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= 0003.0086.p (528 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... 1058 0.0 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 164 2e-41 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 154 2e-38 gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 154 2e-38 gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspir... 145 9e-36 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 1058 bits (2735), Expect = 0.0, Method: Compositional matrix adjust. Identities = 506/528 (95%), Positives = 518/528 (98%) Query: 1 VMNLGRLLSDVARRFPEEPGLILAQGATDGSDRLIPWREINARVDALAHALTRRGVKKGD 60 VMNLGRLLSDVARRFP+EPGLILAQGA DGSDRLIPWREINARVDALAHALTRRGVKKGD Sbjct: 29 VMNLGRLLSDVARRFPDEPGLILAQGAADGSDRLIPWREINARVDALAHALTRRGVKKGD 88 Query: 61 KMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPPEAAYLGQSSEACVMLYDRGFAPYV 120 KMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPPEAAYLGQSS ACVMLYDRGFA YV Sbjct: 89 KMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPPEAAYLGQSSGACVMLYDRGFAQYV 148 Query: 121 DAVKSASPALEHVVALADARPGELDYETLVADGSGDTFREAEVDYDDPLWFFYTSGTTGH 180 DAVK+ASPALEHVVALADAR GELDYE LV +GSG FREAEVDYDDPLWFFYTSGTTGH Sbjct: 149 DAVKAASPALEHVVALADARAGELDYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGH 208 Query: 181 PKAGMLSHGQMAFVVTNHLADLMPGLTHQSRSLVVAPLSHGAGVHAVVNTARGAASILLS 240 PKAGMLSHGQMAFVVTNHLADLMPGLTHQSRSLVVAPLSHGAGVHAV+NTARGAASILLS Sbjct: 209 PKAGMLSHGQMAFVVTNHLADLMPGLTHQSRSLVVAPLSHGAGVHAVINTARGAASILLS 268 Query: 241 SERLVVEEAWQLVEKYKVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQ 300 SERLVVEEAWQLVEKY+VDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQ Sbjct: 269 SERLVVEEAWQLVEKYRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQ 328 Query: 301 VHALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQVAILNE 360 V+ALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQ+AILN+ Sbjct: 329 VYALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAILND 388 Query: 361 DGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDKDGFLYITGRS 420 DGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVD+DGFLYITGRS Sbjct: 389 DGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRS 448 Query: 421 SDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQHADGEAL 480 SDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQ DGEAL Sbjct: 449 SDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDGEAL 508 Query: 481 LAHLETRIGKYKWPRRFVYWDSMPKSGYGKIVKKQIKALLEEQGDYRL 528 LAHLE+RIGKYKWPRRF+YWDSMPKSGYGKIVKKQIKALLEEQG+YRL Sbjct: 509 LAHLESRIGKYKWPRRFIYWDSMPKSGYGKIVKKQIKALLEEQGEYRL 556 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 114/398 (28%), Positives = 186/398 (46%), Gaps = 20/398 (5%) Query: 130 LEHVVALADA--RPGELDYETLVADGSGDTFREAEVDYDDPLWFFYTSGTTGHPKAGMLS 187 + HV L A P + + ++ G T + + +DD + YT GTTG K +L+ Sbjct: 167 VRHVKKLVPAWSLPNAITFSQALSQARGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAVLT 226 Query: 188 HGQMAFVVTNHLADLMPGL-----THQSRSLVVAPLSH--GAGVHAVVNTARGAASILLS 240 H + V L P L Q + PL H V ++ T GA ++L+ Sbjct: 227 HRNLVANVLQAEEWLTPALKAGKPIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIP 286 Query: 241 SERLVVEEAWQLVEKYKVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQ 300 + R + +L KYKV+ V T+ L+ + R D S + + G + ++ Sbjct: 287 NPRDIPGFVKELA-KYKVNTFPAVNTLYNALLNNADFARLDFSGYRCCVGGGMAVQKSVA 345 Query: 301 VHALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQVAILNE 360 K G +++ YGL E + + P + GT G+P + AIL++ Sbjct: 346 DKWKKLTGCPIIEGYGLSETSPIASANPCTI--------DEYTGTIGLPLPSTEFAILDD 397 Query: 361 DGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHD-WFHTGDLGHVDKDGFLYITGR 419 DGQ + + GEI +RGP V GY P+ AK D +F TGD+G +D+ G+ I R Sbjct: 398 DGQPVPLGQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDR 457 Query: 420 SSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQHADGEA 479 DM + G NVYP E+E + HP V E A +GVPD GE+ + + V + + Sbjct: 458 KKDMILVSGFNVYPNEVEGVVAQHPGVLECACVGVPDEHTGEA-VKLFVVRKDKTLSAAQ 516 Query: 480 LLAHLETRIGKYKWPRRFVYWDSMPKSGYGKIVKKQIK 517 L+ + + + YK P+ + D +PK+ GKI++++++ Sbjct: 517 LMDYCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELR 554 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 154 bits (389), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 146/519 (28%), Positives = 226/519 (43%), Gaps = 56/519 (10%) Query: 29 DGSDRLIPWREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVP 88 DGS + ++ D A+AL GV +GD++ ++ + + AA+K+G + VP Sbjct: 57 DGSVTSYSYDQLKILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVP 116 Query: 89 TNFRITPPEAAYLGQSSEACVMLYDR---------GFAP---YVDAVKSASPALEHVVAL 136 + P AY +S A ++ D G P V V+S+ L Sbjct: 117 LFYLFGPDAIAYRLDNSGAVALVTDASGMEKATLAGELPALRLVFCVESSDLVLPQTTDF 176 Query: 137 AD---ARPGELDYETLVADGSGDTFREAEVDYDDPLWFFYTSGTTGHPKAGMLSH----G 189 D A P ELD +AD DP YTSGTTG K + +H G Sbjct: 177 WDRLHAAPAELDPVLTLAD--------------DPAMIIYTSGTTGKAKGALHAHRVLLG 222 Query: 190 QMAFVVTNHLADLMPGLTHQSRSLVVAPLSHGAGVHAVV--NTARGAASILLSSERLVVE 247 + V +H D P R A + G+ V+ + G A + E+ Sbjct: 223 HLPGVEVSH--DSFP--QEGDRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLEKFDAA 278 Query: 248 EAWQLVEKYKVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVHALKKL 307 E + L+ ++++ N+F PT +K+L +V SL+ V G + + L Sbjct: 279 EVFGLLARHQIRNVFFPPTALKMLRGAATVRAQADFSLRSVASGGETLGDDLIAWGREAL 338 Query: 308 GKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARV-GTCGMPRTGMQVAILNEDGQELA 366 G + ++YG E L +H V G+ G G V I++E GQ L Sbjct: 339 GVTINEFYGQTECN---------LVVSSSSHCYPSVSGSMGRAVPGHVVQIVDEQGQVLP 389 Query: 367 PFETGEICVRGP--AVFMGYHNNPEANAKAFKHDWFHTGDLGHVDKDGFLYITGRSSDMY 424 G I +R P +F+ Y N EA + F D+ TGDLG +D+ G++ GR+ D+ Sbjct: 390 HGTVGNIAIRAPDPVMFLRYWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVI 449 Query: 425 ISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQHADGEALLA-- 482 S G + P IEE L+ HPAV AV+GV D E A +V K G D EAL A Sbjct: 450 TSAGYRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPD-EALKAEL 508 Query: 483 --HLETRIGKYKWPRRFVYWDSMPKSGYGKIVKKQIKAL 519 H+ ++ +++PR + ++P + GKI++K +K + Sbjct: 509 QQHVRAQLAAHEYPRLISFVAALPTTATGKIMRKTLKEM 547 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 154 bits (388), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 141/505 (27%), Positives = 216/505 (42%), Gaps = 31/505 (6%) Query: 37 WREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPP 96 W + R LA AL GV K D + N + E+ + G V N R+ Sbjct: 46 WDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAE 105 Query: 97 EAAYLGQSSEACVMLYDRGFAPYVDAVKSASPALEHVVA--------LADARPGELDYET 148 ++ + EA V+L D FA +++ PAL+ V +A R G L+YE Sbjct: 106 SIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPALKIVEVFDELGPPPVAGERFGHLEYEA 165 Query: 149 LVADGSGDTFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVTNHLADLMPGLTH 208 L+A G + D D + YTSGTTG PK + H A +++ + L Sbjct: 166 LLAGGDEHFDWQMPADEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEW--DLPK 223 Query: 209 QSRSLVVAPLSHGAG-VHAVVNTARGAASILLSSERLVVEEAWQLVEKYKVDNLFTVPTI 267 L P+ H G AR ++ L + + + L+ ++ + + P + Sbjct: 224 HPVYLWTLPMFHCNGWCFPWTVAARAGVNVCL--RKFEPKLVFDLIAEHGITHYCAAPIV 281 Query: 268 VKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVHALKKLGKVLVQYYGLGEVTGNITFL 327 L R + AGAP A + ++ + L YGL EV G Sbjct: 282 HAALANAPEGWRAGIRGPVKAMVAGAPP-PAAVLAKMEAMQFELTHVYGLTEVYGPAAVC 340 Query: 328 PPY-----LHFEDDAHPQARVGTCGMPRTGMQV------AILNEDGQELAPFETGEICVR 376 L + A ++R G ++G+ V A + DG+E+ GEI R Sbjct: 341 AEQDEWNTLSVDQRAVQKSRQGVRYHLQSGVTVLSPDTMAPVAADGEEI-----GEIMFR 395 Query: 377 GPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDKDGFLYITGRSSDMYISGGSNVYPREI 436 G GY N A +AF WFHTGDLG ++ DG++ I RS D+ ISGG N+ E+ Sbjct: 396 GNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDIIISGGENISSVEV 455 Query: 437 EEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQHADGEALLAHLETRIGKYKWPRR 496 E+ L HPAV AV+ PD KWGE+ A + K G L + + +K P+ Sbjct: 456 EDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGAEVGAAELTEFCRSHLAGFKVPKA 515 Query: 497 FVYWDSMPKSGYGKIVKKQIKALLE 521 +Y+ +PK+ GKI K +++ ++ Sbjct: 516 -IYFGPLPKTSTGKIQKFELRKRMK 539 >gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 628 Score = 145 bits (366), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 145/570 (25%), Positives = 245/570 (42%), Gaps = 83/570 (14%) Query: 11 VARRFPE--EPGLILAQGATDGSDRLIPWREINARVDALAHALTRRGVKKGDKMLVHSRN 68 V R PE + ++A S+R+ + E+ V A+A ++ GV++GD++L++ Sbjct: 58 VDRHLPERAQQAALIAISTETNSERVYTYAELQQEVMAMAASMQALGVQRGDRVLIYMPM 117 Query: 69 NQQIFESAWAAFKMGVV--WVPTNF---------------------------RITP---- 95 + + A ++G V V F ++ P Sbjct: 118 IAEAVFAMLACARIGAVHSVVFGGFASNSLASRIDDAQPRLIVSADAGSRGGKVIPYKGL 177 Query: 96 -PEAAYLGQSSEACVMLYDRGFAPYVDAVKSASPALEHVVALADARPGELDYETLVADGS 154 EA + Q V+L DRG AP +A ++DY L Sbjct: 178 LDEAIAMAQHRPQHVLLVDRGLAP-----------------MARTAQRDVDYAPLRTQHL 220 Query: 155 GDTFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVTNHLADLM---PGLTHQSR 211 G ++ + + YTSGTTG PK G A + + + + PG T+ Sbjct: 221 GQQVPVTWLESNASSYILYTSGTTGKPKGVQRDVGGYAVALASSMQHIFCGQPGETYFCT 280 Query: 212 SLVVAPLSHGAGVHAVVNTARGAASILLSSERLVVEEA--WQLVEKYKVDNLFTVPTIVK 269 S + + H V+ + G A++L + + W +VEKYKV +F+ PT ++ Sbjct: 281 SDIGWVVGHSYIVYGPLIA--GMATVLYEGLPIRPDAGIWWSIVEKYKVTRMFSAPTAIR 338 Query: 270 ILVED--ESVDRYDHSSLKHVIYAGAPMYRADQVHALKKLGKVLVQYYGLGEVTGNITFL 327 +L + E ++RYD SSLK + AG P+ L ++ Y E I + Sbjct: 339 VLKKQPPECMERYDTSSLKALYLAGEPLDETTSSWISGALKVPVIDNYWQTESGWPIISI 398 Query: 328 PPYLHFEDDAHPQARVGTCGMPRTGMQVAILNE-DGQELAPFETGEICVRGP-------A 379 + D P R+G+ G+P G ++AIL+E G+ P + G + + GP Sbjct: 399 AKGI----DDKP-TRLGSPGVPMPGYRLAILDEATGEPCGPDQKGVVAIEGPLPPGCMQT 453 Query: 380 VFMGYHNNPEANAKAFKHDWFHTGDLGHVDKDGFLYITGRSSDMYISGGSNVYPREIEEA 439 V+ ++ + + T D G DKDG+ +I GR+ D+ G + REIEE+ Sbjct: 454 VYGDDERFVNTYWRSLPREVYSTFDWGIRDKDGYYFILGRTDDVINVAGHRLGTREIEES 513 Query: 440 LLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAG-------QHADGEA-LLAHLETRIGKY 491 + +HP VSEVAV+GV D G+ A + K Q EA ++A ++ +IG Sbjct: 514 ISSHPNVSEVAVVGVEDKLKGQVAFAFAIPKQAYTIATPEQRKALEAEIMAVVDKQIGAV 573 Query: 492 KWPRRFVYWDSMPKSGYGKIVKKQIKALLE 521 P R + +PK+ GK++++ I+++ E Sbjct: 574 GRPARVFFVSGLPKTRSGKLLRRAIQSICE 603 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 0.415 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: 1,818,061 Number of extensions: 80047 Number of successful extensions: 295 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 253 Number of HSP's successfully gapped: 17 Length of query: 528 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 438 Effective length of database: 1,193,720 Effective search space: 522849360 Effective search space used: 522849360 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 (21.7 bits) S2: 133 (55.8 bits)