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= 0029.0127.p (545 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 1125 0.0 gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li... 228 8e-61 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 159 8e-40 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 142 9e-35 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 125 1e-29 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 1125 bits (2909), Expect = 0.0, Method: Compositional matrix adjust. Identities = 544/545 (99%), Positives = 544/545 (99%) Query: 1 MPQAIHQTPSAYGYPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLANALKEM 60 MPQAIHQTPSAYGYPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLANALKEM Sbjct: 1 MPQAIHQTPSAYGYPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLANALKEM 60 Query: 61 GLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNS 120 GLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNS Sbjct: 61 GLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNS 120 Query: 121 DFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAEPACDFPDFDENAR 180 DFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAEPACDFPDFDENAR Sbjct: 121 DFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAEPACDFPDFDENAR 180 Query: 181 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHA 240 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHA Sbjct: 181 ATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHA 240 Query: 241 WGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQMVLTSEQAREADLSS 300 WGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQMVLTSEQAREADLS Sbjct: 241 WGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQMVLTSEQAREADLSG 300 Query: 301 WKMIIGGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKT 360 WKMIIGGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKT Sbjct: 301 WKMIIGGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAIRVKT 360 Query: 361 GRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD 420 GRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD Sbjct: 361 GRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQD 420 Query: 421 IGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPV 480 IGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPV Sbjct: 421 IGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPV 480 Query: 481 ALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMRE 540 ALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMRE Sbjct: 481 ALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMRE 540 Query: 541 QYPSS 545 QYPSS Sbjct: 541 QYPSS 545 >gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 546 Score = 228 bits (582), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 175/522 (33%), Positives = 266/522 (50%), Gaps = 29/522 (5%) Query: 34 IIYGQRRLSYAGFYERVQRLANALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQ 93 II+G R + Y R +RLA+AL+ +G+ +TV+ M ++ +E F VPM G VL Sbjct: 37 IIHGALRQDWDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVPMAGAVLN 96 Query: 94 TVNVRLSPEQIAYTLNHAQADVLLVNSDFLPLLKQIRGELTTLTRCVWLTDDATPCP-RG 152 +N+RL E I + L H +A VLL++S+F L +Q+R +L L + V + D+ P P G Sbjct: 97 ALNIRLDAESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPAL-KIVEVFDELGPPPVAG 155 Query: 153 PGFAG-EYEELLAQAEPACDF--PDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLA 209 F EYE LLA + D+ P + +A A YT+GTTG PKGV + HR L+ ++ Sbjct: 156 ERFGHLEYEALLAGGDEHFDWQMPADEWDAIALN-YTSGTTGDPKGVVYHHRGAALNAVS 214 Query: 210 TTAGLALAPQQGRFHRDDVYMPLTPMFHVHAWGLPY-VATMAGVKQVYPGRYVPDTICRL 268 L + VY+ PMFH + W P+ VA AGV V ++ P + L Sbjct: 215 NILEWDLP-------KHPVYLWTLPMFHCNGWCFPWTVAARAGV-NVCLRKFEPKLVFDL 266 Query: 269 IREEKVTFSHCVPTILQMVLTSEQAREADLSS--WKMIIGGSAMTGSLAKMARDRGIDVF 326 I E +T P + + + + A + M+ G LAKM + ++ Sbjct: 267 IAEHGITHYCAAPIVHAALANAPEGWRAGIRGPVKAMVAGAPPPAAVLAKMEAMQ-FELT 325 Query: 327 TGYGMSETC-PVLTLA-QVPTEELGGEREAAIRVKTGRPLPLVDLRTV--DGEMQDCPRD 382 YG++E P A Q L ++ A + + G L TV M D Sbjct: 326 HVYGLTEVYGPAAVCAEQDEWNTLSVDQRAVQKSRQGVRYHLQSGVTVLSPDTMAPVAAD 385 Query: 383 GSTTGEVVVRAPWLTQGYLHQAEASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKT 442 G GE++ R +GYL A+ E + GGW HT D+G ++A+GY+++ DR KD+I + Sbjct: 386 GEEIGEIMFRGNICMKGYLKNDRATHEAFAGGWFHTGDLGVMNADGYIKIKDRSKDIIIS 445 Query: 443 GGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPVALVVLKKDAAAVSEDDIREHVR 502 GGE +SS+++ED++ RHPAV AV+ D KWGE P A V L K+ A V ++ E R Sbjct: 446 GGENISSVEVEDVLYRHPAVLAAAVVAQPDEKWGETPCAFVEL-KEGAEVGAAELTEFCR 504 Query: 503 AAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMREQYPS 544 + ++ + VP + F L +TS GK+ K +R++ S Sbjct: 505 S-----HLAGFKVPKAIYF-GPLPKTSTGKIQKFELRKRMKS 540 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 159 bits (401), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 139/500 (27%), Positives = 226/500 (45%), Gaps = 34/500 (6%) Query: 49 RVQRLANALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTL 108 RV LA+AL G++ G+ + V ++ + E +A MG V N R++P + AY Sbjct: 71 RVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPPEAAYLG 130 Query: 109 NHAQADVLLVNSDFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGE--YEELLAQA 166 + A V+L + F + ++ L V L D AGE YE L+ + Sbjct: 131 QSSGACVMLYDRGFAQYVDAVKAASPALEHVVALAD---------ARAGELDYEALVREG 181 Query: 167 EPAC-DFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHR 225 A + D + FYT+GTTG PK SH Q+ + T L P R Sbjct: 182 SGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSHGQMAF--VVTNHLADLMPGLTHQSR 239 Query: 226 DDVYMPLTPMFHVHAWGLPYVATMAGVKQVY--PGRYVPDTICRLIREEKVTFSHCVPTI 283 V PL+ VHA + T G + R V + +L+ + +V VPTI Sbjct: 240 SLVVAPLSHGAGVHA----VINTARGAASILLSSERLVVEEAWQLVEKYRVDNLFTVPTI 295 Query: 284 LQMVLTSEQAREADLSSWKMII--GGSAMTGSLAKMARDRGIDVFTGYGMSETCPVLTLA 341 +++++ E D SS K +I G + G + YG+ E +T Sbjct: 296 VKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVLVQYYGLGEVTGNITFL 355 Query: 342 QVPTEELGGEREAAIRVKT-GRPLPLVDLRTVDGEMQD-CPRDGSTTGEVVVRAPWLTQG 399 P + RV T G P + + ++ + Q+ P + TGE+ VR P + G Sbjct: 356 P-PYLHFEDDAHPQARVGTCGMPRTGMQIAILNDDGQELAPFE---TGEICVRGPAVFMG 411 Query: 400 YLHQAEASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARH 459 Y + EA+ + ++ W HT D+GH+D +G+L +T R D+ +GG V +IE+ + H Sbjct: 412 YHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSDMYISGGSNVYPREIEEALLTH 471 Query: 460 PAVAETAVIGIQDGKWGERPVALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPDRV 519 PAV+E AV+G+ D KWGE +A++V K V + + H+ + I +Y P R Sbjct: 472 PAVSEVAVLGVPDPKWGESGLAVIVCKA-GQQVDGEALLAHLES-----RIGKYKWPRRF 525 Query: 520 RFVAELARTSVGKLNKRVMR 539 + + ++ GK+ K+ ++ Sbjct: 526 IYWDSMPKSGYGKIVKKQIK 545 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 142 bits (357), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 110/369 (29%), Positives = 176/369 (47%), Gaps = 36/369 (9%) Query: 185 YTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHRDDVYMPLTPMFHVHAWGLP 244 YT GTTG+ KG +HR LV + L L A + G+ V++ P++H+ A Sbjct: 212 YTGGTTGVAKGAVLTHRNLVANVLQAEEWLTPALKAGKPIDQLVFVCALPLYHIFALT-- 269 Query: 245 YVATMAGVKQ-----VYPG-RYVPDTICRLIREEKVTFSHCVPTILQMVLTSEQAREADL 298 V M G ++ + P R +P + L + + TF V T+ +L + D Sbjct: 270 -VCNMLGTREGALNLLIPNPRDIPGFVKELAKYKVNTFP-AVNTLYNALLNNADFARLDF 327 Query: 299 SSWKMIIGGS-AMTGSLA-KMARDRGIDVFTGYGMSETCPVLTLAQVPTEELGGEREAAI 356 S ++ +GG A+ S+A K + G + GYG+SET P+ + +E G Sbjct: 328 SGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGYGLSETSPIASANPCTIDEYTG------ 381 Query: 357 RVKTGRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQA-EASEELWRGGW 415 G PLP + +D + Q P GE+ +R P + GY + E ++ + G+ Sbjct: 382 --TIGLPLPSTEFAILDDDGQPVPL--GQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGF 437 Query: 416 LHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKW 475 T DIG +D GY ++ DR KD+I G V ++E ++A+HP V E A +G+ D Sbjct: 438 FKTGDIGVMDERGYTKIVDRKKDMILVSGFNVYPNEVEGVVAQHPGVLECACVGVPDEHT 497 Query: 476 GERPVALVVLKKD---AAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGK 532 GE V L V++KD +AA D +E + Y P + F EL +T+VGK Sbjct: 498 GEA-VKLFVVRKDKTLSAAQLMDYCKEQ---------FTGYKKPKYIEFRDELPKTNVGK 547 Query: 533 LNKRVMREQ 541 + +R +R++ Sbjct: 548 ILRRELRDE 556 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 125 bits (313), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 128/498 (25%), Positives = 214/498 (42%), Gaps = 34/498 (6%) Query: 52 RLANALKEMGLQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHA 111 R ANAL+ G+ G+ + + + A +G + + P+ IAY L+++ Sbjct: 74 RFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVPLFYLFGPDAIAYRLDNS 133 Query: 112 QADVLLVNSDFLPLLKQIRGELTTLTRCVWLTDDATPCPRGPGFAGEYEELLAQAEPACD 171 A L+ ++ + + GEL L + P+ F A+ +P Sbjct: 134 GAVALVTDASGMEK-ATLAGELPALRLVFCVESSDLVLPQTTDFWDRLHAAPAELDPVLT 192 Query: 172 FPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQG-RFHRDDVYM 230 D A YT+GTTG KG +HR L+ H PQ+G RF + Sbjct: 193 LAD----DPAMIIYTSGTTGKAKGALHAHRVLLGHLPGVEVSHDSFPQEGDRFWTPADWA 248 Query: 231 PLTPMFHVHAWGLPYVATMAGVKQVYPGRYVPDTICRLIREEKVTFSHCVPTILQMVLTS 290 + + V LP + V ++ + L+ ++ PT L+M+ + Sbjct: 249 WIGGLLDVL---LPSLYHGVAVVARRLEKFDAAEVFGLLARHQIRNVFFPPTALKMLRGA 305 Query: 291 EQAR-EADLSSWKMIIGGSAMTGSLAKMARDR-GIDVFTGYGMSETCPVLTLAQVPTEEL 348 R +AD S + GG + L R+ G+ + YG +E V++ + + Sbjct: 306 ATVRAQADFSLRSVASGGETLGDDLIAWGREALGVTINEFYGQTECNLVVSSSSHCYPSV 365 Query: 349 GGEREAAIRVKTGRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAP--WLTQGYLHQAEA 406 G GR +P ++ VD + Q P T G + +RAP + Y EA Sbjct: 366 SG--------SMGRAVPGHVVQIVDEQGQVLPH--GTVGNIAIRAPDPVMFLRYWRNEEA 415 Query: 407 SEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETA 466 + E + G +L T D+G +D +GY++ R DVI + G + IE+ + RHPAV A Sbjct: 416 TREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVITSAGYRIGPAAIEECLMRHPAVRIAA 475 Query: 467 VIGIQDGKWGERPVALVVLKK----DAAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFV 522 V+G++D E A VVLK D A +E +++HVRA ++ + P + FV Sbjct: 476 VVGVKDALRTEVVKAFVVLKDGVTPDEALKAE--LQQHVRA-----QLAAHEYPRLISFV 528 Query: 523 AELARTSVGKLNKRVMRE 540 A L T+ GK+ ++ ++E Sbjct: 529 AALPTTATGKIMRKTLKE 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 0.411 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: 1,693,137 Number of extensions: 69094 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 207 Number of HSP's successfully gapped: 16 Length of query: 545 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 455 Effective length of database: 1,193,720 Effective search space: 543142600 Effective search space used: 543142600 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)