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= 0001.2838.p (556 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [H... 1035 0.0 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 275 7e-75 gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [H... 194 2e-50 gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspir... 175 8e-45 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 127 2e-30 >gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 1035 bits (2676), Expect = 0.0, Method: Compositional matrix adjust. Identities = 510/556 (91%), Positives = 535/556 (96%) Query: 1 MPAPIPVPRKPDYADVYAAFRIEALREQFRGDFETGINACVECCDRHIQGDKIALDFVSI 60 MP IP PR+PDYADVYA FRIE LREQF+GDFETGINACVECCDRH++GD IAL+FVS+ Sbjct: 1 MPELIPAPRQPDYADVYAGFRIETLREQFQGDFETGINACVECCDRHVKGDNIALEFVSL 60 Query: 61 HGQHHPYSFAQIRSMASRVANLLKQQGIQPGQIVAGMLPRTPELLATVLGTLRAGAVYQP 120 HG+H YSFAQ+RSMA+RVANLL+QQGIQPGQIVAGMLPRTPELLATVLGTLRAGAVYQP Sbjct: 61 HGEHQQYSFAQVRSMAARVANLLRQQGIQPGQIVAGMLPRTPELLATVLGTLRAGAVYQP 120 Query: 121 LFTAFGPKAIEHRLALSGARLIVTNVANRAKLDEIAHCPQVCTVRESSDPLRTGDIDFRA 180 LFTAFGPKAIEHRLALSGA LIVTNVANR KLDEIA+CPQVCTVRES+DPLR GDIDFRA Sbjct: 121 LFTAFGPKAIEHRLALSGASLIVTNVANRDKLDEIANCPQVCTVRESNDPLRAGDIDFRA 180 Query: 181 AVDAQSDDFAPVMRSGSDLMFMMSTSGTTGAAKGVPVPLSALQAFAVYMRQAVGLLPQDK 240 AVDAQSDDFAPV+RSG+DLM MMSTSGTTGAAKGVPVPLSALQAF+VYMR+AVGLLPQDK Sbjct: 181 AVDAQSDDFAPVLRSGADLMLMMSTSGTTGAAKGVPVPLSALQAFSVYMREAVGLLPQDK 240 Query: 241 FWNMADPGWAYGLYYAIIGPLAIGQGITFNEAAFTVQGSYELIRRLGITSLAGAPTAYRM 300 FWNMADPGWAYGLYYAIIGPLAIG GITFNEAAFTV G+YE IRRLGITSLAGAPTAYRM Sbjct: 241 FWNMADPGWAYGLYYAIIGPLAIGHGITFNEAAFTVSGTYETIRRLGITSLAGAPTAYRM 300 Query: 301 MMAAGEEAAASVKGQLRAVSSAGEPLNAEVVRWFASALDVPIHDHYGQTELGMVVNNHHA 360 MMAAGEEAAASVKG+LRAVSSAGEPLNAEVVRWFASALDVPIHDHYGQTELGMVVNNHHA Sbjct: 301 MMAAGEEAAASVKGRLRAVSSAGEPLNAEVVRWFASALDVPIHDHYGQTELGMVVNNHHA 360 Query: 361 LQHEVVPGSAGFAMPGYRVVVLDDNLQELGANQPGELAIDIARSPLFWFSGYWKQETPAI 420 L+HEVVPGSAGFAMPGYRVVVLD+N QELGANQPGELAIDIARSPL+WFSGYWKQ+TPAI Sbjct: 361 LRHEVVPGSAGFAMPGYRVVVLDENHQELGANQPGELAIDIARSPLYWFSGYWKQDTPAI 420 Query: 421 AGGYYATGDNVELEKNGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVADVAVIGLP 480 A GYY+TGDNVELE NGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVADVAVIGLP Sbjct: 421 AHGYYSTGDNVELEPNGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVADVAVIGLP 480 Query: 481 DPERTEIVKAFVVLSDKFKASDELAEQLAQHVKRRLSAHAYPRAIEFVDALPKTPSGKLQ 540 DPERTEIVKAFVVLSD+FKASD L EQLAQHVKRRLSAHAYPRAIEF+DALPKTPSGKLQ Sbjct: 481 DPERTEIVKAFVVLSDQFKASDALREQLAQHVKRRLSAHAYPRAIEFLDALPKTPSGKLQ 540 Query: 541 RFVLRKMEADRRAEHP 556 RFVLRKMEADRRA HP Sbjct: 541 RFVLRKMEADRRAGHP 556 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 275 bits (703), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 194/533 (36%), Positives = 274/533 (51%), Gaps = 33/533 (6%) Query: 35 TGINACVECCDRHIQGD-KIALDFVSIHGQHHPYSFAQIRSMASRVANLLKQQGIQPGQI 93 T N CDR G + A+ G YS+ Q++ ++ R AN L+ G+ G Sbjct: 30 THFNIAQAACDRWADGSGRTAIICEDADGSVTSYSYDQLKILSDRFANALRAAGVGRGDR 89 Query: 94 VAGMLPRTPELLATVLGTLRAGAVYQPLFTAFGPKAIEHRLALSGARLIVTNVANRAKLD 153 + L + E + T L + GA+ PLF FGP AI +RL SGA +VT+ + K Sbjct: 90 IGIYLSQRIETVITHLAAYKLGAITVPLFYLFGPDAIAYRLDNSGAVALVTDASGMEKAT 149 Query: 154 EIAHCPQVCTV--RESSDPLRTGDIDFRAAVDAQSDDFAPVMRSGSDLMFMMSTSGTTGA 211 P + V ESSD + DF + A + PV+ D ++ TSGTTG Sbjct: 150 LAGELPALRLVFCVESSDLVLPQTTDFWDRLHAAPAELDPVLTLADDPAMIIYTSGTTGK 209 Query: 212 AKGVPVPLSALQAFAVYMRQAVGL------LPQ--DKFWNMADPGWAYGLYYAIIGPLAI 263 AKG AL A V + G+ PQ D+FW AD W GL ++ L Sbjct: 210 AKG------ALHAHRVLLGHLPGVEVSHDSFPQEGDRFWTPADWAWIGGLLDVLLPSLYH 263 Query: 264 GQGITFNE-AAFTVQGSYELIRRLGITSLAGAPTAYRMMMAAGEEAAASVKGQ----LRA 318 G + F + L+ R I ++ PTA +M+ AA+V+ Q LR+ Sbjct: 264 GVAVVARRLEKFDAAEVFGLLARHQIRNVFFPPTALKML-----RGAATVRAQADFSLRS 318 Query: 319 VSSAGEPLNAEVVRWFASALDVPIHDHYGQTELGMVVNNHHALQHEVVPGSAGFAMPGYR 378 V+S GE L +++ W AL V I++ YGQTE +VV++ + V GS G A+PG+ Sbjct: 319 VASGGETLGDDLIAWGREALGVTINEFYGQTECNLVVSSSSHC-YPSVSGSMGRAVPGHV 377 Query: 379 VVVLDDNLQELGANQPGELAIDIARSPLFWFSGYWKQETPA---IAGGYYATGDNVELEK 435 V ++D+ Q L G +AI A P+ F YW+ E AG + TGD +++ Sbjct: 378 VQIVDEQGQVLPHGTVGNIAIR-APDPVM-FLRYWRNEEATREKFAGDFLLTGDLGSMDE 435 Query: 436 NGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVADVAVIGLPDPERTEIVKAFVVLS 495 G I ++GR+DDVITSAGYRIGP +E L+ HPAV AV+G+ D RTE+VKAFVVL Sbjct: 436 QGYIRYLGRNDDVITSAGYRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLK 495 Query: 496 DKFKASDELAEQLAQHVKRRLSAHAYPRAIEFVDALPKTPSGKLQRFVLRKME 548 D + L +L QHV+ +L+AH YPR I FV ALP T +GK+ R L++M+ Sbjct: 496 DGVTPDEALKAELQQHVRAQLAAHEYPRLISFVAALPTTATGKIMRKTLKEMD 548 >gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 660 Score = 194 bits (492), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 159/555 (28%), Positives = 248/555 (44%), Gaps = 49/555 (8%) Query: 37 INACVECCDRHIQG---DKIALDFVSIHGQHHPYSFAQIRSMASRVANLLKQQGIQPGQI 93 +N C D +++ DK A+ F S G+ S+ ++ + AN LK GI+ G Sbjct: 81 VNVSYNCLDVNLENGNADKTAVIFESDDGKVTRVSYRELHQKVCQFANGLKSLGIKKGDR 140 Query: 94 VAGMLPRTPELLATVLGTLRAGAVYQPLFTAFGPKAIEHRLALSGARLIVT--------- 144 V +P + E +A + R GA + +F F K++ R+ +GA ++T Sbjct: 141 VVIYMPMSVEGVAAMQACARIGATHSVVFGGFSAKSLHERVIDAGAVAVLTADYQVRGGK 200 Query: 145 NVANRAKLDEIAHCPQVCTVRESSDPLRTG---------DIDFRAAVDAQSDDFAPVMRS 195 + ++ +DE T++ R G D+ V QSD P Sbjct: 201 QLPLKSIVDEALDMGGCDTLKHVVVYKRAGAEINWVEGRDLWLSDVVANQSDTCEPEWVD 260 Query: 196 GSDLMFMMSTSGTTGAAKGVPVPLSALQAFAVY-MRQAVGLLPQDKFWNMADPGWAYGLY 254 +F++ TSG+TG KGV + +AV M+ + P D +W AD GW G Sbjct: 261 AEHPLFILYTSGSTGKPKGVQHASAGYLLWAVLTMKWTFDIKPDDVYWCTADIGWITGHT 320 Query: 255 YAIIGPLAIGQGITFNEAAFTVQGS---YELIRRLGITSLAGAPTAYRMMMAAGEEAAAS 311 Y GPLA+G E T + ++++ R T APTA R ++ A + Sbjct: 321 YIAYGPLAVGATQIVFEGVPTYPNAGRFWDMVARHKATIFYTAPTAIRSLIKAADADEKV 380 Query: 312 VKGQ-----LRAVSSAGEPLNAEVVRWFASAL---DVPIHDHYGQTELGMVVNNHHALQH 363 Q LR + S GEP+N E W+ + + PI D + QTE G + + Sbjct: 381 HPKQYDLSSLRILGSVGEPINPEAWMWYYKNVGHENCPIVDTFWQTETGGHMISPLPGAT 440 Query: 364 EVVPGSAGFAMPGYRVVVLDDNLQELGANQPGELAID---------IARSPLFWFSGYWK 414 VPGS +PG ++D+ ++ G L + I P + Y+ Sbjct: 441 PQVPGSCTLPLPGITAAIVDETGNDIPNGNGGILVVKRPWPSMIRTIWNDPERFKKSYFP 500 Query: 415 QETPAIAGGYYATGDN-VELEKNGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVAD 473 +E + G Y GD V ++ G + GR DDV+ +G+R+G ++ESAL+ + VA+ Sbjct: 501 EE---LGGKIYLAGDGAVRNKETGYFTITGRIDDVLNVSGHRMGTMEIESALVANSIVAE 557 Query: 474 VAVIGLPDPERTEIVKAFVVLSDKFKASDE---LAEQLAQHVKRRLSAHAYPRAIEFVDA 530 AV+G PD E + AFVVL DE +A++L V + + A P+ I F D Sbjct: 558 AAVVGKPDETTGESICAFVVLKRPRPTGDEAKQIAKELRDWVAKEIGPIAKPKEIRFGDN 617 Query: 531 LPKTPSGKLQRFVLR 545 LPKT SGK+ R +LR Sbjct: 618 LPKTRSGKIMRRLLR 632 >gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 628 Score = 175 bits (444), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 155/558 (27%), Positives = 254/558 (45%), Gaps = 48/558 (8%) Query: 38 NACVECCDRHI--QGDKIALDFVSIH-GQHHPYSFAQIRSMASRVANLLKQQGIQPGQIV 94 N C DRH+ + + AL +S Y++A+++ +A ++ G+Q G V Sbjct: 52 NLCHNAVDRHLPERAQQAALIAISTETNSERVYTYAELQQEVMAMAASMQALGVQRGDRV 111 Query: 95 AGMLPRTPELLATVLGTLRAGAVYQPLFTAFGPKAIEHRLALSGARLIVTNVAN------ 148 +P E + +L R GAV+ +F F ++ R+ + RLIV+ A Sbjct: 112 LIYMPMIAEAVFAMLACARIGAVHSVVFGGFASNSLASRIDDAQPRLIVSADAGSRGGKV 171 Query: 149 ---RAKLDEI----AHCPQ-VCTVRESSDPL-RTG--DIDFRAAVDAQSDDFAPVMRSGS 197 + LDE H PQ V V P+ RT D+D+ PV S Sbjct: 172 IPYKGLLDEAIAMAQHRPQHVLLVDRGLAPMARTAQRDVDYAPLRTQHLGQQVPVTWLES 231 Query: 198 DLM-FMMSTSGTTGAAKGVPVPLSALQ-AFAVYMRQAVGLLPQDKFWNMADPGWAYGLYY 255 + +++ TSGTTG KGV + A A M+ P + ++ +D GW G Y Sbjct: 232 NASSYILYTSGTTGKPKGVQRDVGGYAVALASSMQHIFCGQPGETYFCTSDIGWVVGHSY 291 Query: 256 AIIGPLAIGQGITFNEAAFTVQGS---YELIRRLGITSLAGAPTAYRMMMAAGEEAAASV 312 + GPL G E + + ++ + +T + APTA R++ E Sbjct: 292 IVYGPLIAGMATVLYEGLPIRPDAGIWWSIVEKYKVTRMFSAPTAIRVLKKQPPECMERY 351 Query: 313 -KGQLRAVSSAGEPLNAEVVRWFASALDVPIHDHYGQTELGM-VVNNHHALQHEVVP-GS 369 L+A+ AGEPL+ W + AL VP+ D+Y QTE G +++ + + GS Sbjct: 352 DTSSLKALYLAGEPLDETTSSWISGALKVPVIDNYWQTESGWPIISIAKGIDDKPTRLGS 411 Query: 370 AGFAMPGYRVVVLDDNLQE-LGANQPGELAIDIARSPLF----------WFSGYWKQETP 418 G MPGYR+ +LD+ E G +Q G +AI+ P + + YW+ Sbjct: 412 PGVPMPGYRLAILDEATGEPCGPDQKGVVAIEGPLPPGCMQTVYGDDERFVNTYWR---- 467 Query: 419 AIAGGYYATGDNVELEKNGSISFIGRSDDVITSAGYRIGPFDVESALLEHPAVADVAVIG 478 ++ Y+T D +K+G +GR+DDVI AG+R+G ++E ++ HP V++VAV+G Sbjct: 468 SLPREVYSTFDWGIRDKDGYYFILGRTDDVINVAGHRLGTREIEESISSHPNVSEVAVVG 527 Query: 479 LPDPERTEIVKAFVVLSDKF-----KASDELAEQLAQHVKRRLSAHAYPRAIEFVDALPK 533 + D + ++ AF + + + L ++ V +++ A P + FV LPK Sbjct: 528 VEDKLKGQVAFAFAIPKQAYTIATPEQRKALEAEIMAVVDKQIGAVGRPARVFFVSGLPK 587 Query: 534 TPSGKLQRFVLRKMEADR 551 T SGKL R ++ + R Sbjct: 588 TRSGKLLRRAIQSICEGR 605 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 127 bits (319), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 137/522 (26%), Positives = 218/522 (41%), Gaps = 61/522 (11%) Query: 68 SFAQIRSMASRVANLLKQQGIQPGQIVAGMLPRTPELLATVLGTLRAGAVY---QPLFTA 124 S+ ++ S++ + L+ G+Q G VA M+P + + LRAG PL+TA Sbjct: 50 SYRELDSLSRALGGWLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTA 109 Query: 125 FGPKAIEHRLALSGARLIVTNVANRAKLDEI-AHCP----QVCTVRESSDPLRTGDIDF- 178 + +EH+L SGA I L ++ AH V ++ E L+ ++ Sbjct: 110 ---RELEHQLKDSGAEAIFVLENFACTLQKVVAHTNIKHIVVASMGELLGALKGTLVNLV 166 Query: 179 --------------------RAAVDAQSDDFAPVMRSGSDLMFMMSTSGTTGAAKGVPVP 218 +A A+ PV + D+ F+ T GTTG AKG Sbjct: 167 VRHVKKLVPAWSLPNAITFSQALSQARGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAV-- 224 Query: 219 LSALQAFAVYMRQAVGLLPQDKFWNMADP---GWAYGLYYAIIGPLAIGQGITFNEAAFT 275 L+ A ++ L P K D A LY+ I L + + E A Sbjct: 225 LTHRNLVANVLQAEEWLTPALKAGKPIDQLVFVCALPLYH--IFALTVCNMLGTREGALN 282 Query: 276 --------VQGSYELIRRLGITSLAGAPTAYRMMMAAGEEAAASVKGQLRAVSSAGEPLN 327 + G + + + + + T Y ++ + A G R G + Sbjct: 283 LLIPNPRDIPGFVKELAKYKVNTFPAVNTLYNALLNNADFARLDFSG-YRCCVGGGMAVQ 341 Query: 328 AEVVRWFASALDVPIHDHYGQTELGMVVNNHHALQHEVVPGSAGFAMPGYRVVVLDDNLQ 387 V + PI + YG +E + + + E G+ G +P +LDD+ Q Sbjct: 342 KSVADKWKKLTGCPIIEGYGLSETSPIASANPCTIDEYT-GTIGLPLPSTEFAILDDDGQ 400 Query: 388 ELGANQPGELAIDIARSPLFWFSGYWKQ--ETPAIA--GGYYATGDNVELEKNGSISFIG 443 + QPGE+AI R P GYW++ ET + G++ TGD +++ G + Sbjct: 401 PVPLGQPGEIAI---RGPQV-MPGYWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVD 456 Query: 444 RSDDVITSAGYRIGPFDVESALLEHPAVADVAVIGLPDPERTEIVKAFVVLSDKFKASDE 503 R D+I +G+ + P +VE + +HP V + A +G+PD E VK FVV DK + Sbjct: 457 RKKDMILVSGFNVYPNEVEGVVAQHPGVLECACVGVPDEHTGEAVKLFVVRKDKTLS--- 513 Query: 504 LAEQLAQHVKRRLSAHAYPRAIEFVDALPKTPSGKLQRFVLR 545 A QL + K + + + P+ IEF D LPKT GK+ R LR Sbjct: 514 -AAQLMDYCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELR 554 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 0.136 0.404 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: 1,815,343 Number of extensions: 79851 Number of successful extensions: 356 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 312 Number of HSP's successfully gapped: 14 Length of query: 556 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 466 Effective length of database: 1,193,720 Effective search space: 556273520 Effective search space used: 556273520 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)