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= 0001.4662.p (604 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314056|ref|YP_003778148.1| ABC transporter permease and AT... 1065 0.0 gi|300312125|ref|YP_003776217.1| ABC transporter permease and AT... 350 2e-97 gi|300312861|ref|YP_003776953.1| multidrug ABC transporter ATPas... 69 7e-13 gi|300311488|ref|YP_003775580.1| multidrug ABC transporter ATPas... 69 9e-13 gi|300310818|ref|YP_003774910.1| nitrate/sulfonate/bicarbonate A... 67 4e-12 >gi|300314056|ref|YP_003778148.1| ABC transporter permease and ATPase components protein [Herbaspirillum seropedicae SmR1] Length = 596 Score = 1065 bits (2754), Expect = 0.0, Method: Compositional matrix adjust. Identities = 524/597 (87%), Positives = 554/597 (92%), Gaps = 4/597 (0%) Query: 7 DP-SSPATPTNPTPTGDPHGLNRASRADIWRLVKPFWVSEEKWKAWALLVSIIALNLGMV 65 DP + ATP +P P NRASRA+IW L++PFWVSEEKWKAWALL+SIIALNLGMV Sbjct: 3 DPHAKSATPPSPHALDTP---NRASRAEIWALIRPFWVSEEKWKAWALLLSIIALNLGMV 59 Query: 66 YINVRLNSWNRDMYNVLQSRDYPQFKSLLWQFSGLAFVFVAIAIYSVYLKQALQIRWRYW 125 YINVRLNSWNRDMY+VLQSRDY QFK+LLWQFS LAF+FVAIAIYSVYLKQALQIRWRYW Sbjct: 60 YINVRLNSWNRDMYDVLQSRDYAQFKALLWQFSWLAFIFVAIAIYSVYLKQALQIRWRYW 119 Query: 126 MSTRYLDRWLAHRAYYRIEQGQQGRLSDNPDQRIAEDLHALTSDTLALVLGFISSSVTLF 185 MS RYLDRWLAHRAYYRIEQGQQGRLSDNPDQRIAEDL ALTS TL+LVLGFISSSVTLF Sbjct: 120 MSQRYLDRWLAHRAYYRIEQGQQGRLSDNPDQRIAEDLQALTSSTLSLVLGFISSSVTLF 179 Query: 186 SFIHILWSVSGPLTFSALGQSWVIPGYMVWFVIAYATIGSSVVWWIGRPLVGLSFDQERF 245 SFIHILW+VSGPLTFSALGQSWVIPGYMVWFVIAYA +GS +VWWIGRPLVGLSF QERF Sbjct: 180 SFIHILWAVSGPLTFSALGQSWVIPGYMVWFVIAYAVVGSGLVWWIGRPLVGLSFHQERF 239 Query: 246 EANFRFGLIRVREHAEAVALYRGEPQERAQLTARLDDIRENWWNIMRLTKKLNVAVNFYG 305 EANFRFGLIRVREHAEAVALYRGEPQE AQLTARLDDIR NWW IMRLTK LNVAVNFYG Sbjct: 240 EANFRFGLIRVREHAEAVALYRGEPQEHAQLTARLDDIRRNWWEIMRLTKMLNVAVNFYG 299 Query: 306 QFAVIFPMLVSAPRYFSGAISLGVLMQISDAFGQVQDALSWFINAFSTLASWKASINRLA 365 QFAVIFPMLVSAPRYFSGAISLGVLMQIS+AFGQVQDALSWFINAF+TLASWKASINRLA Sbjct: 300 QFAVIFPMLVSAPRYFSGAISLGVLMQISNAFGQVQDALSWFINAFTTLASWKASINRLA 359 Query: 366 GFHADVERASGMTRSIEVAPYSGSAVTVAGLQLSFPDGRPMMSRLDARVESGEHVLISGP 425 GF+ADVERA+GM R I+VAP++GSAVT+ GLQLSFPDG PMM LDARVESGEHVLISGP Sbjct: 360 GFNADVERAAGMPRHIDVAPHAGSAVTLQGLQLSFPDGAPMMHALDARVESGEHVLISGP 419 Query: 426 SGCGKSTLIRAMADIWPYGEGRIALPQDAPAMFLPQRSYLPIGTLRAALSYPAAEGSFDD 485 SGCGKSTL+RAMADIWPYG+GRI LPQDAPAMFLPQRSYLPIGTLRAALSYPAAEGSFDD Sbjct: 420 SGCGKSTLMRAMADIWPYGQGRIQLPQDAPAMFLPQRSYLPIGTLRAALSYPAAEGSFDD 479 Query: 486 ALITRYLGLCRLSHLAAQLDVAANWSQALSPGEQQRLAFVRVFLNRPRIVFLDEASSAMD 545 ALITRYLGLCRL+HLA +LDVAANWS ALSPGEQQRLAFVRVFLNRPR+VFLDEASSAMD Sbjct: 480 ALITRYLGLCRLAHLADRLDVAANWSHALSPGEQQRLAFVRVFLNRPRLVFLDEASSAMD 539 Query: 546 GETEETLYAALPRELPGLTVISIAHRETLARFHDVRWKFVPSATEEGAGHRVDMLPI 602 G+TEE LYAALPRELPG+TVISIAHRETLARFHDVRW FV EG GHRV+M P+ Sbjct: 540 GQTEEVLYAALPRELPGVTVISIAHRETLARFHDVRWHFVAPGEGEGGGHRVEMAPV 596 >gi|300312125|ref|YP_003776217.1| ABC transporter permease and ATPase components protein [Herbaspirillum seropedicae SmR1] Length = 594 Score = 350 bits (898), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 209/581 (35%), Positives = 315/581 (54%), Gaps = 8/581 (1%) Query: 24 HGLNRAS-RADIWRLVKPFWVSEEKWKAWALLVSIIALNLGMVYINVRLNSWNRDMYNVL 82 G RA R W L K +W S E + L I+ VY ++R+N W Y+ + Sbjct: 15 EGSQRAHFRTSTWWLFKSYWTSREAPVSALLAAFIVGSGFVGVYFSLRVNQWTGKFYDAI 74 Query: 83 QSRDYPQFKSLLWQFSGLAFVFVAIAIYSVYLKQALQIRWRYWMSTRYLDRWLAHRAYYR 142 S + +LL F GL V +AI + L++RWR W++T +D+W AY+R Sbjct: 75 GSGRFGTIPALLTLFLGLIMVAATLAISASVAADVLKLRWRTWLTTTLIDQWTRSGAYFR 134 Query: 143 IEQGQQGRLSDNPDQRIAEDLHALTSDTLALVLGFISSSVTLFSFIHILWSVSGPLTFSA 202 IE+ +L DN DQRI+ED+ T+ + I V+ +F +LW +SG Sbjct: 135 IERD---KLLDNADQRISEDVKLFVDYTVTITSHLIHVPVSAVTFSIVLWELSGNYLLEL 191 Query: 203 LGQSWVIPGYMVWFVIAYATIGSSVVWWIGRPLVGLSFDQERFEANFRFGLIRVREHAEA 262 + IP YM++ V Y+ + +GR L+ ++ Q++ EA+FR ++++RE AE Sbjct: 192 GHLAITIPAYMLFAVYLYSGSTLLLTHLLGRSLIPVNIRQQKVEADFRALMVQIREGAEQ 251 Query: 263 VALYRGEPQERAQLTARLDDIRENWWNIMRLTKKLNVAVNFYGQFAVIFPMLVSAPRYFS 322 +A Y G E ++L + IR N W I+R+T ++ V GQ + I P+L+ P+ + Sbjct: 252 IAFYDGASVEASRLRSTFASIRANTWRIIRVTAQVMFGVQVPGQISSILPVLLVLPQLMA 311 Query: 323 GAISLGVLMQISDAFGQVQDALSWFINAFSTLASWKASINRL-AGFHADVERASGMTRSI 381 G ++LG +M++S AFG V L++F A+ + A+W+A + RL A A+ ++ ++ Sbjct: 312 GTMTLGGMMRVSAAFGSVSSTLAYFPQAYQSFAAWRAVVRRLLALLDANEIKSPTFELTV 371 Query: 382 EVAPYSGSAVTVAGLQLSFPDGRPMMSRLDA-RVESGEHVLISGPSGCGKSTLIRAMADI 440 P + + V L L+ P G P+ SR+ A V+ G LI G SG GKSTL+RA+A I Sbjct: 372 LQRPQQ-TTIEVGALTLTDPHGNPL-SRIPAFSVKHGARCLIRGRSGSGKSTLLRALAGI 429 Query: 441 WPYGEGRIALPQDAPAMFLPQRSYLPIGTLRAALSYPAAEGSFDDALITRYLGLCRLSHL 500 WP+G G I +P MF+PQ+SY+P+G+LR AL+YP AE DAL L L+ Sbjct: 430 WPFGIGSITVPARTSMMFVPQKSYVPVGSLRQALAYPGAETDVSDALAQDILAAVGLAQF 489 Query: 501 AAQLDVAANWSQALSPGEQQRLAFVRVFLNRPRIVFLDEASSAMDGETEETLYAALPREL 560 LD W LS GEQQRLAF R+ + RP +F+DEA+SA+D E+E+ +Y+ L L Sbjct: 490 LPLLDQPDRWGGRLSGGEQQRLAFARILIARPDHIFIDEATSALDDESEQRMYSLLLERL 549 Query: 561 PGLTVISIAHRETLARFHDVRWKFVPSATEEGAGHRVDMLP 601 P T+IS+AHR+ +A FHD P A V P Sbjct: 550 PHSTLISVAHRKEVAAFHDQFVDLTPDVVATSAPGAVSNQP 590 >gi|300312861|ref|YP_003776953.1| multidrug ABC transporter ATPase/permease [Herbaspirillum seropedicae SmR1] Length = 578 Score = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 58/182 (31%), Positives = 88/182 (48%), Gaps = 20/182 (10%) Query: 407 MSRLDARVESGEHVLISGPSGCGKSTLIRAMADIWPYGEGRIALP-QDAPAMFLP----- 460 + ++ VE+GE + G SG GKSTL+ + + G I L +D + LP Sbjct: 352 LKNINLHVEAGETIAFVGMSGGGKSTLVSLIPGFYSCSSGEIRLDGRDIETISLPSLRQQ 411 Query: 461 -----QRSYLPIGTLRAALSYPAAEGSFDDALITRYLGLCRLSHLAA------QLDVAAN 509 Q + L TL A ++Y + + D A + + L+ + A Q + N Sbjct: 412 IAMVNQNTVLFDDTLAANIAY--GDANPDPARVEAAVEAAHLTDVVAGLPEGLQTRLGDN 469 Query: 510 WSQALSPGEQQRLAFVRVFLNRPRIVFLDEASSAMDGETEETLYAALPRELPGLTVISIA 569 S+ LS G++QR+A R I+ LDEA+SA+D E+E + AAL R + G T IA Sbjct: 470 GSR-LSGGQRQRVAIARAIYKDAPILILDEATSALDTESERAVQAALDRLMQGRTTFVIA 528 Query: 570 HR 571 HR Sbjct: 529 HR 530 >gi|300311488|ref|YP_003775580.1| multidrug ABC transporter ATPase/permease [Herbaspirillum seropedicae SmR1] Length = 758 Score = 69.3 bits (168), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 55/192 (28%), Positives = 90/192 (46%), Gaps = 18/192 (9%) Query: 404 RPMMSRLDARVESGEHVLISGPSGCGKSTLIRAMADIWPYGEGRIALPQ-DAPAM----- 457 R ++ + + GE + + G SG GKST++ + + EG I + D ++ Sbjct: 517 RAVIRNMSLSIAPGEMIGLVGHSGSGKSTMVNLICRFYDVSEGAIRIDGVDIRSLPISEY 576 Query: 458 -----FLPQRSYLPIGTLRAALSYPAAEGSFDDALITRYLG-----LCRLSHLAAQLDVA 507 + Q +L GT+ ++Y E + ++ + + RL L Sbjct: 577 RRNIGLVLQEPFLFFGTIAENIAYGKPEATREEIIAAARAAHAHEFILRLPQGYDSL--V 634 Query: 508 ANWSQALSPGEQQRLAFVRVFLNRPRIVFLDEASSAMDGETEETLYAALPRELPGLTVIS 567 QALS GE+QR++ R L PRI+ LDEA+S++D TE+ + AL + G T I+ Sbjct: 635 GERGQALSGGERQRISIARALLIDPRILILDEATSSVDTTTEKEIQKALDNLVQGRTTIA 694 Query: 568 IAHRETLARFHD 579 IAHR + R D Sbjct: 695 IAHRLSTLRKAD 706 >gi|300310818|ref|YP_003774910.1| nitrate/sulfonate/bicarbonate ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 265 Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/198 (30%), Positives = 93/198 (46%), Gaps = 24/198 (12%) Query: 388 GSAVTV--AGLQLSFPDGRPMMSRLDARVESGEHVLISGPSGCGKSTLIRAMADIWPY-G 444 GS+V++ GL + D +M+ +D + +GE V + GPSGCGKSTL+ A+A G Sbjct: 4 GSSVSLKRVGLTIGSND---IMAGIDLDIRAGEFVCLLGPSGCGKSTLLNAIAGFQDVSG 60 Query: 445 E-----GRIALPQ-DAPAMFLPQRSYLPIGTLRAALSYP----AAEGSFDDALITRYLGL 494 E R+ P D +F + P ++R + Y + A RY+ L Sbjct: 61 EISVDGKRVKGPGLDRGVVFQSSEALFPWLSVRENVEYGLKLRGVASAERRAAAERYVSL 120 Query: 495 CRLSHLAAQLDVAANWSQALSPGEQQRLAFVRVFLNRPRIVFLDEASSAMDGETEETLYA 554 L H + + LS G +QR RV +N P +V +DE A+D +T E L + Sbjct: 121 VGLKHAIDK------FPAELSGGMRQRAQIARVLVNEPSVVLMDEPFGALDAQTREVLQS 174 Query: 555 ALPR--ELPGLTVISIAH 570 L R + G T++ + H Sbjct: 175 ELDRIWKSTGCTIVFVTH 192 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 0.136 0.426 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: 1,956,568 Number of extensions: 86571 Number of successful extensions: 597 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 595 Number of HSP's successfully gapped: 21 Length of query: 604 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 513 Effective length of database: 1,188,985 Effective search space: 609949305 Effective search space used: 609949305 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)