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= 0001.2804.p (388 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312109|ref|YP_003776201.1| acyl-CoA dehydrogenase [Herbasp... 709 0.0 gi|300310260|ref|YP_003774352.1| acyl-CoA dehydrogenase [Herbasp... 184 1e-47 gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [H... 170 2e-43 gi|300311865|ref|YP_003775957.1| acyl-CoA dehydrogenase [Herbasp... 157 1e-39 gi|300310270|ref|YP_003774362.1| acyl-CoA dehydrogenase [Herbasp... 102 4e-23 >gi|300312109|ref|YP_003776201.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 388 Score = 709 bits (1829), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/388 (90%), Positives = 375/388 (96%) Query: 1 MLHQSVPDTHADLRDAVRDLCHTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEY 60 M + + D+HADLRDAVRDLC TFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEY Sbjct: 1 MSYPTASDSHADLRDAVRDLCKTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEY 60 Query: 61 GGSGLGLTEASVIMEEINRTGGNSGACHGQMYNMGTLLRHGSPQQKQHYLPRIASGELRL 120 GGSGLGLTEASVIMEEINRTGGNSGACHGQMYNMGTLLRHGSP+QK+ YLPRIASGELRL Sbjct: 61 GGSGLGLTEASVIMEEINRTGGNSGACHGQMYNMGTLLRHGSPEQKERYLPRIASGELRL 120 Query: 121 QSMGVTEPTTGTDTTRIKTVALRRGDRYVVNGQKVWISRVQHSDLMILLARTTPLDQVKK 180 QSM VTEPTTGTDTTRIKTVA+++GDRYV+NGQKVWISRVQHSDLMILLARTTPL+QV + Sbjct: 121 QSMAVTEPTTGTDTTRIKTVAVKKGDRYVINGQKVWISRVQHSDLMILLARTTPLEQVSR 180 Query: 181 KSEGMSIFIVDLKQAIGRGLEVRPIANMVNHETNELFFDHLEIPAENLIGEEGQGFRYIL 240 KSEGMSIF+VDLK+AIG G+EVRPI NMVNHETNELFFD+LEIPAENLIGEEG+GFRYIL Sbjct: 181 KSEGMSIFLVDLKEAIGHGMEVRPILNMVNHETNELFFDNLEIPAENLIGEEGRGFRYIL 240 Query: 241 DGLNAERTLIAAECIGDGYWFIDKAAQYAKHRVVFDRPIGMNQGVQFPIAEAYIELEAAN 300 DGLNAERTLIAAECIGDGYWFIDKA QYA+ RVVFDRPIGMNQGVQFP+AEAYIE+EAAN Sbjct: 241 DGLNAERTLIAAECIGDGYWFIDKATQYARERVVFDRPIGMNQGVQFPLAEAYIEVEAAN 300 Query: 301 LMRYRACALFDAGQACGAQANMAKYLAAKASWEAANVCLQTHGGFGFACEYDVERKFRET 360 LMRY+ACALFDA Q+CGAQANMAKYLAAKA+WEAANVCLQTHGGFGFACEYDVERKFRET Sbjct: 301 LMRYQACALFDAQQSCGAQANMAKYLAAKAAWEAANVCLQTHGGFGFACEYDVERKFRET 360 Query: 361 RLYQVAPISTNLIFSYVAEHILGLPRSF 388 RLYQVAPISTNLIFSYVAEH+LGLPRSF Sbjct: 361 RLYQVAPISTNLIFSYVAEHVLGLPRSF 388 >gi|300310260|ref|YP_003774352.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 184 bits (467), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 121/370 (32%), Positives = 194/370 (52%), Gaps = 31/370 (8%) Query: 10 HADLRDAVRDLCHTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEYGGSGLGLTE 69 H +RDA+R + D +P + + L + G + +P+++GG+G+ Sbjct: 7 HEMIRDAMRHFAQERLLPFAADWDRNHTFPAEALKELAELGAMGMCVPEQWGGAGMDYMS 66 Query: 70 ASVIMEEINRTGG---------NSGACHGQMYNMGTLLRHGSPQQKQHYLPRIASGELRL 120 + +EEI G NS AC G ++GSP QK+ +L +A GE+ L Sbjct: 67 LVLALEEIAAGDGATSTIVSVQNSLAC-------GITEKYGSPTQKEQWLKPLARGEM-L 118 Query: 121 QSMGVTEPTTGTDTTRIKTVALRRGDRYVVNGQKVWISRVQHSDLMILLARTTPLDQVKK 180 +TEP TG+D I+T A R GD +++NG K +I+ +H+ + I+ A T D+ Sbjct: 119 GCFCLTEPHTGSDAAAIRTRAERDGDDFILNGTKQFITSGKHAGVAIVFAVT---DRSAG 175 Query: 181 KSEGMSIFIVDLKQ---AIGRGLEVRPIANMVNH--ETNELFFDHLEIPAENLIGEEGQG 235 K +G+S F+V +GR E M H +T ++ D+ +PA L+G+EG+G Sbjct: 176 K-KGISCFLVPCDTPGFVVGRSEE-----KMGQHASDTVQIMLDNCRVPATALLGKEGEG 229 Query: 236 FRYILDGLNAERTLIAAECIGDGYWFIDKAAQYAKHRVVFDRPIGMNQGVQFPIAEAYIE 295 +R L L A R IAA+ +G + A YA+ R F PI +Q V F +A+ Sbjct: 230 YRIALSNLEAGRIGIAAQSVGMARAAFEAAVSYARQRESFGVPIIEHQAVNFRLADMNTL 289 Query: 296 LEAANLMRYRACALFDAGQACGAQANMAKYLAAKASWEAANVCLQTHGGFGFACEYDVER 355 L+AA LM +RA L D G+ C +A+MAK A++A+ + A+ +Q HGG G+ ++ VER Sbjct: 290 LDAARLMVWRAAQLKDQGRPCLKEASMAKMFASEAAEKIASDAIQIHGGVGYTSDFPVER 349 Query: 356 KFRETRLYQV 365 +R+ R+ Q+ Sbjct: 350 IYRDVRICQI 359 >gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 394 Score = 170 bits (430), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 113/377 (29%), Positives = 192/377 (50%), Gaps = 27/377 (7%) Query: 11 ADLRDAVRDLCHTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEYGGSGLGLTEA 70 A LR+AV H+ +ID + +P L G L + +EYGG+GLG Sbjct: 16 AALREAVAAFAHSEIAPRAAEIDRSDQFPMDLWKKLGDLGVLGITVSEEYGGAGLGYLAH 75 Query: 71 SVIMEEINRTGGNSGACHGQMYNM--GTLLRHGSPQQKQHYLPRIASGELRLQSMGVTEP 128 + MEEI+R + G +G N+ + R+G+ +QK+ YLPR+ SG+ + ++ ++EP Sbjct: 76 IIAMEEISRASASVGLSYGAHSNLCVNQIKRNGNEEQKRKYLPRLISGDF-IGALAMSEP 134 Query: 129 TTGTDTTRIKTVALRRGDRYVVNGQKVWISRVQHSDLMILLARTTPLDQVKKKSEGMSIF 188 G+D +K A ++GDRYV+NG K+WI+ +D++++ A+T ++ + GM+ F Sbjct: 135 NAGSDVVSMKLRADKKGDRYVLNGSKMWITNGPDADVLVVYAKT----DLEAGARGMTAF 190 Query: 189 IVDLKQAIGRGLEVRPIA------NMVNHETNELFFDHLEIPAENLIGEEGQGFRYILDG 242 +V+ +G + +A M T EL F E+P EN++G G+G ++ G Sbjct: 191 LVE------KGYKGFSVAQKLDKLGMRGSHTGELVFQDCEVPEENVLGGVGRGVNVLMSG 244 Query: 243 LNAERTLIAAECIGDGYWFIDKAAQYAKHRVVFDRPIGMNQGVQFPIAEAYIELEAANLM 302 L+ ER++++ +G +D Y R F + IG Q +Q +A+ Y + A Sbjct: 245 LDFERSVLSGGPLGIMQACMDVVVPYVHDRKQFGQAIGEFQLMQGKLADMYSTMMACKAY 304 Query: 303 RY---RACALFDAGQACGA----QANMAKYLAAKASWEAANVCLQTHGGFGFACEYDVER 355 Y +AC D+ A A Y A KA+W A +Q+ GG G+ EY V R Sbjct: 305 VYAVGQACDRADSADKVRALRKDAAGAILYSAEKATWMAGE-AIQSLGGNGYINEYPVGR 363 Query: 356 KFRETRLYQVAPISTNL 372 +R+ +LY++ ++ + Sbjct: 364 LWRDAKLYEIGAGTSEI 380 >gi|300311865|ref|YP_003775957.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 386 Score = 157 bits (397), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 113/374 (30%), Positives = 185/374 (49%), Gaps = 12/374 (3%) Query: 13 LRDAVRDLCHTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEYGGSGLGLTEASV 72 + + RD + K DE +P + + G+ P+ GG GL +A+V Sbjct: 12 FQQSARDFAAGEMAPFAAKWDEEAHFPLDVIAKAGELGFCGLYTPEADGGLGLSRLDATV 71 Query: 73 IMEEINRTGGNSGACHGQMYNMGTLL--RHGSPQQKQHYLPRIASGELRLQSMGVTEPTT 130 + EE+ R S A + ++NM + + G P K + ++A+G ++ S +TEP + Sbjct: 72 VFEELARAC-TSTAAYLTIHNMVSWMIASWGQPSLKAQWCEQLAAGR-KIGSYCLTEPGS 129 Query: 131 GTDTTRIKTVALRRGDRYVVNGQKVWISRVQHSDLMILLARTTPLDQVKKKSEGMSIFIV 190 G+D +KT A YV+NG K +IS +D+++++ART + + G+S +V Sbjct: 130 GSDAASLKTTARLEDGHYVLNGSKAFISGAGSTDVLVVMARTG-----GEGARGVSAIVV 184 Query: 191 DLKQAIGRGLEVRPIANMVNHE-TNELFFDHLEIPAENLIGEEGQGFRYILDGLNAERTL 249 A G + N + T + FD++++PA++L+G+EGQGF + + GL+ R Sbjct: 185 P-GNAPGVSYGKKESKMGWNSQPTRTISFDNVKVPADHLLGQEGQGFIFAMKGLDGGRIN 243 Query: 250 IAAECIGDGYWFIDKAAQYAKHRVVFDRPIGMNQGVQFPIAEAYIELEAANLMRYRACAL 309 IA +G +D A Y K R F RPI Q +QF +A+ EL AA M A Sbjct: 244 IATCSVGAAQAALDAAHAYMKERKQFGRPIADFQALQFKLADMQTELVAARQMVRLAATK 303 Query: 310 FDAGQA-CGAQANMAKYLAAKASWEAANVCLQTHGGFGFACEYDVERKFRETRLYQVAPI 368 DAG MAK LA + N LQ HGG+G+ EY +ER FR+ R++Q+ Sbjct: 304 LDAGSPEATTYCAMAKRLATDLGFRVCNEALQLHGGYGYIREYPLERYFRDVRVHQILEG 363 Query: 369 STNLIFSYVAEHIL 382 + ++ ++ +L Sbjct: 364 TNEIMRVIISRKLL 377 >gi|300310270|ref|YP_003774362.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 415 Score = 102 bits (255), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 78/313 (24%), Positives = 144/313 (46%), Gaps = 24/313 (7%) Query: 15 DAVRDLCHTFPPEYWRKIDEARGYPEQFVDALTKAGWLAALIPQEYGGSGLGLTEASVIM 74 D +R + T P K DE F A+ AG++ AL+P+ +GG+ L + ++ Sbjct: 24 DVLRKVGPTITP--LVKPDERFYATRPFYQAMADAGFIKALLPESFGGTALSTLDFALAA 81 Query: 75 EEINRTGGN-SGACHGQMYNMGTLLRHGSPQQKQHYLPRIASGELRLQSMGVTEPTTGTD 133 EE+ N A G + ++ HG+P+QKQ +LP RL ++ TE T G + Sbjct: 82 EELTAVDVNVPSALLGTGLGLHAVVHHGTPEQKQRFLPDFIEDGSRLAALAFTEVTGGAN 141 Query: 134 ------TTRIKTVALRRGDRYVVNGQKVWISRVQHSD-----LMILLARTTPLDQVKKKS 182 + ++T A GD +V+NG K + + D L ++ RT P Sbjct: 142 YDSTDPSVGVQTFARLEGDEWVINGAKHYTTNGTGWDGKGAHLYSVICRTDP---ALPPQ 198 Query: 183 EGMSIFIVDLKQAIGRGLEVRPIANMVNHETN---ELFFDHLEIPAENLIGEEGQGFRYI 239 + +++ +V G+E+ + + + H + F+++ +PA N++G+ G G + Sbjct: 199 QSLAVIMV---PGNAPGIEIVGLLDTMGHRATISPRVHFNNVRVPASNIVGKPGDGISML 255 Query: 240 LDGLNAERTLIAAECIGDGYWFIDKAAQYAKH-RVVFDRPIGMNQGVQFPIAEAYIELEA 298 + LI + C+G D A ++A+ R P+ +Q V F +A+ + +EA Sbjct: 256 EAAFSWTAALIGSACVGVMRTAFDIALRFAQSDRRSGTIPVIEHQNVGFMLADIKMRIEA 315 Query: 299 ANLMRYRACALFD 311 A + +++C D Sbjct: 316 ARYLTWKSCHQLD 328 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 0.137 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: 1,240,149 Number of extensions: 51640 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 9 Length of query: 388 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 301 Effective length of database: 1,207,925 Effective search space: 363585425 Effective search space used: 363585425 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 (21.9 bits) S2: 131 (55.1 bits)