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= 0001.1479.p (546 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 1006 0.0 gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 241 1e-64 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 171 1e-43 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 144 2e-35 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 119 4e-28 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 1006 bits (2601), Expect = 0.0, Method: Compositional matrix adjust. Identities = 490/545 (89%), Positives = 518/545 (95%) Query: 1 MPQAIEQTPSAYGYPLLIKQLLHSALATAPEQEIIYGQRRLSYAQFYQRVQRLANALKEM 60 MPQAI QTPSAYGYPLLIKQLLHSALATA QEIIYGQRRLSYA FY+RVQRLANALKEM Sbjct: 1 MPQAIHQTPSAYGYPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLANALKEM 60 Query: 61 GVQAGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLMNS 120 G+Q GNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLL+NS Sbjct: 61 GLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNS 120 Query: 121 DFMPVLKQIRGELSTLTRCVLLTDDGSPCPRGPGFAGEYEQLLAQAEARYDFPDFDENAR 180 DF+P+LKQIRGEL+TLTRCV LTDD +PCPRGPGFAGEYE+LLAQAE DFPDFDENAR Sbjct: 121 DFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAEPACDFPDFDENAR 180 Query: 181 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALPAQQGRLHRDDVYMPLTPMFHVHA 240 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLAL QQGR HRDDVYMPLTPMFHVHA Sbjct: 181 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHA 240 Query: 241 WGLPYVATMAGVKQVYPGRYVPDTICKLIREEKVTFSHCVPTILQMILSSEKAREVDLSG 300 WGLPYVATMAGVKQVYPGRYVPDTIC+LIREEKVTFSHCVPTILQM+L+SE+ARE DLSG Sbjct: 241 WGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQMVLTSEQAREADLSG 300 Query: 301 WKMIIGGSAMTSSLARAARERGIDVFTGYGMSETCPILTLAQVPTAELGGEREASLRVKT 360 WKMIIGGSAMT SLA+ AR+RGIDVFTGYGMSETCP+LTLAQVPT ELGGEREA++RVKT Sbjct: 301 WKMIIGGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKT 360 Query: 361 GRPVPLVALRTVDGDMNDCAHDGQSTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD 420 GRP+PLV LRTVDG+M DC DG +TGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD Sbjct: 361 GRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD 420 Query: 421 IGHIDGEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGVQDGKWGERPV 480 IGH+D EGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIG+QDGKWGERPV Sbjct: 421 IGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPV 480 Query: 481 ALVVLKKDAVGVSEEDIRQHVRASAEAGVISRYGVPDRVRFVDELARTSVGKINKRVMRE 540 ALVVLKKDA VSE+DIR+HVRA+AEAG ISRYGVPDRVRFV ELARTSVGK+NKRVMRE Sbjct: 481 ALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMRE 540 Query: 541 QYPAA 545 QYP++ Sbjct: 541 QYPSS 545 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 241 bits (614), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 175/525 (33%), Positives = 272/525 (51%), Gaps = 31/525 (5%) Query: 34 IIYGQRRLSYAQFYQRVQRLANALKEMGVQAGNTVAVMDWDSNRYLECFFAVPMMGCVLQ 93 II+G R + Q Y+R +RLA+AL+ +GV +TV+ M ++ +E F VPM G VL Sbjct: 37 IIHGALRQDWDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLN 96 Query: 94 TVNVRLSPEQIAYTLNHAQADVLLMNSDFMPVLKQIRGELSTLTRCVLLTDDGSPCPRGP 153 +N+RL E I + L H +A VLL++S+F + +Q+R +L L + + G P G Sbjct: 97 ALNIRLDAESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPALKIVEVFDELGPPPVAGE 156 Query: 154 GFAG-EYEQLLAQAEARYDF--PDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLAT 210 F EYE LLA + +D+ P + +A A YT+GTTG PKGV + HR L+ ++ Sbjct: 157 RFGHLEYEALLAGGDEHFDWQMPADEWDAIALN-YTSGTTGDPKGVVYHHRGAALNAVSN 215 Query: 211 TAGLALPAQQGRLHRDDVYMPLTPMFHVHAWGLPY-VATMAGVKQVYPGRYVPDTICKLI 269 LP + VY+ PMFH + W P+ VA AGV V ++ P + LI Sbjct: 216 ILEWDLP-------KHPVYLWTLPMFHCNGWCFPWTVAARAGV-NVCLRKFEPKLVFDLI 267 Query: 270 REEKVTFSHCVPTILQMILSSEKAREVDLSG-WKMIIGGSAMTSSLARAARERGIDVFTG 328 E +T P + + ++ + + G K ++ G+ +++ ++ Sbjct: 268 AEHGITHYCAAPIVHAALANAPEGWRAGIRGPVKAMVAGAPPPAAVLAKMEAMQFELTHV 327 Query: 329 YGMSETC-PILTLA-QVPTAELGGEREASLRVKTGRPVPLVALRTV--DGDMNDCAHDGQ 384 YG++E P A Q L ++ A + + G L + TV M A DG+ Sbjct: 328 YGLTEVYGPAAVCAEQDEWNTLSVDQRAVQKSRQGVRYHLQSGVTVLSPDTMAPVAADGE 387 Query: 385 STGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQDIGHIDGEGYLQVTDRIKDVIKTGG 444 GE++ R +GYL A+ E + GGW HT D+G ++ +GY+++ DR KD+I +GG Sbjct: 388 EIGEIMFRGNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDIIISGG 447 Query: 445 EWVSSLQIEDIIARHPAVAETAVIGVQDGKWGERPVALVVLKKDA-VGVSE--EDIRQHV 501 E +SS+++ED++ RHPAV AV+ D KWGE P A V LK+ A VG +E E R H Sbjct: 448 ENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGAEVGAAELTEFCRSH- 506 Query: 502 RASAEAGVISRYGVPDRVRFVDELARTSVGKINKRVMREQYPAAS 546 ++ + VP + F L +TS GKI K +R++ + S Sbjct: 507 --------LAGFKVPKAIYF-GPLPKTSTGKIQKFELRKRMKSDS 542 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 171 bits (433), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 147/511 (28%), Positives = 234/511 (45%), Gaps = 36/511 (7%) Query: 39 RRLSYAQFYQRVQRLANALKEMGVQAGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVR 98 R + + + RV LA+AL GV+ G+ + V ++ + E +A MG V N R Sbjct: 61 RLIPWREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFR 120 Query: 99 LSPEQIAYTLNHAQADVLLMNSDFMPVLKQIRGELSTLTRCVLLTDDGSPCPRGPGFAGE 158 ++P + AY + A V+L + F + ++ L V L D AGE Sbjct: 121 ITPPEAAYLGQSSGACVMLYDRGFAQYVDAVKAASPALEHVVALAD---------ARAGE 171 Query: 159 --YEQLLAQAE-ARYDFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLA 215 YE L+ + A + + D + FYT+GTTG PK SH Q+ A L Sbjct: 172 LDYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVTNHLADL- 230 Query: 216 LPAQQGRLH--RDDVYMPLTPMFHVHAWGLPYVATMAGVKQVY--PGRYVPDTICKLIRE 271 +P G H R V PL+ VHA + T G + R V + +L+ + Sbjct: 231 MP---GLTHQSRSLVVAPLSHGAGVHA----VINTARGAASILLSSERLVVEEAWQLVEK 283 Query: 272 EKVTFSHCVPTILQMILSSEKAREVDLSGWKMII--GGSAMTSSLARAARERGIDVFTGY 329 +V VPTI+++++ E D S K +I G + A ++ G + Y Sbjct: 284 YRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVLVQYY 343 Query: 330 GMSETCPILTLAQVPTAELGGEREASLRVKT-GRPVPLVALRTVDGDMNDCAHDGQSTGE 388 G+ E +T P + RV T G P + + ++ D + A TGE Sbjct: 344 GLGEVTGNITFLP-PYLHFEDDAHPQARVGTCGMPRTGMQIAILNDDGQELA--PFETGE 400 Query: 389 VVVRAPWLTQGYLHQAEASEELWRGGWLHTQDIGHIDGEGYLQVTDRIKDVIKTGGEWVS 448 + VR P + GY + EA+ + ++ W HT D+GH+D +G+L +T R D+ +GG V Sbjct: 401 ICVRGPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSDMYISGGSNVY 460 Query: 449 SLQIEDIIARHPAVAETAVIGVQDGKWGERPVALVVLKKDAVGVSEEDIRQHVRASAEAG 508 +IE+ + HPAV+E AV+GV D KWGE +A++V K V E + H+ + Sbjct: 461 PREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKA-GQQVDGEALLAHLESR---- 515 Query: 509 VISRYGVPDRVRFVDELARTSVGKINKRVMR 539 I +Y P R + D + ++ GKI K+ ++ Sbjct: 516 -IGKYKWPRRFIYWDSMPKSGYGKIVKKQIK 545 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 144 bits (363), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 152/565 (26%), Positives = 253/565 (44%), Gaps = 53/565 (9%) Query: 6 EQTPSAYGYPLLIKQLLHSALATAPEQEIIYGQRRLSYAQFYQRVQRLANALKEMGVQAG 65 E P YG L++ + + + A Q + + LSY + + L L+ +G+Q G Sbjct: 16 EIDPGRYGS--LVQMIDEAFVQHADRQAYVCMGKYLSYRELDSLSRALGGWLQGLGLQKG 73 Query: 66 NTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLMNSDFMPV 125 VA+M + +Y A+ G + VN + ++ + L + A+ + + +F Sbjct: 74 ARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEHQLKDSGAEAIFVLENFACT 133 Query: 126 LKQI-------------RGEL-----STLTRCVLL-TDDGSPCPRGPGFAGEYEQLLAQA 166 L+++ GEL TL V+ P P A + Q L+QA Sbjct: 134 LQKVVAHTNIKHIVVASMGELLGALKGTLVNLVVRHVKKLVPAWSLPN-AITFSQALSQA 192 Query: 167 EARYDFP-DFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALPAQQGRLHR 225 + P + A YT GTTG+ KG +HR LV + L L + G+ Sbjct: 193 RGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAEEWLTPALKAGKPID 252 Query: 226 DDVYMPLTPMFHVHAWGLPYVATMAGVKQ-----VYPG-RYVPDTICKLIREEKVTFSHC 279 V++ P++H+ A V M G ++ + P R +P + +L + + TF Sbjct: 253 QLVFVCALPLYHIFALT---VCNMLGTREGALNLLIPNPRDIPGFVKELAKYKVNTFP-A 308 Query: 280 VPTILQMILSSEKAREVDLSGWKMIIGGS-AMTSSLA-RAARERGIDVFTGYGMSETCPI 337 V T+ +L++ +D SG++ +GG A+ S+A + + G + GYG+SET PI Sbjct: 309 VNTLYNALLNNADFARLDFSGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGYGLSETSPI 368 Query: 338 LTLAQVPTAELGGEREASLRVKTGRPVPLVALRTVDGDMNDCAHDGQSTGEVVVRAPWLT 397 + E G G P+P +D D GQ GE+ +R P + Sbjct: 369 ASANPCTIDEYTG--------TIGLPLPSTEFAILDDDGQPVPL-GQP-GEIAIRGPQVM 418 Query: 398 QGYLHQA-EASEELWRGGWLHTQDIGHIDGEGYLQVTDRIKDVIKTGGEWVSSLQIEDII 456 GY + E ++ + G+ T DIG +D GY ++ DR KD+I G V ++E ++ Sbjct: 419 PGYWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDRKKDMILVSGFNVYPNEVEGVV 478 Query: 457 ARHPAVAETAVIGVQDGKWGERPVALVVLKKDAVGVSEEDIRQHVRASAEAGVISRYGVP 516 A+HP V E A +GV D GE V L V++KD +S + + + + Y P Sbjct: 479 AQHPGVLECACVGVPDEHTGEA-VKLFVVRKDKT-LSAAQLMDYCKEQ-----FTGYKKP 531 Query: 517 DRVRFVDELARTSVGKINKRVMREQ 541 + F DEL +T+VGKI +R +R++ Sbjct: 532 KYIEFRDELPKTNVGKILRRELRDE 556 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 119 bits (299), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 132/507 (26%), Positives = 215/507 (42%), Gaps = 32/507 (6%) Query: 42 SYAQFYQRVQRLANALKEMGVQAGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSP 101 SY Q R ANAL+ GV G+ + + + A +G + + P Sbjct: 64 SYDQLKILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVPLFYLFGP 123 Query: 102 EQIAYTLNHAQADVLLMNSDFMPVLKQIRGELSTLTRCVLLTDDGSPCPRGPGFAGEYEQ 161 + IAY L+++ A L+ ++ M + GEL L + P+ F +++ Sbjct: 124 DAIAYRLDNSGAVALVTDASGMEK-ATLAGELPALRLVFCVESSDLVLPQTTDF---WDR 179 Query: 162 LLAQAEARYDFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGL-ALPAQQ 220 L A A A D + A YT+GTTG KG +HR L+ H + P + Sbjct: 180 LHA-APAELDPVLTLADDPAMIIYTSGTTGKAKGALHAHRVLLGHLPGVEVSHDSFPQEG 238 Query: 221 GRLHRDDVYMPLTPMFHVHAWGLPYVATMAGVKQVYPGRYVPDTICKLIREEKVTFSHCV 280 R + + + V LP + V ++ + L+ ++ Sbjct: 239 DRFWTPADWAWIGGLLDVL---LPSLYHGVAVVARRLEKFDAAEVFGLLARHQIRNVFFP 295 Query: 281 PTILQMILSSEKAR-EVDLSGWKMIIGGSAMTSSLARAARER-GIDVFTGYGMSETCPIL 338 PT L+M+ + R + D S + GG + L RE G+ + YG +E ++ Sbjct: 296 PTALKMLRGAATVRAQADFSLRSVASGGETLGDDLIAWGREALGVTINEFYGQTECNLVV 355 Query: 339 TLAQVPTAELGGEREASLRVKTGRPVPLVALRTVDGDMNDCAHDGQSTGEVVVRAP--WL 396 + + + G GR VP ++ VD H + G + +RAP + Sbjct: 356 SSSSHCYPSVSG--------SMGRAVPGHVVQIVDEQGQVLPHG--TVGNIAIRAPDPVM 405 Query: 397 TQGYLHQAEASEELWRGGWLHTQDIGHIDGEGYLQVTDRIKDVIKTGGEWVSSLQIEDII 456 Y EA+ E + G +L T D+G +D +GY++ R DVI + G + IE+ + Sbjct: 406 FLRYWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVITSAGYRIGPAAIEECL 465 Query: 457 ARHPAVAETAVIGVQDGKWGERPVALVVLKKDAVGVSE---EDIRQHVRASAEAGVISRY 513 RHPAV AV+GV+D E A VVL KD V E +++QHVRA ++ + Sbjct: 466 MRHPAVRIAAVVGVKDALRTEVVKAFVVL-KDGVTPDEALKAELQQHVRAQ-----LAAH 519 Query: 514 GVPDRVRFVDELARTSVGKINKRVMRE 540 P + FV L T+ GKI ++ ++E Sbjct: 520 EYPRLISFVAALPTTATGKIMRKTLKE 546 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 0.320 0.135 0.405 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: 1,697,440 Number of extensions: 70030 Number of successful extensions: 253 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 234 Number of HSP's successfully gapped: 17 Length of query: 546 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 456 Effective length of database: 1,193,720 Effective search space: 544336320 Effective search space used: 544336320 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 (21.8 bits) S2: 133 (55.8 bits)