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= 0042.0002.p (630 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_391842.1| similar to ABC transporter (permease) [Bacillus... 265 3e-69 ref|NP_832303.1| ABC transporter permease protein [Bacillus cere... 243 1e-62 ref|NP_978928.1| permease, putative domain protein [Bacillus cer... 218 3e-55 dbj|BAA03303.1| hypothetical protein [Bacillus subtilis] 204 4e-51 ref|NP_348146.1| Predicted permease [Clostridium acetobutylicum]... 191 5e-47 >ref|NP_391842.1| similar to ABC transporter (permease) [Bacillus subtilis] sp|P42424|YXDM_BACSU Hypothetical protein yxdM pir||B70074 ABC transporter (permease) homolog yxdM - Bacillus subtilis dbj|BAA08316.1| yxdM [Bacillus subtilis] emb|CAB15999.1| yxdM [Bacillus subtilis subsp. subtilis str. 168] Length = 622 Score = 265 bits (676), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 196/639 (30%), Positives = 330/639 (51%), Gaps = 47/639 (7%) Query: 1 MAFFLSSAFMVMIFFSYSVFMYHPGVTSIEMGENSAAGMMIASYIVFIFAFFFVMYSISA 60 +AFFLSSAF V+IFF++++F++HP + + + G+ A +++F+F+F FV+YS++A Sbjct: 19 LAFFLSSAFSVLIFFTFAMFLFHPALKEGYLNNIAKKGLTAAEWMIFVFSFLFVLYSVNA 78 Query: 61 FLKLRNQEFGILMILGARPGQINRLIMLENMLIGLLSIVTGMAAGMXXXXXXXXXXTKAI 120 FLK RN+EFGIL++ G PGQ+ +LI ENM+IG++SI G+ G + Sbjct: 79 FLKSRNKEFGILLMQGITPGQLRKLITAENMIIGVMSIAAGIIGGFIFSKTFFTVGAIIL 138 Query: 121 GIDNLPFYWPVKALVTTSVAFIALFLANSVFTLLFIRKNQVLELLKGSVKPKKEPKVSWX 180 +D LP Y P KAL T+ F+ LF S FT+LF+R N V++L+KG+ K K EPK S Sbjct: 139 EMDALPLYMPWKALRITACGFLLLFFFLSQFTILFVRSNTVIKLIKGTGKVKPEPKPS-- 196 Query: 181 XXXXXXXXXXXXXCFIWTXXXXXXXXXAA-----VTGIPGTYFFYSQLSVLGMRLLKISR 235 C + A + + GTYFF+SQ S+ +R LK + Sbjct: 197 --VLLSLFGIACLCGGYGMVLKGNVHGAEPFIILLLTVIGTYFFFSQSSIWILRALKKWK 254 Query: 236 KRVWRGTNLLWISEMSYKIKDNARMLFLVTVVTSLACMAAGFLLSVSQSNRTGYMNSPFG 295 RG N++W+S++ Y++KDNAR+ F+V++++++A A G +L++ +S G S + Sbjct: 255 TFYLRGKNIIWVSDLVYRLKDNARLFFIVSIISAVAFTATG-VLAMYKST-VGAEESAYE 312 Query: 296 IIYTIYDRGAAAADTGRQKILSTLEQNGIKYTENKVNFIRSSIKDQR-DKFKSVMLLPLS 354 + Y Y T + I L+ +G YT++K++ S ++ Q + V ++ S Sbjct: 313 MEYLSYSNN-PKEQTHLKDIDHELKTHGFTYTKDKIDV--SYVRYQEGETVPPVYMISES 369 Query: 355 RFNQLAGQIESNALPALTDGEAVLVLNPRYRDVKFDSGQTVSL----PAPNEQKLALKQV 410 A + + L + EAV R+ K ++ + L ++QKL++K+V Sbjct: 370 D----AAKYFHVKVNGLKEDEAVYFPGTYDRNFKNEAPDQLKLLNQKGELSDQKLSVKEV 425 Query: 411 QTPKAMPFGQYTAPVLIVSDGYYEQAAAAADRSNLMEYYLYNIPDWGDAPPKAGEPKTLI 470 Q P ++ V+D ++Q + D+++L Y Y+ W D+ I Sbjct: 426 QKPLIS-----LNAIIAVNDQTFDQLKSLGDKASL---YGYSYDHWKDSLE--------I 469 Query: 471 SSEL--ETWSRNWNSANDNWDTLISTSAGDYMASKQGTSMXXXXXXXXXXXXXXXXXXXX 528 S L E + + +D ++ AG Y + Q S+ Sbjct: 470 SQSLQNEIYGNYIDVHSD-----FASKAGTYYDTVQLPSLSLFIGLFIGNCILCRGTSFS 524 Query: 529 YFKLHTELNADMKMYHSLSKIGLSVRKMSPAATRQIALLFYIPILVAAVQTLVVIRPVLY 588 YF+L T+L+ D + Y SL+KIGLS R+M+ + T Q+A+LF+ P ++A + TL +R + Sbjct: 525 YFRLFTDLDEDRERYRSLAKIGLSEREMAQSVTIQLAILFFFPFVIAVMHTLFALRTLAV 584 Query: 589 QISIRNVTMPVLVTAAAFLAVQTVYFIIVRSRYIHSLKK 627 + +V P+ +T F Q ++F+ VRS Y+ + K Sbjct: 585 E-GYSDVAGPLSLTIGGFFIFQLLFFLAVRSSYLKKMNK 622 >ref|NP_832303.1| ABC transporter permease protein [Bacillus cereus ATCC 14579] gb|AAP09504.1| ABC transporter permease protein [Bacillus cereus ATCC 14579] Length = 644 Score = 243 bits (620), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 181/650 (27%), Positives = 312/650 (48%), Gaps = 49/650 (7%) Query: 2 AFFLSSAFMVMIFFSYSVFMYHPGVTSIEMGENSAA-------GMMIASYIVFIFAFFFV 54 A FLSSAF +MIFF+Y++ ++HP + E+ SA G ++ ++F+F+FFF+ Sbjct: 20 AHFLSSAFSIMIFFTYALLLFHPDLQG-ELKSTSATISAFGTLGFSVSQGLIFVFSFFFI 78 Query: 55 MYSISAFLKLRNQEFGILMILGARPGQINRLIMLENMLIGLLSIVTGMAAGMXXXXXXXX 114 +YS+S+FLK R +EFG+LM+ G Q+ +L+++ENMLIGL SI G+ G+ Sbjct: 79 LYSVSSFLKTRKKEFGVLMMQGMSMRQLKKLLLIENMLIGLGSICIGIFIGLIFSKLVLL 138 Query: 115 XXTKAIGIDN-LPFYWPVKALVTTSVAFIALFLANSVFTLLFIRKNQVLELLKGSVKPKK 173 + I+N LPFY PV+A++ T + F+ LFL S+FT I+ +++EL++ KPK Sbjct: 139 ISASVLMINNGLPFYIPVRAVLLTVITFLFLFLIVSLFTFKMIKVTELVELIRAEEKPKP 198 Query: 174 EPKVSWXXXXXXXXXXXXXXCFIWT---XXXXXXXXXAAVTGIPGTYFFYSQLSVLGMRL 230 EPK S ++ + I GTYF Y+Q SV + L Sbjct: 199 EPKSSVLLSLLSLISIGYGYFSVFRFIPSTNFITLGIGVLLVIIGTYFLYTQCSVYILHL 258 Query: 231 LKISRKRVWRGTNLLWISEMSYKIKDNARMLFLVTVVTSLACMAAGFLLSVSQSNRTGYM 290 K + TN+L SE+ Y++KDNA M F+V++++++A A G ++ + M Sbjct: 259 AKRRETFFLKRTNILTFSELIYRMKDNATMFFIVSIISAVAFTAIGTTAALGNKDLVR-M 317 Query: 291 NSPFGIIYTIYDRGAAAADTGRQKILSTLEQNGIKYTENKVNFIRSSIKDQRDKFKSVML 350 +P+ ++Y + AD I + L I Y ++I + +V + Sbjct: 318 TNPYTLLY-MAPENNKIADKHLSIIKNHLADANIPYRMASSSYIYTE--------SNVYV 368 Query: 351 LPLSRFNQLAGQIESNALPALTDGEAVLVLNPRYRDVKFDSG---QTVSLPAPNEQK-LA 406 + LS +N+LA + + E +L+ + +F +G + + + + K Sbjct: 369 MKLSEYNELARALGYQQETIEKEDEMLLIPGMVSQKQEFKNGDYKKNIEVIQGDWTKTFH 428 Query: 407 LKQVQTPKAMPF---GQYTAPVLIVSDGYYEQAAAAADRSNLMEYYLYN--IPDWGDAPP 461 +K+ +P G Y A V DG + D ++++Y Y + DW Sbjct: 429 VKKTVDNLVLPHDTKGIYIAIQDHVYDGI--PLNSGPDNEDIIQYRTYGFVVDDWIKTKE 486 Query: 462 KAGEPKTLISSELETWSRNWNSANDNWDTLISTSAGDYMASKQGTSMXXXXXXXXXXXXX 521 + + + E + + + +++KQ + Sbjct: 487 VSNQLNNIFDQEPRDIHFEFRALTI-----------ELLSAKQTNGLLLMASVLVGIVFF 535 Query: 522 XXXXXXXYFKLHTELNADMKMYHSLSKIGLSVRKMSPAATRQIALLFYIPILVAAVQTLV 581 YF+L+T+LN D + Y +SK+GLS R++ TRQ+ L+F++PI+VA + T+V Sbjct: 536 TFAASFIYFRLYTDLNRDQQQYKMISKMGLSKRELKKVVTRQLLLMFFLPIVVAVIHTVV 595 Query: 582 VIRPV--LYQISIRNVTMPVLVTAAAFLAVQTVYFIIVRSRYIHSLKKMM 629 + L SI N ++ +L+ +F+ +Q +YF I R RY+ L K M Sbjct: 596 AYMALQQLVDFSILNSSIVILI---SFICIQVLYFFITRWRYLQKLHKTM 642 >ref|NP_978928.1| permease, putative domain protein [Bacillus cereus ATCC 10987] gb|AAS41536.1| permease, putative domain protein [Bacillus cereus ATCC 10987] Length = 643 Score = 218 bits (556), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 183/648 (28%), Positives = 309/648 (47%), Gaps = 46/648 (7%) Query: 2 AFFLSSAFMVMIFFSYSVFMYHPGV------TSIEMGENSAAGMMIASYIVFIFAFFFVM 55 A FLSSAF +MIFF+Y++ ++HP + TS + G I+ ++F+F+FFF++ Sbjct: 20 AHFLSSAFSIMIFFTYALLLFHPDLQGELKSTSKTISTFGTLGFQISQGLIFVFSFFFIL 79 Query: 56 YSISAFLKLRNQEFGILMILGARPGQINRLIMLENMLIGLLSIVTGMAAGMXXXXXXXXX 115 YS+S+FLK R +E GILM+ G Q+ +L+++ENMLIGL SI G+ G+ Sbjct: 80 YSVSSFLKTRKKEXGILMMQGMSMRQLKQLLLIENMLIGLGSICIGILIGLIFSKLVLLI 139 Query: 116 XTKAIGIDN-LPFYWPVKALVTTSVAFIALFLANSVFTLLFIRKNQVLELLKGSVKPKKE 174 + I N LPFY PV+A++ T F+ LFL S+ T ++ +++EL++ KPK E Sbjct: 140 SASVLMISNGLPFYIPVQAVLLTVFTFLVLFLIVSLVTFKTVKVTELVELIQAGEKPKPE 199 Query: 175 PKVSWXXXXXXXXXXXXXXCFIW---TXXXXXXXXXAAVTGIPGTYFFYSQLSVLGMRLL 231 PK S ++ + I GTYF Y+Q SV + L Sbjct: 200 PKASIILSLLSLISIGYGYISVFRFIQNHSFIMLVMGVLLVIIGTYFLYTQCSVYILHLA 259 Query: 232 KISRKRVWRGTNLLWISEMSYKIKDNARMLFLVTVVTSLACMAAGFLLSVSQSNRTGYMN 291 K S + TN+L SE+ Y++KDNA M F+V++++++A A G ++ M Sbjct: 260 KRSEFFFLKRTNILTFSELIYRMKDNATMFFIVSIISAVAFTAIGTTAAIGNKELVR-MT 318 Query: 292 SPFGIIYTIYDRGAAAADTGRQKILSTLEQNGIKYTENKVNFIRSSIKDQRDKFKSVMLL 351 +P+ +Y I D I L I Y R++ + +V ++ Sbjct: 319 NPYTFLY-IGPEKDKVVDKHLSIIKKHLADANIPY--------RTASSSYKYTESNVYVM 369 Query: 352 PLSRFNQLAGQIESNALPALTDGEAVLVLNPRYRDVKFDSGQTVSLPAPNE----QKLAL 407 LS +N+LA + + E +L+ + +F +G E + + Sbjct: 370 KLSEYNELARALGYQQETIEKEDEILLIPGMVSQKQEFKNGDYKKNIEVIEGDWIKTFRV 429 Query: 408 KQVQTPKAMPFGQYTAPVLI-VSDGYYEQAAAAADRSNLM---EYYLYNIPDWGDAPPKA 463 K+ +P T+ + I V D Y+ ++ +++ Y + + DW K Sbjct: 430 KKAVENLVLPHD--TSGIFIAVQDRVYDGIPFNINQDDVVIQHRTYGFVVDDW----IKT 483 Query: 464 GEPKTLISSELETWSRNWNSANDNWDTLISTSAGDYMASKQGTSMXXXXXXXXXXXXXXX 523 E IS++L + N ++ DN+ T + + +KQ + Sbjct: 484 KE----ISNQLNSIF-NADAREDNFHFQALTLS--LLEAKQTNGLLLMASVLVGIVFFTF 536 Query: 524 XXXXXYFKLHTELNADMKMYHSLSKIGLSVRKMSPAATRQIALLFYIPILVAAVQTLVVI 583 YF+L+T+L+ D + Y +SK+GLS R++ TRQ+ L+F++PI +A + T+V Sbjct: 537 AASFIYFRLYTDLDRDQQQYKMISKMGLSKRELKKVVTRQLLLMFFLPITIAVIHTVVAY 596 Query: 584 RPV--LYQISIRNVTMPVLVTAAAFLAVQTVYFIIVRSRYIHSLKKMM 629 + L SI N ++ +L+ +F+ +Q +YF I R RY+ L K M Sbjct: 597 MALQQLVDFSILNSSIVILI---SFICIQVLYFYITRWRYLQKLYKTM 641 >dbj|BAA03303.1| hypothetical protein [Bacillus subtilis] Length = 404 Score = 204 bits (520), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 121/337 (35%), Positives = 195/337 (57%), Gaps = 12/337 (3%) Query: 1 MAFFLSSAFMVMIFFSYSVFMYHPGVTSIEMGENSAAGMMIASYIVFIFAFFFVMYSISA 60 +AFFLSSAF V+IFF++++F++HP + + + G+ A +++F+F+F FV+YS++A Sbjct: 19 LAFFLSSAFSVLIFFTFAMFLFHPALKEGYLNNIAKKGLTAAEWMIFVFSFLFVLYSVNA 78 Query: 61 FLKLRNQEFGILMILGARPGQINRLIMLENMLIGLLSIVTGMAAGMXXXXXXXXXXTKAI 120 FLK RN+EFGIL++ G PGQ+ +LI ENM+IG++SI G+ G + Sbjct: 79 FLKSRNKEFGILLMQGITPGQLRKLITAENMIIGVMSIAAGIIGGFIFSKTFFTVGAIIL 138 Query: 121 GIDNLPFYWPVKALVTTSVAFIALFLANSVFTLLFIRKNQVLELLKGSVKPKKEPKVSWX 180 +D LP Y P KAL T+ F+ LF S FT+LF+R N V++L+KG+ K K EPK S Sbjct: 139 EMDALPLYMPWKALRITACGFLLLFFFLSQFTILFVRSNTVIKLIKGTGKVKPEPKPS-- 196 Query: 181 XXXXXXXXXXXXXCFIWTXXXXXXXXXAA-----VTGIPGTYFFYSQLSVLGMRLLKISR 235 C + A + + GTYFF+SQ S+ +R LK + Sbjct: 197 --VLLSLFGIACLCGGYGMVLKGNVHGAEPFIILLLTVIGTYFFFSQSSIWILRALKKWK 254 Query: 236 KRVWRGTNLLWISEMSYKIKDNARMLFLVTVVTSLACMAAGFLLSVSQSNRTGYMNSPFG 295 RG N++W+S++ Y++KDNAR+ F+V++++++A A G +L++ +S G S + Sbjct: 255 TFYLRGKNIIWVSDLVYRLKDNARLFFIVSIISAVAFTATG-VLAMYKST-VGAEESAYE 312 Query: 296 IIYTIYDRGAAAADTGRQKILSTLEQNGIKYTENKVN 332 + Y Y T + I L+ +G YT++K++ Sbjct: 313 MEYLSYSNN-PKEQTHLKDIDHELKTHGFTYTKDKID 348 >ref|NP_348146.1| Predicted permease [Clostridium acetobutylicum] pir||C97087 probable permease [imported] - Clostridium acetobutylicum gb|AAK79486.1| Predicted permease [Clostridium acetobutylicum] Length = 652 Score = 191 bits (485), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 160/649 (24%), Positives = 297/649 (45%), Gaps = 47/649 (7%) Query: 3 FFLSSAFMVMIFFSYSVFMYHPGVTSI----EMGENSAAGMMIASYIVFIFAFFFVMYSI 58 ++LS+AF+VM+FF ++ F+ +P V SI +MG + M ++ IF F YS Sbjct: 21 YYLSNAFVVMVFFIFANFILNPNVKSIKTMGQMGAVTTEIMYGCEIVILIFTLVFTNYST 80 Query: 59 SAFLKLRNQEFGILMILGARPGQINRLIMLENMLIGLLSIVTGMAAGMXXXXXXXXXXTK 118 S+FLK R +EFG+L + G +I R +M EN+++ +LSI+TG+ GM + Sbjct: 81 SSFLKSREKEFGLLSMFGLTKSEIRRYVMAENLIVAMLSILTGVLLGMLFSKLFFMAVSV 140 Query: 119 AIGIDN-LPFYWPVKALVTTSVAFIALFLANSVFTLLFIRKNQVLELLKGSVKPKKEPKV 177 + +++ LP KA+ T + F+ LF F I+ N ++ELLKG K K PK Sbjct: 141 ILLLNSELPIVLSFKAVGITILCFLILFQGTEFFVSYKIKSNNIIELLKGERKAKPVPKF 200 Query: 178 SWXXXXXXXXXXXXXXCFIWTXXXXXXXXXAAVTG--IPGTYFFYSQLSVLGMRLLKISR 235 S + G I GTY YSQ SV L+ ++ Sbjct: 201 SKKKAILAIILILSGYVMALVSYQMIIVTMFIILGVTIAGTYLLYSQFSVYLTNKLQNNK 260 Query: 236 KRVWRGTNLLWISEMSYKIKDNARMLFLVTVVTSLACMAAGFLLSVSQS-NRTGYMNSPF 294 + +RGTN++ ++++ YK++DNA++LF V++++++ A+ + S ++ + +N P Sbjct: 261 RVFYRGTNMITLAQIIYKLRDNAKILFTVSILSAVTLTASASVYSFQKTIEKEMLLNYPQ 320 Query: 295 GIIYTIYDRGAAAAD-TGRQKILSTLEQNGIKY-TENKVNFIRSSIKD----------QR 342 I + + G ++ + K+ L+ +G K +NK+ I+++ D + Sbjct: 321 DIGFI--ENGLSSHEIISPAKVEKQLKNSGNKVENKNKIILIKANSDDVFKTEVSRYGNK 378 Query: 343 DKFKSVMLLPLSRFNQLAGQIESNALPALTDGEAVLV---LNPRYRDVKFDSGQTVSLPA 399 +K K ++ S +N+LAG+ E+ L + EAV+ + + + F+ +SL Sbjct: 379 NK-KDFYIMKNSDYNKLAGE-ENKDLIDVKTNEAVVRSYNFDGKENEKTFEDNSFLSLKI 436 Query: 400 PNEQ-KLALKQVQTPKAMPFGQYTAPVLIVSDGYYEQAAAAADRSNLMEYYLYNIPDWGD 458 + K LK+ + + +I++DG + + L YY YNI DW Sbjct: 437 YGKNIKYKLKKEIGGGIINEDLLSTNTIIINDGDFRALKDKLNNDKLCVYYGYNIKDWRK 496 Query: 459 APPKAGEPKTLISSELETWSRNWNSANDNWDTLISTSAGDYMASKQGTSMXXXXXXXXXX 518 + K + E+ + N+ T S + ++ Sbjct: 497 SEKVIKSLKAQVPKEMR---ERFTERITNFST-----------SMKSMAIFFFIGTFISV 542 Query: 519 XXXXXXXXXXYFKLHTELNADMKMYHSLSKIGLSVRKMSPAATRQIALLFYIPILVAAVQ 578 YFK+ +E+ D + +L K+G+S+ ++ +RQ ++F++P ++A + Sbjct: 543 LFFIATGSILYFKMFSEIQKDRGEFIALKKMGVSIEEVGKILSRQCFIMFFLPFIIAFLH 602 Query: 579 TLVVIRPV--LYQISIRNVTMPVLVTAAAFLAVQTVYFIIVRSRYIHSL 625 T I+ + + S+ N M ++ +L +Q +YF R Y + Sbjct: 603 TFFAIKALSNILGTSLNNYLMLIV---GIYLLLQIIYFNFARYMYTRQI 648 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.324 0.136 0.395 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 760,443,321 Number of extensions: 27741921 Number of successful extensions: 99073 Number of sequences better than 1.0e-05: 80 Number of HSP's gapped: 98986 Number of HSP's successfully gapped: 106 Length of query: 630 Length of database: 757,237,578 Length adjustment: 132 Effective length of query: 498 Effective length of database: 398,844,510 Effective search space: 198624565980 Effective search space used: 198624565980 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)