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= 0001.4589.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|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 1081 0.0 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 222 5e-59 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 160 3e-40 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 130 4e-31 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 126 5e-30 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 1081 bits (2796), Expect = 0.0, Method: Compositional matrix adjust. Identities = 530/546 (97%), Positives = 536/546 (98%) Query: 1 MADFDTGLGRNAANYAALTPIDFIARAAAVYGQRTAILHGALRQNWDQTYRRTRRLASAL 60 MADFDTGLGRNAANYAALTPIDFIARAAAVYG+RTAI+HGALRQ+WDQTYRRTRRLASAL Sbjct: 1 MADFDTGLGRNAANYAALTPIDFIARAAAVYGKRTAIIHGALRQDWDQTYRRTRRLASAL 60 Query: 61 QQLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAESIVFMLRHGEAKVLL 120 Q LGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAESIVFMLRHGEAKVLL Sbjct: 61 QGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAESIVFMLRHGEAKVLL 120 Query: 121 IDSEFAALAQQLRTQLPGLKIVEVFDELGPPAVAGERFGHLEYEALLATGDEHFEWKMPA 180 IDSEFAALAQQLRTQLP LKIVEVFDELGPP VAGERFGHLEYEALLA GDEHF+W+MPA Sbjct: 121 IDSEFAALAQQLRTQLPALKIVEVFDELGPPPVAGERFGHLEYEALLAGGDEHFDWQMPA 180 Query: 181 DEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEWDLPKHPVYLWTLPMFHCNGWC 240 DEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEWDLPKHPVYLWTLPMFHCNGWC Sbjct: 181 DEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEWDLPKHPVYLWTLPMFHCNGWC 240 Query: 241 FPWTVAARAGVNVCLRKFEPKLVFDLIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPV 300 FPWTVAARAGVNVCLRKFEPKLVFDLIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPV Sbjct: 241 FPWTVAARAGVNVCLRKFEPKLVFDLIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPV 300 Query: 301 KAMVAGAPPPAAVLAKMEAMQFELTHVYGLTEVYGPAAVCAEQDAWSALSVDQRAVAKSR 360 KAMVAGAPPPAAVLAKMEAMQFELTHVYGLTEVYGPAAVCAEQD W+ LSVDQRAV KSR Sbjct: 301 KAMVAGAPPPAAVLAKMEAMQFELTHVYGLTEVYGPAAVCAEQDEWNTLSVDQRAVQKSR 360 Query: 361 QGVRYHLQSGVTVLSPDTMEPVAADGEEIGEIMFRGNICMKGYLKNDRATHEAFAGGWFH 420 QGVRYHLQSGVTVLSPDTM PVAADGEEIGEIMFRGNICMKGYLKNDRATHEAFAGGWFH Sbjct: 361 QGVRYHLQSGVTVLSPDTMAPVAADGEEIGEIMFRGNICMKGYLKNDRATHEAFAGGWFH 420 Query: 421 TGDLGVMNADGYIKIKDRSKDIIISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGE 480 TGDLGVMNADGYIKIKDRSKDIIISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGE Sbjct: 421 TGDLGVMNADGYIKIKDRSKDIIISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGE 480 Query: 481 TPCAFVELKEGAETGAVELTEFCRSHLAGFKVPKAIYFGPLPKTSTGKIQKFELRKRMKS 540 TPCAFVELKEGAE GA ELTEFCRSHLAGFKVPKAIYFGPLPKTSTGKIQKFELRKRMKS Sbjct: 481 TPCAFVELKEGAEVGAAELTEFCRSHLAGFKVPKAIYFGPLPKTSTGKIQKFELRKRMKS 540 Query: 541 DSAINV 546 DSAINV Sbjct: 541 DSAINV 546 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 222 bits (566), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 172/525 (32%), Positives = 266/525 (50%), Gaps = 35/525 (6%) Query: 37 ILHGALRQNWDQTYRRTRRLASALQQLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLN 96 I++G R ++ Y R +RLA+AL+++G+ +TV+ M ++ +E F VPM G VL Sbjct: 34 IIYGQRRLSYAGFYERVQRLANALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQ 93 Query: 97 ALNIRLDAESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPGL-KIVEVFDELGP----P 151 +N+RL E I + L H +A VLL++S+F L +Q+R +L L + V + D+ P P Sbjct: 94 TVNVRLSPEQIAYTLNHAQADVLLVNSDFLPLLKQIRGELTTLTRCVWLTDDATPCPRGP 153 Query: 152 AVAGERFGHLEYEALLATGDEHFEWKMPADEWDAIALNYTSGTTGDPKGVVYHHRGAALN 211 AGE YE LLA + ++ DE YT+GTTG PKGV + HR L+ Sbjct: 154 GFAGE------YEELLAQAEPACDFP-DFDENARATTFYTTGTTGLPKGVYFSHRQLVLH 206 Query: 212 AVSNILEWDLP-------KHPVYLWTLPMFHCNGWCFPWTVAARAGV-NVCLRKFEPKLV 263 ++ L + VY+ PMFH + W P+ VA AGV V ++ P + Sbjct: 207 TLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHAWGLPY-VATMAGVKQVYPGRYVPDTI 265 Query: 264 FDLIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPVKAMVAGAPPPAAVLAKMEAMQ-F 322 LI E +T P + + + + A + G M+ G LAKM + Sbjct: 266 CRLIREEKVTFSHCVPTILQMVLTSEQAREADLSG--WKMIIGGSAMTGSLAKMARDRGI 323 Query: 323 ELTHVYGLTEVYGPAAVCAEQDAWSALSVDQRAVAKSRQGVRYHLQSGVTVLSPDTMEPV 382 ++ YG++E P A Q L ++ A + + G L TV M+ Sbjct: 324 DVFTGYGMSETC-PVLTLA-QVPTEELGGEREAAIRVKTGRPLPLVDLRTV--DGEMQDC 379 Query: 383 AADGEEIGEIMFRGNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDI 442 DG GE++ R +GYL A+ E + GGW HT D+G ++A+GY+++ DR KD+ Sbjct: 380 PRDGSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDV 439 Query: 443 IISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVEL-KEGAETGAVELTE 501 I +GGE +SS+++ED++ RHPAV AV+ D KWGE P A V L K+ A ++ E Sbjct: 440 IKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPVALVVLKKDAAAVSEDDIRE 499 Query: 502 FCRS-----HLAGFKVPKAIYF-GPLPKTSTGKIQKFELRKRMKS 540 R+ ++ + VP + F L +TS GK+ K +R++ S Sbjct: 500 HVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMREQYPS 544 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 160 bits (405), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 143/501 (28%), Positives = 212/501 (42%), Gaps = 31/501 (6%) Query: 46 WDQTYRRTRRLASALQQLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDAE 105 W + R LA AL + GV K D + N + E+ + G V N R+ Sbjct: 65 WREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPP 124 Query: 106 SIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPGLKIVEVFDELGPPAVAGERFGHLEYEA 165 ++ + A V+L D FA ++ P L+ V A+A R G L+YEA Sbjct: 125 EAAYLGQSSGACVMLYDRGFAQYVDAVKAASPALEHV--------VALADARAGELDYEA 176 Query: 166 LLATGDEHFEWKMPADEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILEW--DLPK 223 L+ G + D D + YTSGTTG PK + H A +++ + L Sbjct: 177 LVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAFVVTNHLADLMPGLTH 236 Query: 224 HPVYLWTLPMFHCNGWCFPWTVAARAGVNVCL--RKFEPKLVFDLIAEHGITHYCAAPIV 281 L P+ H G AR ++ L + + + L+ ++ + + P + Sbjct: 237 QSRSLVVAPLSHGAG-VHAVINTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTI 295 Query: 282 HAALANAPEGWRAGIRGPVKAMVAGAPP-PAAVLAKMEAMQFELTHVYGLTEVYG----- 335 L R + AGAP A + ++ + L YGL EV G Sbjct: 296 VKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVLVQYYGLGEVTGNITFL 355 Query: 336 PAAVCAEQDAWSALSVDQRAVAKSRQGVRYHLQSGVTVLSPDTMEPVAADGEEIGEIMFR 395 P + E DA V R G++ + +L+ D E E GEI R Sbjct: 356 PPYLHFEDDAHPQARVG--TCGMPRTGMQ------IAILNDDGQELAPF---ETGEICVR 404 Query: 396 GNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDIIISGGENISSVEV 455 G GY N A +AF WFHTGDLG ++ DG++ I RS D+ ISGG N+ E+ Sbjct: 405 GPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSDMYISGGSNVYPREI 464 Query: 456 EDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGAETGAVELTEFCRSHLAGFKVPKA 515 E+ L HPAV AV+ PD KWGE+ A + K G + L S + +K P+ Sbjct: 465 EEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDGEALLAHLESRIGKYKWPRR 524 Query: 516 -IYFGPLPKTSTGKIQKFELR 535 IY+ +PK+ GKI K +++ Sbjct: 525 FIYWDSMPKSGYGKIVKKQIK 545 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 130 bits (326), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 116/369 (31%), Positives = 167/369 (45%), Gaps = 37/369 (10%) Query: 184 DAIALNYTSGTTGDPKGVVYHHRGAALNAVSNIL---EWDLP--------KHPVYLWTLP 232 D L YT GTTG KG V HR N V+N+L EW P V++ LP Sbjct: 206 DIAFLQYTGGTTGVAKGAVLTHR----NLVANVLQAEEWLTPALKAGKPIDQLVFVCALP 261 Query: 233 MFHCNGWCFPWTVAARAG-VNVCLRKFE--PKLVFDLIAEHGITHYCAAPIVHAALANAP 289 ++H + R G +N+ + P V +L A++ + + A ++ AL N Sbjct: 262 LYHIFALTVCNMLGTREGALNLLIPNPRDIPGFVKEL-AKYKVNTFPAVNTLYNALLNNA 320 Query: 290 EGWRAGIRGPVKAMVAGAPPPAAVLAKMEAMQ-FELTHVYGLTEVYGPAAVCAEQDAWSA 348 + R G + G +V K + + + YGL+E P A Sbjct: 321 DFARLDFSGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGYGLSET-SPIA---------- 369 Query: 349 LSVDQRAVAKSRQGVRYHLQSGVTVLSPDTMEPVAADGEEIGEIMFRGNICMKGYLKNDR 408 S + + + + L S + D +PV + GEI RG M GY + Sbjct: 370 -SANPCTIDEYTGTIGLPLPSTEFAILDDDGQPVPLG--QPGEIAIRGPQVMPGYWQRPD 426 Query: 409 ATHEAFA-GGWFHTGDLGVMNADGYIKIKDRSKDIIISGGENISSVEVEDVLYRHPAVLA 467 T + G+F TGD+GVM+ GY KI DR KD+I+ G N+ EVE V+ +HP VL Sbjct: 427 ETAKVMTPDGFFKTGDIGVMDERGYTKIVDRKKDMILVSGFNVYPNEVEGVVAQHPGVLE 486 Query: 468 AAVVAQPDEKWGETPCAFVELKEGAETGAVELTEFCRSHLAGFKVPKAIYF-GPLPKTST 526 A V PDE GE FV +++ A +L ++C+ G+K PK I F LPKT+ Sbjct: 487 CACVGVPDEHTGEAVKLFV-VRKDKTLSAAQLMDYCKEQFTGYKKPKYIEFRDELPKTNV 545 Query: 527 GKIQKFELR 535 GKI + ELR Sbjct: 546 GKILRRELR 554 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 126 bits (316), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 149/521 (28%), Positives = 208/521 (39%), Gaps = 67/521 (12%) Query: 45 NWDQTYRRTRRLASALQQLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLNALNIRLDA 104 ++DQ + R A+AL+ GVG+ D + L V H GA+ L Sbjct: 64 SYDQLKILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVPLFYLFGP 123 Query: 105 ESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPGLKIV---EVFDELGPPAVAGERFGHL 161 ++I + L + A L+ D+ A L +LP L++V E D + P H Sbjct: 124 DAIAYRLDNSGAVALVTDASGMEKAT-LAGELPALRLVFCVESSDLVLPQTTDFWDRLHA 182 Query: 162 ---EYEALLATGDEHFEWKMPADEWDAIALNYTSGTTGDPKGVVYHHRGAALNAVSNILE 218 E + +L D D + YTSGTTG KG ++ HR +L Sbjct: 183 APAELDPVLTLAD------------DPAMIIYTSGTTGKAKGALHAHR---------VLL 221 Query: 219 WDLPKHPVYLWTLPMFHCNGWC--------------FPWTVAARAGVNVCLRKFEPKLVF 264 LP V + P W P A V L KF+ VF Sbjct: 222 GHLPGVEVSHDSFPQEGDRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLEKFDAAEVF 281 Query: 265 DLIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPVKAMVAGAPPPAAVLAK--MEAMQF 322 L+A H I + P L A RA ++++ +G L EA+ Sbjct: 282 GLLARHQIRNVFFPPTALKMLRGAAT-VRAQADFSLRSVASGGETLGDDLIAWGREALGV 340 Query: 323 ELTHVYGLTEVYGPAAVCAEQDAWSALSVDQ-RAVAKSRQGVRYHLQSGVTVLSPDTMEP 381 + YG TE V + + ++S RAV G V D Sbjct: 341 TINEFYGQTECN--LVVSSSSHCYPSVSGSMGRAV------------PGHVVQIVDEQGQ 386 Query: 382 VAADGEEIGEIMFRGN--ICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRS 439 V G +G I R + Y +N+ AT E FAG + TGDLG M+ GYI+ R+ Sbjct: 387 VLPHGT-VGNIAIRAPDPVMFLRYWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRN 445 Query: 440 KDIIISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGA---ETGA 496 D+I S G I +E+ L RHPAV AAVV D E AFV LK+G E Sbjct: 446 DDVITSAGYRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPDEALK 505 Query: 497 VELTEFCRSHLAGFKVPKAIYF-GPLPKTSTGKIQKFELRK 536 EL + R+ LA + P+ I F LP T+TGKI + L++ Sbjct: 506 AELQQHVRAQLAAHEYPRLISFVAALPTTATGKIMRKTLKE 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 0.417 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: 1,701,986 Number of extensions: 71182 Number of successful extensions: 280 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 250 Number of HSP's successfully gapped: 14 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)