RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5140
(120 letters)
>gnl|CDD|173847 cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and
eukaryotic short/branched chain acyl-CoA dehydrogenases.
Short chain acyl-CoA dehydrogenase (SCAD). SCAD is a
mitochondrial beta-oxidation enzyme. It catalyzes the
alpha,beta dehydrogenation of the corresponding
trans-enoyl-CoA by FAD, which becomes reduced. The
reduced form of SCAD is reoxidized in the oxidative
half-reaction by electron-transferring flavoprotein
(ETF), from which the electrons are transferred to the
mitochondrial respiratory chain coupled with ATP
synthesis. This subgroup also contains the eukaryotic
short/branched chain acyl-CoA dehydrogenase(SBCAD), the
bacterial butyryl-CoA dehydorgenase(BCAD) and
2-methylbutyryl-CoA dehydrogenase, which is involved in
isoleucine catabolism. These enzymes are homotetramers.
Length = 373
Score = 105 bits (263), Expect = 4e-28
Identities = 41/82 (50%), Positives = 53/82 (64%), Gaps = 13/82 (15%)
Query: 27 YVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMW 86
Y+ + + EKI G+FALSEPG+GSDA A+KTTA KDG+ Y+LNGSKMW
Sbjct: 104 YLPPLATGEKI-------------GAFALSEPGAGSDAAALKTTAKKDGDDYVLNGSKMW 150
Query: 87 ISNADIANIFLVMANVDVSKGK 108
I+N A+ ++V A D SKG
Sbjct: 151 ITNGGEADFYIVFAVTDPSKGY 172
Score = 30.7 bits (70), Expect = 0.13
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 16 IAKLAKETIAPYVQKMESEEKIDETVLKTLFESG 49
+ A++ IAP +M+ + + V+K + E G
Sbjct: 10 VRDFAEKEIAPLAAEMDEKGEFPREVIKEMAELG 43
>gnl|CDD|173838 cd00567, ACAD, Acyl-CoA dehydrogenase. Both mitochondrial acyl-CoA
dehydrogenases (ACAD) and peroxisomal acyl-CoA oxidases
(AXO) catalyze the alpha,beta dehydrogenation of the
corresponding trans-enoyl-CoA by FAD, which becomes
reduced. The reduced form of ACAD is reoxidized in the
oxidative half-reaction by electron-transferring
flavoprotein (ETF), from which the electrons are
transferred to the mitochondrial respiratory chain
coupled with ATP synthesis. In contrast, AXO catalyzes
a different oxidative half-reaction, in which the
reduced FAD is reoxidized by molecular oxygen. The ACAD
family includes the eukaryotic beta-oxidation enzymes,
short (SCAD), medium (MCAD), long (LCAD) and very-long
(VLCAD) chain acyl-CoA dehydrogenases. These enzymes all
share high sequence similarity, but differ in their
substrate specificities. The ACAD family also includes
amino acid catabolism enzymes such as Isovaleryl-CoA
dehydrogenase (IVD), short/branched chain acyl-CoA
dehydrogenases(SBCAD), Isobutyryl-CoA dehydrogenase
(IBDH), glutaryl-CoA deydrogenase (GCD) and
Crotonobetainyl-CoA dehydrogenase. The mitochondrial
ACAD's are generally homotetramers, except for VLCAD,
which is a homodimer. Related enzymes include the SOS
adaptive reponse proten aidB, Naphthocyclinone
hydroxylase (NcnH), and and Dibenzothiophene (DBT)
desulfurization enzyme C (DszC).
Length = 327
Score = 88.9 bits (221), Expect = 2e-22
Identities = 28/53 (52%), Positives = 41/53 (77%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVD 103
+FAL+EPG+GSD ++TTA KDG+ Y+LNG K++ISN A++F+V+A D
Sbjct: 71 AAFALTEPGAGSDLAGIRTTARKDGDGYVLNGRKIFISNGGDADLFIVLARTD 123
>gnl|CDD|145755 pfam02770, Acyl-CoA_dh_M, Acyl-CoA dehydrogenase, middle domain.
Central domain of Acyl-CoA dehydrogenase has a
beta-barrel fold.
Length = 52
Score = 79.1 bits (196), Expect = 4e-21
Identities = 26/52 (50%), Positives = 41/52 (78%)
Query: 52 SFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVD 103
+FAL+EPG+GSD +++TTA +DG+ ++LNG K WI+NA +A++ LV+A
Sbjct: 1 AFALTEPGAGSDLASLETTAERDGDGWVLNGRKWWITNAALADLALVLARTG 52
>gnl|CDD|173845 cd01156, IVD, Isovaleryl-CoA dehydrogenase. Isovaleryl-CoA
dehydrogenase (IVD) is an is an acyl-CoA dehydrogenase,
which catalyzes the third step in leucine catabolism,
the conversion of isovaleryl-CoA (3-methylbutyryl-CoA)
into 3-methylcrotonyl-CoA. IVD is a homotetramer and has
the greatest affinity for small branched chain
substrates.
Length = 376
Score = 82.8 bits (205), Expect = 6e-20
Identities = 29/58 (50%), Positives = 38/58 (65%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVDVSKGK 108
G+ A+SEP +GSD +MK A K G+ Y+LNGSKMWI+N A+ +V A D S G
Sbjct: 118 GALAMSEPNAGSDVVSMKLRAEKKGDRYVLNGSKMWITNGPDADTLVVYAKTDPSAGA 175
>gnl|CDD|173840 cd01151, GCD, Glutaryl-CoA dehydrogenase. Glutaryl-CoA
dehydrogenase (GCD). GCD is an acyl-CoA dehydrogenase,
which catalyzes the oxidative decarboxylation of
glutaryl-CoA to crotonyl-CoA and carbon dioxide in the
catabolism of lysine, hydroxylysine, and tryptophan. It
uses electron transfer flavoprotein (ETF) as an electron
acceptor. GCD is a homotetramer. GCD deficiency leads to
a severe neurological disorder in humans.
Length = 386
Score = 82.0 bits (203), Expect = 1e-19
Identities = 35/83 (42%), Positives = 46/83 (55%), Gaps = 14/83 (16%)
Query: 27 YVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMW 86
Y+ K+ S E I G F L+EP GSD M+T A KDG Y LNGSK W
Sbjct: 117 YLPKLASGELI-------------GCFGLTEPNHGSDPGGMETRARKDGGGYKLNGSKTW 163
Query: 87 ISNADIANIFLVMANVDVSKGKV 109
I+N+ IA++F+V A + GK+
Sbjct: 164 ITNSPIADVFVVWAR-NDETGKI 185
>gnl|CDD|173850 cd01161, VLCAD, Very long chain acyl-CoA dehydrogenase. VLCAD is
an acyl-CoA dehydrogenase (ACAD), which is found in the
mitochondria of eukaryotes and in some bacteria. It
catalyzes the alpha,beta dehydrogenation of the
corresponding trans-enoyl-CoA by FAD, which becomes
reduced. The reduced form of ACAD is reoxidized in the
oxidative half-reaction by electron-transferring
flavoprotein (ETF), from which the electrons are
transferred to the mitochondrial respiratory chain
coupled with ATP synthesis. VLCAD acts as a homodimer.
Length = 409
Score = 77.5 bits (191), Expect = 6e-18
Identities = 37/80 (46%), Positives = 49/80 (61%), Gaps = 15/80 (18%)
Query: 27 YVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATK--DGNHYILNGSK 84
Y+ K+ S E I +FAL+EP SGSDA +++TTA DG HY+LNGSK
Sbjct: 129 YLPKLASGEWI-------------AAFALTEPSSGSDAASIRTTAVLSEDGKHYVLNGSK 175
Query: 85 MWISNADIANIFLVMANVDV 104
+WI+N IA+IF V A +V
Sbjct: 176 IWITNGGIADIFTVFAKTEV 195
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 77.2 bits (190), Expect = 8e-18
Identities = 35/88 (39%), Positives = 55/88 (62%), Gaps = 1/88 (1%)
Query: 22 ETIAPYVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTT-ATKDGNHYIL 80
+AP + + +EE+ + + G+FAL+EPG+GSD +++TT A +D Y+L
Sbjct: 98 GALAPTILRFGTEEQKRRYLPRLASGELIGAFALTEPGAGSDLASLRTTAAVRDDGDYVL 157
Query: 81 NGSKMWISNADIANIFLVMANVDVSKGK 108
NG K+WISNA +A+ LV+A D + GK
Sbjct: 158 NGQKIWISNAPVADWLLVLARTDPAPGK 185
>gnl|CDD|173851 cd01162, IBD, Isobutyryl-CoA dehydrogenase. Isobutyryl-CoA
dehydrogenase (IBD) catalyzes the alpha, beta-
dehydrogenation of short branched chain acyl-CoA
intermediates in valine catabolism. It is predicted to
be a homotetramer.
Length = 375
Score = 74.0 bits (182), Expect = 9e-17
Identities = 30/64 (46%), Positives = 46/64 (71%), Gaps = 3/64 (4%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVDVSKGKVT 110
S+ L+EPGSGSDA A++T A ++G+HY+LNGSK +IS A +++++VMA G+
Sbjct: 116 ASYCLTEPGSGSDAAALRTRAVREGDHYVLNGSKAFISGAGDSDVYVVMARTG---GEGP 172
Query: 111 KGLF 114
KG+
Sbjct: 173 KGIS 176
>gnl|CDD|173849 cd01160, LCAD, Long chain acyl-CoA dehydrogenase. LCAD is an
acyl-CoA dehydrogenases (ACAD), which is found in the
mitochondria of eukaryotes and in some prokaryotes. It
catalyzes the alpha, beta dehydrogenation of the
corresponding trans-enoyl-CoA by FAD, which becomes
reduced. The reduced form of LCAD is reoxidized in the
oxidative half-reaction by electron-transferring
flavoprotein (ETF), from which the electrons are
transferred to the mitochondrial respiratory chain
coupled with ATP synthesis. LCAD acts as a homodimer.
Length = 372
Score = 72.5 bits (178), Expect = 3e-16
Identities = 30/79 (37%), Positives = 55/79 (69%)
Query: 22 ETIAPYVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGNHYILN 81
+ ++PY+ + S E+ + + + + G+ A++EPG+GSD ++TTA KDG+HY+LN
Sbjct: 85 DIVSPYITRAGSPEQKERVLPQMVAGKKIGAIAMTEPGAGSDLQGIRTTARKDGDHYVLN 144
Query: 82 GSKMWISNADIANIFLVMA 100
GSK +I+N +A++ +V+A
Sbjct: 145 GSKTFITNGMLADVVIVVA 163
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 71.1 bits (174), Expect = 1e-15
Identities = 34/69 (49%), Positives = 48/69 (69%), Gaps = 4/69 (5%)
Query: 43 KTLFESGAGSFALSEPGSGSDAFAMKTTATKDGN-HYILNGSKMWISNADIANIFLVMAN 101
K L G+ +SEPG+G+D M+TTA KD N +Y+LNGSK+WI+N +A++FL+ A
Sbjct: 145 KVLTGEHVGAMGMSEPGAGTDVLGMRTTAKKDSNGNYVLNGSKIWITNGTVADVFLIYAK 204
Query: 102 VDVSKGKVT 110
VD GK+T
Sbjct: 205 VD---GKIT 210
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 65.3 bits (159), Expect = 1e-13
Identities = 26/57 (45%), Positives = 36/57 (63%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVDVSKG 107
G+ A+SEP SGSD +MK A + Y+LNG+KMW +N +A +V A DV+ G
Sbjct: 144 GALAMSEPNSGSDVVSMKCKAERVDGGYVLNGNKMWCTNGPVAQTLVVYAKTDVAAG 200
>gnl|CDD|173841 cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar
to fadE6, fadE17, and fadE26. Putative acyl-CoA
dehydrogenases (ACAD). Mitochondrial acyl-CoA
dehydrogenases (ACAD) catalyze the alpha, beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. The reduced form of ACAD is
reoxidized in the oxidative half-reaction by
electron-transferring flavoprotein (ETF), from which the
electrons are transferred to the mitochondrial
respiratory chain coupled with ATP synthesis. The ACD
family includes the eukaryotic beta-oxidation, as well
as amino acid catabolism enzymes. These enzymes share
high sequence similarity, but differ in their substrate
specificities. The mitochondrial ACD's are generally
homotetramers and have an active site glutamate at a
conserved position.
Length = 380
Score = 62.8 bits (153), Expect = 9e-13
Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 56 SEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIAN--IFLVMANVDVSK 106
SEPG+GSD ++T A +DG+ +++NG K+W S A A+ LV + + K
Sbjct: 124 SEPGAGSDLAGLRTRAVRDGDDWVVNGQKIWTSGAHYADWAWLLVRTDPEAPK 176
>gnl|CDD|173846 cd01157, MCAD, Medium chain acyl-CoA dehydrogenase. MCADs are
mitochondrial beta-oxidation enzymes, which catalyze the
alpha,beta dehydrogenation of the corresponding medium
chain acyl-CoA by FAD, which becomes reduced. The
reduced form of MCAD is reoxidized in the oxidative
half-reaction by electron-transferring flavoprotein
(ETF), from which the electrons are transferred to the
mitochondrial respiratory chain coupled with ATP
synthesis. MCAD is a homotetramer.
Length = 378
Score = 62.2 bits (151), Expect = 2e-12
Identities = 24/52 (46%), Positives = 36/52 (69%)
Query: 52 SFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVD 103
++ ++EPG+GSD +KT A K G+ YI+NG KMWI+N AN + ++A D
Sbjct: 117 AYCVTEPGAGSDVAGIKTKAEKKGDEYIINGQKMWITNGGKANWYFLLARSD 168
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 56.7 bits (137), Expect = 1e-10
Identities = 30/71 (42%), Positives = 43/71 (60%), Gaps = 5/71 (7%)
Query: 33 SEEKIDETVLKTLFESGAGSFAL--SEPGSGSDAFAMKTTAT-KDGNHYILNGSKMWISN 89
S E++ +T TL E+G ++AL +EPG+GSD + TT T K+G Y LNG K +I+
Sbjct: 101 SAEQLRKTAESTL-ETGDPAYALALTEPGAGSDNNSATTTYTRKNGKVY-LNGQKTFITG 158
Query: 90 ADIANIFLVMA 100
A LV+A
Sbjct: 159 AKEYPYMLVLA 169
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 54.9 bits (132), Expect = 5e-10
Identities = 23/50 (46%), Positives = 33/50 (66%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMA 100
+AL+EP GSDA ++ TTATK +ILNG K WI N+ A++ ++ A
Sbjct: 144 ACWALTEPDYGSDASSLNTTATKVEGGWILNGQKRWIGNSTFADVLVIFA 193
>gnl|CDD|173844 cd01155, ACAD_FadE2, Acyl-CoA dehydrogenases similar to fadE2.
FadE2-like Acyl-CoA dehydrogenase (ACAD). Acyl-CoA
dehydrogenases (ACAD) catalyze the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. The reduced form of ACAD is
reoxidized in the oxidative half-reaction by
electron-transferring flavoprotein (ETF), from which the
electrons are transferred to the mitochondrial
respiratory chain coupled with ATP synthesis. The ACAD
family includes the eukaryotic beta-oxidation, as well
as amino acid catabolism enzymes. These enzymes share
high sequence similarity, but differ in their substrate
specificities. ACAD's are generally homotetramers and
have an active site glutamate at a conserved position.
Length = 394
Score = 52.0 bits (125), Expect = 6e-09
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 7/56 (12%)
Query: 53 FALSEPG-SGSDAFAMKTTATKDGNHYILNGSKMWISNADIAN----IFLVMANVD 103
FA++EP + SDA ++ + +DG+ Y++NG K W S A + I +VM D
Sbjct: 129 FAMTEPDVASSDATNIECSIERDGDDYVINGRKWWSSGA--GDPRCKIAIVMGRTD 182
>gnl|CDD|132251 TIGR03207, cyc_hxne_CoA_dh, cyclohexanecarboxyl-CoA dehydrogenase.
Cyclohex-1-ene-1carboxyl-CoA is an intermediate in the
anaerobic degradation of benzoyl-CoA derived from
varioius aromatic compounds, in Rhodopseudomonas
palustris but not Thauera aromatica. The aliphatic
compound cyclohexanecarboxylate, can be converted to the
same intermediate in two steps. The first step is its
ligation to coenzyme A. The second is the action of this
enzyme, cyclohexanecarboxyl-CoA dehydrogenase.
Length = 372
Score = 49.9 bits (119), Expect = 3e-08
Identities = 23/49 (46%), Positives = 32/49 (65%)
Query: 52 SFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMA 100
+ AL+EP GSDA ++ A +DG+ Y+LNG K IS AD A+ +V A
Sbjct: 117 AIALTEPRGGSDAARLRLRAERDGDDYVLNGEKTSISAADQADAAVVFA 165
>gnl|CDD|132248 TIGR03204, pimC_large, pimeloyl-CoA dehydrogenase, large subunit.
Members of this protein family are the PimC proteins of
species such as Rhodopseudomonas palustris and
Bradyrhizobium japonicum. The pimFABCDE operon encodes
proteins for the metabolism of straight chain
dicarboxylates of seven to fourteen carbons. Especially
relevant is pimeloyl-CoA, basis of the gene symbol, as
it is a catabolite of benzoyl-CoA degradation, which
occurs in Rhodopseudomonas palustris.
Length = 395
Score = 48.5 bits (115), Expect = 1e-07
Identities = 22/55 (40%), Positives = 31/55 (56%)
Query: 54 ALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMANVDVSKGK 108
SEPGSGSD ++KT A K G+ +I+NG K W + A A+ + D + K
Sbjct: 126 GFSEPGSGSDLASLKTKAEKKGDKWIINGQKTWTTLAQHADWIFCLCRTDPTAKK 180
>gnl|CDD|179566 PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated.
Length = 380
Score = 44.1 bits (104), Expect = 4e-06
Identities = 25/72 (34%), Positives = 43/72 (59%), Gaps = 8/72 (11%)
Query: 33 SEEKIDETVLKTLFESGAG----SFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWIS 88
++E+ID+ ++ G G + A++EPG+GSD ++KTT T+ LNGSK +I+
Sbjct: 102 TQEQIDK-IMAFR---GTGKQMWNSAITEPGAGSDVGSLKTTYTRRNGKVYLNGSKCFIT 157
Query: 89 NADIANIFLVMA 100
++ +VMA
Sbjct: 158 SSAYTPYIVVMA 169
>gnl|CDD|173842 cd01153, ACAD_fadE5, Putative acyl-CoA dehydrogenases similar to
fadE5. Putative acyl-CoA dehydrogenase (ACAD).
Mitochondrial acyl-CoA dehydrogenases (ACAD) catalyze
the alpha,beta dehydrogenation of the corresponding
trans-enoyl-CoA by FAD, which becomes reduced. The
reduced form of ACAD is reoxidized in the oxidative
half-reaction by electron-transferring flavoprotein
(ETF), from which the electrons are transferred to the
mitochondrial respiratory chain coupled with ATP
synthesis. The ACD family includes the eukaryotic
beta-oxidation, as well as amino acid catabolism
enzymes. These enzymes share high sequence similarity,
but differ in their substrate specificities. The
mitochondrial ACD's are generally homotetramers and have
an active site glutamate at a conserved position.
Length = 407
Score = 43.1 bits (102), Expect = 7e-06
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 50 AGSFALSEPGSGSDAFAMKTTATKDGN-HYILNGSKMWISNADIA---NIF-LVMA 100
G+ L+EP +GSD A++T A + + +NG K +IS + NI LV+A
Sbjct: 118 TGTMCLTEPDAGSDLGALRTKAVYQADGSWRINGVKRFISAGEHDMSENIVHLVLA 173
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 39.1 bits (91), Expect = 2e-04
Identities = 28/86 (32%), Positives = 46/86 (53%), Gaps = 6/86 (6%)
Query: 33 SEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGN-HYILNGSKMWISNAD 91
SEE+ ++ + K + +G+ L+EP G+D +KT A + Y + G+K++IS D
Sbjct: 165 SEEQKEQYLTKLVSGEWSGTMCLTEPQCGTDLGQVKTKAEPSADGSYKITGTKIFISAGD 224
Query: 92 ---IANI-FLVMANVDVSKGKVTKGL 113
NI +V+A + S TKGL
Sbjct: 225 HDLTENIVHIVLARLPNSL-PTTKGL 249
>gnl|CDD|215473 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 36.3 bits (84), Expect = 0.002
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 42 LKTLFESGAGS-FALSEPG-SGSDAFAMKTTATKDGNHYILNGSKMWISNA--DIANIFL 97
L L E S FA++EP + SDA ++ + + G+ Y++NG+K W S A + +
Sbjct: 542 LIPLLEGKIRSGFAMTEPQVASSDATNIECSIRRQGDSYVINGTKWWTSGAMDPRCRVLI 601
Query: 98 VMANVDVSKGK 108
VM D + K
Sbjct: 602 VMGKTDFNAPK 612
>gnl|CDD|173839 cd01150, AXO, Peroxisomal acyl-CoA oxidase. Peroxisomal acyl-CoA
oxidases (AXO) catalyze the first set in the peroxisomal
fatty acid beta-oxidation, the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. In a second oxidative
half-reaction, the reduced FAD is reoxidized by
molecular oxygen. AXO is generally a homodimer, but it
has been reported to form a different type of oligomer
in yeast. There are several subtypes of AXO's, based on
substrate specificity. Palmitoyl-CoA oxidase acts on
straight-chain fatty acids and prostanoids; whereas, the
closely related Trihydroxycoprostanoly-CoA oxidase has
the greatest activity for 2-methyl branched side chains
of bile precursors. Pristanoyl-CoA oxidase, acts on
2-methyl branched fatty acids. AXO has an additional
domain, C-terminal to the region with similarity to
acyl-CoA dehydrogenases, which is included in this
alignment.
Length = 610
Score = 32.7 bits (75), Expect = 0.026
Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 7/72 (9%)
Query: 26 PYVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGN--HYILN-- 81
++ + ++E D + G FA +E G GS+ ++TTAT D +++N
Sbjct: 111 NAIKNLGTDEHQDYWLQGANNLEIIGCFAQTELGHGSNLQGLETTATYDPLTQEFVINTP 170
Query: 82 ---GSKMWISNA 90
+K W N
Sbjct: 171 DFTATKWWPGNL 182
>gnl|CDD|132247 TIGR03203, pimD_small, pimeloyl-CoA dehydrogenase, small subunit.
Members of this protein family are the PimD proteins of
species such as Rhodopseudomonas palustris,
Bradyrhizobium japonicum. The pimFABCDE operon encodes
proteins for the metabolism of straight chain
dicarboxylates of seven to fourteen carbons. Especially
relevant is pimeloyl-CoA, basis of the gene symbol, as
it is a catabolite of benzoyl-CoA degradation, which
occurs in Rhodopseudomonas palustris.
Length = 378
Score = 31.9 bits (72), Expect = 0.050
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 52 SFALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMA 100
+FA E S D + TTA K G+ ++++G K + N + A+ +V A
Sbjct: 121 AFAQLEKNSRYDLGDVSTTAKKTGDGWVIDGEKFVVLNGETADTLIVTA 169
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 31.4 bits (71), Expect = 0.086
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 26 PYVQKMESEEKIDETVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKD 74
P Q + ++E+I+ + L G +A +E G GSD ++TTAT D
Sbjct: 104 PAFQVLGTDEQINLWMPSLLNFEIVGCYAQTELGHGSDVQNLETTATYD 152
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 31.4 bits (71), Expect = 0.096
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKD--GNHYILN-----GSKMWISNADIANIF 96
G FA++E GS+ ++TTAT D + +++N K WI NA + F
Sbjct: 175 GCFAMTELHHGSNVQGLQTTATFDPLTDEFVINTPNDGAIKWWIGNAAVHGKF 227
>gnl|CDD|217220 pfam02771, Acyl-CoA_dh_N, Acyl-CoA dehydrogenase, N-terminal
domain. The N-terminal domain of Acyl-CoA
dehydrogenase is an all-alpha domain.
Length = 113
Score = 29.4 bits (67), Expect = 0.21
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 16 IAKLAKETIAPYVQKMESEEKIDETVLKTLFESGAGSFALSEP--GSGSDAFAM 67
+ + A+E +AP+ + + E + + + L E G + E G+G D
Sbjct: 11 VREFAEEEVAPHAAEWDEEGEFPRELWRKLGELGLLGLTIPEEYGGAGLDYLEY 64
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 30.3 bits (69), Expect = 0.23
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 53 FALSEPGSGSDAFAMKTTA-----TKDGNHYI---LNGSKMWISNADIANI 95
FAL+ P +GSDA A+ T +G + L K +I+ A +A +
Sbjct: 196 FALTGPEAGSDAGAIPDTGIVCRGEFEGEEVLGLRLTWDKRYITLAPVATV 246
>gnl|CDD|188537 TIGR04022, sulfur_SfnB, sulfur acquisition oxidoreductase, SfnB
family. Members of this protein family belong to the
greater family of acyl-CoA dehydrogenases. This family
includes the sulfate starvation induced protein SfnB of
Pseudomonas putida strain DS1, which is both encoded
nearby to and phylogenetically closely correlated with
the dimethyl sulphone monooxygenase SfnG. This family
shows considerable sequence similarity to the
Rhodococcus dibenzothiophene desulfurization enzyme
DszC, although that enzyme falls outside of the scope of
this family [Central intermediary metabolism, Sulfur
metabolism].
Length = 391
Score = 29.9 bits (68), Expect = 0.25
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 54 ALSEPGSGSDAFAMKTTATKDGNHYILNGSKMWISNADIANIFLVMA 100
A SE G+ + +T +DG+ Y LNG K + + A A+ V+A
Sbjct: 119 AFSERGT-RNVLDFQTRLRRDGDGYRLNGRKFYSTGALFAHWIPVLA 164
>gnl|CDD|184154 PRK13573, PRK13573, anthranilate synthase component I; Provisional.
Length = 503
Score = 27.4 bits (61), Expect = 1.7
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 25 APYVQKMESEEKIDE--TVLKTLFESGAGSFALSEPGSGSDAFAMKTTATKDGNHYILNG 82
AP V+ ME IDE + ++ G G FA + G A++T KD YI G
Sbjct: 410 APKVRAMEI---IDELEPEKRGVYGGGVGYFAAN--GEMDMCIALRTAVVKDETLYIQAG 464
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 27.0 bits (60), Expect = 2.7
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 51 GSFALSEPGSGSDAFAMKTTATKDGN--HYILN-----GSKMWISNA 90
G FA++E G GS+ ++T T D +++N K WI A
Sbjct: 187 GCFAMTELGHGSNVRGIETVTTYDPKTEEFVINTPCESAQKYWIGGA 233
>gnl|CDD|236528 PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.
Length = 777
Score = 26.7 bits (60), Expect = 3.6
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 53 FALSEPGSGSDAFAM 67
FAL+ P +GSDA ++
Sbjct: 197 FALTSPEAGSDAGSI 211
>gnl|CDD|173852 cd01163, DszC, Dibenzothiophene (DBT) desulfurization enzyme C.
DszC is a flavin reductase dependent enzyme, which
catalyzes the first two steps of DBT desulfurization in
mesophilic bacteria. DszC converts DBT to DBT-sulfoxide,
which is then converted to DBT-sulfone. Bacteria with
this enzyme are candidates for the removal of organic
sulfur compounds from fossil fuels, which pollute the
environment. An equivalent enzyme tdsC, is found in
thermophilic bacteria. This alignment also contains a
closely related uncharacterized subgroup.
Length = 377
Score = 25.7 bits (57), Expect = 7.0
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 54 ALSEPGSGSDAFAMKTTATKDGNHYILNGSK 84
A+SE GS + T G Y+LNG K
Sbjct: 108 AVSERGSVRPGTFLTATVRDGG-GYVLNGKK 137
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 25.3 bits (56), Expect = 9.9
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 7 GLGRDRLNIIAKLAKETIAPYVQKMESEEKIDET 40
L RD +I+ L E + P V ME EEK D T
Sbjct: 117 ALNRDSYSIVRVLPPE-VDPRVSVMEVEEKPDVT 149
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.130 0.358
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,800,711
Number of extensions: 485389
Number of successful extensions: 325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 47
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)