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= 0028.0015.p (639 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311882|ref|YP_003775974.1| long-chain acyl-CoA synthetase ... 1137 0.0 gi|300313294|ref|YP_003777386.1| long chain acyl-CoA synthetase ... 87 3e-18 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 79 1e-15 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 75 2e-14 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 75 2e-14 >gi|300311882|ref|YP_003775974.1| long-chain acyl-CoA synthetase [Herbaspirillum seropedicae SmR1] Length = 653 Score = 1137 bits (2940), Expect = 0.0, Method: Compositional matrix adjust. Identities = 535/638 (83%), Positives = 581/638 (91%), Gaps = 4/638 (0%) Query: 2 HAQARPDRPAFREKDLGIWQTTTWAQVADEVRAFACGLAALGFKRGMSLAIIGNNCPRLY 61 HA+ RP+R AFREKDLGIWQTT+W QVA+EVR+FACGLAALGF+RGMSLAIIGNNCPRLY Sbjct: 20 HARQRPERAAFREKDLGIWQTTSWRQVAEEVRSFACGLAALGFRRGMSLAIIGNNCPRLY 79 Query: 62 WAMSATQCLGGMPVPLYQDAPAADMSYVLNDAEIDFVVAEDQEQVDKVFEIKLNFSSGTE 121 WAMSA Q LGGMPVPLYQDAPAADM+YVL DA +DFV+AEDQEQVDKVFEIK + Sbjct: 80 WAMSAAQALGGMPVPLYQDAPAADMAYVLADANVDFVMAEDQEQVDKVFEIKESLP---- 135 Query: 122 RPTHIIYDDERGMRNYRQPELSSFASVQELGRAYDKANPSFFMDQVNALDTDDIAIILYT 181 R H+IYDDERGMRNY QPEL SFA VQELGRAY++A+P FF ++ A DD+AIILYT Sbjct: 136 RIAHVIYDDERGMRNYHQPELLSFARVQELGRAYERAHPDFFDQEIAAGSPDDVAIILYT 195 Query: 182 SGTTGKPKGVCHSHAAMIATAQTLVDFDQLNESDDVLCYLPLAWVGDFLYSFAQTHVAGF 241 SGTTGKPKGVCHSH AMI TA TLV+FD L+E+DD+LCYLPLAWVGDFLYSFAQ HVAGF Sbjct: 196 SGTTGKPKGVCHSHRAMITTATTLVEFDHLDENDDILCYLPLAWVGDFLYSFAQQHVAGF 255 Query: 242 CLNCPESPSTVMTDLREIGPTYYFAPPRIYENILTQVMIRIEDAGWVKRKLFHGFMSIAR 301 CLNCPESP+TVMTDLREIGPTYYFAPPR+YENILTQVMIRIEDAGW+KRK+FHGFM +AR Sbjct: 256 CLNCPESPNTVMTDLREIGPTYYFAPPRVYENILTQVMIRIEDAGWLKRKMFHGFMKVAR 315 Query: 302 RVGMRILDKKPDVSLADRLLYAIGHLVIYGPLKNVLGMSRIRVAYTGGEAIGPDLFDFYR 361 RVGMRILD KP VSL DRL Y +G L++YGPLKNVLGMSR+RVAYTGGEAIGPDLFDFYR Sbjct: 316 RVGMRILDGKPGVSLLDRLQYGLGSLLVYGPLKNVLGMSRLRVAYTGGEAIGPDLFDFYR 375 Query: 362 SLGINLKQLYGMTETCVTVCMQPSGDVKLDTVGRPMRGVEVHIDASGEVLVRSPGLMKSY 421 SLGINLKQLYGMTETCVTVCMQPSGDVKLD+VGRPM+GVEV ID +GEVLVRSPGLMK Y Sbjct: 376 SLGINLKQLYGMTETCVTVCMQPSGDVKLDSVGRPMKGVEVRIDENGEVLVRSPGLMKEY 435 Query: 422 FKRPDATAEAIDENGYFHTGDAGFFDSDGHLKIIDRAKDVGKMACGTMFAPKYIENKLKF 481 FKRPDATAEAID NGYFHTGDAGFFDSDGHLKIIDRAKDVGKMA G+MFAPKYIENKLKF Sbjct: 436 FKRPDATAEAIDANGYFHTGDAGFFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKF 495 Query: 482 FPFIKEAVVFGNQREQCTAFINIDMDAVGNWAERRNLAYSGYTDLAAHESVYALVADCVE 541 FPFIKEAV FGN REQC AFINIDMDAVGNWAERRNLAYSGYTDLAA+ +VYAL+ +CVE Sbjct: 496 FPFIKEAVTFGNGREQCMAFINIDMDAVGNWAERRNLAYSGYTDLAANPAVYALLRECVE 555 Query: 542 KVNADLVQDPLLADSQVHRFLVLHKELDPDDDELTRTRKVRRGFIAEKYAVLIEALYEGK 601 KVNADL DPLLADSQ+HRFL+LHKELDPDD+ELTRTRKVRRGFIA+KYAVLIEALY G+ Sbjct: 556 KVNADLAADPLLADSQIHRFLILHKELDPDDEELTRTRKVRRGFIADKYAVLIEALYAGR 615 Query: 602 QSQYIETQVKFEDGRQGMIAADLRIADVKTFANLNQAA 639 SQYIETQVKFEDGRQGMI+ADL+IA+ KTF L AA Sbjct: 616 ASQYIETQVKFEDGRQGMISADLKIAEAKTFKTLQSAA 653 >gi|300313294|ref|YP_003777386.1| long chain acyl-CoA synthetase [Herbaspirillum seropedicae SmR1] Length = 620 Score = 87.4 bits (215), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 116/490 (23%), Positives = 185/490 (37%), Gaps = 97/490 (19%) Query: 150 ELGRAYDKANPSFFMDQVNALDTDDIAIILYTSGTTGKPKGVCHSHAAMIATAQTLVD-F 208 E RA D+ +F A + I L+TSG+T PK V ++ M + Q +V F Sbjct: 191 EATRAGDEVERAF-----AATGPETIVKFLFTSGSTKMPKAVINTQRMMCSNLQMIVQTF 245 Query: 209 DQLNESDDVLC-YLPLAWVGDFLYSFAQTHVAGFCL------------NCPESPSTVMTD 255 L E +L +LP + ++F H G L P+ +T + + Sbjct: 246 PFLGEEPPILIDWLP------WNHTFGANHNVGIVLYNGGTMYIDEGKPTPQGLATTLAN 299 Query: 256 LREIGPTYYFAPPRIYENILTQVMIRIEDAGWVKRKLFHGFMSIARRVGMRILDKKPDVS 315 L +I PT YF P +E I L+K D + Sbjct: 300 LHDISPTVYFNVPVGWEGI------------------------------AHALEK--DQA 327 Query: 316 LADRLLYAIGHLVIYGPLKNVLGMSRIRVAYTGGEAIGPDLFDFYRSLG-------INLK 368 L ++ SR+R+ + G A+ ++D + I + Sbjct: 328 LREKF------------------YSRLRMQFYAGAALAQPVWDKLHATAEATCGERIVMC 369 Query: 369 QLYGMTETCVTVCMQPSGDVKLDTVGRPMRGVEVHIDASG---EVLVRSPGLMKSYFKRP 425 GMTET + +V+ +G P G+E+ + +G E+ R P + Y++ P Sbjct: 370 CGLGMTETSPSALFVADLEVQAGQIGIPTPGMEIKLVPNGDKIEIRYRGPNVTPGYWRAP 429 Query: 426 DATAEAIDENGYFHTGDAGFFDSDGH----LKIIDRAKDVGKMACGTMFAPKYIENKLKF 481 + TAEA DE GYF +GDA + H R + K+ GT + + + Sbjct: 430 EQTAEAFDEEGYFRSGDAVRWLDPAHPDRGFMFDGRVAEDFKLYTGTWVSVGPLRALIAH 489 Query: 482 --FPFIKEAVVFGNQREQCTAFINIDMDAVGNWAERRNLAYSGYTDLAAHESVYALVADC 539 P++++AV+ G R++ I M V N R LA A A V D Sbjct: 490 EGAPYLQDAVITGQDRKE------IGMLIVPNIERCRQLARLPAEASRAEVLNAAPVRDF 543 Query: 540 VEKVNADLVQDPLLADSQVHRFLVLHKELDPDDDELTRTRKVRRGFIAEKYAVLIEALYE 599 + V L + ++V R LVL D E+T + + + A L+E LY Sbjct: 544 FQGVLDRLQSHATGSSNRVTRALVLVDPPSFDRGEITDKGSINQRAVLTHRAALVETLYA 603 Query: 600 GKQSQYIETQ 609 G + Q Sbjct: 604 GTDPAVLTVQ 613 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 51/168 (30%), Positives = 78/168 (46%), Gaps = 13/168 (7%) Query: 337 LGMSRIRVAYTGGEAIGPDLFDFYRSL-GINLKQLYGMTETCVTVCMQPSG-DVKLDTVG 394 L S R GG A+ + D ++ L G + + YG++ET P D T+G Sbjct: 325 LDFSGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGYGLSETSPIASANPCTIDEYTGTIG 384 Query: 395 RPMRGVE----------VHIDASGEVLVRSPGLMKSYFKRPDATAEAIDENGYFHTGDAG 444 P+ E V + GE+ +R P +M Y++RPD TA+ + +G+F TGD G Sbjct: 385 LPLPSTEFAILDDDGQPVPLGQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGFFKTGDIG 444 Query: 445 FFDSDGHLKIIDRAKDVGKMACGTMFAPKYIENKLKFFPFIKEAVVFG 492 D G+ KI+DR KD+ + G P +E + P + E G Sbjct: 445 VMDERGYTKIVDRKKDM-ILVSGFNVYPNEVEGVVAQHPGVLECACVG 491 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 56/187 (29%), Positives = 91/187 (48%), Gaps = 29/187 (15%) Query: 348 GGEAIGPDLFDFYRSLGINLKQLYGMTETC--VTVCMQPSGD--------VKLDTVGRPM 397 GG A+ L R GI++ YGM+ETC +T+ P+ + +++ T GRP+ Sbjct: 306 GGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKT-GRPL 364 Query: 398 RGVEVHI------------DASGEVLVRSPGLMKSYFKRPDATAEAIDENGYFHTGDAGF 445 V++ +GEV+VR+P L + Y + +A+ E + G+ HT D G Sbjct: 365 PLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEE-LWRGGWLHTQDIGH 423 Query: 446 FDSDGHLKIIDRAKDVGKMACGTMFAPKYIENKLKFFPFIKEAVVFGNQR----EQCTAF 501 D++G+L++ DR KDV K G + IE+ + P + E V G Q E+ A Sbjct: 424 LDAEGYLQVTDRIKDVIKTG-GEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPVAL 482 Query: 502 INIDMDA 508 + + DA Sbjct: 483 VVLKKDA 489 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 112/494 (22%), Positives = 184/494 (37%), Gaps = 103/494 (20%) Query: 25 WAQVADEVRAFACGLAALGFKRGMSLAIIGNNCPRLYWAMSATQCLGGMPVPLYQDAPAA 84 W ++ V A A L G K+G + + N +++ + A +G + VP Sbjct: 65 WREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPP 124 Query: 85 DMSYVLNDAEIDFVVAEDQEQVDKVFEIKLNFSSGTERPTHIIYDDERGMRNYRQPELSS 144 + +Y L + V+ D+ V +K + + H++ + + R EL Sbjct: 125 EAAY-LGQSSGACVMLYDRGFAQYVDAVK----AASPALEHVV-----ALADARAGELDY 174 Query: 145 FASVQE-LGRAYDKANPSFFMDQVNALDTDDIAIILYTSGTTGKPKG--VCHSHAAMIAT 201 A V+E G A+ +A +D DD YTSGTTG PK + H A + T Sbjct: 175 EALVREGSGAAFREAE----------VDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVT 224 Query: 202 AQTLVDFDQLNESDDVLCYLPLAWVGDFLYSFAQTHVAGF--CLNCPESPSTVMTDLREI 259 L L PL +H AG +N ++++ Sbjct: 225 NHLADLMPGLTHQSRSLVVAPL------------SHGAGVHAVINTARGAASIL------ 266 Query: 260 GPTYYFAPPRIYENILTQVMIRIEDAGW--VKRKLFHGFMSIARRVGMRILDKKPDVSLA 317 L+ + +E+A W V++ ++ V + + D+ Sbjct: 267 ---------------LSSERLVVEEA-WQLVEKYRVDNLFTVPTIVKILVEDES-----V 305 Query: 318 DRLLYAIGHLVIYGPLKNVLGMSRIRVAYTGGEAIGPDLFDFYRSLGINLKQLYGMTETC 377 DR ++ LK+V+ Y G D + LG L Q YG+ E Sbjct: 306 DRYDHS--------SLKHVI--------YAGAPMYRADQVYALKKLGKVLVQYYGLGEVT 349 Query: 378 VTVCMQP---------SGDVKLDTVGRPMRGVEVHID----------ASGEVLVRSPGLM 418 + P ++ T G P G+++ I +GE+ VR P + Sbjct: 350 GNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAILNDDGQELAPFETGEICVRGPAVF 409 Query: 419 KSYFKRPDATAEAIDENGYFHTGDAGFFDSDGHLKIIDRAKDVGKMACGTMFAPKYIENK 478 Y P+A A+A + +FHTGD G D DG L I R+ D+ ++ G+ P+ IE Sbjct: 410 MGYHNNPEANAKAFKHD-WFHTGDLGHVDQDGFLYITGRSSDM-YISGGSNVYPREIEEA 467 Query: 479 LKFFPFIKEAVVFG 492 L P + E V G Sbjct: 468 LLTHPAVSEVAVLG 481 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 0.322 0.138 0.415 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: 2,018,241 Number of extensions: 85524 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 7 Length of query: 639 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 548 Effective length of database: 1,188,985 Effective search space: 651563780 Effective search space used: 651563780 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: 134 (56.2 bits)