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= 0001.3726.p (555 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 1031 0.0 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 174 2e-44 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 164 2e-41 gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 151 1e-37 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 146 4e-36 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 1031 bits (2666), Expect = 0.0, Method: Compositional matrix adjust. Identities = 493/554 (88%), Positives = 525/554 (94%), Gaps = 2/554 (0%) Query: 4 RAKKQNVASPSIPIRT--TSETMLSKVMNLGRLLSDVARRFPQEPGLILAQGHADGSDRI 61 R+ ++ +S I IR TSETMLSKVMNLGRLLSDVARRFP EPGLILAQG ADGSDR+ Sbjct: 3 RSIRKTKSSTPISIRKIGTSETMLSKVMNLGRLLSDVARRFPDEPGLILAQGAADGSDRL 62 Query: 62 ICWQEINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRIT 121 I W+EINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRIT Sbjct: 63 IPWREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRIT 122 Query: 122 PPEAAYLGQSSGACIMLYDRGFAHYVDAVRAASPTLQHVIALAEARPDELDYEALLAEGD 181 PPEAAYLGQSSGAC+MLYDRGFA YVDAV+AASP L+HV+ALA+AR ELDYEAL+ EG Sbjct: 123 PPEAAYLGQSSGACVMLYDRGFAQYVDAVKAASPALEHVVALADARAGELDYEALVREGS 182 Query: 182 GSPFAEAEVDHQDPLWFFYTSGTTGHPKAGVLSHGQMAFVVTNHLADLMPGLNHQSRSLV 241 G+ F EAEVD+ DPLWFFYTSGTTGHPKAG+LSHGQMAFVVTNHLADLMPGL HQSRSLV Sbjct: 183 GAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVTNHLADLMPGLTHQSRSLV 242 Query: 242 VAPLSHGAGVHALVNTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTIVKLLVED 301 VAPLSHGAGVHA++NTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTIVK+LVED Sbjct: 243 VAPLSHGAGVHAVINTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTIVKILVED 302 Query: 302 ASVDRYDHASLKHVIYAGAPMYRADQVYALKKLGRVLVQYYGLGEVTGNITFLPPYMHFE 361 SVDRYDH+SLKHVIYAGAPMYRADQVYALKKLG+VLVQYYGLGEVTGNITFLPPY+HFE Sbjct: 303 ESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVLVQYYGLGEVTGNITFLPPYLHFE 362 Query: 362 DDDHPQARVGTCGIPRTGMQIAILDDDGQSLPPRQTGEICVRGPAVFMGYHNNPEANAKA 421 DD HPQARVGTCG+PRTGMQIAIL+DDGQ L P +TGEICVRGPAVFMGYHNNPEANAKA Sbjct: 363 DDAHPQARVGTCGMPRTGMQIAILNDDGQELAPFETGEICVRGPAVFMGYHNNPEANAKA 422 Query: 422 FKHDWFHTGDLGHVDEEGFLYITGRSSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGV 481 FKHDWFHTGDLGHVD++GFLYITGRSSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGV Sbjct: 423 FKHDWFHTGDLGHVDQDGFLYITGRSSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGV 482 Query: 482 PDPKWGESGLAVIVCKPGQQVDEQALLAHLETRIGKYKWPRRFVYWETMPKSGYGKIVKK 541 PDPKWGESGLAVIVCK GQQVD +ALLAHLE+RIGKYKWPRRF+YW++MPKSGYGKIVKK Sbjct: 483 PDPKWGESGLAVIVCKAGQQVDGEALLAHLESRIGKYKWPRRFIYWDSMPKSGYGKIVKK 542 Query: 542 QIKALLEEQGQYRL 555 QIKALLEEQG+YRL Sbjct: 543 QIKALLEEQGEYRL 556 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 174 bits (440), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 119/398 (29%), Positives = 192/398 (48%), Gaps = 20/398 (5%) Query: 157 LQHVIALAEA--RPDELDYEALLAEGDGSPFAEAEVDHQDPLWFFYTSGTTGHPKAGVLS 214 ++HV L A P+ + + L++ G + H D + YT GTTG K VL+ Sbjct: 167 VRHVKKLVPAWSLPNAITFSQALSQARGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAVLT 226 Query: 215 HGQMAFVVTNHLADLMPGLN-----HQSRSLVVAPLSH--GAGVHALVNTARGAASILLS 267 H + V L P L Q + PL H V ++ T GA ++L+ Sbjct: 227 HRNLVANVLQAEEWLTPALKAGKPIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIP 286 Query: 268 SERLVVEEAWQLVEKYRVDNLFTVPTIVKLLVEDASVDRYDHASLKHVIYAGAPMYRADQ 327 + R + +L KY+V+ V T+ L+ +A R D + + + G + ++ Sbjct: 287 NPRDIPGFVKELA-KYKVNTFPAVNTLYNALLNNADFARLDFSGYRCCVGGGMAVQKSVA 345 Query: 328 VYALKKLGRVLVQYYGLGEVTGNITFLPPYMHFEDDDHPQARVGTCGIPRTGMQIAILDD 387 K G +++ YGL E + + P + D++ GT G+P + AILDD Sbjct: 346 DKWKKLTGCPIIEGYGLSETSPIASANPCTI----DEY----TGTIGLPLPSTEFAILDD 397 Query: 388 DGQSLPPRQTGEICVRGPAVFMGYHNNPEANAKAFKHD-WFHTGDLGHVDEEGFLYITGR 446 DGQ +P Q GEI +RGP V GY P+ AK D +F TGD+G +DE G+ I R Sbjct: 398 DGQPVPLGQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDR 457 Query: 447 SSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKPGQQVDEQA 506 DM + G NVYP E+E + HP V E A +GVPD GE+ + + V + + + Sbjct: 458 KKDMILVSGFNVYPNEVEGVVAQHPGVLECACVGVPDEHTGEA-VKLFVVRKDKTLSAAQ 516 Query: 507 LLAHLETRIGKYKWPRRFVYWETMPKSGYGKIVKKQIK 544 L+ + + + YK P+ + + +PK+ GKI++++++ Sbjct: 517 LMDYCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELR 554 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 142/512 (27%), Positives = 227/512 (44%), Gaps = 40/512 (7%) Query: 55 ADGSDRIICWQEINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWV 114 ADGS + ++ D A+AL GV +GD++ ++ + + AA+K+G + V Sbjct: 56 ADGSVTSYSYDQLKILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITV 115 Query: 115 PTNFRITPPEAAYLGQSSGACIMLYDRGFAHYVDAVRAASPTLQHVIALAEAR---PDEL 171 P + P AY +SGA ++ D + P L+ V + + P Sbjct: 116 PLFYLFGPDAIAYRLDNSGAVALVTDASGMEKA-TLAGELPALRLVFCVESSDLVLPQTT 174 Query: 172 DYEALLAEGDGSPFAEAEVD-----HQDPLWFFYTSGTTGHPKAGVLSH----GQMAFVV 222 D+ L A AE+D DP YTSGTTG K + +H G + V Sbjct: 175 DFWDRLHA------APAELDPVLTLADDPAMIIYTSGTTGKAKGALHAHRVLLGHLPGVE 228 Query: 223 TNHLADLMPGLNHQSRSLVVAPLSHGAGVHALV--NTARGAASILLSSERLVVEEAWQLV 280 +H D P R A + G+ ++ + G A + E+ E + L+ Sbjct: 229 VSH--DSFP--QEGDRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLEKFDAAEVFGLL 284 Query: 281 EKYRVDNLFTVPTIVKLLVEDASVDRYDHASLKHVIYAGAPMYRADQVYALKKLGRVLVQ 340 ++++ N+F PT +K+L A+V SL+ V G + + + LG + + Sbjct: 285 ARHQIRNVFFPPTALKMLRGAATVRAQADFSLRSVASGGETLGDDLIAWGREALGVTINE 344 Query: 341 YYGLGEVTGNITFLPPYMHFEDDDHPQARV-GTCGIPRTGMQIAILDDDGQSLPPRQTGE 399 +YG E + H V G+ G G + I+D+ GQ LP G Sbjct: 345 FYGQTECN---------LVVSSSSHCYPSVSGSMGRAVPGHVVQIVDEQGQVLPHGTVGN 395 Query: 400 ICVRGP--AVFMGYHNNPEANAKAFKHDWFHTGDLGHVDEEGFLYITGRSSDMYISGGSN 457 I +R P +F+ Y N EA + F D+ TGDLG +DE+G++ GR+ D+ S G Sbjct: 396 IAIRAPDPVMFLRYWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVITSAGYR 455 Query: 458 VYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKPGQQVDE---QALLAHLETR 514 + P IEE L+ HPAV AV+GV D E A +V K G DE L H+ + Sbjct: 456 IGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPDEALKAELQQHVRAQ 515 Query: 515 IGKYKWPRRFVYWETMPKSGYGKIVKKQIKAL 546 + +++PR + +P + GKI++K +K + Sbjct: 516 LAAHEYPRLISFVAALPTTATGKIMRKTLKEM 547 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 151 bits (382), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 144/504 (28%), Positives = 214/504 (42%), Gaps = 37/504 (7%) Query: 64 WQEINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPP 123 W + R LA AL GV K D + N + E+ + G V N R+ Sbjct: 46 WDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAE 105 Query: 124 EAAYLGQSSGACIMLYDRGFAHYVDAVRAASPTLQHVIALAEARP--------DELDYEA 175 ++ + A ++L D FA +R P L+ V E P L+YEA Sbjct: 106 SIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPALKIVEVFDELGPPPVAGERFGHLEYEA 165 Query: 176 LLAEGDGSPFAEAEVDHQDPLWFFYTSGTTGHPKAGVLSH-GQMAFVVTNHLADLMPGLN 234 LLA GD + D D + YTSGTTG PK V H G V+N L +P Sbjct: 166 LLAGGDEHFDWQMPADEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEWDLP--- 222 Query: 235 HQSRSLVVAPLSHGAG-VHALVNTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPT 293 L P+ H G AR ++ L + + + L+ ++ + + P Sbjct: 223 KHPVYLWTLPMFHCNGWCFPWTVAARAGVNVCL--RKFEPKLVFDLIAEHGITHYCAAPI 280 Query: 294 IVKLLVEDASVDRYDHASLKHVIYAGAPMYRADQVYALKKLGRVLVQYYGLGEVTGNITF 353 + L R + AGAP A + ++ + L YGL EV G Sbjct: 281 VHAALANAPEGWRAGIRGPVKAMVAGAPP-PAAVLAKMEAMQFELTHVYGLTEVYG---- 335 Query: 354 LPPYMHFEDDDHPQARVGTCGI--PRTGMQ------IAILDDDGQSLPP-----RQTGEI 400 P + E D+ V + R G++ + +L D ++ P + GEI Sbjct: 336 -PAAVCAEQDEWNTLSVDQRAVQKSRQGVRYHLQSGVTVLSPD--TMAPVAADGEEIGEI 392 Query: 401 CVRGPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDEEGFLYITGRSSDMYISGGSNVYP 460 RG GY N A +AF WFHTGDLG ++ +G++ I RS D+ ISGG N+ Sbjct: 393 MFRGNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDIIISGGENISS 452 Query: 461 REIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKPGQQVDEQALLAHLETRIGKYKW 520 E+E+ L HPAV AV+ PD KWGE+ A + K G +V L + + +K Sbjct: 453 VEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGAEVGAAELTEFCRSHLAGFKV 512 Query: 521 PRRFVYWETMPKSGYGKIVKKQIK 544 P+ +Y+ +PK+ GKI K +++ Sbjct: 513 PKA-IYFGPLPKTSTGKIQKFELR 535 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 146 bits (369), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 140/496 (28%), Positives = 224/496 (45%), Gaps = 26/496 (5%) Query: 70 RVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPPEAAYLG 129 RV LA+AL G++ G+ + V ++ + E +A MG V N R++P + AY Sbjct: 49 RVQRLANALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTL 108 Query: 130 QSSGACIMLYDRGFAHYVDAVRAASPTLQHVIALAE-ARPDEL------DYEALLAEGDG 182 + A ++L + F + +R TL + L + A P +YE LLA+ + Sbjct: 109 NHAQADVLLVNSDFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAE- 167 Query: 183 SPFAE-AEVDHQDPLWFFYTSGTTGHPKAGVLSHGQMAF--VVTNHLADLMPGLNHQSRS 239 P + + D FYT+GTTG PK SH Q+ + T L P R Sbjct: 168 -PACDFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRD 226 Query: 240 LVVAPLSHGAGVHA--LVNTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTIVKL 297 V PL+ VHA L A A + R V + +L+ + +V VPTI+++ Sbjct: 227 DVYMPLTPMFHVHAWGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQM 286 Query: 298 LVEDASVDRYDHASLKHVIYAGAPMYRADQVYALKKLGRVLVQYYGLGEVTGNITFLP-P 356 ++ D + K +I G + G + YG+ E +T P Sbjct: 287 VLTSEQAREADLSGWKMII--GGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVP 344 Query: 357 YMHFEDDDHPQARVGTCGIPRTGMQIAILDDDGQSLPP--RQTGEICVRGPAVFMGYHNN 414 + RV T G P + + +D + Q P TGE+ VR P + GY + Sbjct: 345 TEELGGEREAAIRVKT-GRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQ 403 Query: 415 PEANAKAFKHDWFHTGDLGHVDEEGFLYITGRSSDMYISGGSNVYPREIEEALLTHPAVS 474 EA+ + ++ W HT D+GH+D EG+L +T R D+ +GG V +IE+ + HPAV+ Sbjct: 404 AEASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVA 463 Query: 475 EVAVLGVPDPKWGESGLAVIVCKP-GQQVDEQALLAHLET-----RIGKYKWPRRFVYWE 528 E AV+G+ D KWGE +A++V K V E + H+ I +Y P R + Sbjct: 464 ETAVIGIQDGKWGERPVALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVA 523 Query: 529 TMPKSGYGKIVKKQIK 544 + ++ GK+ K+ ++ Sbjct: 524 ELARTSVGKLNKRVMR 539 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 0.319 0.136 0.414 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: 1,884,967 Number of extensions: 82756 Number of successful extensions: 296 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 254 Number of HSP's successfully gapped: 17 Length of query: 555 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 465 Effective length of database: 1,193,720 Effective search space: 555079800 Effective search space used: 555079800 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)