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= 0001.2253.p (594 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312125|ref|YP_003776217.1| ABC transporter permease and AT... 1135 0.0 gi|300314056|ref|YP_003778148.1| ABC transporter permease and AT... 355 8e-99 gi|300313154|ref|YP_003777246.1| Fe-S cluster assembly ABC trans... 81 2e-16 gi|300311132|ref|YP_003775224.1| ABC-type bacteriocin/lantibioti... 80 4e-16 gi|300312350|ref|YP_003776442.1| bacteriocin/lantibiotic exporte... 78 2e-15 >gi|300312125|ref|YP_003776217.1| ABC transporter permease and ATPase components protein [Herbaspirillum seropedicae SmR1] Length = 594 Score = 1135 bits (2935), Expect = 0.0, Method: Compositional matrix adjust. Identities = 566/594 (95%), Positives = 579/594 (97%) Query: 1 MTQQSLHDLSYAEVEGSQRAHFRTSIWWLFKSYWTSREAPVSALLAAFIVGSGFVGVYFS 60 MTQ++LHDLSYAEVEGSQRAHFRTS WWLFKSYWTSREAPVSALLAAFIVGSGFVGVYFS Sbjct: 1 MTQEALHDLSYAEVEGSQRAHFRTSTWWLFKSYWTSREAPVSALLAAFIVGSGFVGVYFS 60 Query: 61 LRVNQWTGKFYDAIGSGRFGTIPALLTLFLGLIMVTATLTISASVAADVLKLRWRTWLTT 120 LRVNQWTGKFYDAIGSGRFGTIPALLTLFLGLIMV ATL ISASVAADVLKLRWRTWLTT Sbjct: 61 LRVNQWTGKFYDAIGSGRFGTIPALLTLFLGLIMVAATLAISASVAADVLKLRWRTWLTT 120 Query: 121 TLIDQWTRSGAYFRIERDKLLDNADQRISEDVKLFVDYTVTITSHLLHVPVSAVTFSIVL 180 TLIDQWTRSGAYFRIERDKLLDNADQRISEDVKLFVDYTVTITSHL+HVPVSAVTFSIVL Sbjct: 121 TLIDQWTRSGAYFRIERDKLLDNADQRISEDVKLFVDYTVTITSHLIHVPVSAVTFSIVL 180 Query: 181 WELSGSYLLELGHLAITIPAYMLFAVYLYSGTTLLLTHLLGRSLIPINIRQQKVEADFRA 240 WELSG+YLLELGHLAITIPAYMLFAVYLYSG+TLLLTHLLGRSLIP+NIRQQKVEADFRA Sbjct: 181 WELSGNYLLELGHLAITIPAYMLFAVYLYSGSTLLLTHLLGRSLIPVNIRQQKVEADFRA 240 Query: 241 LMVQIREGAEQIAFYDGANVEASRLRSTFANIRANTWRIIRVAAQVMFGVQVPGQISSIL 300 LMVQIREGAEQIAFYDGA+VEASRLRSTFA+IRANTWRIIRV AQVMFGVQVPGQISSIL Sbjct: 241 LMVQIREGAEQIAFYDGASVEASRLRSTFASIRANTWRIIRVTAQVMFGVQVPGQISSIL 300 Query: 301 PALLVLPQLMAGTMTLGGMMRVSAAFGSVSSTLAYFPQAYQTFAAWRAVVRRLLALLDAT 360 P LLVLPQLMAGTMTLGGMMRVSAAFGSVSSTLAYFPQAYQ+FAAWRAVVRRLLALLDA Sbjct: 301 PVLLVLPQLMAGTMTLGGMMRVSAAFGSVSSTLAYFPQAYQSFAAWRAVVRRLLALLDAN 360 Query: 361 EIKSPTFELTVLQRPQQTTIEVGALTLTDPHGNPLSRIPAFAVKRGARCLIRGRSGSGKS 420 EIKSPTFELTVLQRPQQTTIEVGALTLTDPHGNPLSRIPAF+VK GARCLIRGRSGSGKS Sbjct: 361 EIKSPTFELTVLQRPQQTTIEVGALTLTDPHGNPLSRIPAFSVKHGARCLIRGRSGSGKS 420 Query: 421 TLLRALAGIWPFGVGSIAVPTRTSMMFVPQKSYVPVGSLRQALAYPGAEADVSDALAQDI 480 TLLRALAGIWPFG+GSI VP RTSMMFVPQKSYVPVGSLRQALAYPGAE DVSDALAQDI Sbjct: 421 TLLRALAGIWPFGIGSITVPARTSMMFVPQKSYVPVGSLRQALAYPGAETDVSDALAQDI 480 Query: 481 LTAVGLAQFLPVLDQPDRWGGRLSGGEQQRLAFARILIARPEHIFIDEATSALDDESEQR 540 L AVGLAQFLP+LDQPDRWGGRLSGGEQQRLAFARILIARP+HIFIDEATSALDDESEQR Sbjct: 481 LAAVGLAQFLPLLDQPDRWGGRLSGGEQQRLAFARILIARPDHIFIDEATSALDDESEQR 540 Query: 541 MYSLLLERLPHSTLISVAHRKEVAAFHDQFVDLTPDAVAASAPGVTSNQPKSKE 594 MYSLLLERLPHSTLISVAHRKEVAAFHDQFVDLTPD VA SAPG SNQPKSKE Sbjct: 541 MYSLLLERLPHSTLISVAHRKEVAAFHDQFVDLTPDVVATSAPGAVSNQPKSKE 594 >gi|300314056|ref|YP_003778148.1| ABC transporter permease and ATPase components protein [Herbaspirillum seropedicae SmR1] Length = 596 Score = 355 bits (910), Expect = 8e-99, Method: Compositional matrix adjust. Identities = 196/550 (35%), Positives = 301/550 (54%), Gaps = 5/550 (0%) Query: 23 RTSIWWLFKSYWTSREAPVSALLAAFIVGSGFVGVYFSLRVNQWTGKFYDAIGSGRFGTI 82 R IW L + +W S E + L I+ VY ++R+N W YD + S + Sbjct: 25 RAEIWALIRPFWVSEEKWKAWALLLSIIALNLGMVYINVRLNSWNRDMYDVLQSRDYAQF 84 Query: 83 PALLTLFLGLIMVTATLTISASVAADVLKLRWRTWLTTTLIDQWTRSGAYFRIERD---K 139 ALL F L + + I + L++RWR W++ +D+W AY+RIE+ + Sbjct: 85 KALLWQFSWLAFIFVAIAIYSVYLKQALQIRWRYWMSQRYLDRWLAHRAYYRIEQGQQGR 144 Query: 140 LLDNADQRISEDVKLFVDYTVTITSHLLHVPVSAVTFSIVLWELSGSYLLELGHLAITIP 199 L DN DQRI+ED++ T+++ + V+ +F +LW +SG + IP Sbjct: 145 LSDNPDQRIAEDLQALTSSTLSLVLGFISSSVTLFSFIHILWAVSGPLTFSALGQSWVIP 204 Query: 200 AYMLFAVYLYSGTTLLLTHLLGRSLIPINIRQQKVEADFRALMVQIREGAEQIAFYDGAN 259 YM++ V Y+ L +GR L+ ++ Q++ EA+FR ++++RE AE +A Y G Sbjct: 205 GYMVWFVIAYAVVGSGLVWWIGRPLVGLSFHQERFEANFRFGLIRVREHAEAVALYRGEP 264 Query: 260 VEASRLRSTFANIRANTWRIIRVAAQVMFGVQVPGQISSILPALLVLPQLMAGTMTLGGM 319 E ++L + +IR N W I+R+ + V GQ + I P L+ P+ +G ++LG + Sbjct: 265 QEHAQLTARLDDIRRNWWEIMRLTKMLNVAVNFYGQFAVIFPMLVSAPRYFSGAISLGVL 324 Query: 320 MRVSAAFGSVSSTLAYFPQAYQTFAAWRAVVRRLLALLDATEIKSPTFELTVLQRPQQ-T 378 M++S AFG V L++F A+ T A+W+A + RL A +A ++ + P + Sbjct: 325 MQISNAFGQVQDALSWFINAFTTLASWKASINRL-AGFNADVERAAGMPRHIDVAPHAGS 383 Query: 379 TIEVGALTLTDPHGNPLSRIPAFAVKRGARCLIRGRSGSGKSTLLRALAGIWPFGVGSIA 438 + + L L+ P G P+ V+ G LI G SG GKSTL+RA+A IWP+G G I Sbjct: 384 AVTLQGLQLSFPDGAPMMHALDARVESGEHVLISGPSGCGKSTLMRAMADIWPYGQGRIQ 443 Query: 439 VPTRTSMMFVPQKSYVPVGSLRQALAYPGAEADVSDALAQDILTAVGLAQFLPVLDQPDR 498 +P MF+PQ+SY+P+G+LR AL+YP AE DAL L LA LD Sbjct: 444 LPQDAPAMFLPQRSYLPIGTLRAALSYPAAEGSFDDALITRYLGLCRLAHLADRLDVAAN 503 Query: 499 WGGRLSGGEQQRLAFARILIARPEHIFIDEATSALDDESEQRMYSLLLERLPHSTLISVA 558 W LS GEQQRLAF R+ + RP +F+DEA+SA+D ++E+ +Y+ L LP T+IS+A Sbjct: 504 WSHALSPGEQQRLAFVRVFLNRPRLVFLDEASSAMDGQTEEVLYAALPRELPGVTVISIA 563 Query: 559 HRKEVAAFHD 568 HR+ +A FHD Sbjct: 564 HRETLARFHD 573 >gi|300313154|ref|YP_003777246.1| Fe-S cluster assembly ABC transporter permease/ATPase [Herbaspirillum seropedicae SmR1] Length = 634 Score = 81.3 bits (199), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 78/272 (28%), Positives = 123/272 (45%), Gaps = 27/272 (9%) Query: 309 LMAGTMTLGGMMRVSAAFGSVSSTLAYFPQAYQTFAAWRAVVRRLLALLDATEIKSPTFE 368 ++ G+MTLG M+ V+A + L + Y+ A + RL +LL+ + + + Sbjct: 292 VIDGSMTLGDMVLVNAFMIQLYIPLNFLGVLYREIKQSLADMERLFSLLEEHREVADSAD 351 Query: 369 LTVLQRPQQTTIEVGALTLTDPHGNPLSRIPAFAVKRGARCLIRGRSGSGKSTLLRALAG 428 L + Q + + + + F V+ G + G SGSGKSTL R L Sbjct: 352 AKPL-KTQGANLHFDHVDFSYERNRQILFDVDFTVQAGTTTAVVGHSGSGKSTLSRLLYR 410 Query: 429 IWPFGVGSIAV-----------PTRTSMMFVPQKSYVPVGSLRQALAY--PGAEADVSDA 475 + G+I + R ++ VPQ + + ++ +AY PGA + A Sbjct: 411 FYDVDAGAIRIDGQDLRTVTQASLRQAIGIVPQDTVLFNDTIEYNIAYGKPGATREQIVA 470 Query: 476 LAQDILTAVGLAQFLPVLDQPDRW-------GGRLSGGEQQRLAFARILIARPEHIFIDE 528 A+ A + F+ L PD + G +LSGGE+QR+A AR L+ P + DE Sbjct: 471 AAK----AAYIHDFIESL--PDGYASMVGERGLKLSGGEKQRVAIARTLLKDPAILIFDE 524 Query: 529 ATSALDDESEQRMYSLLLERLPHSTLISVAHR 560 ATSALD +EQ + L E T + +AHR Sbjct: 525 ATSALDSRAEQAIQQQLEEIARERTTLVIAHR 556 >gi|300311132|ref|YP_003775224.1| ABC-type bacteriocin/lantibiotic ATPase/permease fusion exporter protein [Herbaspirillum seropedicae SmR1] Length = 567 Score = 80.5 bits (197), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 97/346 (28%), Positives = 156/346 (45%), Gaps = 41/346 (11%) Query: 265 LRSTFANIRANTWRIIRVAAQVMFGVQVPGQISSILPALLVLPQLMAGT-------MTLG 317 LR+ A+ AN A+ F + ISS+ L+ + L+ G +T+G Sbjct: 230 LRAFLADASANAV----AQAKSRFWMNTSYAISSVGYTLISVATLVVGVYLVEDNLLTVG 285 Query: 318 GMMRVS---AAFGSVSSTLAYFPQAYQTFAAWRAVVRRLLALLDATEIKSPTFELTVLQR 374 ++ S + +V S+LA F + F RA +L + E + PT + VL++ Sbjct: 286 ALIACSLLISRAATVLSSLAAFLGRIEMFRRARAEFDQLF---EEPE-QGPTAD--VLRQ 339 Query: 375 PQQTTIEVGALTL-TDPHGNPLSRIPAFAVKRGARCLIRGRSGSGKSTLLRALAGIWPF- 432 + I+VG L L D P R + ++ G + I GRSGSGKSTLLR LAG+ Sbjct: 340 DMRGLIQVGNLLLHLDKKETPTLRNISLTIQPGEKVGIVGRSGSGKSTLLRTLAGLHQAE 399 Query: 433 -------GVGSIAVPTRTSMM---FVPQKSYVPVGSLRQAL----AYPGAEADVSDALAQ 478 GV A M F PQ+ ++ G++ + PG + + A++ Sbjct: 400 EGHVLIDGVAVTAYAEEVRMRCIGFKPQEPFLFDGTVAANIFVGDRVPGQVYEAALAVSS 459 Query: 479 -DILTAVGLAQFLPVLDQPDRWGGRLSGGEQQRLAFARILIARPEHIFIDEATSALDDES 537 D L A G + LDQ + G LSGG++Q +A AR++ P + +DE T+ +D ++ Sbjct: 460 LDDLIARGELR----LDQLIKAPGNLSGGQRQMVALARVIACTPRILLLDEPTTGIDQQT 515 Query: 538 EQRMYSLLLERLPHSTLISVAHRKEVAAFHDQFVDLTPDAVAASAP 583 E R+ L+ TL+ H + D+ V + + A P Sbjct: 516 EARIIERLVGYAGGRTLVVATHSPALLRHMDRIVVIDGGRIVADGP 561 >gi|300312350|ref|YP_003776442.1| bacteriocin/lantibiotic exporter/double-glycine peptidase domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 730 Score = 78.2 bits (191), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 93/369 (25%), Positives = 163/369 (44%), Gaps = 36/369 (9%) Query: 240 ALMVQIREGAEQIAFYDGA--------NVEASRLRSTFANIRANTWRIIRVAAQVMFGVQ 291 L+V+ EG E I G +V A +RS A +RA +AA + Q Sbjct: 351 GLLVETVEGVETIKSGSGGWKFLSRWIDVSAESIRSDMA-MRAIGDHAGYIAATLQ---Q 406 Query: 292 VPGQISSILPALLVLPQLMAGTMTLGGMMRVSAAFGSVSSTLAYFPQAYQTFAAWRAVVR 351 + + I+ A LV+ G +T+G ++ S G + + +A P A +A + Sbjct: 407 LSYSTTVIIGAFLVI----NGQITMGALIACSILGGRILAPVAMIPGLMVQRAHTKATLA 462 Query: 352 RLLALLDATEIKSPTFELTVLQRPQQTTIEVGALTLTDPHGNPLSRIPAFAVKRGARCLI 411 L + + +LT + IE T N ++ I + G R + Sbjct: 463 GLEKIYALQTDQGSERQLTPDNLRGEFRIEEAKFTYAGSMLNAMT-IDQLTINAGERVAV 521 Query: 412 RGRSGSGKSTLLRALAGIWPFGVGSI-------AVPTRTSMM----FVPQKSYVPVGSLR 460 G G+GKST+LR L+G++ G I A R ++ ++ Q + VGSLR Sbjct: 522 LGPIGAGKSTILRLLSGLYRPQQGRILLDGLDMANINRLTLNQHIGYLQQDHRLFVGSLR 581 Query: 461 QALAYPGAEADVSDALAQDILTAVGLAQFLPV----LDQPDRWGGR-LSGGEQQRLAFAR 515 + L D D + + ++ GL + + LD P + GGR LSGG++Q +AF R Sbjct: 582 ENLLI--GLPDPGDDVLRQVMERTGLLRLVSSHPKGLDLPIQEGGRGLSGGQKQLVAFTR 639 Query: 516 ILIARPEHIFIDEATSALDDESEQRMYSLLLERLPHS-TLISVAHRKEVAAFHDQFVDLT 574 +L+ +P +DE T+++D++ E+ ++L + + TL+ V H+ D+ + + Sbjct: 640 LLLCQPNVFLLDEPTASMDEDLERHCLNVLNQEISGGRTLVVVTHKPAFLPMVDRVIVVV 699 Query: 575 PDAVAASAP 583 + + P Sbjct: 700 GNRIVLDGP 708 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 0.323 0.135 0.398 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: 1,652,354 Number of extensions: 65793 Number of successful extensions: 531 Number of sequences better than 1.0e-08: 37 Number of HSP's gapped: 516 Number of HSP's successfully gapped: 37 Length of query: 594 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 503 Effective length of database: 1,188,985 Effective search space: 598059455 Effective search space used: 598059455 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 133 (55.8 bits)