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= 0006.0029.p (418 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314033|ref|YP_003778125.1| acyl-CoA dehydrogenase [Herbasp... 717 0.0 gi|300314032|ref|YP_003778124.1| acyl-CoA dehydrogenase [Herbasp... 412 e-116 gi|300310289|ref|YP_003774381.1| dibenzothiophene desulfurizatio... 391 e-110 gi|300311865|ref|YP_003775957.1| acyl-CoA dehydrogenase [Herbasp... 66 5e-12 gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [H... 61 2e-10 >gi|300314033|ref|YP_003778125.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 717 bits (1850), Expect = 0.0, Method: Compositional matrix adjust. Identities = 380/418 (90%), Positives = 394/418 (94%), Gaps = 7/418 (1%) Query: 1 MSAHILETVRRPGLRQAQRITSEAQALQVAAELAAEFAQSAAERDRERILPFDQIERFSH 60 MSAHI E +RR G R AQRI+SE+ ALQVAAELAAEFA SAA+RDRERILPF+QIERFS Sbjct: 1 MSAHIPEPIRRAGQRPAQRISSESHALQVAAELAAEFATSAAQRDRERILPFEQIERFSQ 60 Query: 61 SGLWAITVPRSHGGIGASWQTVAEVFRLISAADPSIGQIPQNHFGNLNLIANLASEEQQR 120 SGLWAITVPRSHGGIGASWQTVAEV RLISAADPSIGQIPQNHFGNLNLIA LAS+EQQR Sbjct: 61 SGLWAITVPRSHGGIGASWQTVAEVIRLISAADPSIGQIPQNHFGNLNLIARLASQEQQR 120 Query: 121 FFFNEVLEGARLGNAGPERNGKNVLDVRTRATLDTAAGDGSYLLNGTRFYSTGALYAHWI 180 FF EVL+GARLGNAGPERNGKNVLDVRTRATLD AAGDGSYLLNGTRFYSTGALYAHWI Sbjct: 121 LFFAEVLDGARLGNAGPERNGKNVLDVRTRATLDRAAGDGSYLLNGTRFYSTGALYAHWI 180 Query: 181 PSRAIDDEGQSLVVYSRHDAPGVRVIDDWSSFGQRTTASGTVVFDNVRVPASQVLPLKDA 240 PSRAIDD+GQ LVVY+R DAPGVRVIDDWSSFGQRTTASGTVVFDNVRVPA+QVL LKDA Sbjct: 181 PSRAIDDDGQPLVVYTRRDAPGVRVIDDWSSFGQRTTASGTVVFDNVRVPATQVLALKDA 240 Query: 241 LQQPNNIGPVSQLIQAAIXDDHLFVDAGIAHAAVQDTIAFVTTRSRPYVDSGLERASDDP 300 LQQPNNIGPVSQLIQAAI DAGIAHAAVQDTIAFVTTRSRPYVDSGLERASDDP Sbjct: 241 LQQPNNIGPVSQLIQAAI-------DAGIAHAAVQDTIAFVTTRSRPYVDSGLERASDDP 293 Query: 301 YILRDIGNLSLRLHAAEALLEDAAAVLDSLPARISFEQMAQASVAVAEAKVLSTELALLA 360 YILRDIGNLSLRLHAA+ALLEDAAA+LDSLPA++SFEQMAQAS AVAEAKVLSTELALLA Sbjct: 294 YILRDIGNLSLRLHAADALLEDAAALLDSLPAQLSFEQMAQASAAVAEAKVLSTELALLA 353 Query: 361 SEKLFELSGSAATLASHNLDRHWRNARVHTLHDPVRWKYFAVGNYALNGTPPPRHSWS 418 SEKLFELSGSAATLASHNLDRHWRNARVHTLHDPVRWKYFAVGNYALNGTPPPRHSWS Sbjct: 354 SEKLFELSGSAATLASHNLDRHWRNARVHTLHDPVRWKYFAVGNYALNGTPPPRHSWS 411 >gi|300314032|ref|YP_003778124.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 421 Score = 412 bits (1060), Expect = e-116, Method: Compositional matrix adjust. Identities = 223/402 (55%), Positives = 283/402 (70%), Gaps = 11/402 (2%) Query: 15 RQAQRITSEAQALQVAAELAAEFAQSAAERDRERILPFDQIERFSHSGLWAITVPRSHGG 74 R RI +A+A+ A +LA +F++ AA RDRER LP+D++ER+ SGLW ITVP+ +GG Sbjct: 27 RLVARIRDDAEAIAAARKLAEDFSREAALRDRERKLPWDELERYVRSGLWGITVPKEYGG 86 Query: 75 IGASWQTVAEVFRLISAADPSIGQIPQNHFGNLNLIANLASEEQQRFFFNEVLEGARLGN 134 G S+ T+AEV ISAAD SIGQIPQNHF + LI SE Q+RFFF VL+G R GN Sbjct: 87 AGVSYGTLAEVIATISAADGSIGQIPQNHFYAVELIRVNGSESQKRFFFERVLQGDRFGN 146 Query: 135 AGPERNGKNVLDVRTRATLDTAAGDGSYLLNGTRFYSTGALYAHWIPSRAIDDEG-QSLV 193 A E K D +TR + + A G G Y ++G +FY+TGALYA W+P+ IDD+G Q L Sbjct: 147 ALAELGTKTSHDRKTRLSRN-AHGPG-YRIDGRKFYATGALYADWVPTSVIDDDGVQQLA 204 Query: 194 VYSRHDAPGVRVIDDWSSFGQRTTASGTVVFDNVRVPASQVLPLKDALQQPNNIGPVSQL 253 + RH APG+ +IDDWS FGQRTT SG+ VF+NV VPA V+ A +P IGP++Q+ Sbjct: 205 IVPRH-APGLTIIDDWSGFGQRTTGSGSAVFENVHVPADAVIGFATAFSRPTQIGPMAQI 263 Query: 254 IQAAIXDDHLFVDAGIAHAAVQDTIAFVTTRSRPYVDSGLERASDDPYILRDIGNLSLRL 313 AAI D GIA AA D + FV TRSR +VDSG+ERA DDP +R++G+L+++L Sbjct: 264 QHAAI-------DLGIARAAYADLLTFVRTRSRAWVDSGVERAVDDPLTIREVGDLTIQL 316 Query: 314 HAAEALLEDAAAVLDSLPARISFEQMAQASVAVAEAKVLSTELALLASEKLFELSGSAAT 373 HAAEALL A +D+ A + +A AS+AVAEA+VL+TE++L A KLFEL+GS +T Sbjct: 317 HAAEALLRRAGRKVDAAAAAPDEDSVAAASIAVAEARVLTTEVSLAAGSKLFELAGSQST 376 Query: 374 LASHNLDRHWRNARVHTLHDPVRWKYFAVGNYALNGTPPPRH 415 LA HNLDRHWRNAR HTLHDPVRWKY A+GNY LNG PPRH Sbjct: 377 LAEHNLDRHWRNARTHTLHDPVRWKYHAIGNYVLNGKKPPRH 418 >gi|300310289|ref|YP_003774381.1| dibenzothiophene desulfurization flavin reductase [Herbaspirillum seropedicae SmR1] Length = 419 Score = 391 bits (1005), Expect = e-110, Method: Compositional matrix adjust. Identities = 208/411 (50%), Positives = 273/411 (66%), Gaps = 15/411 (3%) Query: 12 PGLRQAQR----ITSEAQALQVAAELAAEFAQSAAERDRERILPFDQIERFSHSGLWAIT 67 PGL +A + I +A+A+ VA LA AQ A+ERD+ R P ++IE +S SGLWAI Sbjct: 20 PGLPRASQPAHVIRDDAEAIAVAHALAPRLAQGASERDQLRRWPVEEIEAYSQSGLWAIN 79 Query: 68 VPRSHGGIGASWQTVAEVFRLISAADPSIGQIPQNHFGNLNLIANLASEEQQRFFFNEVL 127 VPR+ GG S+ T+AEV +ISAADPS+GQI QNH G + + ++ EQQR FF + L Sbjct: 80 VPRAFGGAEVSYATLAEVIAIISAADPSLGQITQNHLGFVAAVRTVSDPEQQRRFFADFL 139 Query: 128 EGARLGNAGPERNGKNVLDVRTRATLDTAAGDGSYLLNGTRFYSTGALYAHWIPSRAIDD 187 G R GNA E K D TR AGD ++ G +FYSTGAL AH++P A D+ Sbjct: 140 RGVRWGNAFSESGSKRAADFETRFV---DAGD-HVIVTGKKFYSTGALLAHYVPIVANDE 195 Query: 188 EGQSLVVYSRHDAPGVRVIDDWSSFGQRTTASGTVVFDNVRVPASQVLPLKDALQQPNNI 247 E ++ V + +APG+ VIDDWS+FGQRTT SGTV+ D V+VP + ++P +P+ Sbjct: 196 ENRTWYVVAERNAPGLTVIDDWSAFGQRTTLSGTVIIDQVKVPKTHLIPAYKGYLEPSAD 255 Query: 248 GPVSQLIQAAIXDDHLFVDAGIAHAAVQDTIAFVTTRSRPYVDSGLERASDDPYILRDIG 307 G + Q+IQAA VD GIA AA+ DT FV T+SRP++DS + A +DPY ++ IG Sbjct: 256 GAIFQIIQAA-------VDVGIARAAIADTQDFVRTKSRPWIDSQRDHAWEDPYSIQAIG 308 Query: 308 NLSLRLHAAEALLEDAAAVLDSLPARISFEQMAQASVAVAEAKVLSTELALLASEKLFEL 367 +L +RLHA+EALLE A +D+ A + +A A + AEAKVLSTE+A+ A+ KLFEL Sbjct: 309 DLQIRLHASEALLERAGRAIDAAVAAPDAQSVAHAQILTAEAKVLSTEIAIHATNKLFEL 368 Query: 368 SGSAATLASHNLDRHWRNARVHTLHDPVRWKYFAVGNYALNGTPPPRHSWS 418 +G+ +TL +NLDRHWRNAR HTLHDPVRWKY VGNY LNG PP H+WS Sbjct: 369 AGTRSTLGQYNLDRHWRNARTHTLHDPVRWKYAIVGNYYLNGVKPPFHAWS 419 >gi|300311865|ref|YP_003775957.1| acyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 386 Score = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 90/366 (24%), Positives = 151/366 (41%), Gaps = 34/366 (9%) Query: 34 AAEFAQSAAERDRERILPFDQIERFSHSGLWAITVPRSHGGIGASWQTVAEVFRLISAAD 93 A E A AA+ D E P D I + G + P + GG+G S VF ++ A Sbjct: 21 AGEMAPFAAKWDEEAHFPLDVIAKAGELGFCGLYTPEADGGLGLSRLDATVVFEELARAC 80 Query: 94 PSIGQIPQNHFGNLNLIANLASEEQQRFFFNEVLEGARLGNAGPER--NGKNVLDVRTRA 151 S H +IA+ + + ++ G ++G+ +G + ++T A Sbjct: 81 TSTAAYLTIHNMVSWMIASWGQPSLKAQWCEQLAAGRKIGSYCLTEPGSGSDAASLKTTA 140 Query: 152 TLDTAAGDGSYLLNGTRFYSTGALYAHWIPSRA-IDDEGQSLV--VYSRHDAPGVRVIDD 208 L+ DG Y+LNG++ + +GA + A EG V + +APGV Sbjct: 141 RLE----DGHYVLNGSKAFISGAGSTDVLVVMARTGGEGARGVSAIVVPGNAPGVSYGKK 196 Query: 209 WSSFGQRTTASGTVVFDNVRVPASQVLPLKDALQQPNNIGPVSQLIQAAIXDDHLFVDAG 268 S G + + T+ FDNV+VPA +L + I + L I + G Sbjct: 197 ESKMGWNSQPTRTISFDNVKVPADHLL----GQEGQGFIFAMKGLDGGRI--NIATCSVG 250 Query: 269 IAHAAVQDTIAFVTTRS---RPYVDSGLERASDDPYILRDIGNLSLRLHAAEALLEDAAA 325 A AA+ A++ R RP +D + + ++ L AA ++ AA Sbjct: 251 AAQAALDAAHAYMKERKQFGRPI--------ADFQALQFKLADMQTELVAARQMVRLAAT 302 Query: 326 VLDSLPARISFEQMAQASVAVAEAKVLSTELALLASEKLFELSGSAATLASHNLDRHWRN 385 LD+ +A+ A AK L+T+L + +L G + + L+R++R+ Sbjct: 303 KLDA--------GSPEATTYCAMAKRLATDLGFRVCNEALQLHGGYGYIREYPLERYFRD 354 Query: 386 ARVHTL 391 RVH + Sbjct: 355 VRVHQI 360 >gi|300313969|ref|YP_003778061.1| isovaleryl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 394 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 94/227 (41%), Gaps = 37/227 (16%) Query: 29 VAAELAAEFAQSAAERDRERILPFDQIERFSHSGLWAITVPRSHGGIGASWQTVAEVFRL 88 VAA +E A AAE DR P D ++ G+ ITV +GG G + Sbjct: 22 VAAFAHSEIAPRAAEIDRSDQFPMDLWKKLGDLGVLGITVSEEYGGAGLGYLAHIIAMEE 81 Query: 89 ISAADPSIGQIPQNHFGNL--NLIANLASEEQQRFFFNEVLEGARLGN-AGPERN-GKNV 144 IS A S+G H NL N I +EEQ+R + ++ G +G A E N G +V Sbjct: 82 ISRASASVGLSYGAH-SNLCVNQIKRNGNEEQKRKYLPRLISGDFIGALAMSEPNAGSDV 140 Query: 145 LDVRTRATLDTAAGDGSYLLNGTRFYSTGALYAHWIPSRAIDDEGQSLVVYSRHDA---- 200 + ++ RA GD Y+LNG++ WI + + LVVY++ D Sbjct: 141 VSMKLRA---DKKGD-RYVLNGSKM---------WITN---GPDADVLVVYAKTDLEAGA 184 Query: 201 ------------PGVRVIDDWSSFGQRTTASGTVVFDNVRVPASQVL 235 G V G R + +G +VF + VP VL Sbjct: 185 RGMTAFLVEKGYKGFSVAQKLDKLGMRGSHTGELVFQDCEVPEENVL 231 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 0.318 0.132 0.384 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: 1,218,664 Number of extensions: 47560 Number of successful extensions: 173 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 6 Length of query: 418 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 330 Effective length of database: 1,203,190 Effective search space: 397052700 Effective search space used: 397052700 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 132 (55.5 bits)