjct: 489 SALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEIGPRRAI 548 Query: 239 YSNPRHPYTQALLSAIPREHP--RQKRERIVLQGSIPNP 275 + NP+HPYT+ L++A+P P RQ +++ L IP+P Sbjct: 549 FENPQHPYTRKLMAAVPVADPTLRQPGKKL-LTDEIPSP 586 Score = 204 bits (519), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 114/263 (43%), Positives = 167/263 (63%), Gaps = 13/263 (4%) Query: 7 LLDVHGLKKHFAAGGSTVKAVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVLRLIE---- 62 +LDV+ L F+ TV AV D+SF + QG+TL +VGESG GKS + +++RLIE Sbjct: 7 VLDVNHLSVRFSTSERTVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEHGGG 66 Query: 63 -PSEGSVRFM---GQELTLL--PESQLRAMR-RHMQMVFQDPYASLNPRMTIGEVLEEPL 115 + GS++F+ GQ L L + +R++R + M+FQ+P SLNP T+GE + E + Sbjct: 67 KIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIAESI 126 Query: 116 IVHKLHDRATRKRKVAEALEMVGLNPA--YAARHPHEFSGGQRQRVGIARAIITRPKLVV 173 +H+ RA + + LEMV + A RHPH+ SGG RQRV IA A+ +P L++ Sbjct: 127 RLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPSLLI 186 Query: 174 ADEAVSALDVSIQAQILNLLRELQQELGLTYLFVSHDLAVIRHVSDHIGVMYLGRMVELG 233 ADE +ALDV+IQAQIL L+R LQQE+ + +F++HD+ V+ V+D + VM G VE Sbjct: 187 ADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKVEEN 246 Query: 234 TCEEVYSNPRHPYTQALLSAIPR 256 +++ P HPYTQ+LL+A+PR Sbjct: 247 AVNPLFAAPAHPYTQSLLAAVPR 269 >gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 280 Score = 242 bits (617), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 121/247 (48%), Positives = 175/247 (70%), Gaps = 3/247 (1%) Query: 7 LLDVHGLKKHFAAGGSTVKAVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVLRLIEPSEG 66 L V+ LK+ +KAV+DVS + +G+TLGLVGESGCGKST + +L L+ P+ G Sbjct: 21 LTKVYPLKRGLFQPPGQLKAVNDVSLRLYRGETLGLVGESGCGKSTLAKMLLGLLPPTSG 80 Query: 67 SVRFMGQELTLLPESQLRAMRRHMQMVFQDPYASLNPRMTIGEVLEEPLIVHKLHDRATR 126 +V GQE+ ++ +A RH+Q +FQDPY+SLNPR T+ E++ PL +H + + A R Sbjct: 81 NVLINGQEVD---PTERKAHARHIQPIFQDPYSSLNPRKTVAEIVGLPLKLHGIGNAAER 137 Query: 127 KRKVAEALEMVGLNPAYAARHPHEFSGGQRQRVGIARAIITRPKLVVADEAVSALDVSIQ 186 R+V + L++VG+ A++P++ SGGQRQRV IARA+I RP +++ DE SALDVS+Q Sbjct: 138 NRQVKDILDLVGMPERTHAQYPNQLSGGQRQRVAIARALILRPDILICDEPTSALDVSVQ 197 Query: 187 AQILNLLRELQQELGLTYLFVSHDLAVIRHVSDHIGVMYLGRMVELGTCEEVYSNPRHPY 246 AQILNLL +L+ E GLTYLF+SHDL V+ H+ D + VM G +VEL + E+++S P+H Y Sbjct: 198 AQILNLLLDLKAEFGLTYLFISHDLGVVEHLVDRVAVMNQGSIVELQSREQLFSEPQHLY 257 Query: 247 TQALLSA 253 T+ LL++ Sbjct: 258 TRMLLAS 264 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 209 bits (533), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 117/314 (37%), Positives = 185/314 (58%), Gaps = 9/314 (2%) Query: 8 LDVHGLKKHFAAGGSTVKAVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVLRLIEP---- 63 L+V L+ HF + AVDDVS S+ +G+ LGLVGESG GKS TG S+L +++ Sbjct: 6 LEVRNLRTHFFTPEGVLPAVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGMVDAPGRI 65 Query: 64 SEGSVRFMGQELTLLPESQLRAMR-RHMQMVFQDPYASLNPRMTIGEVLEEPLIVHKLHD 122 G + F G++L + ++ LR ++ + M+FQDP +LNP + + + + ++ H Sbjct: 66 VGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAVLAHSKVS 125 Query: 123 RATRKRKVAEALEMVGL-NPAYAAR-HPHEFSGGQRQRVGIARAIITRPKLVVADEAVSA 180 R + + L M+G+ +P + +PH+ SGG RQRV IA A++ +P L++ADE +A Sbjct: 126 RQQARELARDTLGMMGIASPEERLQAYPHQLSGGMRQRVAIAIAMLHKPDLIIADEPTTA 185 Query: 181 LDVSIQAQILNLLRELQQELGLTYLFVSHDLAVIRHVSDHIGVMYLGRMVELGTCEEVYS 240 LDV+IQAQIL+ +++L ++ G ++++HDL+V+ ++D + VMY GR+VE G+ + V Sbjct: 186 LDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRIVEQGSVDAVLD 245 Query: 241 NPRHPYTQALLSAIPREHPRQKRERIVLQGSIPNPAAPPTGCHFHPRCPSCMEICKTEAP 300 P HPYTQ L+ ++P + R R R + G PN P C F RC + C AP Sbjct: 246 APLHPYTQGLIGSLPSNNRRGARLRQI-PGMTPNLLHLPPTCAFAARCERLSQQCLV-AP 303 Query: 301 PAIKISPTHTVACH 314 + P H V C+ Sbjct: 304 AISEPLPAHRVRCY 317 >gi|300312478|ref|YP_003776570.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 334 Score = 206 bits (523), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 114/300 (38%), Positives = 171/300 (57%), Gaps = 8/300 (2%) Query: 7 LLDVHGLKKHFAAGGSTVKAVDDVSFSIAQGQTLGLVGESGCGKSTTGRSVLRLI----E 62 LLDV LK + AV + F + +G+ L LVGESGCGKS T +++ L+ + Sbjct: 4 LLDVKNLKVDLPTENGMLHAVRGIDFQVRRGEMLCLVGESGCGKSMTSLALMGLLPRKAQ 63 Query: 63 PSEGSVRFMGQELTLLPESQLRAMR-RHMQMVFQDPYASLNPRMTIGEVLEEPLIVHKLH 121 S + F G +L +P+ QL +R + M M+FQ+P SLNP T+G L E ++ Sbjct: 64 CSADHILFDGVDLHGMPDKQLMQLRGKRMAMIFQEPMTSLNPSYTLGNQLCEAMLQQPGV 123 Query: 122 DRATRKRKVAEALEMVGLNPAYAA--RHPHEFSGGQRQRVGIARAIITRPKLVVADEAVS 179 RA + + L G++ A ++PH+ SGG RQRV IA +++ P L++ADE + Sbjct: 124 SRAEARERALYLLHRTGISNAEDRLRQYPHQLSGGLRQRVMIAMSLMCNPDLIIADEPTT 183 Query: 180 ALDVSIQAQILNLLRELQQELGLTYLFVSHDLAVIRHVSDHIGVMYLGRMVELGTCEEVY 239 ALDV+IQAQIL ++RELQQE G +F++HDL V+ ++D + VMY G++VE +++ Sbjct: 184 ALDVTIQAQILRMIRELQQEFGAAVIFITHDLGVVSRIADRVAVMYAGQVVETTDVAQLF 243 Query: 240 SNPRHPYTQALLSAIP-REHPRQKRERIVLQGSIPNPAAPPTGCHFHPRCPSCMEICKTE 298 + PRHPYTQ LL+ IP R + G +P+ +GC F RC C+ + Sbjct: 244 AQPRHPYTQGLLNCIPVRGKTLPGSHLQAIPGVVPSLVGQVSGCAFRNRCAKADSGCERD 303 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 0.135 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: 1,052,233 Number of extensions: 43883 Number of successful extensions: 480 Number of sequences better than 1.0e-08: 122 Number of HSP's gapped: 344 Number of HSP's successfully gapped: 134 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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)