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= 0077.0007.p (522 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... 142 7e-35 gi|300312041|ref|YP_003776133.1| acyl-CoA synthetase/AMP-acid li... 120 2e-28 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 111 2e-25 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 108 1e-24 gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 106 5e-24 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 142 bits (358), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 128/483 (26%), Positives = 210/483 (43%), Gaps = 40/483 (8%) Query: 22 LLLKGLLESSDRTLIVFNGRKTSFAEMAVRVAAMQKRLAAHGIRRGDRVALMLENGLDHM 81 +L +G + SDR + + E+ RV A+ L G+++GD++ + N Sbjct: 50 ILAQGAADGSDRLI--------PWREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIF 101 Query: 82 ALIYALMLSGVVWVPVNTRLKAPGISYLLGHCTPTLFIAQRSFAGL-----AELPELQER 136 +A GVVWVP N R+ P +YL + + R FA A P L+ Sbjct: 102 ESAWAAFKMGVVWVPTNFRITPPEAAYLGQSSGACVMLYDRGFAQYVDAVKAASPALEHV 161 Query: 137 LAWLDEFAGDIPAD----EQAPARPFAADIAPLETLCLIYTSGTTGAPKGVVFTHRMMRI 192 +A D AG++ + E + A A++ + L YTSGTTG PK + +H M Sbjct: 162 VALADARAGELDYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAF 221 Query: 193 ASEGTLTVSDVRPG----DRMFVWEPLCHIGGAQMLLVPFLQQTELHIV-ERFSSSKFWQ 247 L +D+ PG R V PL H G ++ + + ER + WQ Sbjct: 222 VVTNHL--ADLMPGLTHQSRSLVVAPLSHGAGVHAVINTARGAASILLSSERLVVEEAWQ 279 Query: 248 QIEAAQATHLHYLGGILDILTQLPPAAQPPHHTLRVAWGAGVSPRAWNGI--LERLKLSL 305 +E + +L + I+ IL + + H +L+ AG + + L++L L Sbjct: 280 LVEKYRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVL 339 Query: 306 RECYGMTEGSSFTT-----------VNTSGKVGSIGRALPWLKVELRNADGTPTRVGEIG 354 + YG+ E + T + +VG+ G +++ + N DG E G Sbjct: 340 VQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAILNDDGQELAPFETG 399 Query: 355 QVVVSSDVEGCFLPGYLDNPKASAEALQGGKLHTGDMARMDEEGDLYFVGRKTDSMRVRG 414 ++ V F+ GY +NP+A+A+A + HTGD+ +D++G LY GR +D G Sbjct: 400 EICVRG--PAVFM-GYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSDMYISGG 456 Query: 415 ENVSAWEIERVFVMHPAVAAAAAVGVTGDIGEQEIMLYVQYKEGAEASFPALAEWAKSKL 474 NV EIE + HPAV+ A +GV + + + K G + AL +S++ Sbjct: 457 SNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDGEALLAHLESRI 516 Query: 475 DHY 477 Y Sbjct: 517 GKY 519 >gi|300312041|ref|YP_003776133.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 539 Score = 120 bits (302), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 137/509 (26%), Positives = 222/509 (43%), Gaps = 71/509 (13%) Query: 34 TLIVFNGRKTSFAEMAVRVAAMQKRLAAHGIRRGDRVALMLENGLDHMALIYALMLSGVV 93 T + + G++ +A +A V + L A G+ G+RVA+ LE ++ + ++ +G+V Sbjct: 21 TALRYRGQQLDYAGLAAGVEQVAAALLALGLGPGERVAVYLEKRMETVLALFGAAAAGLV 80 Query: 94 WVPVNTRLKAPGISYLLGHCTPTLFIAQR----SFAG-LAELPELQE------------- 135 +VP+N LK +S++L C + ++ + A L++ P LQ Sbjct: 81 FVPINPLLKPAQVSHILQDCAVRVLVSSEPRHPALADRLSQCPALQTVVLVDAAAAAPAT 140 Query: 136 --------RLAWLD--EF--AGDIPADEQAPARPFAADIAPLETLCLIYTSGTTGAPKGV 183 RLA LD F A P +A R ADIA ++YTSG+TG PKGV Sbjct: 141 PAPPAPLGRLATLDWNAFLQAAPGPGSRRAHRR-IDADIA-----AILYTSGSTGQPKGV 194 Query: 184 VFTHRMMRIASEGTLTVSDVRPGDRMFVWEPLCHIGGAQMLLVPFLQQTELHIVERFSSS 243 V +HR + ++ P DR+ PL G L FL + ++ + Sbjct: 195 VLSHRNLVAGAQSVAGYLGNHPQDRLLAVLPLSFDYGLSQLSTAFLSGASVTLLNYLAPR 254 Query: 244 KFWQQIEAAQATHLHYLGGILDILTQLPPAAQPPHHTLR-VAWGAGVSPRAWNGILERLK 302 + A + + L G+ + QL P +LR + G PR+ +L +L+ Sbjct: 255 DI---LHAVASEGITGLAGVPPLWQQLAGLPWPQGCSLRYLTNSGGALPRS---VLAQLR 308 Query: 303 LSLREC-----YGMTEGSSFTTVNTSG---KVGSIGRALPWLKVELRNADGTPTRVGEIG 354 +L + YG+TE T + + + SIGRA+P ++ + DG+P GE+G Sbjct: 309 RALPQAQVFLMYGLTEAFRSTYLPPAELDRRPDSIGRAIPNAEIMVVRPDGSPCAPGEVG 368 Query: 355 QVVVSSDVEGCFLPGYLDNPKASAEALQGGK------------LHTGDMARMDEEGDLYF 402 ++V GY ++P +AE + + +GD RMDE+G LYF Sbjct: 369 ELVHRG---ALVAQGYWNDPARTAERFRPAPGREAALGTPELAVWSGDSVRMDEQGYLYF 425 Query: 403 VGRKTDSMRVRGENVSAWEIERVFVMHPAVAAAAAVGVTGDIGEQEIMLYVQYKEGAEAS 462 VGR D ++V G +S E+E V A VGV Q ++ V AS Sbjct: 426 VGRADDMIKVSGYRISPHEVEEVLHATGLADQFAVVGVAHPQQGQAVVAVV--PSSCTAS 483 Query: 463 FPALAEWAKSKLDHYI---AVHELATXLP 488 A+ + ++ L Y+ A+H LP Sbjct: 484 LEAVQQACRAHLPSYMLPAALHRWPGELP 512 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 134/494 (27%), Positives = 215/494 (43%), Gaps = 35/494 (7%) Query: 29 ESSDRTLIVF---NGRKTSFAEMAVRVAA--MQKRLAAHGIRRGDRVALMLENGLDHMAL 83 + S RT I+ +G TS++ +++ + L A G+ RGDR+ + L ++ + Sbjct: 44 DGSGRTAIICEDADGSVTSYSYDQLKILSDRFANALRAAGVGRGDRIGIYLSQRIETVIT 103 Query: 84 IYALMLSGVVWVPVNTRLKAPGISYLLGHCTPTLFIAQRS---FAGLA-ELPELQERLAW 139 A G + VP+ I+Y L + + S A LA ELP L RL + Sbjct: 104 HLAAYKLGAITVPLFYLFGPDAIAYRLDNSGAVALVTDASGMEKATLAGELPAL--RLVF 161 Query: 140 LDEFAGDI-PADEQAPARPFAA--DIAPLETLC-----LIYTSGTTGAPKGVVFTHRMMR 191 E + + P R AA ++ P+ TL +IYTSGTTG KG + HR++ Sbjct: 162 CVESSDLVLPQTTDFWDRLHAAPAELDPVLTLADDPAMIIYTSGTTGKAKGALHAHRVLL 221 Query: 192 IASEGTLTVSDVRP--GDRMFVWEPLCHIGGAQMLLVPFLQQTELHI---VERFSSSKFW 246 G D P GDR + IGG +L+P L + +E+F +++ + Sbjct: 222 GHLPGVEVSHDSFPQEGDRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLEKFDAAEVF 281 Query: 247 QQIEAAQATHLHYLGGILDILTQLPPAAQPPHHTLR-VAWGA---GVSPRAWNGILERLK 302 + Q ++ + L +L +LR VA G G AW E L Sbjct: 282 GLLARHQIRNVFFPPTALKMLRGAATVRAQADFSLRSVASGGETLGDDLIAWG--REALG 339 Query: 303 LSLRECYGMTEGSSFTTVNT---SGKVGSIGRALPWLKVELRNADGTPTRVGEIGQVVVS 359 +++ E YG TE + + ++ GS+GRA+P V++ + G G +G + + Sbjct: 340 VTINEFYGQTECNLVVSSSSHCYPSVSGSMGRAVPGHVVQIVDEQGQVLPHGTVGNIAIR 399 Query: 360 SDVEGCFLPGYLDNPKASAEALQGGKLHTGDMARMDEEGDLYFVGRKTDSMRVRGENVSA 419 + FL Y N +A+ E G L TGD+ MDE+G + ++GR D + G + Sbjct: 400 APDPVMFLR-YWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVITSAGYRIGP 458 Query: 420 WEIERVFVMHPAVAAAAAVGVTGDIGEQEIMLYVQYKEGAEASFPALAEWAKSKLDHYIA 479 IE + HPAV AA VGV + + + +V K+G AL + + +A Sbjct: 459 AAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPD-EALKAELQQHVRAQLA 517 Query: 480 VHELATXLPVAALL 493 HE + A L Sbjct: 518 AHEYPRLISFVAAL 531 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 108 bits (270), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 141/512 (27%), Positives = 211/512 (41%), Gaps = 69/512 (13%) Query: 1 MHRYTHYFPSRCGDDRLDVVSLLLKGLLESSDRTL----IVFNGRKTSFAEMAVRVAAMQ 56 M + H PS G LL+K LL S+ T I++ R+ S+A RV + Sbjct: 1 MPQAIHQTPSAYG------YPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLA 54 Query: 57 KRLAAHGIRRGDRVALMLENGLDHMALIYALMLSGVVWVPVNTRLKAPGISYLLGHCTPT 116 L G++ G+ VA+M + ++ +A+ + G V VN RL I+Y L H Sbjct: 55 NALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQAD 114 Query: 117 LFIAQRSFAGL-----AELPELQERLAWLDEFAGDIPADEQAP--ARPFAADIAPLETLC 169 + + F L EL L R WL + A P + P A + +A E C Sbjct: 115 VLLVNSDFLPLLKQIRGELTTLT-RCVWLTDDATPCP---RGPGFAGEYEELLAQAEPAC 170 Query: 170 ------------LIYTSGTTGAPKGVVFTHRMMRIASEGTLTVSDVRPGDRMF----VWE 213 YT+GTTG PKGV F+HR + + + T + P F V+ Sbjct: 171 DFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYM 230 Query: 214 PLC---HIGGAQMLLVPFLQQTELHIVERFSSSKFWQQIEAAQATHLHYLGGILDILTQL 270 PL H+ + V + + R+ + I + T H + IL Q+ Sbjct: 231 PLTPMFHVHAWGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTIL----QM 286 Query: 271 PPAAQPPHHTLRVAWGAGVSPRAWNGILERLK----LSLRECYGMTEGSSFTTVNT--SG 324 ++ W + A G L ++ + + YGM+E T+ + Sbjct: 287 VLTSEQAREADLSGWKMIIGGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTE 346 Query: 325 KVG---------SIGRALPWLKVELRNADG----TPTRVGEIGQVVVSSDVEGCFLPGYL 371 ++G GR LP V+LR DG P G+VVV + GYL Sbjct: 347 ELGGEREAAIRVKTGRPLPL--VDLRTVDGEMQDCPRDGSTTGEVVVRAP---WLTQGYL 401 Query: 372 DNPKASAEALQGGKLHTGDMARMDEEGDLYFVGRKTDSMRVRGENVSAWEIERVFVMHPA 431 +AS E +GG LHT D+ +D EG L R D ++ GE VS+ +IE + HPA Sbjct: 402 HQAEASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPA 461 Query: 432 VAAAAAVGVT-GDIGEQEIMLYVQYKEGAEAS 462 VA A +G+ G GE+ + L V K+ A S Sbjct: 462 VAETAVIGIQDGKWGERPVALVVLKKDAAAVS 493 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 106 bits (264), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 127/492 (25%), Positives = 203/492 (41%), Gaps = 68/492 (13%) Query: 33 RTLIVFNGRKTSFAEMAVRVAAMQKRLAAHGIRRGDRVALMLENGLDHMALIYALMLSGV 92 RT I+ + + + R + L G+ + D V+ ML N + + + ++G Sbjct: 34 RTAIIHGALRQDWDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGA 93 Query: 93 VWVPVNTRLKAPGISYLLGHCTPTLFIAQRSFAGLAE-----LPELQ------------- 134 V +N RL A I ++L H + + FA LA+ LP L+ Sbjct: 94 VLNALNIRLDAESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPALKIVEVFDELGPPPV 153 Query: 135 --ERLAWLDEFA----GDIPADEQAPARPFAADIAPLETLCLIYTSGTTGAPKGVVFTHR 188 ER L+ A GD D Q PA + A + L YTSGTTG PKGVV+ HR Sbjct: 154 AGERFGHLEYEALLAGGDEHFDWQMPADEWDA-------IALNYTSGTTGDPKGVVYHHR 206 Query: 189 MMRIASEGTLTVSDVRPGDRMFVWE-PLCHIGGAQMLLVPFLQQTELHIVERFSSSKFWQ 247 + + + D+ P +++W P+ H G + + +F + Sbjct: 207 GAALNAVSNILEWDL-PKHPVYLWTLPMFHCNGWCFPWTVAARAGVNVCLRKFEPKLVFD 265 Query: 248 QIEAAQATHLHYLGGILDILTQLPPAAQPPHHTLRVAWGAGVSPRAWN-GILERLKLSLR 306 I TH + L P + A AG P A +E ++ L Sbjct: 266 LIAEHGITHYCAAPIVHAALANAPEGWRAGIRGPVKAMVAGAPPPAAVLAKMEAMQFELT 325 Query: 307 ECYGMTE----------GSSFTTVNTSGKVGSIGRALPWLKVELRN-------------- 342 YG+TE + T++ + ++ ++ ++ L++ Sbjct: 326 HVYGLTEVYGPAAVCAEQDEWNTLSVDQR--AVQKSRQGVRYHLQSGVTVLSPDTMAPVA 383 Query: 343 ADGTPTRVGEIGQVVVSSDVEGCFLPGYLDNPKASAEALQGGKLHTGDMARMDEEGDLYF 402 ADG EIG+++ ++ C + GYL N +A+ EA GG HTGD+ M+ +G + Sbjct: 384 ADGE-----EIGEIMFRGNI--C-MKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKI 435 Query: 403 VGRKTDSMRVRGENVSAWEIERVFVMHPAVAAAAAVGVTGDIGEQEIMLYVQYKEGAEAS 462 R D + GEN+S+ E+E V HPAV AAA V + + +V+ KEGAE Sbjct: 436 KDRSKDIIISGGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVELKEGAEVG 495 Query: 463 FPALAEWAKSKL 474 L E+ +S L Sbjct: 496 AAELTEFCRSHL 507 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 0.321 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: 1,709,027 Number of extensions: 73863 Number of successful extensions: 275 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 252 Number of HSP's successfully gapped: 15 Length of query: 522 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 432 Effective length of database: 1,193,720 Effective search space: 515687040 Effective search space used: 515687040 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 (21.9 bits) S2: 133 (55.8 bits)