RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1771
(217 letters)
>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle,
oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus}
SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 1is2_A*
Length = 661
Score = 212 bits (542), Expect = 1e-65
Identities = 79/241 (32%), Positives = 108/241 (44%), Gaps = 52/241 (21%)
Query: 12 LGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL------------ 59
LGK + HAIV A+LIT +GLHAF+VPIR+ T P PG+TVGD+
Sbjct: 180 LGKTSNHAIVLAQLIT-QGECYGLHAFVVPIREIGTHKPLPGITVGDIGPKFGYEEMDNG 238
Query: 60 -----------------------EGTYTSPFRDPGKRFGSSLGALSTGRVSIIGFCVAYL 96
+GTY P + + G + R ++G L
Sbjct: 239 YLKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNK-----LTYGTMVFVRSFLVGNAAQSL 293
Query: 97 SKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYF 156
SKA TIA+RY+ VRRQ + E +L+++ Q++LFP LA Y Y
Sbjct: 294 SKACTIAIRYSAVRRQSEIKQSE-----PEPQILDFQTQQYKLFPLLATAYAFHFVGRYM 348
Query: 157 TREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYL 216
R + +G + E+HAL++ K W A GI+ECR ACGGHGY
Sbjct: 349 KETYLRINESIGQGDLSE------LPELHALTAGLKAFTTWTANAGIEECRMACGGHGYS 402
Query: 217 K 217
Sbjct: 403 H 403
>1w07_A Acyl-COA oxidase; oxidoreductase, peroxisomal beta-oxidation, FAD
cofactor; HET: FAD; 2.0A {Arabidopsis thaliana} SCOP:
a.29.3.2 a.29.3.2 e.6.1.2 PDB: 2fon_A*
Length = 659
Score = 209 bits (533), Expect = 3e-64
Identities = 75/249 (30%), Positives = 103/249 (41%), Gaps = 54/249 (21%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL------- 59
W LGK +THA+V+ARLI + D+G+H F+V +R + P P +TVGD+
Sbjct: 174 WWPGGLGKVSTHAVVYARLI-TNGKDYGIHGFIVQLRSLEDHSPLPNITVGDIGTKMGNG 232
Query: 60 -------------------------------EGTYTSPFRDPGKRFGSSLGALSTGRVSI 88
EG Y G + R +I
Sbjct: 233 AYNSMDNGFLMFDHVRIPRDQMLMRLSKVTREGEYVPS----DVPKQLVYGTMVYVRQTI 288
Query: 89 IGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYM 148
+ LS+A+ IA RY+ VRRQFG G E V++Y+ Q RLFP LA+ Y
Sbjct: 289 VADASNALSRAVCIATRYSAVRRQFGAHNGG-----IETQVIDYKTQQNRLFPLLASAYA 343
Query: 149 LRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECRE 208
R ++ +L E HA ++ K L DGI+ECR+
Sbjct: 344 FRFVGEWLKWLYTDVTERLAASDFAT------LPEAHACTAGLKSLTTTATADGIEECRK 397
Query: 209 ACGGHGYLK 217
CGGHGYL
Sbjct: 398 LCGGHGYLW 406
>2uxw_A VERY-long-chain specific acyl-COA dehydrogenase; fatty acid
metabolism, transit peptide, disease mutation, LI
metabolism, coenzyme A dehydrogenase; HET: FAD TH3;
1.45A {Homo sapiens} PDB: 3b96_A*
Length = 607
Score = 54.7 bits (132), Expect = 5e-09
Identities = 30/127 (23%), Positives = 44/127 (34%), Gaps = 30/127 (23%)
Query: 13 GKCATHAIVFARLITPD----SVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GT 62
G A VFA+ D +V + AF+V R + G+T G E +
Sbjct: 205 GGLADIFTVFAKTPVTDPATGAVKEKITAFVVE-RG------FGGITHGPPEKKMGIKAS 257
Query: 63 YTSP--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGV 109
T+ F G F ++ L+ GR + + I AV +A
Sbjct: 258 NTAEVFFDGVRVPSENVLGEVGSGFKVAMHILNNGRFGMAAALAGTMRGIIAKAVDHATN 317
Query: 110 RRQFGPP 116
R QFG
Sbjct: 318 RTQFGEK 324
>3owa_A Acyl-COA dehydrogenase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-structure,
beta-barrel; HET: MSE FAD 1PE; 1.97A {Bacillus
anthracis}
Length = 597
Score = 50.4 bits (121), Expect = 1e-07
Identities = 44/230 (19%), Positives = 73/230 (31%), Gaps = 54/230 (23%)
Query: 13 GKCATHAIVFARLITPDSVD-HGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTS 65
A IV+A+ +D AF+V +D Y GV+ E + T
Sbjct: 190 SAFADVFIVYAK------IDGEHFSAFIVE-KD------YAGVSTSPEEKKMGIKCSSTR 236
Query: 66 P--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQ 112
D GK + L+ GR + V +A+ I+ +YA R+Q
Sbjct: 237 TLILEDALVPKENLLGEIGKGHIIAFNILNIGRYKLGVGTVGSAKRAVEISAQYANQRQQ 296
Query: 113 FGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGG 172
F P+ + L+Q +L A Y L E
Sbjct: 297 FK------------QPIARFPLIQEKLANMAAKTYAAESSVYRTVGLFESRMSTLSEEEV 344
Query: 173 DKDYLGAMGAEIHALSSA-----GKPLAGWIARDGIQECREACGGHGYLK 217
A +A+ + G + + +G+Q GG+G++
Sbjct: 345 KDGKAVAASIAEYAIECSLNKVFGSEVLDYTVDEGVQ----IHGGYGFMA 390
>2z1q_A Acyl-COA dehydrogenase; FAD, structural genomics, NPPSFA, Na
project on protein structural and functional analyses;
HET: FAD; 2.30A {Thermus thermophilus}
Length = 577
Score = 50.0 bits (120), Expect = 1e-07
Identities = 32/124 (25%), Positives = 44/124 (35%), Gaps = 33/124 (26%)
Query: 13 GKCATHAIVFARLITPDSVD-HGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTS 65
A VFA+ VD AFLV RD PG++ G E + T
Sbjct: 185 AGFAHLFTVFAK------VDGEHFTAFLVE-RD------TPGLSFGPEEKKMGIKASSTR 231
Query: 66 P--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQ 112
D GK + L+ GR + V +A+ ++ +YA R Q
Sbjct: 232 QVILEDVKVPVENVLGEIGKGHKIAFNVLNVGRYKLGAGAVGGAKRALELSAQYATQRVQ 291
Query: 113 FGPP 116
FG P
Sbjct: 292 FGRP 295
>2dvl_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project on protein STR and functional analyses; HET:
FAD; 2.50A {Thermus thermophilus}
Length = 372
Score = 48.6 bits (117), Expect = 3e-07
Identities = 30/123 (24%), Positives = 43/123 (34%), Gaps = 32/123 (26%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
A +V AR + G+ AFLV + PG++ G E +T+
Sbjct: 158 AGHAHLYVVMAR------TEKGISAFLVE-KG------TPGLSFGRPEEKMGLHAAHTAE 204
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
+ G+ +L L +GRV + V A IA YA R QF
Sbjct: 205 VRLEEVFVPEENLLGEEGRGLAYALAGLDSGRVGVAAQAVGIARGAFEIAKAYAEEREQF 264
Query: 114 GPP 116
G
Sbjct: 265 GKK 267
>2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid
metabolism, FAD, polymorphism, flavoprotein,
mitochondrion, disease mutation; HET: FAD COS; 1.9A
{Homo sapiens} PDB: 1jqi_A*
Length = 391
Score = 47.9 bits (115), Expect = 8e-07
Identities = 36/123 (29%), Positives = 50/123 (40%), Gaps = 27/123 (21%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
A+ A+VFA + + AFLVP +P PG+T+G E G+ T+
Sbjct: 161 AWEASAAVVFAS-TDRALQNKSISAFLVP-------MPTPGLTLGKKEDKLGIRGSSTAN 212
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F D PG F ++ L GR+ I + A+ AV YA R F
Sbjct: 213 LIFEDCRIPKDSILGEPGMGFKIAMQTLDMGRIGIASQALGIAQTALDCAVNYAENRMAF 272
Query: 114 GPP 116
G P
Sbjct: 273 GAP 275
>1buc_A Butyryl-COA dehydrogenase; acyl-COA dehydrogenase short-chain
acyl-COA dehydrogenase, flavoprotein, oxidoreductase;
HET: CAA FAD; 2.50A {Megasphaera elsdenii} SCOP:
a.29.3.1 e.6.1.1
Length = 383
Score = 47.1 bits (113), Expect = 1e-06
Identities = 33/123 (26%), Positives = 46/123 (37%), Gaps = 27/123 (21%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
G A IVFA +HG+ AF++ PG T G E + T
Sbjct: 164 GGAADIYIVFAM-TDKSKGNHGITAFILE-------DGTPGFTYGKKEDKMGIHTSQTME 215
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F+D GK F ++ L GR+ + + A+ AV Y+ R QF
Sbjct: 216 LVFQDVKVPAENMLGEEGKGFKIAMMTLDGGRIGVAAQALGIAEAALADAVEYSKQRVQF 275
Query: 114 GPP 116
G P
Sbjct: 276 GKP 278
>3mpi_A Glutaryl-COA dehydrogenase; alpha-beta fold, oxidoreductase; HET:
FAD GRA; 2.05A {Desulfococcus multivorans} PDB: 3mpj_A*
Length = 397
Score = 46.8 bits (112), Expect = 1e-06
Identities = 28/122 (22%), Positives = 44/122 (36%), Gaps = 25/122 (20%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE-----GTYTSP- 66
A I +A + GL AF++ R+ +PG+ +LE + T
Sbjct: 163 AAQADVLIYYAY-TDKAAGSRGLSAFVIEPRN------FPGIKTSNLEKLGSHASPTGEL 215
Query: 67 -FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFG 114
+ PG G+L+ R+S V + A++Y RRQFG
Sbjct: 216 FLDNVKVPKENILGKPGDGARIVFGSLNHTRLSAAAGGVGLAQACLDAAIKYCNERRQFG 275
Query: 115 PP 116
P
Sbjct: 276 KP 277
>2d29_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses; HET:
FAD; 1.65A {Thermus thermophilus} SCOP: a.29.3.1 e.6.1.1
PDB: 1ws9_A 2cx9_A*
Length = 387
Score = 46.7 bits (112), Expect = 2e-06
Identities = 33/126 (26%), Positives = 43/126 (34%), Gaps = 29/126 (23%)
Query: 13 GKCATHAIVFAR---LITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTY 63
G A +V AR +P+ G+ AF P G+ VG E +
Sbjct: 162 GSVAGVYVVMARTDPPPSPERKHQGISAFAFF-------RPERGLKVGRKEEKLGLTASD 214
Query: 64 TSP--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVR 110
T+ D GK F L L GR+ I V A+ A+ YA R
Sbjct: 215 TAQLILEDLFVPEEALLGERGKGFYDVLRVLDGGRIGIAAMAVGLGQAALDYALAYAKGR 274
Query: 111 RQFGPP 116
FG P
Sbjct: 275 EAFGRP 280
>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial;
flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC;
1.77A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 393
Score = 46.0 bits (110), Expect = 3e-06
Identities = 46/236 (19%), Positives = 76/236 (32%), Gaps = 81/236 (34%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP--- 66
+ +V R T G+ +V + PG++ G E G + P
Sbjct: 173 AGESDIYVVMCR--TGGPGPKGISCIVVE-KG------TPGLSFGKKEKKVGWNSQPTRA 223
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F D G+ F ++ L+ GR++I + ++ + + VR+QF
Sbjct: 224 VIFEDCAVPVANRIGSEGQGFLIAVRGLNGGRINIASCSLGAAHASVILTRDHLNVRKQF 283
Query: 114 GPPKQGSDSEPEELPVLEYELLQW------------RLFPHLAAVYMLRVFSDYFTREMG 161
G P+ + LQ+ RL AA
Sbjct: 284 GE------------PLASNQYLQFTLADMATRLVAARLMVRNAA---------------- 315
Query: 162 RFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ L E D L +M A++ A + I +Q GG+GYLK
Sbjct: 316 ---VALQEERKDAVALCSM-AKLFA-TDE----CFAICNQALQ----MHGGYGYLK 358
>1ukw_A Acyl-COA dehydrogenase; oxidoreductase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; HET: FAD; 2.40A {Thermus thermophilus} SCOP:
a.29.3.1 e.6.1.1
Length = 379
Score = 45.6 bits (109), Expect = 4e-06
Identities = 30/123 (24%), Positives = 45/123 (36%), Gaps = 27/123 (21%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG--------TYT 64
G A +VFA + P+ G+ A +V R PG + G TY
Sbjct: 159 GGEAEWVVVFAT-VNPELRHKGVVALVVE-RG------TPGFKAIKIHGKMGQRASGTYE 210
Query: 65 SPFRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F D G+ F ++ L+ R+ + V +A+ A +YA R F
Sbjct: 211 LVFEDVKVPVENRLGEEGEGFKIAMQTLNKTRIPVAAGSVGVARRALDEARKYAKEREAF 270
Query: 114 GPP 116
G P
Sbjct: 271 GEP 273
>2jif_A Short/branched chain specific acyl-COA dehydrogen; mitochondrion,
oxidoreductase, transit peptide, fatty acid metabolism,
FAD, flavoprotein; HET: FAD COS; 2.0A {Homo sapiens}
Length = 404
Score = 45.6 bits (109), Expect = 4e-06
Identities = 29/127 (22%), Positives = 46/127 (36%), Gaps = 35/127 (27%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
+ A +V A + P G+ +FLV RD PG+ +G E + T P
Sbjct: 183 AEHAGLFLVMAN-VDPTIGYKGITSFLVD-RD------TPGLHIGKPENKLGLRASSTCP 234
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSI----IGFCVAYLSKAITIAVRYAGV 109
F + G + ++G+L+ GR+ I +G + Y
Sbjct: 235 LTFENVKVPEANILGQIGHGYKYAIGSLNEGRIGIAAQMLGLAQG----CFDYTIPYIKE 290
Query: 110 RRQFGPP 116
R QFG
Sbjct: 291 RIQFGKR 297
>3pfd_A Acyl-COA dehydrogenase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid; HET:
FDA; 2.10A {Mycobacterium thermoresistibile}
Length = 393
Score = 45.2 bits (108), Expect = 6e-06
Identities = 36/123 (29%), Positives = 48/123 (39%), Gaps = 27/123 (21%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP--- 66
G +T V A PD +G+ AF+V +D G TVG E G SP
Sbjct: 173 GGKSTWYTVMAV-TDPDKGANGISAFMVH-KD------DEGFTVGPKERKLGIKGSPTTE 224
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F + PG F ++L L R +I V A+ A+ Y R+QF
Sbjct: 225 LYFENCRIPGDRIIGEPGTGFKTALATLDHTRPTIGAQAVGIAQGALDAAIAYTKERKQF 284
Query: 114 GPP 116
G P
Sbjct: 285 GRP 287
>3mxl_A Nitrososynthase; flavin monooxygenase, acyl-COA dehydrogenas
oxidoreductase; 3.15A {Micromonospora carbonacea}
Length = 395
Score = 43.8 bits (104), Expect = 2e-05
Identities = 26/123 (21%), Positives = 37/123 (30%), Gaps = 29/123 (23%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
ATH V A+ D L +V RD PG+TV D + T
Sbjct: 164 APIATHFFVHAQ-RRDDDGSVFLAVPVVH-RD------APGLTVLDNWDGLGMRASGTLE 215
Query: 67 --FRD-------------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRR 111
F G R + L + ++++G A IAV + R
Sbjct: 216 VVFDRCPVRADELLERGPVGARRDAVLAGQTVSSITMLGIYAGIAQAARDIAVGFCAGRG 275
Query: 112 QFG 114
Sbjct: 276 GEP 278
>3nf4_A Acyl-COA dehydrogenase; seattle structural genomics center for
infectious disease, S FAD, FADH, tuberculosis,
oxidoredu; HET: FAD; 2.35A {Mycobacterium
thermoresistibile}
Length = 387
Score = 43.7 bits (104), Expect = 2e-05
Identities = 31/123 (25%), Positives = 43/123 (34%), Gaps = 29/123 (23%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
G A +FAR T G+ FLVP D PG++ G E T+
Sbjct: 170 GGKADFYTLFAR--T-GEGSRGVSCFLVP-AD------QPGLSFGKPEEKMGLHAVPTTS 219
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
+ + G+ + AL +GR+ I A+ AV YA R F
Sbjct: 220 AFYDNARIDADRRIGEEGQGLQIAFSALDSGRLGIAAVATGLAQAALDEAVAYANERTAF 279
Query: 114 GPP 116
G
Sbjct: 280 GRK 282
>3ii9_A Glutaryl-COA dehydrogenase; slipchip, microfluidics, screening,
optimization, protein crystallization, structural
genomics; HET: PGE PG4; 1.74A {Burkholderia pseudomallei
1710B} PDB: 3eon_A* 3eom_A* 3gqt_A* 3gnc_A* 3d6b_A
Length = 396
Score = 42.9 bits (102), Expect = 3e-05
Identities = 35/234 (14%), Positives = 70/234 (29%), Gaps = 69/234 (29%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG----- 61
WI A +V+A+ + + F++ + G++ + G
Sbjct: 170 WIT--NSPIADVFVVWAK--LDEDGRDEIRGFILE-KGC------KGLSAPAIHGKVGLR 218
Query: 62 ---TYTSPFRD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAG 108
T + P + L++ R I + IA +Y
Sbjct: 219 ASITGEIVLDEAFVPEENILPHVKGLRGPFTCLNSARYGIAWGALGAAESCWHIARQYVL 278
Query: 109 VRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTR-EMGR---FQ 164
R+QFG P+ +L+Q +L M T +G +
Sbjct: 279 DRKQFGR------------PLAANQLIQKKL------ADMQ-------TEITLGLQGVLR 313
Query: 165 M-KLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ ++ + G + ++ K + A D + R+ GG+G
Sbjct: 314 LGRMKDEGTAAVEITSI----------MKRNSCGKALDIARLARDMLGGNGISD 357
>3m9v_A FAD-dependent oxidoreductase; KIJD3, fatty acyl-COA dehydrogenase
family, kijanose, kijani FAD, flavoprotein; HET: TYD;
2.05A {Actinomadura kijaniata}
Length = 439
Score = 41.9 bits (99), Expect = 8e-05
Identities = 25/125 (20%), Positives = 35/125 (28%), Gaps = 29/125 (23%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTSP 66
TH ++ AR L + +V RD PG TV D + T
Sbjct: 175 APVGTHFVINAR-TDGTDGPPRLASPVVT-RD------TPGFTVLDNWDGLGMRASGTVD 226
Query: 67 --FRD-----------PGKRFGSS--LGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRR 111
F D + L + VS++G V A AV R
Sbjct: 227 IVFDDCPIPADHVLMRDPVGARNDAVLAGQTVSSVSVLGVYVGVAQAAYDTAVAALERRP 286
Query: 112 QFGPP 116
+
Sbjct: 287 EPPQA 291
>1egd_A Medium chain acyl-COA dehydrogenase; flavoprotein, electron
transfer; HET: FAD; 2.40A {Homo sapiens} SCOP: a.29.3.1
e.6.1.1 PDB: 1egc_A* 1ege_A* 1t9g_A* 2a1t_A* 1udy_A*
3mdd_A* 3mde_A*
Length = 396
Score = 41.0 bits (97), Expect = 2e-04
Identities = 30/126 (23%), Positives = 41/126 (32%), Gaps = 30/126 (23%)
Query: 13 GKCATHAIVFARLITPDSVD---HGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP 66
G A + AR PD F+V D PG+ +G E G S
Sbjct: 170 GGKANWYFLLARS-DPDPKAPANKAFTGFIVE-AD------TPGIQIGRKELNMGQRCSD 221
Query: 67 -----FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVR 110
F D G F ++GA R + V +A+ A +YA R
Sbjct: 222 TRGIVFEDVKVPKENVLIGDGAGFKVAMGAFDKERPVVAAGAVGLAQRALDEATKYALER 281
Query: 111 RQFGPP 116
+ FG
Sbjct: 282 KTFGKL 287
>1ivh_A Isovaleryl-COA dehydrogenase; oxidoreductase, acyl-COA
dehydrogenase, flavoprotein, isovaleric acidemia; HET:
FAD COS; 2.60A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 394
Score = 40.2 bits (95), Expect = 2e-04
Identities = 24/124 (19%), Positives = 39/124 (31%), Gaps = 27/124 (21%)
Query: 13 GKCATHAIVFARL-ITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------GTYTS 65
G A IV+A+ + G+ AF+V + PG + G+ T
Sbjct: 170 GPDADVLIVYAKTDLAAVPASRGITAFIVE-KG------MPGFSTSKKLDKLGMRGSNTC 222
Query: 66 P--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQ 112
F D K + L R+ + G + + + + Y VR
Sbjct: 223 ELIFEDCKIPAANILGHENKGVYVLMSGLDLERLVLAGGPLGLMQAVLDHTIPYLHVREA 282
Query: 113 FGPP 116
FG
Sbjct: 283 FGQK 286
>1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA
dehydrogenase, , aldehyde dehydrogenase, oxidoreductase;
HET: FAD; 2.10A {Streptomyces hygroscopicus} SCOP:
a.29.3.1 e.6.1.1
Length = 366
Score = 39.4 bits (93), Expect = 4e-04
Identities = 29/124 (23%), Positives = 37/124 (29%), Gaps = 32/124 (25%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG--------TYT 64
A H +VF D +VP D PGV V +
Sbjct: 146 AAYADHLVVFGL--QEDG---SGAVVVVP-AD------TPGVRVERVPKPSGCRAAGHAD 193
Query: 65 SPFRD-----------PGKRFGSSL-GALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQ 112
G + +L+ GR S+ CV L T AV +A R Q
Sbjct: 194 LHLDQVRVPAGAVLAGSGASLPMLVAASLAYGRKSVAWGCVGILRACRTAAVAHARTREQ 253
Query: 113 FGPP 116
FG P
Sbjct: 254 FGRP 257
>2ix5_A Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4, flavin,
peroxisome, glyoxysome, fatty acid metabo lipid
metabolism, acyl-COA oxidase; HET: CAA FAD; 2.7A
{Arabidopsis thaliana} PDB: 2ix6_A*
Length = 436
Score = 39.6 bits (93), Expect = 4e-04
Identities = 43/221 (19%), Positives = 74/221 (33%), Gaps = 61/221 (27%)
Query: 16 ATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG--------TYTSPF 67
A I+FAR ++ + ++ F+V +D PG+ +
Sbjct: 212 ADLLIIFAR----NTTTNQINGFIVK-KD------APGLKATKIPNKIGLRMVQNGDILL 260
Query: 68 RD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPK 117
++ PG F + L+ RV + + + RY R+QFG
Sbjct: 261 QNVFVPDEDRLPGVNSFQDTSKVLAVSRVMVAWQPIGISMGIYDMCHRYLKERKQFGA-- 318
Query: 118 QGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQM-KLMEGGGDKDY 176
P+ ++L Q +L V ML + + +++ KL E G
Sbjct: 319 ----------PLAAFQLNQQKL------VQML---GNVQAMFLMGWRLCKLYETGQMTPG 359
Query: 177 LGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
++ GK AR+ RE GG+G L
Sbjct: 360 QASL----------GKAWISSKARETASLGRELLGGNGILA 390
>3p4t_A Putative acyl-COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FAO; 1.70A {Mycobacterium
smegmatis} PDB: 3oib_A*
Length = 403
Score = 39.4 bits (93), Expect = 4e-04
Identities = 23/123 (18%), Positives = 35/123 (28%), Gaps = 28/123 (22%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP--- 66
G A + + AR T G+ +V + PG V G +S
Sbjct: 182 GVRADYVVTAAR--TGGPGAGGVSLIVVD-KG------TPGFEVTRKLDKMGWRSSDTAE 232
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
+ D F A RV + A + + + V + R F
Sbjct: 233 LSYTDVRVPVANLVGSENTGFAQIAAAFVAERVGLATQAYAGAQRCLDLTVEWCRNRDTF 292
Query: 114 GPP 116
G P
Sbjct: 293 GRP 295
>3sf6_A Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: FDA; 1.70A
{Mycobacterium smegmatis}
Length = 403
Score = 39.1 bits (92), Expect = 5e-04
Identities = 45/231 (19%), Positives = 68/231 (29%), Gaps = 65/231 (28%)
Query: 6 QWIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG---- 61
WI G A A+V+AR D G+ F+VP D PG T ++
Sbjct: 180 MWIT--NGSVADVAVVWART------DEGIRGFVVP-TD------TPGFTANTIKSKMSL 224
Query: 62 ----TYTSPFRD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYA 107
T PG G+ L L+ R I+ + + A+ YA
Sbjct: 225 RASVTSELVLDGVRLPDSARLPGATSLGAPLRCLNEARFGIVFGALGAARDCLETALAYA 284
Query: 108 GVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQM-K 166
R QF P+ ++L Q +L M +Y + + +
Sbjct: 285 CSREQFDR------------PIGGFQLTQQKL------ADMT---LEYGKGFLLALHLGR 323
Query: 167 LMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ G S GK A + + R G G
Sbjct: 324 QKDAGELAP----------EQVSLGKLNNVREAIEIARTARTVLGASGITG 364
>3swo_A Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA dehdrogenase,
mycobacerium smegmatis, S genomics; HET: FDA; 1.45A
{Mycobacterium smegmatis}
Length = 399
Score = 39.1 bits (92), Expect = 6e-04
Identities = 43/235 (18%), Positives = 67/235 (28%), Gaps = 73/235 (31%)
Query: 6 QWIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG---- 61
WI G A A V+A+ D G+ FLVP D PG T ++
Sbjct: 175 MWIT--NGNLADVATVWAQT------DDGIRGFLVP-TD------TPGFTANEIHRKLSL 219
Query: 62 ----TYTSPFRD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYA 107
T + P + L L+ R I+ + ++ + Y
Sbjct: 220 RASVTSELVLDNVRLPASAQLPLAEGLSAPLSCLNEARFGIVFGALGAARDSLETTIAYT 279
Query: 108 GVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTR-EMGR---F 163
R F P+ Y+L Q +L M G
Sbjct: 280 QSREVFDK------------PLSNYQLTQEKL------ANMT-------VELGKGMLLAI 314
Query: 164 QM-KLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ ++ + G + ++ GK A +ECR GG G
Sbjct: 315 HLGRIKDAEGVRPEQISL----------GKLNNVREAIAIARECRTLLGGSGITL 359
>3r7k_A Probable acyl COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FDA; 2.50A {Mycobacterium
abscessus}
Length = 403
Score = 38.7 bits (91), Expect = 9e-04
Identities = 23/123 (18%), Positives = 34/123 (27%), Gaps = 28/123 (22%)
Query: 13 GKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP--- 66
G A R T G+ ++ ++ PG V G S
Sbjct: 185 GVRADFVTTAVR--TGGPGYGGVSLLVID-KN------SPGFEVSRRLDKMGWRCSDTAE 235
Query: 67 --FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQF 113
F D F + R+ I A +A+ +A +A R F
Sbjct: 236 LSFVDVRVPADNLVGAENSGFLQIMQQFQAERLGIAVQAYATAGRALDLAKSWARERETF 295
Query: 114 GPP 116
G P
Sbjct: 296 GRP 298
>2c12_A Nitroalkane oxidase; oxidoreductase, flavoenzyme, acyl-COA
dehydrogenase, long cell EDGE, FAD, inhibitor,
flavoprotein; HET: SPM FAD PE4; 2.07A {Fusarium
oxysporum} SCOP: a.29.3.1 e.6.1.1 PDB: 2c0u_A* 2zaf_A*
2reh_A* 3d9g_A* 3d9f_A* 3d9d_A* 3d9e_A* 3fcj_A*
Length = 439
Score = 36.9 bits (86), Expect = 0.003
Identities = 20/140 (14%), Positives = 32/140 (22%), Gaps = 32/140 (22%)
Query: 6 QWI---VYKLGKCATHAIVFAR--------LITPDSVDHGLHAFLVPIRDPKTLLPYPGV 54
W K A A V R + LV R+
Sbjct: 168 LWPSNSGGWDYKGADLACVVCRVSDDPSKPQDPNVDPATQIAVLLVT-RETIANNKKDAY 226
Query: 55 TVGDLE---GTYTSP-----FRD-----------PGKRF-GSSLGALSTGRVSIIGFCVA 94
+ G T+ F + PG + G A + + +
Sbjct: 227 QILGEPELAGHITTSGPHTRFTEFHVPHENLLCTPGLKAQGLVETAFAMSAALVGAMAIG 286
Query: 95 YLSKAITIAVRYAGVRRQFG 114
A A+ +A + G
Sbjct: 287 TARAAFEEALVFAKSDTRGG 306
>3mkh_A Nitroalkane oxidase; oxidoreductase flavoenzyme, acyl-COA
dehydrogen flavoprotein, oxidoreductase; HET: FAD; 2.00A
{Podospora anserina}
Length = 438
Score = 36.9 bits (86), Expect = 0.003
Identities = 17/137 (12%), Positives = 32/137 (23%), Gaps = 30/137 (21%)
Query: 6 QWI------VYKLGKCATHAIVFARLITPDSVDH-GLHAFLVPIRDPKTLLP--YPGVTV 56
W +K A A TP + ++ + L V
Sbjct: 169 MWATNCAGWDFKGCDLACVVCRDAT--TPLEEGQDPENKVMIILVTRADLDRNGEGSFEV 226
Query: 57 GDLE------GTYTSP--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLS 97
+ + G+ + GA V + V +
Sbjct: 227 LRHVATPGHTSVSGPHVRYTNVRVPTKNVLCPAGQGAKVAFGAFDGSAVLVGAMGVGLMR 286
Query: 98 KAITIAVRYAGVRRQFG 114
A A+++A + G
Sbjct: 287 AAFDAALKFAKEDNRGG 303
>1siq_A GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrogenase,
decarboxylation, flavin protein, oxidoreductase; HET:
FAD; 2.10A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB:
2r0n_A* 1sir_A* 2r0m_A*
Length = 392
Score = 36.4 bits (85), Expect = 0.005
Identities = 41/230 (17%), Positives = 70/230 (30%), Gaps = 64/230 (27%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG----- 61
WI A +V+AR D + FL+ + G++ ++G
Sbjct: 166 WI--TNSPMADLFVVWAR-----CEDGCIRGFLLE-KG------MRGLSAPRIQGKFSLR 211
Query: 62 ---TYTSPFRD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAG 108
T PG G G L+ R I + + A +YA
Sbjct: 212 ASATGMIIMDGVEVPEENVLPGASSLGGPFGCLNNARYGIAWGVLGASEFCLHTARQYAL 271
Query: 109 VRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQM-KL 167
R QFG P+ +L+Q +L ML ++ Q+ +L
Sbjct: 272 DRMQFGV------------PLARNQLIQKKL------ADML---TEITLGLHACLQLGRL 310
Query: 168 MEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ + ++ K A D ++ R+ GG+G
Sbjct: 311 KDQDKAAPEMVSL----------LKRNNCGKALDIARQARDMLGGNGISD 350
>2eba_A Putative glutaryl-COA dehydrogenase; thermus thermophilius, FAD,
STRU genomics, NPPSFA; HET: FAD; 2.21A {Thermus
thermophilus}
Length = 385
Score = 36.0 bits (84), Expect = 0.006
Identities = 41/230 (17%), Positives = 71/230 (30%), Gaps = 64/230 (27%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEG----- 61
WI G A A+++A+ + FLVP D PG +++
Sbjct: 163 WIT--NGNLAHLAVIWAK-----DEGGEVLGFLVP-TD------TPGFQAREVKRKMSLR 208
Query: 62 ---TYTSPFRD---------PGKR-FGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAG 108
T + P + L L+ R I + L AV +A
Sbjct: 209 ASVTSELVLEEVRVPESLRLPKALGLKAPLSCLTQARFGIAWGAMGALEAVYEEAVAFAK 268
Query: 109 VRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQM-KL 167
R FG P+ + +L+Q +L ML + + + +++ +L
Sbjct: 269 SRSTFGE------------PLAKKQLVQAKL------AEML---AWHTEGLLLAWRLARL 307
Query: 168 MEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
+ G ++ K W A + R+ GG G
Sbjct: 308 KDEGKLTPAQVSL----------AKRQNVWKALQAARMARDILGGSGITL 347
>2pg0_A Acyl-COA dehydrogenase; GK1316, geobacillus kaustophilus HTA
structural genomics, PSI, protein structure initiative;
HET: FAD; 1.80A {Geobacillus kaustophilus}
Length = 385
Score = 35.9 bits (84), Expect = 0.007
Identities = 24/125 (19%), Positives = 36/125 (28%), Gaps = 29/125 (23%)
Query: 13 GKCATHAIVFARLITPD--SVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP- 66
G A +V + P G+ +V RD PG T G G +
Sbjct: 164 GIHADLIVVACK-TDPQAKPPHRGISLLVVE-RD------TPGFTRGRKLEKVGLHAQDT 215
Query: 67 ----FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRR 111
F+D GK F + L R+ + ++ +Y R
Sbjct: 216 AELFFQDAKVPAYNLLGEEGKGFYYLMEKLQQERLVVAIAAQTAAEVMFSLTKQYVKQRT 275
Query: 112 QFGPP 116
FG
Sbjct: 276 AFGKR 280
>3djl_A Protein AIDB; alpha helix, beta-barrel, FAD, flavoprotein,
oxidoreductase; HET: FAD; 1.70A {Escherichia coli} PDB:
3u33_A*
Length = 541
Score = 31.3 bits (71), Expect = 0.27
Identities = 23/114 (20%), Positives = 38/114 (33%), Gaps = 24/114 (21%)
Query: 19 AIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP-----FRD- 69
+V A+ GL F VP P + + L+ G ++ F+D
Sbjct: 225 HLVLAQT------AGGLSCFFVPRFLPDGQRN--AIRLERLKDKLGNRSNASCEVEFQDA 276
Query: 70 -------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPP 116
G+ L R A + +A ++A+ +A R FG P
Sbjct: 277 IGWLLGLEGEGIRLILKMGGMTRFDCALGSHAMMRRAFSLAIYHAHQRHVFGNP 330
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 30.0 bits (67), Expect = 0.61
Identities = 21/95 (22%), Positives = 32/95 (33%), Gaps = 35/95 (36%)
Query: 110 RRQF----GPPKQG--SDSEPE---ELPVLEY-----ELLQWRLFPHLAAVYMLRVFSDY 155
+ QF P +G +D EP EL V ++ L++ V L +
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAEL-VGKFLGYVSSLVEPSKVGQFDQV--LNLCLTE 90
Query: 156 FTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSA 190
F YL G +IHAL++
Sbjct: 91 FEN----------------CYLE--GNDIHALAAK 107
>2jjm_A Glycosyl transferase, group 1 family protein; anthrax, nucleotide,
carbohydrate; 3.10A {Bacillus anthracis} PDB: 3mbo_A*
Length = 394
Score = 28.4 bits (64), Expect = 2.1
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 28 PDSVDHGLHAFLVPIRDPKTL 48
P+ + HG +L + D +
Sbjct: 320 PEVIQHGDTGYLCEVGDTTGV 340
>1hm6_A Annexin 1; phospholipid/Ca(2+)-binding protein, calcium-free form,
FULL-length protein comprising protein core and
N-terminal domain, metal; 1.80A {Sus scrofa} SCOP:
a.65.1.1 PDB: 1mcx_A 1ain_A 1bo9_A
Length = 346
Score = 27.7 bits (61), Expect = 3.6
Identities = 6/52 (11%), Positives = 16/52 (30%)
Query: 163 FQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHG 214
+ +++Y+ + SA P + ++ +A G
Sbjct: 8 LKQAWFIDNEEQEYIKTVKGSKGGPGSAVSPYPTFNPSSDVEALHKAITVKG 59
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 27.0 bits (60), Expect = 5.2
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 155 YFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSS 189
+E+G M+++EG G L +M A+IH L++
Sbjct: 287 EMIKEIGLTHMRILEGVGTYLQLASMLAKIHKLNN 321
>3c48_A Predicted glycosyltransferases; retaining glycosyltransferase, beta
alpha beta, substrate AS catalysis; 2.10A
{Corynebacterium glutamicum} PDB: 3c4v_A* 3c4q_A*
Length = 438
Score = 26.9 bits (60), Expect = 6.4
Identities = 6/21 (28%), Positives = 7/21 (33%)
Query: 28 PDSVDHGLHAFLVPIRDPKTL 48
P +V G LV P
Sbjct: 361 PIAVAEGETGLLVDGHSPHAW 381
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.142 0.444
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,659,586
Number of extensions: 228578
Number of successful extensions: 469
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 47
Length of query: 217
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 127
Effective length of database: 4,188,903
Effective search space: 531990681
Effective search space used: 531990681
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.2 bits)