RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1218
(136 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 = 103 bits (258), Expect = 4e-27
Identities = 34/57 (59%), Positives = 45/57 (78%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLKF 57
M ELGLMG+ +PE+ GG GLD+LAYAIA EE+++ AS VI+SV+NSL P++KF
Sbjct: 39 MAELGLMGIPIPEEYGGAGLDFLAYAIAIEELAKVDASVAVIVSVHNSLGANPIIKF 95
Score = 48.0 bits (115), Expect = 2e-07
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 109 KGCASCGVIMSVNNSLYLGPILKFGNAA 136
K AS VI+SV+NSL PI+KFG
Sbjct: 72 KVDASVAVIVSVHNSLGANPIIKFGTEE 99
>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 = 87.5 bits (218), Expect = 2e-23
Identities = 30/57 (52%), Positives = 44/57 (77%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLKF 57
+GELGL+G+ +PE+ GG GLDYL YA+ EE++R AS G+ +SV++SL P+L+F
Sbjct: 40 LGELGLLGLTIPEEYGGAGLDYLEYALVAEELARADASVGLALSVHSSLVAPPILRF 96
Score = 35.5 bits (83), Expect = 0.002
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 109 KGCASCGVIMSVNNSLYLGPILKFGNAA 136
+ AS G+ +SV++SL PIL+FG
Sbjct: 73 RADASVGLALSVHSSLVAPPILRFGTEE 100
>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 = 59.7 bits (145), Expect = 2e-11
Identities = 21/40 (52%), Positives = 28/40 (70%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCG 40
MG+LGL+G+ PE+ GG+G+ YLA+ I EEISR S
Sbjct: 42 MGKLGLLGITAPEEYGGSGMGYLAHVIIMEEISRASGSVA 81
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 51.0 bits (122), Expect = 2e-08
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCAS--CGVIMSVNNSLYLGPLL 55
+ E GL+G+ +PE+ GG GL L A EE++R A + ++ L P +
Sbjct: 48 LAEAGLLGLTIPEEYGGLGLSPLEQAAVLEELARADAGGALALGLTHGGLGALAPTI 104
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 49.1 bits (117), Expect = 1e-07
Identities = 23/56 (41%), Positives = 34/56 (60%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLK 56
MG+ L G+ PE+ GG GL YL + IA EEISR S G+ +++L + L++
Sbjct: 68 MGDFNLHGITAPEEYGGLGLGYLYHCIAMEEISRASGSVGLSYGAHSNLCINQLVR 123
>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 = 47.8 bits (114), Expect = 2e-07
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLKF 57
+ ELGL G++VPE+ GG GL+ YA E + V + + S+ +L F
Sbjct: 65 LKELGLFGLQVPEEYGGLGLNNTQYARLAEIVGMD-LGFSVTLGAHQSIGFKGILLF 120
>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 = 47.0 bits (112), Expect = 4e-07
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLKF 57
MGELGL+G + G GL +AY + E+ R + MSV +SL + P+ F
Sbjct: 53 MGELGLLGA-TIKGYGCAGLSSVAYGLIAREVERVDSGYRSFMSVQSSLVMLPIYDF 108
>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 = 44.1 bits (104), Expect = 4e-06
Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 3/54 (5%)
Query: 3 ELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVN-NSLYLGPLL 55
ELGLM +PED GG GL + TEE++ GC GV ++ NSL P++
Sbjct: 43 ELGLMNTHIPEDCGGLGLGTFDTCLITEELAYGCT--GVQTAIEANSLGQMPVI 94
>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 = 42.9 bits (101), Expect = 1e-05
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISR-GCASCGV 41
GE GL+GV PE+ GG G D L+ A+ EE++R G + G+
Sbjct: 39 AGEQGLLGVGFPEEYGGIGGDLLSAAVLWEELARAGGSGPGL 80
>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 = 42.6 bits (100), Expect = 2e-05
Identities = 16/35 (45%), Positives = 24/35 (68%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRG 35
MGE+G +G E+PE+ GG G+ LA + E+I+R
Sbjct: 41 MGEMGFIGPELPEEHGGLGMGCLAAGVIHEQIARA 75
>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 = 40.5 bits (95), Expect = 1e-04
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 2 GELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNN 47
ELG G+ + +D+GG+GL L +I E +S GC S +S++N
Sbjct: 42 AELGFGGIYIRDDVGGSGLSRLDASIIFEALSTGCVSTAAYISIHN 87
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 39.2 bits (91), Expect = 3e-04
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISR 34
+G+LG+MGV VPE GG G+D +A I E+S+
Sbjct: 77 LGDLGVMGVTVPEADGGAGMDAVAAVIIHHELSK 110
>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 = 34.7 bits (80), Expect = 0.010
Identities = 16/38 (42%), Positives = 19/38 (50%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCAS 38
E G M + VPE+ GG GL Y+ E SRG A
Sbjct: 45 FAEAGWMALGVPEEYGGQGLPITVYSALAEIFSRGDAP 82
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 34.1 bits (78), Expect = 0.013
Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSL 49
+G LG+ G + + G GL A AIAT E++R ASC + V++SL
Sbjct: 69 LGSLGIAGGTI-KGYGCPGLSITASAIATAEVARVDASCSTFILVHSSL 116
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 33.9 bits (78), Expect = 0.017
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 5 GLMGVEVPEDLGGTGLDYLAYAIATEEISRGCA 37
++GV PE+ GGT DY+ + EE+S+ A
Sbjct: 52 SMLGV--PEEFGGTPADYVTQMLVLEEVSKCGA 82
>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 = 33.1 bits (76), Expect = 0.030
Identities = 9/37 (24%), Positives = 15/37 (40%)
Query: 1 MGELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCA 37
+ G P++ GG G + I EE++ A
Sbjct: 44 LAAAGWAAPGWPKEYGGRGASLMEQLIFREEMAAAGA 80
>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 = 28.4 bits (64), Expect = 0.99
Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 4/74 (5%)
Query: 3 ELGLMGVEVPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSVNNSLYLGPLLKF---DF 59
+ GL + VP++ GG G E++ ++ + + ++ LL F
Sbjct: 33 QSGLGTLRVPKEYGGLGASLPDLYEVVRELAAADSNIAQALR-AHFGFVEALLLAGPEQF 91
Query: 60 RPMLLKLVFHGTLV 73
R V +G +
Sbjct: 92 RKRWFGRVLNGWIF 105
>gnl|CDD|173848 cd01159, NcnH, Naphthocyclinone hydroxylase. Naphthocyclinone is
an aromatic polyketide and an antibiotic, which is
active against Gram-positive bacteria. Polyketides are
secondary metabolites, which have important biological
functions such as antitumor, immunosupressive or
antibiotic activities. NcnH is a hydroxylase involved
in the biosynthesis of naphthocyclinone and possibly
other polyketides.
Length = 370
Score = 27.7 bits (62), Expect = 1.9
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 11 VPEDLGGTGLDYLAYAIATEEISRGCASCGVIMSV 45
VP+ GG D+ +A A ++ C S + S+
Sbjct: 41 VPKRYGGLEGDFAEFAEAIATLAEACGSAAWVASI 75
>gnl|CDD|238886 cd01903, Ntn_AC_NAAA, AC_NAAA This conserved domain includes two
closely related proteins, acid ceramidase (AC, also
known as N-acylsphingosine amidohydrolase), and
N-acylethanolamine-hydrolyzing acid amidase (NAAA). AC
catalyzes the hydrolysis of ceramide to sphingosine and
fatty acid. Ceramide is required for the biosynthesis
of most sphingolipids and plays an important role in
many signal transduction pathways by inducing apoptosis
and/or arresting cell growth. An inherited deficiency
of AC activity leads to the lysosomal storage disorder
known as Farber disease. AC is considered a "rheostat"
important for maintaining the proper intracellular
levels of these lipids since hydrolysis of ceramide is
the only source of sphingosine in cells. NAAA is a
eukaryotic glycoprotein that hydrolyzes bioactive
N-acylethanolamines, including anandamide (an
endocannabinoid) and N-palmitoylethanolamine (an
anti-inflammatory and neuroprotective substance), to
fatty acids and ethanolamine at acidic pH. NAAA shows
structural and functional similarity to acid
ceramidase, but lacks the ceramide-hydrolyzing activity
of AC.
Length = 231
Score = 27.2 bits (61), Expect = 2.6
Identities = 13/39 (33%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 31 EISRGCASCGVIMSVNNSLYLGPLLKFDFRPMLLKLVFH 69
EI C S V N ++Y L F F L KL +
Sbjct: 5 EIFTFCTSI-VAQDSNGTIYHARNLDFGFFEELSKLTVN 42
>gnl|CDD|216840 pfam02005, TRM, N2,N2-dimethylguanosine tRNA methyltransferase.
This enzyme EC:2.1.1.32 used S-AdoMet to methylate tRNA.
The TRM1 gene of Saccharomyces cerevisiae is necessary
for the N2,N2-dimethylguanosine modification of both
mitochondrial and cytoplasmic tRNAs. The enzyme is found
in both eukaryotes and archaebacteria.
Length = 375
Score = 26.2 bits (58), Expect = 6.6
Identities = 12/53 (22%), Positives = 24/53 (45%)
Query: 31 EISRGCASCGVIMSVNNSLYLGPLLKFDFRPMLLKLVFHGTLVCHEVVLGVVE 83
+ C CG + L+LGPL +F +L++ + +LG+++
Sbjct: 256 KFKAECPHCGGRFHLAGPLWLGPLHDKEFVEEMLEIAESPPEEFSKRILGLLK 308
>gnl|CDD|224780 COG1867, TRM1, N2,N2-dimethylguanosine tRNA methyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 380
Score = 25.8 bits (57), Expect = 8.8
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 30 EEISRGCASCGVIMSVNNSLYLGPL 54
E+ C CG + + L+LGPL
Sbjct: 254 REVDEKCPHCGGKVHLAGPLWLGPL 278
>gnl|CDD|235828 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
Validated.
Length = 953
Score = 26.1 bits (58), Expect = 8.8
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 4/32 (12%)
Query: 95 EKHYQHRTRCPLGPKGCASCGVIMSVNNSLYL 126
E PL C +CG M N S Y+
Sbjct: 915 ELQLGEAADAPL----CPTCGTKMVRNGSCYV 942
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
0.323 0.142 0.443
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,719,677
Number of extensions: 570878
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 31
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
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: 54 (24.5 bits)