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= 0003.0177.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|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 920 0.0 gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [H... 251 1e-67 gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [H... 180 2e-46 gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspir... 164 2e-41 gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 151 2e-37 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 920 bits (2379), Expect = 0.0, Method: Compositional matrix adjust. Identities = 455/539 (84%), Positives = 481/539 (89%), Gaps = 2/539 (0%) Query: 1 VITPAHYRADTANAYDWQIPEVFNIAHAACDRWADGRGRPAIIAEDGDGKVTTWSFAQLK 60 VI+ AHYRA + Y+WQIP FNIA AACDRWADG GR AII ED DG VT++S+ QLK Sbjct: 10 VISAAHYRAGNPSPYEWQIPTHFNIAQAACDRWADGSGRTAIICEDADGSVTSYSYDQLK 69 Query: 61 ILSDQFANVLSEAGIRRGDRIGIYLSQRIETVITHIAAYKLGAVTVPLFYLFGPEAIAYR 120 ILSD+FAN L AG+ RGDRIGIYLSQRIETVITH+AAYKLGA+TVPLFYLFGP+AIAYR Sbjct: 70 ILSDRFANALRAAGVGRGDRIGIYLSQRIETVITHLAAYKLGAITVPLFYLFGPDAIAYR 129 Query: 121 LDNSEAAALVTDASGMDKVHLAGELPALKVVFCVEQSDIVLPQTTDFWDRLHAASSTFEP 180 LDNS A ALVTDASGM+K LAGELPAL++VFCVE SD+VLPQTTDFWDRLHAA + +P Sbjct: 130 LDNSGAVALVTDASGMEKATLAGELPALRLVFCVESSDLVLPQTTDFWDRLHAAPAELDP 189 Query: 181 VTTLADDPAMIIYTSGTTGKAKGALHAQRVLLGHLPGVEVSHDSFPQPGDRFWTPADWAW 240 V TLADDPAMIIYTSGTTGKAKGALHA RVLLGHLPGVEVSHDSFPQ GDRFWTPADWAW Sbjct: 190 VLTLADDPAMIIYTSGTTGKAKGALHAHRVLLGHLPGVEVSHDSFPQEGDRFWTPADWAW 249 Query: 241 IGGLLDVLLPSLYHGVAVVARRLEKFDASTVFGLLARHGIRNVFFPPTALKMLRGTPDPR 300 IGGLLDVLLPSLYHGVAVVARRLEKFDA+ VFGLLARH IRNVFFPPTALKMLRG R Sbjct: 250 IGGLLDVLLPSLYHGVAVVARRLEKFDAAEVFGLLARHQIRNVFFPPTALKMLRGAATVR 309 Query: 301 AQWDFALRSVASGGETLGDDLIAWGRSALGVTINEFYGQTECNLVVSSSSRLYPSASGSM 360 AQ DF+LRSVASGGETLGDDLIAWGR ALGVTINEFYGQTECNLVVSSSS YPS SGSM Sbjct: 310 AQADFSLRSVASGGETLGDDLIAWGREALGVTINEFYGQTECNLVVSSSSHCYPSVSGSM 369 Query: 361 GRAVPGHDVQIVDEEGAVLPRGEVGNIAIRAPDPVMFLRYWRNDEATREKFAGDFLLTGD 420 GRAVPGH VQIVDE+G VLP G VGNIAIRAPDPVMFLRYWRN+EATREKFAGDFLLTGD Sbjct: 370 GRAVPGHVVQIVDEQGQVLPHGTVGNIAIRAPDPVMFLRYWRNEEATREKFAGDFLLTGD 429 Query: 421 LGNMDEAGYIRYLGRNDDGGGXTSAGYRIGPAPIEECLMRHPAVRIAAVVGVKDALRTEV 480 LG+MDE GYIRYLGRNDD TSAGYRIGPA IEECLMRHPAVRIAAVVGVKDALRTEV Sbjct: 430 LGSMDEQGYIRYLGRNDD--VITSAGYRIGPAAIEECLMRHPAVRIAAVVGVKDALRTEV 487 Query: 481 VKAFVVLQEGHAPDAALVAALQQHVRSQLAAHEYPREIAFVDALPTTATGKIMRKALKE 539 VKAFVVL++G PD AL A LQQHVR+QLAAHEYPR I+FV ALPTTATGKIMRK LKE Sbjct: 488 VKAFVVLKDGVTPDEALKAELQQHVRAQLAAHEYPRLISFVAALPTTATGKIMRKTLKE 546 >gi|300310257|ref|YP_003774349.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 251 bits (641), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 188/527 (35%), Positives = 270/527 (51%), Gaps = 27/527 (5%) Query: 23 FNIAHAACDRWADGRGRPAIIAEDGDGKVTTWSFAQLKILSDQFANVLSEAGIRRGDRIG 82 N CDR G A+ G+ +SFAQ++ ++ + AN+L + GI+ G + Sbjct: 37 INACVECCDRHVKGDNI-ALEFVSLHGEHQQYSFAQVRSMAARVANLLRQQGIQPGQIVA 95 Query: 83 IYLSQRIETVITHIAAYKLGAVTVPLFYLFGPEAIAYRLDNSEAAALVTDASGMDKVHLA 142 L + E + T + + GAV PLF FGP+AI +RL S A+ +VT+ + DK+ Sbjct: 96 GMLPRTPELLATVLGTLRAGAVYQPLFTAFGPKAIEHRLALSGASLIVTNVANRDKLDEI 155 Query: 143 GELPALKVVFCVEQSDIVLPQTTDFWDRLHAASSTFEPVTTLADDPAMIIYTSGTTGKAK 202 P +V E +D + DF + A S F PV D +++ TSGTTG AK Sbjct: 156 ANCP--QVCTVRESNDPLRAGDIDFRAAVDAQSDDFAPVLRSGADLMLMMSTSGTTGAAK 213 Query: 203 G------ALHAQRVLLGHLPGVEVSHDSFPQPGDRFWTPADWAWIGGLLDVLLPSLYHGV 256 G AL A V + G+ P D+FW AD W GL ++ L G Sbjct: 214 GVPVPLSALQAFSVYMREAVGL--------LPQDKFWNMADPGWAYGLYYAIIGPLAIGH 265 Query: 257 AVVARRLEKFDASTVFGLLARHGIRNVFFPPTALKMLRGTPDPRA-QWDFALRSVASGGE 315 + F S + + R GI ++ PTA +M+ + A LR+V+S GE Sbjct: 266 GITFNE-AAFTVSGTYETIRRLGITSLAGAPTAYRMMMAAGEEAAASVKGRLRAVSSAGE 324 Query: 316 TLGDDLIAWGRSALGVTINEFYGQTECNLVVSSSSRL-YPSASGSMGRAVPGHDVQIVDE 374 L +++ W SAL V I++ YGQTE +VV++ L + GS G A+PG+ V ++DE Sbjct: 325 PLNAEVVRWFASALDVPIHDHYGQTELGMVVNNHHALRHEVVPGSAGFAMPGYRVVVLDE 384 Query: 375 EGAVLPRGEVGNIAIR-APDPVM-FLRYWRNDEATREKFAGDFLLTGDLGNMDEAGYIRY 432 L + G +AI A P+ F YW+ D A + TGD ++ G I + Sbjct: 385 NHQELGANQPGELAIDIARSPLYWFSGYWKQDTPA---IAHGYYSTGDNVELEPNGSISF 441 Query: 433 LGRNDDGGGXTSAGYRIGPAPIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLQEGHA 492 +GR+DD TSAGYRIGP +E L+ HPAV AV+G+ D RTE+VKAFVVL + Sbjct: 442 IGRSDDV--ITSAGYRIGPFDVESALLEHPAVADVAVIGLPDPERTEIVKAFVVLSDQFK 499 Query: 493 PDAALVAALQQHVRSQLAAHEYPREIAFVDALPTTATGKIMRKALKE 539 AL L QHV+ +L+AH YPR I F+DALP T +GK+ R L++ Sbjct: 500 ASDALREQLAQHVKRRLSAHAYPRAIEFLDALPKTPSGKLQRFVLRK 546 >gi|300310875|ref|YP_003774967.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 660 Score = 180 bits (457), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 175/572 (30%), Positives = 262/572 (45%), Gaps = 48/572 (8%) Query: 10 DTANA--YDWQIPEVFNIAHAACD-RWADGRG-RPAIIAEDGDGKVTTWSFAQLKILSDQ 65 D +NA Y W N+++ D +G + A+I E DGKVT S+ +L Q Sbjct: 66 DESNAPFYKWFADGQVNVSYNCLDVNLENGNADKTAVIFESDDGKVTRVSYRELHQKVCQ 125 Query: 66 FANVLSEAGIRRGDRIGIYLSQRIETVITHIAAYKLGAVTVPLFYLFGPEAIAYRLDNSE 125 FAN L GI++GDR+ IY+ +E V A ++GA +F F +++ R+ ++ Sbjct: 126 FANGLKSLGIKKGDRVVIYMPMSVEGVAAMQACARIGATHSVVFGGFSAKSLHERVIDAG 185 Query: 126 AAALVTD------------ASGMDKVHLAGELPALK--VVFCVEQSDIVLPQTTDFW--D 169 A A++T S +D+ G LK VV+ ++I + D W D Sbjct: 186 AVAVLTADYQVRGGKQLPLKSIVDEALDMGGCDTLKHVVVYKRAGAEINWVEGRDLWLSD 245 Query: 170 RLHAASSTFEPVTTLADDPAMIIYTSGTTGKAKGALHAQR-VLLGHLPGVEVSHDSFPQP 228 + S T EP A+ P I+YTSG+TGK KG HA LL + ++ + D +P Sbjct: 246 VVANQSDTCEPEWVDAEHPLFILYTSGSTGKPKGVQHASAGYLLWAVLTMKWTFDI--KP 303 Query: 229 GDRFWTPADWAWIGGLLDVLLPSLYHGVA-VVARRLEKF-DASTVFGLLARHGIRNVFFP 286 D +W AD WI G + L G +V + + +A + ++ARH + Sbjct: 304 DDVYWCTADIGWITGHTYIAYGPLAVGATQIVFEGVPTYPNAGRFWDMVARHKATIFYTA 363 Query: 287 PTALKMLRGTPD------PRAQWDF-ALRSVASGGETLGDDLIAWGRSALG---VTINEF 336 PTA++ L D P+ Q+D +LR + S GE + + W +G I + Sbjct: 364 PTAIRSLIKAADADEKVHPK-QYDLSSLRILGSVGEPINPEAWMWYYKNVGHENCPIVDT 422 Query: 337 YGQTEC-NLVVSSSSRLYPSASGSMGRAVPGHDVQIVDEEGAVLPRGEVGNIAIRAPDPV 395 + QTE ++S P GS +PG IVDE G +P G G + ++ P P Sbjct: 423 FWQTETGGHMISPLPGATPQVPGSCTLPLPGITAAIVDETGNDIPNGNGGILVVKRPWPS 482 Query: 396 MFLRYWRNDEATR-----EKFAGDFLLTGDLG-NMDEAGYIRYLGRNDDGGGXTSAGYRI 449 M W + E + E+ G L GD E GY GR DD +G+R+ Sbjct: 483 MIRTIWNDPERFKKSYFPEELGGKIYLAGDGAVRNKETGYFTITGRIDD--VLNVSGHRM 540 Query: 450 GPAPIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLQEGH--APDAALVAA-LQQHVR 506 G IE L+ + V AAVVG D E + AFVVL+ +A +A L+ V Sbjct: 541 GTMEIESALVANSIVAEAAVVGKPDETTGESICAFVVLKRPRPTGDEAKQIAKELRDWVA 600 Query: 507 SQLAAHEYPREIAFVDALPTTATGKIMRKALK 538 ++ P+EI F D LP T +GKIMR+ L+ Sbjct: 601 KEIGPIAKPKEIRFGDNLPKTRSGKIMRRLLR 632 >gi|300312417|ref|YP_003776509.1| propionyl-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 628 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 162/575 (28%), Positives = 272/575 (47%), Gaps = 65/575 (11%) Query: 17 WQIPEVFNIAHAACDRWADGRGRPA----IIAEDGDGKVTTWSFAQLKILSDQFANVLSE 72 W I N+ H A DR R + A I E +V T++ Q ++++ A + Sbjct: 45 WFIDGQTNLCHNAVDRHLPERAQQAALIAISTETNSERVYTYAELQQEVMA--MAASMQA 102 Query: 73 AGIRRGDRIGIYLSQRIETVITHIAAYKLGAVTVPLFYLFGPEAIAYRLDNSEAAALVTD 132 G++RGDR+ IY+ E V +A ++GAV +F F ++A R+D+++ +V+ Sbjct: 103 LGVQRGDRVLIYMPMIAEAVFAMLACARIGAVHSVVFGGFASNSLASRIDDAQPRLIVSA 162 Query: 133 ASGM-------------DKVHLAGELPALKVVFCVEQSDIVLPQT----TDFWDRLHAAS 175 +G + + +A P + V V++ + +T D+ Sbjct: 163 DAGSRGGKVIPYKGLLDEAIAMAQHRP--QHVLLVDRGLAPMARTAQRDVDYAPLRTQHL 220 Query: 176 STFEPVTTL-ADDPAMIIYTSGTTGKAKGALHAQRVLLGHLPGVEVS--HDSFPQPGDRF 232 PVT L ++ + I+YTSGTTGK KG QR + G+ + S H QPG+ + Sbjct: 221 GQQVPVTWLESNASSYILYTSGTTGKPKGV---QRDVGGYAVALASSMQHIFCGQPGETY 277 Query: 233 WTPADWAWIGGLLDVLLPSLYHGVAVVARR--LEKFDASTVFGLLARHGIRNVFFPPTAL 290 + +D W+ G ++ L G+A V + DA + ++ ++ + +F PTA+ Sbjct: 278 FCTSDIGWVVGHSYIVYGPLIAGMATVLYEGLPIRPDAGIWWSIVEKYKVTRMFSAPTAI 337 Query: 291 KMLRGTP-DPRAQWDFA-LRSVASGGETLGDDLIAWGRSALGVTINEFYGQTECNLVVSS 348 ++L+ P + ++D + L+++ GE L + +W AL V + + Y QTE + S Sbjct: 338 RVLKKQPPECMERYDTSSLKALYLAGEPLDETTSSWISGALKVPVIDNYWQTESGWPIIS 397 Query: 349 SSRLY---PSASGSMGRAVPGHDVQIVDE-EGAVLPRGEVGNIAIRAPDPVMFLR----- 399 ++ P+ GS G +PG+ + I+DE G + G +AI P P ++ Sbjct: 398 IAKGIDDKPTRLGSPGVPMPGYRLAILDEATGEPCGPDQKGVVAIEGPLPPGCMQTVYGD 457 Query: 400 -------YWRNDEATREKFAGDFLLTGDLGNMDEAGYIRYLGRNDDGGGXTSAGYRIGPA 452 YWR+ RE ++ T D G D+ GY LGR DD AG+R+G Sbjct: 458 DERFVNTYWRS--LPREVYS-----TFDWGIRDKDGYYFILGRTDDV--INVAGHRLGTR 508 Query: 453 PIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLQEGH---APD--AALVAALQQHVRS 507 IEE + HP V AVVGV+D L+ +V AF + ++ + P+ AL A + V Sbjct: 509 EIEESISSHPNVSEVAVVGVEDKLKGQVAFAFAIPKQAYTIATPEQRKALEAEIMAVVDK 568 Query: 508 QLAAHEYPREIAFVDALPTTATGKIMRKALKERAE 542 Q+ A P + FV LP T +GK++R+A++ E Sbjct: 569 QIGAVGRPARVFFVSGLPKTRSGKLLRRAIQSICE 603 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 151 bits (381), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 137/517 (26%), Positives = 230/517 (44%), Gaps = 36/517 (6%) Query: 44 AEDGDGKVTTWSFAQLKILSDQFANVLSEAGIRRGDRIGIYLSQRIETVITHIAAYKLGA 103 A DG ++ W ++ D A+ L+ G+++GD++ ++ + + AA+K+G Sbjct: 55 AADGSDRLIPWREINARV--DALAHALTRRGVKKGDKMLVHSRNNQQIFESAWAAFKMGV 112 Query: 104 VTVPLFYLFGPEAIAYRLDNSEAAALVTD---ASGMDKVHLAGELPALKVVFCVEQSDIV 160 V VP + P AY +S A ++ D A +D V A PAL+ V + + Sbjct: 113 VWVPTNFRITPPEAAYLGQSSGACVMLYDRGFAQYVDAVKAAS--PALEHVVALADAR-- 168 Query: 161 LPQTTDFWDRLHAAS-STFEPVTTLADDPAMIIYTSGTTGKAKGALHAQRVLLGHLPGVE 219 D+ + S + F DDP YTSGTTG K + + G + V Sbjct: 169 -AGELDYEALVREGSGAAFREAEVDYDDPLWFFYTSGTTGHPKAGMLSH----GQMAFVV 223 Query: 220 VSHDSFPQPG----DRFWTPADWAWIGGLLDVLLPSLYHGVAVVARRLEKFDASTVFGLL 275 +H + PG R A + G+ V+ + G A + E+ + L+ Sbjct: 224 TNHLADLMPGLTHQSRSLVVAPLSHGAGVHAVI--NTARGAASILLSSERLVVEEAWQLV 281 Query: 276 ARHGIRNVFFPPTALKMLRGTPDPRAQWDFALRSVASGGETLGDDLIAWGRSALGVTINE 335 ++ + N+F PT +K+L +L+ V G + + LG + + Sbjct: 282 EKYRVDNLFTVPTIVKILVEDESVDRYDHSSLKHVIYAGAPMYRADQVYALKKLGKVLVQ 341 Query: 336 FYGQTECNLVVSS-------SSRLYPSAS-GSMGRAVPGHDVQIVDEEGAVLPRGEVGNI 387 +YG E ++ +P A G+ G G + I++++G L E G I Sbjct: 342 YYGLGEVTGNITFLPPYLHFEDDAHPQARVGTCGMPRTGMQIAILNDDGQELAPFETGEI 401 Query: 388 AIRAPDPVMFLRYWRNDEATREKFAGDFLLTGDLGNMDEAGYIRYLGRNDDGGGXTSAGY 447 +R P +F+ Y N EA + F D+ TGDLG++D+ G++ GR+ D S G Sbjct: 402 CVRGP--AVFMGYHNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSD--MYISGGS 457 Query: 448 RIGPAPIEECLMRHPAVRIAAVVGVKDALRTEVVKAFVVLQEGHAPDAALVAALQQHVRS 507 + P IEE L+ HPAV AV+GV D E A +V + G D AL H+ S Sbjct: 458 NVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDG---EALLAHLES 514 Query: 508 QLAAHEYPREIAFVDALPTTATGKIMRKALKERAEQS 544 ++ +++PR + D++P + GKI++K +K E+ Sbjct: 515 RIGKYKWPRRFIYWDSMPKSGYGKIVKKQIKALLEEQ 551 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 0.415 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: 1,925,361 Number of extensions: 89164 Number of successful extensions: 348 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 288 Number of HSP's successfully gapped: 17 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)