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= 0001.3767.p (566 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 1068 0.0 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 176 3e-45 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 161 1e-40 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 139 8e-34 gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [H... 132 6e-32 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 1068 bits (2762), Expect = 0.0, Method: Compositional matrix adjust. Identities = 522/566 (92%), Positives = 545/566 (96%) Query: 1 MDRFWLASYPAGVPADIDPSPYGSLVQMIDEAFVKHADRNAYVCMGKYLRYRELDAMSRA 60 M+RFWLASYPAGVPA+IDP YGSLVQMIDEAFV+HADR AYVCMGKYL YRELD++SRA Sbjct: 1 MERFWLASYPAGVPAEIDPGRYGSLVQMIDEAFVQHADRQAYVCMGKYLSYRELDSLSRA 60 Query: 61 LGAWLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEHQLKDSG 120 LG WLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEHQLKDSG Sbjct: 61 LGGWLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEHQLKDSG 120 Query: 121 AEAIFVLENFACTLQKVVAHTQIKHIVVASMGELLGTLKGAIVNLVVRHVKKLVPAWSLP 180 AEAIFVLENFACTLQKVVAHT IKHIVVASMGELLG LKG +VNLVVRHVKKLVPAWSLP Sbjct: 121 AEAIFVLENFACTLQKVVAHTNIKHIVVASMGELLGALKGTLVNLVVRHVKKLVPAWSLP 180 Query: 181 NAISFSRALSQAQGQSLQPVLLTPDDIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAEQW 240 NAI+FS+ALSQA+G++LQPV LT DDIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAE+W Sbjct: 181 NAITFSQALSQARGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAEEW 240 Query: 241 LTPALKSGQPIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIPNPRDIAGFVKELAK 300 LTPALK+G+PIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIPNPRDI GFVKELAK Sbjct: 241 LTPALKAGKPIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIPNPRDIPGFVKELAK 300 Query: 301 YKVNTFPAVNTLYNALLNNADFAKLDFSGYRCCVGGGMAVQKGVADKWKALTGCPIIEGY 360 YKVNTFPAVNTLYNALLNNADFA+LDFSGYRCCVGGGMAVQK VADKWK LTGCPIIEGY Sbjct: 301 YKVNTFPAVNTLYNALLNNADFARLDFSGYRCCVGGGMAVQKSVADKWKKLTGCPIIEGY 360 Query: 361 GLSETSPIASANPCTIDDYTGTIGLPLPSTEIAILDDDGQPLPLGQPGEIAIRGPQVMPG 420 GLSETSPIASANPCTID+YTGTIGLPLPSTE AILDDDGQP+PLGQPGEIAIRGPQVMPG Sbjct: 361 GLSETSPIASANPCTIDEYTGTIGLPLPSTEFAILDDDGQPVPLGQPGEIAIRGPQVMPG 420 Query: 421 YWQRPDETAKVMTPDGFFKTGDIGIMDARGYTRIVDRKKDMVLVSGFNVYPNEIESVVAL 480 YWQRPDETAKVMTPDGFFKTGDIG+MD RGYT+IVDRKKDM+LVSGFNVYPNE+E VVA Sbjct: 421 YWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDRKKDMILVSGFNVYPNEVEGVVAQ 480 Query: 481 HPGVLECACVGVPDEHTGEAVKLFVVRKDKSLTTEQLMAYCKEQFTGYKKPKYIEFRDEL 540 HPGVLECACVGVPDEHTGEAVKLFVVRKDK+L+ QLM YCKEQFTGYKKPKYIEFRDEL Sbjct: 481 HPGVLECACVGVPDEHTGEAVKLFVVRKDKTLSAAQLMDYCKEQFTGYKKPKYIEFRDEL 540 Query: 541 PKTNVGKILRRELRDEPAKAPQKQAA 566 PKTNVGKILRRELRDEPAKA QKQAA Sbjct: 541 PKTNVGKILRRELRDEPAKAQQKQAA 566 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 176 bits (447), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 147/520 (28%), Positives = 234/520 (45%), Gaps = 55/520 (10%) Query: 51 YRELDAMSRALGAWLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTAR 110 +RE++A AL L G++KG ++ + N Q + A + G V N T Sbjct: 65 WREINARVDALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGVVWVPTNFRITPP 124 Query: 111 ELEHQLKDSGAEAIFVLENFACTLQKVVAHT-QIKHIVV---ASMGELLGTLKGAIVNLV 166 E + + SGA + FA + V A + ++H+V A GEL Sbjct: 125 EAAYLGQSSGACVMLYDRGFAQYVDAVKAASPALEHVVALADARAGEL------------ 172 Query: 167 VRHVKKLVPAWSLPNAISFSRALSQAQGQSLQPVLLTPDDIAFLQYTGGTTGVAKGAVLT 226 + + + G + + + DD + YT GTTG K +L+ Sbjct: 173 -----------------DYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLS 215 Query: 227 HRNLVANVLQAEQWLTPALKSGQPIDQLVFVCALPLYHIFALTVCNMLGTREGALNLLIP 286 H + V L P L Q + PL H V ++ T GA ++L+ Sbjct: 216 HGQMAFVVTNHLADLMPGLTH-----QSRSLVVAPLSH--GAGVHAVINTARGAASILLS 268 Query: 287 NPRDIAGFVKELA-KYKVNTFPAVNTLYNALLNNADFAKLDFSGYRCCVGGGMAVQKGVA 345 + R + +L KY+V+ V T+ L+ + + D S + + G + + A Sbjct: 269 SERLVVEEAWQLVEKYRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYR--A 326 Query: 346 DKWKALT--GCPIIEGYGLSETSPIASANPCTI---DD-----YTGTIGLPLPSTEIAIL 395 D+ AL G +++ YGL E + + P + DD GT G+P +IAIL Sbjct: 327 DQVYALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAIL 386 Query: 396 DDDGQPLPLGQPGEIAIRGPQVMPGYWQRPDETAKVMTPDGFFKTGDIGIMDARGYTRIV 455 +DDGQ L + GEI +RGP V GY P+ AK D +F TGD+G +D G+ I Sbjct: 387 NDDGQELAPFETGEICVRGPAVFMGYHNNPEANAKAFKHD-WFHTGDLGHVDQDGFLYIT 445 Query: 456 DRKKDMVLVSGFNVYPNEIESVVALHPGVLECACVGVPDEHTGEA-VKLFVVRKDKSLTT 514 R DM + G NVYP EIE + HP V E A +GVPD GE+ + + V + + + Sbjct: 446 GRSSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDG 505 Query: 515 EQLMAYCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELR 554 E L+A+ + + YK P+ + D +PK+ GKI++++++ Sbjct: 506 EALLAHLESRIGKYKWPRRFIYWDSMPKSGYGKIVKKQIK 545 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 161 bits (408), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 162/579 (27%), Positives = 243/579 (41%), Gaps = 76/579 (13%) Query: 7 ASYPAGVPADIDPSPYG-------SLVQMIDEAFVKHADRNAYVCMG-----KYLRYREL 54 A Y AG +PSPY ++ Q + + + R A +C Y +L Sbjct: 14 AHYRAG-----NPSPYEWQIPTHFNIAQAACDRWADGSGRTAIICEDADGSVTSYSYDQL 68 Query: 55 DAMSRALGAWLQGLGLQKGARVAIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEH 114 +S L+ G+ +G R+ I + ++ I A + G V + L+ + + Sbjct: 69 KILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVPLFYLFGPDAIAY 128 Query: 115 QLKDSGAEAIFVLENFACTLQKVVAHTQIKHIVVASMGELLGTLKGAIVNLVVRHVKKLV 174 +L +SGA A L A ++K L G L + V LV Sbjct: 129 RLDNSGAVA---LVTDASGMEKAT---------------LAGELPALRLVFCVES-SDLV 169 Query: 175 PAWSLPNAISFSRALSQAQGQSLQPVLLTPDDIAFLQYTGGTTGVAKGAVLTHRNLVANV 234 LP F L A + L PVL DD A + YT GTTG AKGA+ HR L+ ++ Sbjct: 170 ----LPQTTDFWDRLHAAPAE-LDPVLTLADDPAMIIYTSGTTGKAKGALHAHRVLLGHL 224 Query: 235 -----------LQAEQWLTPALKSGQPIDQLVFVCALPLYHIFALTVCNMLGTREGALNL 283 + +++ TPA I L+ V LYH A+ + Sbjct: 225 PGVEVSHDSFPQEGDRFWTPA--DWAWIGGLLDVLLPSLYHGVAVVARRL---------- 272 Query: 284 LIPNPRDIAGFVKELAKYKVNTFPAVNTLYNALLNNADF-AKLDFSGYRCCVGGGMAVQK 342 D A LA++++ T L A A+ DFS R GG + Sbjct: 273 ---EKFDAAEVFGLLARHQIRNVFFPPTALKMLRGAATVRAQADFS-LRSVASGGETLGD 328 Query: 343 GVADKWKALTGCPIIEGYGLSETSPIASANPCTIDDYTGTIGLPLPSTEIAILDDDGQPL 402 + + G I E YG +E + + S++ +G++G +P + I+D+ GQ L Sbjct: 329 DLIAWGREALGVTINEFYGQTECNLVVSSSSHCYPSVSGSMGRAVPGHVVQIVDEQGQVL 388 Query: 403 PLGQPGEIAIRGPQ--VMPGYWQRPDETAKVMTPDGFFKTGDIGIMDARGYTRIVDRKKD 460 P G G IAIR P + YW+ + T + D F TGD+G MD +GY R + R D Sbjct: 389 PHGTVGNIAIRAPDPVMFLRYWRNEEATREKFAGD-FLLTGDLGSMDEQGYIRYLGRNDD 447 Query: 461 MVLVSGFNVYPNEIESVVALHPGVLECACVGVPDEHTGEAVKLFVVRKDKSLTTEQLMA- 519 ++ +G+ + P IE + HP V A VGV D E VK FVV KD E L A Sbjct: 448 VITSAGYRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPDEALKAE 507 Query: 520 ---YCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELRD 555 + + Q ++ P+ I F LP T GKI+R+ L++ Sbjct: 508 LQQHVRAQLAAHEYPRLISFVAALPTTATGKIMRKTLKE 546 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 139 bits (349), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 146/564 (25%), Positives = 242/564 (42%), Gaps = 57/564 (10%) Query: 19 PSPYGS--LVQMIDEAFVKHADRNAYVCMGKYLRYRELDAMSRALGAWLQGLGLQKGARV 76 PS YG L++ + + + A + + L Y + L L+ +GLQ G V Sbjct: 9 PSAYGYPLLIKQLLHSALATASGQEIIYGQRRLSYAGFYERVQRLANALKEMGLQPGNTV 68 Query: 77 AIMMPNVLQYPIAIAAILRAGYTVVNVNPLYTARELEHQLKDSGAEAIFVLENFACTLQK 136 A+M + +Y A+ G + VN + ++ + L + A+ + V +F Sbjct: 69 AVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNSDFL----- 123 Query: 137 VVAHTQIKHIVVASMGELLGTLKGAIVNLVVRHVKKLVPAWSLPNAISFSRALSQAQGQS 196 LL ++G + L R V A P F+ + Q+ Sbjct: 124 ----------------PLLKQIRGELTTLT-RCVWLTDDATPCPRGPGFAGEYEELLAQA 166 Query: 197 LQPVLLTPD----DIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAEQWLTPALKSGQPID 252 +P PD A YT GTTG+ KG +HR LV + L L A + G+ Sbjct: 167 -EPACDFPDFDENARATTFYTTGTTGLPKGVYFSHRQLVLHTLATTAGLALAPQQGRFHR 225 Query: 253 QLVFVCALPLYHIFAL---TVCNMLGTREGALNLLIPNPRDIAGFVKELAKYKVNTFPAV 309 V++ P++H+ A V M G ++ +P+ I ++E KV V Sbjct: 226 DDVYMPLTPMFHVHAWGLPYVATMAGVKQVYPGRYVPD--TICRLIRE---EKVTFSHCV 280 Query: 310 NTLYNALLNNADFAKLDFSGYRCCVGGGMAVQKGVADKWKALTGCPIIEGYGLSETSPIA 369 T+ +L + + D SG++ +GG + G K G + GYG+SET P+ Sbjct: 281 PTILQMVLTSEQAREADLSGWKMIIGG--SAMTGSLAKMARDRGIDVFTGYGMSETCPVL 338 Query: 370 SANPCTIDDYTG--------TIGLPLPSTEIAILDDDGQPLPL--GQPGEIAIRGPQVMP 419 + ++ G G PLP ++ +D + Q P GE+ +R P + Sbjct: 339 TLAQVPTEELGGEREAAIRVKTGRPLPLVDLRTVDGEMQDCPRDGSTTGEVVVRAPWLTQ 398 Query: 420 GYWQRPDETAKVMTPDGFFKTGDIGIMDARGYTRIVDRKKDMVLVSGFNVYPNEIESVVA 479 GY + E ++ + G+ T DIG +DA GY ++ DR KD++ G V +IE ++A Sbjct: 399 GYLHQA-EASEELWRGGWLHTQDIGHLDAEGYLQVTDRIKDVIKTGGEWVSSLQIEDIIA 457 Query: 480 LHPGVLECACVGVPDEHTGEA-VKLFVVRKDKSLTTEQLM------AYCKEQFTGYKKPK 532 HP V E A +G+ D GE V L V++KD + +E + A + Y P Sbjct: 458 RHPAVAETAVIGIQDGKWGERPVALVVLKKDAAAVSEDDIREHVRAAAEAGAISRYGVPD 517 Query: 533 YIEFRDELPKTNVGKILRRELRDE 556 + F EL +T+VGK+ +R +R++ Sbjct: 518 RVRFVAELARTSVGKLNKRVMREQ 541 >gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 660 Score = 132 bits (333), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 153/572 (26%), Positives = 231/572 (40%), Gaps = 88/572 (15%) Query: 36 HADRNAYVCM---GKYLR--YRELDAMSRALGAWLQGLGLQKGARVAIMMPNVLQYPIAI 90 +AD+ A + GK R YREL L+ LG++KG RV I MP ++ A+ Sbjct: 96 NADKTAVIFESDDGKVTRVSYRELHQKVCQFANGLKSLGIKKGDRVVIYMPMSVEGVAAM 155 Query: 91 AAILRAGYTVVNVNPLYTARELEHQLKDSGAEAIFVLE-----NFACTLQKVVAHT---- 141 A R G T V ++A+ L ++ D+GA A+ + L+ +V Sbjct: 156 QACARIGATHSVVFGGFSAKSLHERVIDAGAVAVLTADYQVRGGKQLPLKSIVDEALDMG 215 Query: 142 ---QIKHIVVASMGELLGTLKGAIVNLVVRHVKKLVPAWSLPNAISFSRALSQAQGQSLQ 198 +KH+VV GA +N W + S ++ Q + + Sbjct: 216 GCDTLKHVVVYKRA-------GAEIN------------WVEGRDLWLSDVVAN-QSDTCE 255 Query: 199 PVLLTPDDIAFLQYTGGTTGVAKGAVLTHRNLVANVLQAEQWLTPALKSGQPIDQLVFVC 258 P + + F+ YT G+TG KG + + +W +P D V+ C Sbjct: 256 PEWVDAEHPLFILYTSGSTGKPKGVQHASAGYLLWAVLTMKWTFDI----KPDD--VYWC 309 Query: 259 ALPLYHIFALTVCNMLGTREGALNLL---IPNPRDIAGFVKELAKYKVNTFPAVNTLYNA 315 + I T GA ++ +P + F +A++K F T + Sbjct: 310 TADIGWITGHTYIAYGPLAVGATQIVFEGVPTYPNAGRFWDMVARHKATIFYTAPTAIRS 369 Query: 316 LLNNADF------AKLDFSGYRCCVGGG--------MAVQKGVADKWKALTGCPIIEGYG 361 L+ AD + D S R G M K V + CPI++ + Sbjct: 370 LIKAADADEKVHPKQYDLSSLRILGSVGEPINPEAWMWYYKNVGHE-----NCPIVDTFW 424 Query: 362 LSET-----SPIASANPCTIDDYTGTIGLPLPSTEIAILDDDGQPLPLGQPGEIAIR--G 414 +ET SP+ A P G+ LPLP AI+D+ G +P G G + ++ Sbjct: 425 QTETGGHMISPLPGATP----QVPGSCTLPLPGITAAIVDETGNDIPNGNGGILVVKRPW 480 Query: 415 PQVMPGYWQRPDETAKVMTPDGF----FKTGDIGIMDAR-GYTRIVDRKKDMVLVSGFNV 469 P ++ W P+ K P+ + GD + + GY I R D++ VSG + Sbjct: 481 PSMIRTIWNDPERFKKSYFPEELGGKIYLAGDGAVRNKETGYFTITGRIDDVLNVSGHRM 540 Query: 470 YPNEIESVVALHPGVLECACVGVPDEHTGEAVKLFVVRKDKSLTTEQLMAYCKE------ 523 EIES + + V E A VG PDE TGE++ FVV K T ++ KE Sbjct: 541 GTMEIESALVANSIVAEAAVVGKPDETTGESICAFVVLKRPRPTGDEAKQIAKELRDWVA 600 Query: 524 -QFTGYKKPKYIEFRDELPKTNVGKILRRELR 554 + KPK I F D LPKT GKI+RR LR Sbjct: 601 KEIGPIAKPKEIRFGDNLPKTRSGKIMRRLLR 632 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 0.138 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: 1,760,955 Number of extensions: 74152 Number of successful extensions: 223 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 19 Length of query: 566 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 476 Effective length of database: 1,193,720 Effective search space: 568210720 Effective search space used: 568210720 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)