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= 0013.0002.p (550 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310313|ref|YP_003774405.1| acyl-CoA dehydrogenase [Herbasp... 1117 0.0 gi|300310835|ref|YP_003774927.1| acyl-CoA dehydrogenase [Herbasp... 108 1e-24 gi|300309596|ref|YP_003773688.1| acyl-CoA dehydrogenase [Herbasp... 107 3e-24 gi|300313303|ref|YP_003777395.1| acyl-CoA dehydrogenase [Herbasp... 104 2e-23 gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [H... 87 4e-18 >gi|300310313|ref|YP_003774405.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 550 Score = 1117 bits (2889), Expect = 0.0, Method: Compositional matrix adjust. Identities = 547/550 (99%), Positives = 547/550 (99%) Query: 1 MHTHEITNQVPDLSGYNLYRSDAALAEAVQREGAHWHDCTLASQGELLGSAEMREMAELA 60 MHTHEITNQVPDLSGYNLYRSDAALAEAVQREGAHWHDCTLASQGELLG AEMREMAELA Sbjct: 1 MHTHEITNQVPDLSGYNLYRSDAALAEAVQREGAHWHDCTLASQGELLGGAEMREMAELA 60 Query: 61 NRHAPVLHTHDRCGRRIDVVEFHPAWHTLLDQLRRAGLHALPWMQPGDGAHAARAAGYFL 120 NRH PVLHTHDRCGRRIDVVEFHPAWHTLLDQLRRAGLHALPWMQPGDGAHAARAAGYFL Sbjct: 61 NRHTPVLHTHDRCGRRIDVVEFHPAWHTLLDQLRRAGLHALPWMQPGDGAHAARAAGYFL 120 Query: 121 HAQIEAGSLCPTTMTFAAIAVLQQEPALFEQLRTRLFSREHDARDLPIPQKRSILIGMGM 180 HAQIEAGSLCPTTMTFAAIAVLQQEPALFEQLRTRLFSREHDARDLPIPQKRSILIGMGM Sbjct: 121 HAQIEAGSLCPTTMTFAAIAVLQQEPALFEQLRTRLFSREHDARDLPIPQKRSILIGMGM 180 Query: 181 TEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCDAHLMLARTENGLSCF 240 TEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCDAHLMLARTENGLSCF Sbjct: 181 TEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCDAHLMLARTENGLSCF 240 Query: 241 FVPRWLPDGARNPILIQRLKDKLGNRSNSSSEVEFEEAMGIMVGDEGRGIPTIIEMANHT 300 FVPRWLPDG RNPILIQRLKDKLGNRSNSSSEVEFEEAMGIMVGDEGRGIPTIIEMANHT Sbjct: 241 FVPRWLPDGTRNPILIQRLKDKLGNRSNSSSEVEFEEAMGIMVGDEGRGIPTIIEMANHT 300 Query: 301 RLDCIIGSAALMRQALVQAIHHARHRSAFGRRLAEQPLMRAVLADLALESEAATMLMLRV 360 RLDCIIGSAALMRQALVQAIHHARHRSAFGRRLAEQPLMRAVLADLALESEAATMLMLRV Sbjct: 301 RLDCIIGSAALMRQALVQAIHHARHRSAFGRRLAEQPLMRAVLADLALESEAATMLMLRV 360 Query: 361 AHAFDAPDDPLQRAWKRIITPAAKFWICKRTLEFTGECMEVWGGNGYVETAPMARLYREA 420 AHAFDAPDDPLQRAWKRIITPAAKFWICKRTLEFTGECMEVWGGNGYVETAPMARLYREA Sbjct: 361 AHAFDAPDDPLQRAWKRIITPAAKFWICKRTLEFTGECMEVWGGNGYVETAPMARLYREA 420 Query: 421 PVNSIWEGSGNVMCLDVLRAMARETQGLALLLLELDDAAAGHPALRQQVDALKQMLAAPE 480 PVNSIWEGSGNVMCLDVLRAMARETQGLALLLLELDDAAAGHPALRQQVDALKQMLAAPE Sbjct: 421 PVNSIWEGSGNVMCLDVLRAMARETQGLALLLLELDDAAAGHPALRQQVDALKQMLAAPE 480 Query: 481 EEREAGARRLVQQLVLALQGMLMLRHAPAGSAQAFLESRSQADGGRVYGTLGSASLAAQE 540 EEREAGARRLVQQLVLALQGMLMLRHAPAGSAQAFLESRSQADGGRVYGTLGSASLAAQE Sbjct: 481 EEREAGARRLVQQLVLALQGMLMLRHAPAGSAQAFLESRSQADGGRVYGTLGSASLAAQE 540 Query: 541 AILQRAWPEA 550 AILQRAWPEA Sbjct: 541 AILQRAWPEA 550 >gi|300310835|ref|YP_003774927.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 594 Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 104/346 (30%), Positives = 166/346 (47%), Gaps = 54/346 (15%) Query: 178 MGMTEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCD-----AHLMLAR 232 M +TE Q GSD+ + A+P +G G Y L G K F + D HL+LAR Sbjct: 161 MNLTEPQAGSDLALVRTRAVP-----EGDGT-YKLFGTKIFITYGEHDMAENIVHLVLAR 214 Query: 233 TEN------GLSCFFVPRWLPD-----GARNPILIQRLKDKLGNRSNSSSEVEFEE---A 278 T N G+S F VP++L + GARN + ++ KLG +++ ++ ++F + A Sbjct: 215 TPNAPEGVKGISLFIVPKFLVNADGSLGARNDVHCVSIEHKLGIKASPTAVLQFGDHGGA 274 Query: 279 MGIMVGDEGRGIPTIIEMANHTRLDCIIGSAALMRQALVQAIHHARHRSAFGRRLA---- 334 +G +VG+E RG+ + M N R I ++ +A +A+ +AR R R LA Sbjct: 275 IGTLVGEENRGLEYMFIMMNAARFAVGIQGLSVSERAYQKAVAYARDRIQ-SRDLAGSPG 333 Query: 335 -----EQPLMRAVLADLALESEAATMLMLRVAHAFDA---PDDPLQR----AWKRIITPA 382 QP +R +L + + EAA L A DA DD R A+ + P Sbjct: 334 PVAIIHQPDVRRMLMSMRAQIEAARALSYVAAATSDAAHFSDDEATRKSNQAFYEYLVPI 393 Query: 383 AKFWICKRTLEFTGECMEVWGGNGYVETAPMARLYREAPVNSIWEGSGNVMCLDVL-RAM 441 K WI + +++ T ++V GG G++E A+ YR+A + I+EG+ + D++ R Sbjct: 394 VKGWITEMSIDVTSTGVQVHGGMGFIEETGAAQYYRDARILPIYEGTTAIQANDLVGRKT 453 Query: 442 ARETQGLALLLL--------ELDDAAAGHPA---LRQQVDALKQML 476 AR+ +A +L EL A P L + DAL+Q++ Sbjct: 454 ARDGGAVAKGILAQVRKTVSELQGDAQLQPIAARLGEAADALEQVV 499 >gi|300309596|ref|YP_003773688.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 596 Score = 107 bits (266), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 86/299 (28%), Positives = 142/299 (47%), Gaps = 47/299 (15%) Query: 178 MGMTEKQGGSDV---RSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCDA-----HLM 229 M +TE G+D+ RS A +P DG +Y ++G+K F SA D HL+ Sbjct: 165 MCLTEAHCGTDLGLLRSKA------EPQADG---SYKITGNKIFISAGENDVSANIIHLV 215 Query: 230 LARTEN------GLSCFFVPRWLPD-----GARNPILIQRLKDKLGNRSNSSSEVEFEEA 278 LAR + G+S F VP++LP+ GARNPI +++K+G N++ ++ + A Sbjct: 216 LARLPDAPEGSKGISLFLVPKFLPNADGSLGARNPIFCGAIEEKMGIHGNATCQMNLDGA 275 Query: 279 MGIMVGDEGRGIPTIIEMANHTRLDCIIGSAAL----MRQALVQAIHHARHRSAFGRRLA 334 G ++G +G+ + N RL + L + ALV A + RS G + A Sbjct: 276 TGWLIGQPHKGLQAMFVFMNAARLGVGMQGLGLTEVAYQNALVYAKDRLQMRSLSGIKAA 335 Query: 335 EQPL--------MRAVLADLALESEAATMLMLRVAHAFDA----PDDPLQRAWKRII--- 379 ++P +R +L +E VA D PD+ +++ I+ Sbjct: 336 DKPADPIIVHPDVRRMLLTAKAFAEGGRAFTSYVALELDKELTHPDEQVRKDSADIVALL 395 Query: 380 TPAAKFWICKRTLEFTGECMEVWGGNGYVETAPMARLYREAPVNSIWEGSGNVMCLDVL 438 TP K ++ T EC++V+GG+GY+ M + R+A +N I+EG+ + LD+L Sbjct: 396 TPVVKAFLTDNAWMATSECLQVYGGHGYIAEWGMEQYVRDARINMIYEGTNTIQSLDLL 454 >gi|300313303|ref|YP_003777395.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 591 Score = 104 bits (260), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 131/289 (45%), Gaps = 31/289 (10%) Query: 175 LIGMGMTEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHKWFFSAPMCD-----AHLM 229 L M +TE Q GSD+ + A+P D DG +Y LSG K F S D HL+ Sbjct: 161 LATMCLTEAQAGSDLGQLRTRAVPQD---DG---SYRLSGDKIFISGGEHDLTPNIVHLV 214 Query: 230 LARTEN------GLSCFFVPRWLPDGARNPILIQRLKDKLGNRSNSSSEVEFEEAMGIMV 283 LAR + GLS F PR L DG+RN + ++ K+G +++ + FE+A +V Sbjct: 215 LARLPDAPAGSKGLSLFLAPRVLDDGSRNGVHCTGIEHKMGIHGSATCSLHFEQAQAWLV 274 Query: 284 GDEGRGIPTIIEMANHTRLDCIIGSAALMRQALVQAIHHARHR-------SAFGRRLAEQ 336 G+ GRG+ + M N RL L A +A +AR R S+ + Sbjct: 275 GEAGRGLAAMFVMMNAARLHVGAQGLGLAEAAYQRASAYARERRQSRAPGSSGNDLIVHH 334 Query: 337 PLMRAVLADLALESEAATMLMLRVAHAFD-APDDPLQRAWKR------IITPAAKFWICK 389 P ++ +L + E A +L D A DP R ITP K ++ Sbjct: 335 PAVQKLLMEQRCRIEGARLLTCWAGLLLDLAEHDPEAALRSRHHERLEFITPVIKAFLTD 394 Query: 390 RTLEFTGECMEVWGGNGYVETAPMARLYREAPVNSIWEGSGNVMCLDVL 438 + + ++V+GG+GYV + + R+A + I+EG+ + +D L Sbjct: 395 QGFQCASRALQVFGGHGYVVETGIEQFMRDARITMIYEGTNEIQAIDFL 443 >gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 394 Score = 86.7 bits (213), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/297 (24%), Positives = 133/297 (44%), Gaps = 21/297 (7%) Query: 158 SREHDARDLPIPQKRSILIGMGMTEKQGGSDVRSNASIAMPVDPLNDGRGAAYLLSGHK- 216 + E + LP + + M+E GSDV ++M + D +G Y+L+G K Sbjct: 109 NEEQKRKYLPRLISGDFIGALAMSEPNAGSDV-----VSMKLRA--DKKGDRYVLNGSKM 161 Query: 217 WFFSAPMCDAHLMLARTE-----NGLSCFFVPRWLPDGARNPILIQRLKDKLGNRSNSSS 271 W + P D ++ A+T+ G++ F V + G + + Q+L DKLG R + + Sbjct: 162 WITNGPDADVLVVYAKTDLEAGARGMTAFLVEK----GYKGFSVAQKL-DKLGMRGSHTG 216 Query: 272 EVEFEEAM---GIMVGDEGRGIPTIIEMANHTRLDCIIGSAALMRQALVQAIHHARHRSA 328 E+ F++ ++G GRG+ ++ + R G +M+ + + + R Sbjct: 217 ELVFQDCEVPEENVLGGVGRGVNVLMSGLDFERSVLSGGPLGIMQACMDVVVPYVHDRKQ 276 Query: 329 FGRRLAEQPLMRAVLADLALESEAATMLMLRVAHAFDAPDDPLQRAWKRIITPAAKFWIC 388 FG+ + E LM+ LAD+ A + V A D D + R A + Sbjct: 277 FGQAIGEFQLMQGKLADMYSTMMACKAYVYAVGQACDRADSADKVRALRKDAAGAILYSA 336 Query: 389 KRTLEFTGECMEVWGGNGYVETAPMARLYREAPVNSIWEGSGNVMCLDVLRAMARET 445 ++ GE ++ GGNGY+ P+ RL+R+A + I G+ + + + R + +T Sbjct: 337 EKATWMAGEAIQSLGGNGYINEYPVGRLWRDAKLYEIGAGTSEIRRMLIGRELFADT 393 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 0.322 0.134 0.406 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: 1,695,653 Number of extensions: 72205 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 230 Number of HSP's successfully gapped: 8 Length of query: 550 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 460 Effective length of database: 1,193,720 Effective search space: 549111200 Effective search space used: 549111200 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: 133 (55.8 bits)