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= 0001.2605.p (442 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 ... 888 0.0 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 80 3e-16 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 75 1e-14 gi|300313294|ref|YP_003777386.1| long chain acyl-CoA synthetase ... 74 2e-14 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 69 7e-13 >gi|300311882|ref|YP_003775974.1| long-chain acyl-CoA synthetase [Herbaspirillum seropedicae SmR1] Length = 653 Score = 888 bits (2294), Expect = 0.0, Method: Compositional matrix adjust. Identities = 425/442 (96%), Positives = 433/442 (97%) Query: 1 MITTATTLVEFDHLDQHDDILCYLPLAWVGDFLYSFAQQHVAGFCLNCPESPNTVMSDLR 60 MITTATTLVEFDHLD++DDILCYLPLAWVGDFLYSFAQQHVAGFCLNCPESPNTVM+DLR Sbjct: 212 MITTATTLVEFDHLDENDDILCYLPLAWVGDFLYSFAQQHVAGFCLNCPESPNTVMTDLR 271 Query: 61 EIGPTYYFAPPRVYENILTQVMIRIEDAGWFKRKMFHGFMRVARRVGMRILDGKPGVSLI 120 EIGPTYYFAPPRVYENILTQVMIRIEDAGW KRKMFHGFM+VARRVGMRILDGKPGVSL+ Sbjct: 272 EIGPTYYFAPPRVYENILTQVMIRIEDAGWLKRKMFHGFMKVARRVGMRILDGKPGVSLL 331 Query: 121 DRLQYALGDLLVYGPLKNVLGMSRLRVAYTGGEAIGPDLFDFYRSLGINLKQLYGMTETC 180 DRLQY LG LLVYGPLKNVLGMSRLRVAYTGGEAIGPDLFDFYRSLGINLKQLYGMTETC Sbjct: 332 DRLQYGLGSLLVYGPLKNVLGMSRLRVAYTGGEAIGPDLFDFYRSLGINLKQLYGMTETC 391 Query: 181 VTVCMQPSGDVKLDSVGRPMKGVEVRIDANGEVLVRSPGLMKEYFKRPDATAEAIDQDGY 240 VTVCMQPSGDVKLDSVGRPMKGVEVRID NGEVLVRSPGLMKEYFKRPDATAEAID +GY Sbjct: 392 VTVCMQPSGDVKLDSVGRPMKGVEVRIDENGEVLVRSPGLMKEYFKRPDATAEAIDANGY 451 Query: 241 FHTGDAGFFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFGNGREQ 300 FHTGDAGFFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFGNGREQ Sbjct: 452 FHTGDAGFFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFGNGREQ 511 Query: 301 CMAFINIDMDAVGNWAERRNLPYSGYTDLAANPAVYELVRDCVEKVNADLVADPLLADSQ 360 CMAFINIDMDAVGNWAERRNL YSGYTDLAANPAVY L+R+CVEKVNADL ADPLLADSQ Sbjct: 512 CMAFINIDMDAVGNWAERRNLAYSGYTDLAANPAVYALLRECVEKVNADLAADPLLADSQ 571 Query: 361 IHRFLILHKELDPDDEELTRTRKVRRGFIADKYAVLIEALYAGRTSQYIETQVKFEDGRQ 420 IHRFLILHKELDPDDEELTRTRKVRRGFIADKYAVLIEALYAGR SQYIETQVKFEDGRQ Sbjct: 572 IHRFLILHKELDPDDEELTRTRKVRRGFIADKYAVLIEALYAGRASQYIETQVKFEDGRQ 631 Query: 421 GMISADLKIAEAKTFKTLQSAA 442 GMISADLKIAEAKTFKTLQSAA Sbjct: 632 GMISADLKIAEAKTFKTLQSAA 653 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 80.5 bits (197), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 52/168 (30%), Positives = 79/168 (47%), Gaps = 13/168 (7%) Query: 140 LGMSRLRVAYTGGEAIGPDLFDFYRSL-GINLKQLYGMTETCVTVCMQPSG-DVKLDSVG 197 L S R GG A+ + D ++ L G + + YG++ET P D ++G Sbjct: 325 LDFSGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGYGLSETSPIASANPCTIDEYTGTIG 384 Query: 198 RPMKGVE----------VRIDANGEVLVRSPGLMKEYFKRPDATAEAIDQDGYFHTGDAG 247 P+ E V + GE+ +R P +M Y++RPD TA+ + DG+F TGD G Sbjct: 385 LPLPSTEFAILDDDGQPVPLGQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGFFKTGDIG 444 Query: 248 FFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFG 295 D G+ KI+DR KD+ + SG 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 = 1e-14, Method: Compositional matrix adjust. Identities = 55/186 (29%), Positives = 92/186 (49%), Gaps = 27/186 (14%) Query: 151 GGEAIGPDLFDFYRSLGINLKQLYGMTETC--VTVCMQPSGDVKLD-------SVGRPMK 201 GG A+ L R GI++ YGM+ETC +T+ P+ ++ + GRP+ Sbjct: 306 GGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKTGRPLP 365 Query: 202 GVEVRI------------DANGEVLVRSPGLMKEYFKRPDATAEAIDQDGYFHTGDAGFF 249 V++R GEV+VR+P L + Y + +A+ E + + G+ HT D G Sbjct: 366 LVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEE-LWRGGWLHTQDIGHL 424 Query: 250 DSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFG--NGR--EQCMAFI 305 D++G+L++ DR KDV K G + IE+ + P + E G +G+ E+ +A + Sbjct: 425 DAEGYLQVTDRIKDVIK-TGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPVALV 483 Query: 306 NIDMDA 311 + DA Sbjct: 484 VLKKDA 489 >gi|300313294|ref|YP_003777386.1| long chain acyl-CoA synthetase [Herbaspirillum seropedicae SmR1] Length = 620 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/286 (24%), Positives = 123/286 (43%), Gaps = 22/286 (7%) Query: 143 SRLRVAYTGGEAIGPDLFDFYRSLG-------INLKQLYGMTETCVTVCMQPSGDVKLDS 195 SRLR+ + G A+ ++D + I + GMTET + +V+ Sbjct: 334 SRLRMQFYAGAALAQPVWDKLHATAEATCGERIVMCCGLGMTETSPSALFVADLEVQAGQ 393 Query: 196 VGRPMKGVEVRIDANG---EVLVRSPGLMKEYFKRPDATAEAIDQDGYFHTGDAGFFDSD 252 +G P G+E+++ NG E+ R P + Y++ P+ TAEA D++GYF +GDA + Sbjct: 394 IGIPTPGMEIKLVPNGDKIEIRYRGPNVTPGYWRAPEQTAEAFDEEGYFRSGDAVRWLDP 453 Query: 253 GH----LKIIDRAKDVGKMASGSMFAPKYIENKLKF--FPFIKEAVTFGNGREQCMAFIN 306 H R + K+ +G+ + + + P++++AV G R++ I Sbjct: 454 AHPDRGFMFDGRVAEDFKLYTGTWVSVGPLRALIAHEGAPYLQDAVITGQDRKEIGMLIV 513 Query: 307 IDMDAVGNWAERRNLPYSGYTDLAANPAVYELVRDCVEKVNADLVADPLLADSQIHRFLI 366 +++ A LP N A VRD + V L + + +++ R L+ Sbjct: 514 PNIERCRQLA---RLPAEASRAEVLNAAP---VRDFFQGVLDRLQSHATGSSNRVTRALV 567 Query: 367 LHKELDPDDEELTRTRKVRRGFIADKYAVLIEALYAGRTSQYIETQ 412 L D E+T + + + A L+E LYAG + Q Sbjct: 568 LVDPPSFDRGEITDKGSINQRAVLTHRAALVETLYAGTDPAVLTVQ 613 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 70/169 (41%), Gaps = 21/169 (12%) Query: 146 RVAYTGGEAIGPDLFDFYRSLGINLKQLYGMTETCVTVCMQP---------SGDVKLDSV 196 V Y G D + LG L Q YG+ E + P ++ + Sbjct: 315 HVIYAGAPMYRADQVYALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTC 374 Query: 197 GRPMKGVEVRIDAN----------GEVLVRSPGLMKEYFKRPDATAEAIDQDGYFHTGDA 246 G P G+++ I + GE+ VR P + Y P+A A+A D +FHTGD Sbjct: 375 GMPRTGMQIAILNDDGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHD-WFHTGDL 433 Query: 247 GFFDSDGHLKIIDRAKDVGKMASGSMFAPKYIENKLKFFPFIKEAVTFG 295 G D DG L I R+ D+ ++ GS P+ IE L P + E G Sbjct: 434 GHVDQDGFLYITGRSSDM-YISGGSNVYPREIEEALLTHPAVSEVAVLG 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 0.323 0.140 0.421 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: 1,412,749 Number of extensions: 60714 Number of successful extensions: 152 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 6 Length of query: 442 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 354 Effective length of database: 1,203,190 Effective search space: 425929260 Effective search space used: 425929260 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 (21.9 bits) S2: 132 (55.5 bits)