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= 0003.0023.p (402 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 495 e-141 gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [H... 205 7e-54 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 162 5e-41 gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [H... 147 1e-36 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 146 3e-36 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 495 bits (1274), Expect = e-141, Method: Compositional matrix adjust. Identities = 239/392 (60%), Positives = 295/392 (75%), Gaps = 3/392 (0%) Query: 1 LPALKTIFTIDGA---FDGTVDLHQALKHASSDLTPVLTKADDPAVIIYTSGTTGQPKGA 57 LPAL+ +F ++ + T D L A ++L PVLT ADDPA+IIYTSGTTG+ KGA Sbjct: 154 LPALRLVFCVESSDLVLPQTTDFWDRLHAAPAELDPVLTLADDPAMIIYTSGTTGKAKGA 213 Query: 58 LHAHRVLLGHLPGVEMSHNLFPMEGDRIWTPADWAWIGGLLDVLLPAWHHGVAVVAHRFE 117 LHAHRVLLGHLPGVE+SH+ FP EGDR WTPADWAWIGGLLDVLLP+ +HGVAVVA R E Sbjct: 214 LHAHRVLLGHLPGVEVSHDSFPQEGDRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLE 273 Query: 118 KFTGEAAFQLLQDHGVRNTFLPPTALKMMRTVADPETRWRFQLRSVASGGESLGVELLDW 177 KF F LL H +RN F PPTALKM+R A + F LRSVASGGE+LG +L+ W Sbjct: 274 KFDAAEVFGLLARHQIRNVFFPPTALKMLRGAATVRAQADFSLRSVASGGETLGDDLIAW 333 Query: 178 GRKTFGLTINEFYGQTECNMTVSSNAAVMACRPGAIGRAAPGHTLAIVDADGRVLPPGSD 237 GR+ G+TINEFYGQTECN+ VSS++ G++GRA PGH + IVD G+VLP G+ Sbjct: 334 GREALGVTINEFYGQTECNLVVSSSSHCYPSVSGSMGRAVPGHVVQIVDEQGQVLPHGTV 393 Query: 238 GNIAVQRPDPVMFLQYWNNPQATAAKFIGDWLLTGDTGCMDDEGYIRFVGRDDDVITSAG 297 GNIA++ PDPVMFL+YW N +AT KF GD+LLTGD G MD++GYIR++GR+DDVITSAG Sbjct: 394 GNIAIRAPDPVMFLRYWRNEEATREKFAGDFLLTGDLGSMDEQGYIRYLGRNDDVITSAG 453 Query: 298 YRIGPGEIEDNILQHAAVKMVAVIGSPDPQRTEIVVAVIVLNDGVTGDDRLKREIQDHVK 357 YRIGP IE+ +++H AV++ AV+G D RTE+V A +VL DGVT D+ LK E+Q HV+ Sbjct: 454 YRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLKDGVTPDEALKAELQQHVR 513 Query: 358 VKLAAHEYPREIFFVDELPMTTTGKVIRRKLR 389 +LAAHEYPR I FV LP T TGK++R+ L+ Sbjct: 514 AQLAAHEYPRLISFVAALPTTATGKIMRKTLK 545 >gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 205 bits (521), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 144/393 (36%), Positives = 204/393 (51%), Gaps = 26/393 (6%) Query: 16 GTVDLHQALKHASSDLTPVLTKADDPAVIIYTSGTTGQPKG------ALHAHRVLLGHLP 69 G +D A+ S D PVL D +++ TSGTTG KG AL A V + Sbjct: 174 GDIDFRAAVDAQSDDFAPVLRSGADLMLMMSTSGTTGAAKGVPVPLSALQAFSVYMREAV 233 Query: 70 GVEMSHNLFPMEGDRIWTPADWAWIGGLLDVLLP--AWHHGVAVVAHRFEKFTGEAAFQL 127 G L P D+ W AD W GL ++ A HG+ FT ++ Sbjct: 234 G------LLPQ--DKFWNMADPGWAYGLYYAIIGPLAIGHGITF---NEAAFTVSGTYET 282 Query: 128 LQDHGVRNTFLPPTALKMMRTVADPET-RWRFQLRSVASGGESLGVELLDWGRKTFGLTI 186 ++ G+ + PTA +MM + + +LR+V+S GE L E++ W + I Sbjct: 283 IRRLGITSLAGAPTAYRMMMAAGEEAAASVKGRLRAVSSAGEPLNAEVVRWFASALDVPI 342 Query: 187 NEFYGQTECNMTVSSNAAVM-ACRPGAIGRAAPGHTLAIVDADGRVLPPGSDGNIAVQ-- 243 ++ YGQTE M V+++ A+ PG+ G A PG+ + ++D + + L G +A+ Sbjct: 343 HDHYGQTELGMVVNNHHALRHEVVPGSAGFAMPGYRVVVLDENHQELGANQPGELAIDIA 402 Query: 244 RPDPVMFLQYWNNPQATAAKFIGDWLLTGDTGCMDDEGYIRFVGRDDDVITSAGYRIGPG 303 R F YW Q T A G + TGD ++ G I F+GR DDVITSAGYRIGP Sbjct: 403 RSPLYWFSGYWK--QDTPAIAHG-YYSTGDNVELEPNGSISFIGRSDDVITSAGYRIGPF 459 Query: 304 EIEDNILQHAAVKMVAVIGSPDPQRTEIVVAVIVLNDGVTGDDRLKREIQDHVKVKLAAH 363 ++E +L+H AV VAVIG PDP+RTEIV A +VL+D D L+ ++ HVK +L+AH Sbjct: 460 DVESALLEHPAVADVAVIGLPDPERTEIVKAFVVLSDQFKASDALREQLAQHVKRRLSAH 519 Query: 364 EYPREIFFVDELPMTTTGKVIRRKLRAQVGEWR 396 YPR I F+D LP T +GK+ R LR + R Sbjct: 520 AYPRAIEFLDALPKTPSGKLQRFVLRKMEADRR 552 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 162 bits (410), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 120/411 (29%), Positives = 193/411 (46%), Gaps = 27/411 (6%) Query: 2 PALKTIFTIDGAFDGTVDLHQALKHAS-SDLTPVLTKADDPAVIIYTSGTTGQPKGALHA 60 PAL+ + + A G +D ++ S + DDP YTSGTTG PK + + Sbjct: 156 PALEHVVALADARAGELDYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLS 215 Query: 61 HRVLLGHLPGVEMSH--NLFP--MEGDRIWTPADWAWIGGLLDVLLPAWHHGVAVVAHRF 116 H G + V +H +L P R A + G+ V+ A G A + Sbjct: 216 H----GQMAFVVTNHLADLMPGLTHQSRSLVVAPLSHGAGVHAVINTA--RGAASILLSS 269 Query: 117 EKFTGEAAFQLLQDHGVRNTFLPPTALKMMRTVADPETRWRFQLRSVASGGESLGVELLD 176 E+ E A+QL++ + V N F PT +K++ + L+ V G + Sbjct: 270 ERLVVEEAWQLVEKYRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQV 329 Query: 177 WGRKTFGLTINEFYGQTECNMTVS--------SNAAVMACRPGAIGRAAPGHTLAIVDAD 228 + K G + ++YG E ++ + A R G G G +AI++ D Sbjct: 330 YALKKLGKVLVQYYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAILNDD 389 Query: 229 GRVLPPGSDGNIAVQRPDPVMFLQYWNNPQATAAKFIGDWLLTGDTGCMDDEGYIRFVGR 288 G+ L P G I V+ P +F+ Y NNP+A A F DW TGD G +D +G++ GR Sbjct: 390 GQELAPFETGEICVR--GPAVFMGYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGR 447 Query: 289 DDDVITSAGYRIGPGEIEDNILQHAAVKMVAVIGSPDPQRTEIVVAVIVLNDGVTGDDRL 348 D+ S G + P EIE+ +L H AV VAV+G PDP+ E +AVIV G D Sbjct: 448 SSDMYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDG-- 505 Query: 349 KREIQDHVKVKLAAHEYPREIFFVDELPMTTTGKVIRRKLRA---QVGEWR 396 + H++ ++ +++PR + D +P + GK+++++++A + GE+R Sbjct: 506 -EALLAHLESRIGKYKWPRRFIYWDSMPKSGYGKIVKKQIKALLEEQGEYR 555 >gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 660 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 120/392 (30%), Positives = 179/392 (45%), Gaps = 24/392 (6%) Query: 20 LHQALKHASSDLTPVLTKADDPAVIIYTSGTTGQPKGALHAHR-VLLGHLPGVEMSHNLF 78 L + + S P A+ P I+YTSG+TG+PKG HA LL + ++ + ++ Sbjct: 243 LSDVVANQSDTCEPEWVDAEHPLFILYTSGSTGKPKGVQHASAGYLLWAVLTMKWTFDIK 302 Query: 79 PMEGDRIWTPADWAWIGGLLDVLL-PAWHHGVAVVAHRFEKFTGEAAF-QLLQDHGVRNT 136 P D W AD WI G + P +V + F ++ H Sbjct: 303 P--DDVYWCTADIGWITGHTYIAYGPLAVGATQIVFEGVPTYPNAGRFWDMVARHKATIF 360 Query: 137 FLPPTALKMMRTVAD------PETRWRFQLRSVASGGESLGVELLDWGRKTFG---LTIN 187 + PTA++ + AD P+ LR + S GE + E W K G I Sbjct: 361 YTAPTAIRSLIKAADADEKVHPKQYDLSSLRILGSVGEPINPEAWMWYYKNVGHENCPIV 420 Query: 188 EFYGQTECN-MTVSSNAAVMACRPGAIGRAAPGHTLAIVDADGRVLPPGSDGNIAVQRPD 246 + + QTE +S PG+ PG T AIVD G +P G+ G + V+RP Sbjct: 421 DTFWQTETGGHMISPLPGATPQVPGSCTLPLPGITAAIVDETGNDIPNGNGGILVVKRPW 480 Query: 247 PVMFLQYWNNPQATAAKFI-----GDWLLTGDTGCMDDE-GYIRFVGRDDDVITSAGYRI 300 P M WN+P+ + G L GD + E GY GR DDV+ +G+R+ Sbjct: 481 PSMIRTIWNDPERFKKSYFPEELGGKIYLAGDGAVRNKETGYFTITGRIDDVLNVSGHRM 540 Query: 301 GPGEIEDNILQHAAVKMVAVIGSPDPQRTEIVVAVIVLND-GVTGDD--RLKREIQDHVK 357 G EIE ++ ++ V AV+G PD E + A +VL TGD+ ++ +E++D V Sbjct: 541 GTMEIESALVANSIVAEAAVVGKPDETTGESICAFVVLKRPRPTGDEAKQIAKELRDWVA 600 Query: 358 VKLAAHEYPREIFFVDELPMTTTGKVIRRKLR 389 ++ P+EI F D LP T +GK++RR LR Sbjct: 601 KEIGPIAKPKEIRFGDNLPKTRSGKIMRRLLR 632 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 146 bits (369), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 122/401 (30%), Positives = 173/401 (43%), Gaps = 48/401 (11%) Query: 13 AFDGTVDLHQALKHA-SSDLTPVLTKADDPAVIIYTSGTTGQPKGALHAHRVLLGHLPGV 71 + + QAL A L PV DD A + YT GTTG KGA+ HR L+ ++ Sbjct: 178 SLPNAITFSQALSQARGKTLQPVTLTHDDIAFLQYTGGTTGVAKGAVLTHRNLVANV--- 234 Query: 72 EMSHNLFPMEGDRIWTPADWAWIGGLLDVL-----LPAWHHGVAVVAHRFEKFTGEAAFQ 126 ++ + TPA A G +D L LP +H V + T E A Sbjct: 235 --------LQAEEWLTPALKA--GKPIDQLVFVCALPLYHIFALTVCNMLG--TREGALN 282 Query: 127 LL--------------QDHGVRNTFLPPTALKMMRTVADPETRWRFQL---RSVASGGES 169 LL + V NTF P + + + R R GG + Sbjct: 283 LLIPNPRDIPGFVKELAKYKV-NTF--PAVNTLYNALLNNADFARLDFSGYRCCVGGGMA 339 Query: 170 LGVELLDWGRKTFGLTINEFYGQTECNMTVSSNAAVMACRPGAIGRAAPGHTLAIVDADG 229 + + D +K G I E YG +E + S+N + G IG P AI+D DG Sbjct: 340 VQKSVADKWKKLTGCPIIEGYGLSETSPIASANPCTIDEYTGTIGLPLPSTEFAILDDDG 399 Query: 230 RVLPPGSDGNIAVQRPDPVMFLQYWNNPQATAAKFIGD-WLLTGDTGCMDDEGYIRFVGR 288 + +P G G IA++ P + YW P TA D + TGD G MD+ GY + V R Sbjct: 400 QPVPLGQPGEIAIRGPQ--VMPGYWQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDR 457 Query: 289 DDDVITSAGYRIGPGEIEDNILQHAAVKMVAVIGSPDPQRTEIVVAVIVLNDGVTGDDRL 348 D+I +G+ + P E+E + QH V A +G PD E V +V D +L Sbjct: 458 KKDMILVSGFNVYPNEVEGVVAQHPGVLECACVGVPDEHTGEAVKLFVVRKDKTLSAAQL 517 Query: 349 KREIQDHVKVKLAAHEYPREIFFVDELPMTTTGKVIRRKLR 389 D+ K + ++ P+ I F DELP T GK++RR+LR Sbjct: 518 ----MDYCKEQFTGYKKPKYIEFRDELPKTNVGKILRRELR 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 0.321 0.138 0.430 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: 1,455,107 Number of extensions: 65482 Number of successful extensions: 250 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 215 Number of HSP's successfully gapped: 17 Length of query: 402 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 315 Effective length of database: 1,207,925 Effective search space: 380496375 Effective search space used: 380496375 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: 132 (55.5 bits)