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= 0029.0044.p (341 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbasp... 269 3e-73 gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter AT... 243 2e-65 gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter AT... 239 2e-64 gi|300310466|ref|YP_003774558.1| dipeptide/oligopeptide/nickel A... 211 9e-56 gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel A... 199 4e-52 >gi|300311168|ref|YP_003775260.1| ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 617 Score = 269 bits (687), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 136/279 (48%), Positives = 197/279 (70%), Gaps = 9/279 (3%) Query: 5 PLLQVSGLKKHFAAGK----RGAAPVKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVL 60 P+L+V L F R V AV+ VSF + G+TL +VGESGCGKSTTGRS+L Sbjct: 311 PILKVRDLTTRFDVKSGIFGRVRQRVHAVEKVSFDLYAGETLAIVGESGCGKSTTGRSLL 370 Query: 61 RLIEPTAGSVNFMGEEISKLSSSALRAMRRNMQMVFQDPFASLNPRMTIGEVLEEPLIVH 120 RL++ G V F G ++++L S LR +RR++Q +FQDPFASL+PRMT+G + EP++VH Sbjct: 371 RLVDIAGGKVEFGGRDLAQLPRSELRQLRRDIQFIFQDPFASLDPRMTVGYSIMEPMLVH 430 Query: 121 GLFDRATRKRKVAEILDVVGLSQAYASRHPHEFSGGQRQRVGIARAIITRPKLVVADEAV 180 G+ + A + +V +L VGL+ + R+PHEFSGGQRQR+ IARA+ PK+V+ADE+V Sbjct: 431 GMKEGA--QERVDALLTRVGLTPEHGQRYPHEFSGGQRQRICIARALALNPKIVIADESV 488 Query: 181 SALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGRMVEYGSCESV 240 SALDVSIQAQI+NL+ +LQ E ++++F+SHD+AV+ +S + VMYLG++VE G ++ Sbjct: 489 SALDVSIQAQIVNLMLDLQAELGISFIFISHDMAVVERISHRVAVMYLGQIVEIGPRRAI 548 Query: 241 YGAPRHPYTQALLSAIPREHPDQVRQ--RIVLQGGIPNP 277 + P+HPYT+ L++A+P P +RQ + +L IP+P Sbjct: 549 FENPQHPYTRKLMAAVPVADPT-LRQPGKKLLTDEIPSP 586 Score = 196 bits (499), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 106/266 (39%), Positives = 171/266 (64%), Gaps = 16/266 (6%) Query: 6 LLQVSGLKKHFAAGKRGAAPVKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVLRLIEP 65 +L V+ L F+ +R V AV D+SF +++G+TL +VGESG GKS + +++RLIE Sbjct: 7 VLDVNHLSVRFSTSER---TVDAVRDLSFHVDQGETLAIVGESGSGKSVSSLAIMRLIEH 63 Query: 66 -----TAGSVNFM---GE--EISKLSSSALRAMR-RNMQMVFQDPFASLNPRMTIGEVLE 114 +GS+ F+ G+ ++++ ++ +R++R + M+FQ+P SLNP T+GE + Sbjct: 64 GGGKIASGSMQFLRRSGQRLDLAQADNATMRSIRGAEIAMIFQEPMTSLNPVFTVGEQIA 123 Query: 115 EPLIVHGLFDRATRKRKVAEILDVVGLSQA--YASRHPHEFSGGQRQRVGIARAIITRPK 172 E + +H RA + + +L++V + +A RHPH+ SGG RQRV IA A+ +P Sbjct: 124 ESIRLHQGLGRAAAQAEALRMLEMVRIPEAKRVLGRHPHQLSGGMRQRVMIAMALSCKPS 183 Query: 173 LVVADEAVSALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGRMV 232 L++ADE +ALDV+IQAQIL L++ LQ+E + +F++HD+ V+ V+D + VM G V Sbjct: 184 LLIADEPTTALDVTIQAQILQLIRSLQQEMQMGVIFITHDMGVVAEVADRVVVMCRGEKV 243 Query: 233 EYGSCESVYGAPRHPYTQALLSAIPR 258 E + ++ AP HPYTQ+LL+A+PR Sbjct: 244 EENAVNPLFAAPAHPYTQSLLAAVPR 269 >gi|300310896|ref|YP_003774988.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 335 Score = 243 bits (619), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 129/293 (44%), Positives = 182/293 (62%), Gaps = 16/293 (5%) Query: 5 PLLQVSGLKKHFAAGKRGA--------------APVKAVDDVSFAIEEGKTLGLVGESGC 50 PL++ + + F ++G A A+D V + G+ +GLVGESGC Sbjct: 7 PLIETRAVSRRFGERRQGWLQRQLQARGWSRPPAITHALDKVDLKVLPGEVVGLVGESGC 66 Query: 51 GKSTTGRSVLRLIEPTAGSVNFMGEEISKLSSSALRAMRRNMQMVFQDPFASLNPRMTIG 110 GKST GR L++P+ G V G + + LSS R +QM+FQ+P+ASLNPR+ I Sbjct: 67 GKSTLGRVACGLLDPSDGQVLVNGRDRASLSSREEAEARLQVQMIFQNPYASLNPRLRID 126 Query: 111 EVLEEPLIVHGLFDRATRKRKVAEILDVVGLSQAYASRHPHEFSGGQRQRVGIARAIITR 170 +++ E V+G + V + L GL A R+PH+FSGGQRQR+GIARA+ + Sbjct: 127 QIVGEAAQVNGKVE-GDLDDYVCQQLLRAGLDPALRDRYPHQFSGGQRQRIGIARALAVQ 185 Query: 171 PKLVVADEAVSALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGR 230 P+++V DEAV+ALDVSIQAQILNL +L+ E LTYLF+SHDL V+ HVSD + +MYLGR Sbjct: 186 PQMLVCDEAVAALDVSIQAQILNLFMDLRAELGLTYLFISHDLGVVEHVSDRVVIMYLGR 245 Query: 231 MVEYGSCESVYGAPRHPYTQALLSAIPREHPDQVRQRIVLQGGIPNPASPPPG 283 +VE ++G P HPYTQALL+ +PR + ++ ++G IP+P +PP G Sbjct: 246 VVESAPVAELFGQPNHPYTQALLAEVPRMGARK-KEFTAIKGEIPSPLNPPTG 297 >gi|300312477|ref|YP_003776569.1| oligopeptide ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 280 Score = 239 bits (611), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 116/230 (50%), Positives = 168/230 (73%), Gaps = 3/230 (1%) Query: 26 VKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVLRLIEPTAGSVNFMGEEISKLSSSAL 85 +KAV+DVS + G+TLGLVGESGCGKST + +L L+ PT+G+V G+E+ + Sbjct: 38 LKAVNDVSLRLYRGETLGLVGESGCGKSTLAKMLLGLLPPTSGNVLINGQEVD---PTER 94 Query: 86 RAMRRNMQMVFQDPFASLNPRMTIGEVLEEPLIVHGLFDRATRKRKVAEILDVVGLSQAY 145 +A R++Q +FQDP++SLNPR T+ E++ PL +HG+ + A R R+V +ILD+VG+ + Sbjct: 95 KAHARHIQPIFQDPYSSLNPRKTVAEIVGLPLKLHGIGNAAERNRQVKDILDLVGMPERT 154 Query: 146 ASRHPHEFSGGQRQRVGIARAIITRPKLVVADEAVSALDVSIQAQILNLLQELQKEFALT 205 +++P++ SGGQRQRV IARA+I RP +++ DE SALDVS+QAQILNLL +L+ EF LT Sbjct: 155 HAQYPNQLSGGQRQRVAIARALILRPDILICDEPTSALDVSVQAQILNLLLDLKAEFGLT 214 Query: 206 YLFVSHDLAVIRHVSDSIGVMYLGRMVEYGSCESVYGAPRHPYTQALLSA 255 YLF+SHDL V+ H+ D + VM G +VE S E ++ P+H YT+ LL++ Sbjct: 215 YLFISHDLGVVEHLVDRVAVMNQGSIVELQSREQLFSEPQHLYTRMLLAS 264 >gi|300310466|ref|YP_003774558.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 645 Score = 211 bits (536), Expect = 9e-56, Method: Compositional matrix adjust. Identities = 111/256 (43%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 4 APLLQVSGLKKHFAAGKRGAAP-VKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVLRL 62 APLL++SGL + A R P V+ +DD++ I+ G T+G++GESG GK+T R+V + Sbjct: 306 APLLRISGLVAGYGAPDRLGLPGVRILDDINLTIQRGSTVGIIGESGSGKTTLARAVAGM 365 Query: 63 IEPTAGSVNFMGEEISKLSSSALRAMRRNMQMVFQDPFASLNPRMTIGEVLEEPL-IVHG 121 I P GS+ GE +S R R +Q+VFQ+ +LNP +IG +L PL HG Sbjct: 366 IAPARGSIQLDGETLSPTLEGRTREQFRRVQIVFQNADTALNPSHSIGRILNRPLSFYHG 425 Query: 122 LFDRATRKRKVAEILDVVGLSQAYASRHPHEFSGGQRQRVGIARAIITRPKLVVADEAVS 181 L A R R+ AE+LD+V L R P E SGGQ+QRV +ARA+ +P L++ DE S Sbjct: 426 LKGEAMR-RRTAELLDLVQLPATVIDRLPAELSGGQKQRVNLARALAAKPDLILCDEVTS 484 Query: 182 ALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGRMVEYGSCESVY 241 ALD + A IL LL EL++E ++Y+F+SHD++ +R + D I V+Y GRMV E++ Sbjct: 485 ALDTVVAAAILELLAELRRELQVSYMFISHDISTVRAICDDIVVLYAGRMVANRPREAMM 544 Query: 242 GAPRHPYTQALLSAIP 257 P HPY+ LLS++P Sbjct: 545 APPYHPYSHLLLSSVP 560 Score = 151 bits (382), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 109/311 (35%), Positives = 162/311 (52%), Gaps = 12/311 (3%) Query: 5 PLLQVSGLKKHFAAGKRGAAPVKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVLRL-- 62 PL++V GL+ + A K + V+ V +V+F + G+ L L+GESG GK+T S+L Sbjct: 27 PLVEVQGLRVN--ARKEDGSQVEIVKNVNFTVARGEVLALIGESGSGKTTIALSLLGYAR 84 Query: 63 --IEPTAGSVNFMGEEISKLSSSALRAMR-RNMQMVFQDPFASLNPRMTIGEVLEEPLIV 119 G V +I ++ AL AMR ++ + Q A+ NP T+ + + E + Sbjct: 85 AGCHIAGGQVRIGERQIDQMDEKALLAMRGHHVAYIAQSAAAAFNPARTLMDQVIESALQ 144 Query: 120 HGLFDRATRKRKVAEILDVVGLSQ--AYASRHPHEFSGGQRQRVGIARAIITRPKLVVAD 177 HG+ D+A+ RK E+ + L R+PH+ SGGQ QRV A A++T P+LV+ D Sbjct: 145 HGVMDKASAMRKAVELFRALALPNPDKIGERYPHQVSGGQLQRVMAAMALVTGPELVILD 204 Query: 178 EAVSALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGRMVEYGSC 237 E +ALDV+ Q ++L + + KE T ++VSHDLAV+ ++D I V+ G + E GS Sbjct: 205 EPTTALDVTTQIEVLRAFKNVVKELGTTAVYVSHDLAVVAQMADRIIVLRDGAVRETGST 264 Query: 238 ESVYGAPRHPYTQALLSAI-PREHPDQVRQRIVLQGGIPNPASPPPGGGGGFFAAETGGR 296 V AP YTQ LL+A P Q+R+ +L +P A P G A Sbjct: 265 SQVLHAPADSYTQCLLAAASPAARVVQLRE--ILPATLPAEARAPLLRISGLVAGYGAPD 322 Query: 297 RRSRIGARRLD 307 R G R LD Sbjct: 323 RLGLPGVRILD 333 >gi|300310895|ref|YP_003774987.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 199 bits (505), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 112/291 (38%), Positives = 175/291 (60%), Gaps = 19/291 (6%) Query: 3 SAPLLQVSGLKKHFAAGKRGAAPVKAVDDVSFAIEEGKTLGLVGESGCGKSTTGRSVLRL 62 SA L+V L+ HF G P AVDDVS ++ G+ LGLVGESG GKS TG S+L + Sbjct: 2 SALTLEVRNLRTHFFT-PEGVLP--AVDDVSLSVGRGRILGLVGESGSGKSVTGFSILGM 58 Query: 63 IEP----TAGSVNFMGEEISKLSSSALRAMRRN-MQMVFQDPFASLNPRMTIGEVLEEPL 117 ++ G + F G ++ ++ ++LR ++ N + M+FQDP +LNP + + + + + Sbjct: 59 VDAPGRIVGGEILFQGRDLVRMDKTSLRELQGNRIAMIFQDPMMTLNPVLKVEAQMVDAV 118 Query: 118 IVHGLFDRATRKRKVAEILDVVGLS------QAYASRHPHEFSGGQRQRVGIARAIITRP 171 + H R + + L ++G++ QAY PH+ SGG RQRV IA A++ +P Sbjct: 119 LAHSKVSRQQARELARDTLGMMGIASPEERLQAY----PHQLSGGMRQRVAIAIAMLHKP 174 Query: 172 KLVVADEAVSALDVSIQAQILNLLQELQKEFALTYLFVSHDLAVIRHVSDSIGVMYLGRM 231 L++ADE +ALDV+IQAQIL+ +Q+L ++ ++++HDL+V+ ++D + VMY GR+ Sbjct: 175 DLIIADEPTTALDVTIQAQILSEVQKLARQHGTALIWITHDLSVVAGLADEVAVMYAGRI 234 Query: 232 VEYGSCESVYGAPRHPYTQALLSAIPREHPDQVRQRIVLQGGIPNPASPPP 282 VE GS ++V AP HPYTQ L+ ++P + R R + G PN PP Sbjct: 235 VEQGSVDAVLDAPLHPYTQGLIGSLPSNNRRGARLRQI-PGMTPNLLHLPP 284 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 0.320 0.136 0.393 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: 961,846 Number of extensions: 35696 Number of successful extensions: 465 Number of sequences better than 1.0e-08: 125 Number of HSP's gapped: 330 Number of HSP's successfully gapped: 134 Length of query: 341 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 255 Effective length of database: 1,212,660 Effective search space: 309228300 Effective search space used: 309228300 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 (21.8 bits) S2: 131 (55.1 bits)