RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1303
(206 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 = 299 bits (767), Expect = e-102
Identities = 109/204 (53%), Positives = 147/204 (72%)
Query: 1 GCGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANML 60
+ I++VHN L A I KFGT++QK+ YLP G +G F +SEPG+GSDAA +
Sbjct: 73 VDASVAVIVSVHNSLGANPIIKFGTEEQKKKYLPPLATGEKIGAFALSEPGAGSDAAALK 132
Query: 61 TTARKESDHWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKK 120
TTA+K+ D +VLNG+K WITNG EA ++ A D SK ++GITAFI+ D+PGLS+GKK
Sbjct: 133 TTAKKDGDDYVLNGSKMWITNGGEADFYIVFAVTDPSKGYRGITAFIVERDTPGLSVGKK 192
Query: 121 EDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAF 180
EDKLGIR SST +I EDV++P +++LG+EGEGFK+ + +D RIG+A+Q +GIAQAA
Sbjct: 193 EDKLGIRGSSTTELIFEDVRVPKENILGEEGEGFKIAMQTLDGGRIGIAAQALGIAQAAL 252
Query: 181 DCAMEYAGKRIAFGAPILKLQAVQ 204
D A++YA +R FG PI Q +Q
Sbjct: 253 DAAVDYAKERKQFGKPIADFQGIQ 276
>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 = 227 bits (582), Expect = 9e-75
Identities = 82/189 (43%), Positives = 134/189 (70%), Gaps = 1/189 (0%)
Query: 17 AGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTK 76
A L+ +GT++QKE YLP G + F ++EPG+GSD A + TTARK+ D +VLNG K
Sbjct: 45 AALLLAYGTEEQKERYLPPLASGEAIAAFALTEPGAGSDLAGIRTTARKDGDGYVLNGRK 104
Query: 77 SWITNGYEAKAFVCIAQ-ADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASSTCNVI 135
+I+NG +A F+ +A+ ++ H+GI+AF++P D+PG+++G+ DK+G+R S T ++
Sbjct: 105 IFISNGGDADLFIVLARTDEEGPGHRGISAFLVPADTPGVTVGRIWDKMGMRGSGTGELV 164
Query: 136 LEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGA 195
+DV++P D++LG+EG GF++ + G++ R+ +A+ +G A+AA D A+EYA +R FG
Sbjct: 165 FDDVRVPEDNLLGEEGGGFELAMKGLNVGRLLLAAVALGAARAALDEAVEYAKQRKQFGK 224
Query: 196 PILKLQAVQ 204
P+ + QAVQ
Sbjct: 225 PLAEFQAVQ 233
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 216 bits (552), Expect = 2e-69
Identities = 84/210 (40%), Positives = 133/210 (63%), Gaps = 6/210 (2%)
Query: 1 GCGGTSTILTVHN---CLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAA 57
G + L + + A I +FGT++QK YLP G +G F ++EPG+GSD A
Sbjct: 82 ADAGGALALGLTHGGLGALAPTILRFGTEEQKRRYLPRLASGELIGAFALTEPGAGSDLA 141
Query: 58 NMLTT-ARKESDHWVLNGTKSWITNGYEAKAFVCIAQADKS-KKHKGITAFIIPMD-SPG 114
++ TT A ++ +VLNG K WI+N A + +A+ D + KHKGI+ F++P D +PG
Sbjct: 142 SLRTTAAVRDDGDYVLNGQKIWISNAPVADWLLVLARTDPAPGKHKGISLFLVPKDLTPG 201
Query: 115 LSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIG 174
+S+G K+G+R S+T V +DV++P +++LG+EG+GFK+ + ++ R+G+A+Q +G
Sbjct: 202 VSVGPILKKMGLRGSATGEVFFDDVRVPAENLLGEEGDGFKIAMETLNVERLGIAAQALG 261
Query: 175 IAQAAFDCAMEYAGKRIAFGAPILKLQAVQ 204
IA+AA + A+ YA +R FG PI Q VQ
Sbjct: 262 IAEAALEEAVAYARERKQFGRPIADFQLVQ 291
>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 = 193 bits (492), Expect = 1e-60
Identities = 85/193 (44%), Positives = 119/193 (61%)
Query: 12 HNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWV 71
H+ L I + G+ QKE YLP + G ++G +SEP +GSD +M A K+ D +V
Sbjct: 87 HSNLCINQIYRNGSAAQKEKYLPKLISGEHIGALAMSEPNAGSDVVSMKLRAEKKGDRYV 146
Query: 72 LNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASST 131
LNG+K WITNG +A V A+ D S GITAFI+ PG S +K DKLG+R S+T
Sbjct: 147 LNGSKMWITNGPDADTLVVYAKTDPSAGAHGITAFIVEKGMPGFSRAQKLDKLGMRGSNT 206
Query: 132 CNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRI 191
C ++ ED ++P +++LG E +G V ++G+D R+ +A IGI QAA D A+ YA +R
Sbjct: 207 CELVFEDCEVPEENILGGENKGVYVLMSGLDYERLVLAGGPIGIMQAALDVAIPYAHQRK 266
Query: 192 AFGAPILKLQAVQ 204
FG PI + Q VQ
Sbjct: 267 QFGQPIGEFQLVQ 279
>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 = 190 bits (484), Expect = 2e-59
Identities = 79/204 (38%), Positives = 127/204 (62%), Gaps = 2/204 (0%)
Query: 1 GCGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANML 60
GC T+ +++HN + A +I+ FG +Q+E +LP + + ++EPGSGSDAA +
Sbjct: 75 GCVSTAAYISIHN-MCAWMIDSFGNDEQRERFLPDLCTMEKLASYCLTEPGSGSDAAALR 133
Query: 61 TTARKESDHWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKK 120
T A +E DH+VLNG+K++I+ ++ +V +A+ + KGI+ F++ +PGLS G
Sbjct: 134 TRAVREGDHYVLNGSKAFISGAGDSDVYVVMARTG-GEGPKGISCFVVEKGTPGLSFGAN 192
Query: 121 EDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAF 180
E K+G A T VI ED ++P+++ LG EG+GF + + G++ R+ +AS +G AQAA
Sbjct: 193 EKKMGWNAQPTRAVIFEDCRVPVENRLGGEGQGFGIAMAGLNGGRLNIASCSLGAAQAAL 252
Query: 181 DCAMEYAGKRIAFGAPILKLQAVQ 204
D A Y +R FG P+ QA+Q
Sbjct: 253 DLARAYLEERKQFGKPLADFQALQ 276
>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 = 174 bits (444), Expect = 4e-53
Identities = 87/209 (41%), Positives = 118/209 (56%), Gaps = 8/209 (3%)
Query: 3 GGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTT 62
G S L H + I FGT+ QKE YLP G + F ++EP SGSDAA++ TT
Sbjct: 100 LGFSVTLGAHQSIGFKGILLFGTEAQKEKYLPKLASGEWIAAFALTEPSSGSDAASIRTT 159
Query: 63 ARKESD--HWVLNGTKSWITNGYEAKAFVCIAQ-----ADKSKKHKGITAFIIPMDSPGL 115
A D H+VLNG+K WITNG A F A+ A S K K ITAFI+ G+
Sbjct: 160 AVLSEDGKHYVLNGSKIWITNGGIADIFTVFAKTEVKDATGSVKDK-ITAFIVERSFGGV 218
Query: 116 SLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGI 175
+ G E K+GI+ S+T V EDVKIP+++VLG+ G+GFKV + ++ R GM + IG
Sbjct: 219 TNGPPEKKMGIKGSNTAEVYFEDVKIPVENVLGEVGDGFKVAMNILNNGRFGMGAALIGT 278
Query: 176 AQAAFDCAMEYAGKRIAFGAPILKLQAVQ 204
+ + A++YA R FG I + +Q
Sbjct: 279 MKRCIEKAVDYANNRKQFGKKIHEFGLIQ 307
>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 = 165 bits (419), Expect = 7e-50
Identities = 68/203 (33%), Positives = 120/203 (59%), Gaps = 1/203 (0%)
Query: 3 GGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTT 62
GG+ L++H + + I + G+ +QKE LP V G +G ++EPG+GSD + TT
Sbjct: 74 GGSGPGLSLHTDIVSPYITRAGSPEQKERVLPQMVAGKKIGAIAMTEPGAGSDLQGIRTT 133
Query: 63 ARKESDHWVLNGTKSWITNGYEAKAFVCIAQAD-KSKKHKGITAFIIPMDSPGLSLGKKE 121
ARK+ DH+VLNG+K++ITNG A + +A+ +++ GI+ F++ +PG S G+K
Sbjct: 134 ARKDGDHYVLNGSKTFITNGMLADVVIVVARTGGEARGAGGISLFLVERGTPGFSRGRKL 193
Query: 122 DKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFD 181
K+G +A T + +D ++P +++LG+E +GF + + R+ +A+ + A+ +
Sbjct: 194 KKMGWKAQDTAELFFDDCRVPAENLLGEENKGFYYLMQNLPQERLLIAAGALAAAEFMLE 253
Query: 182 CAMEYAGKRIAFGAPILKLQAVQ 204
Y +R AFG + +LQ V+
Sbjct: 254 ETRNYVKQRKAFGKTLAQLQVVR 276
>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 = 163 bits (414), Expect = 7e-49
Identities = 72/201 (35%), Positives = 112/201 (55%), Gaps = 4/201 (1%)
Query: 4 GTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTA 63
G + ++V + L I FG+++QK+ YLP G +GCFG++EP GSD M T A
Sbjct: 89 GYRSFMSVQSSLVMLPIYDFGSEEQKQKYLPKLASGELIGCFGLTEPNHGSDPGGMETRA 148
Query: 64 RKESDHWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDK 123
RK+ + LNG+K+WITN A FV A+ D++ K +G FI+ GLS K + K
Sbjct: 149 RKDGGGYKLNGSKTWITNSPIADVFVVWARNDETGKIRG---FILERGMKGLSAPKIQGK 205
Query: 124 LGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCA 183
+RAS T +++++V +P +++L EG + ++ AR G+A +G A+ + A
Sbjct: 206 FSLRASITGEIVMDNVFVPEENLL-PGAEGLRGPFKCLNNARYGIAWGALGAAEDCYHTA 264
Query: 184 MEYAGKRIAFGAPILKLQAVQ 204
+Y R FG P+ Q VQ
Sbjct: 265 RQYVLDRKQFGRPLAAFQLVQ 285
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 161 bits (410), Expect = 3e-48
Identities = 80/193 (41%), Positives = 114/193 (59%)
Query: 12 HNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWV 71
H+ L + + GT QKE YLP + G +VG +SEP SGSD +M A + +V
Sbjct: 113 HSNLCINQLVRNGTPAQKEKYLPKLISGEHVGALAMSEPNSGSDVVSMKCKAERVDGGYV 172
Query: 72 LNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASST 131
LNG K W TNG A+ V A+ D + KGITAFII PG S +K DKLG+R S T
Sbjct: 173 LNGNKMWCTNGPVAQTLVVYAKTDVAAGSKGITAFIIEKGMPGFSTAQKLDKLGMRGSDT 232
Query: 132 CNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRI 191
C ++ E+ +P ++VLG+EG+G V ++G+D R+ +A+ +G+ QA D + Y +R
Sbjct: 233 CELVFENCFVPEENVLGQEGKGVYVMMSGLDLERLVLAAGPLGLMQACLDVVLPYVRQRE 292
Query: 192 AFGAPILKLQAVQ 204
FG PI + Q +Q
Sbjct: 293 QFGRPIGEFQFIQ 305
>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 = 154 bits (390), Expect = 2e-45
Identities = 76/208 (36%), Positives = 117/208 (56%), Gaps = 4/208 (1%)
Query: 1 GCGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANML 60
GC G T + ++ +I G +QK+ YL + + + ++EPG+GSD A +
Sbjct: 75 GCTGVQTAIEANSLGQMPVIIS-GNDEQKKKYLGRMTEEPLMCAYCVTEPGAGSDVAGIK 133
Query: 61 TTARKESDHWVLNGTKSWITNGYEAKAFVCIAQAD---KSKKHKGITAFIIPMDSPGLSL 117
T A K+ D +++NG K WITNG +A + +A++D K K T FI+ D+PG+
Sbjct: 134 TKAEKKGDEYIINGQKMWITNGGKANWYFLLARSDPDPKCPASKAFTGFIVEADTPGIQP 193
Query: 118 GKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQ 177
G+KE +G R S T + EDV++P ++VL EG GFK+ + D R +A+ +G+AQ
Sbjct: 194 GRKELNMGQRCSDTRGITFEDVRVPKENVLIGEGAGFKIAMGAFDKTRPPVAAGAVGLAQ 253
Query: 178 AAFDCAMEYAGKRIAFGAPILKLQAVQL 205
A D A +YA +R FG I + QAV
Sbjct: 254 RALDEATKYALERKTFGKLIAEHQAVSF 281
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 143 bits (363), Expect = 3e-41
Identities = 74/199 (37%), Positives = 118/199 (59%), Gaps = 12/199 (6%)
Query: 7 TILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKE 66
++L V+N Y+ + Q+ +LP + G +VG G+SEPG+G+D M TTA+K+
Sbjct: 123 SMLFVNNFYYSA------SPAQRARWLPKVLTGEHVGAMGMSEPGAGTDVLGMRTTAKKD 176
Query: 67 SD-HWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLG 125
S+ ++VLNG+K WITNG A F+ A+ D ITAF++ + G + G K DK G
Sbjct: 177 SNGNYVLNGSKIWITNGTVADVFLIYAKVDGK-----ITAFVVERGTKGFTQGPKIDKCG 231
Query: 126 IRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAME 185
+RAS C + EDV +P +++LG+EG+G + ++ R+ +A+ +GIA+ + +
Sbjct: 232 MRASHMCQLFFEDVVVPAENLLGEEGKGMVGMMRNLELERVTLAAMAVGIAERSVELMTS 291
Query: 186 YAGKRIAFGAPILKLQAVQ 204
YA +R AFG PI +Q
Sbjct: 292 YASERKAFGKPISNFGQIQ 310
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 138 bits (349), Expect = 2e-39
Identities = 60/205 (29%), Positives = 106/205 (51%), Gaps = 5/205 (2%)
Query: 2 CGGTSTILTVHNCLYAGLINKFGTKKQKE-TYLPSFVDGTNVGCFGISEPGSGSDAANML 60
CG + ++T C+++ + +FG+ +Q T + G ++EPG+GSD +
Sbjct: 80 CGAPAFLITNGQCIHS--MRRFGSAEQLRKTAESTLETGDPAYALALTEPGAGSDNNSAT 137
Query: 61 TTARKESDHWVLNGTKSWITNGYEAKAFVCIAQADKSK-KHKGITAFIIPMDSPGLSLGK 119
TT +++ LNG K++IT E + +A+ + K K T + + PG+ +
Sbjct: 138 TTYTRKNGKVYLNGQKTFITGAKEYPYMLVLARDPQPKDPKKAFTLWWVDSSKPGIKINP 197
Query: 120 KEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAA 179
K+G STC V L++V++ ++G+EG GF + + R+ A++ +G A+ A
Sbjct: 198 LH-KIGWHMLSTCEVYLDNVEVEESDLVGEEGMGFLNVMYNFEMERLINAARSLGFAECA 256
Query: 180 FDCAMEYAGKRIAFGAPILKLQAVQ 204
F+ A YA +RI FG PI Q +Q
Sbjct: 257 FEDAARYANQRIQFGKPIGHNQLIQ 281
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 127 bits (320), Expect = 6e-35
Identities = 68/199 (34%), Positives = 103/199 (51%), Gaps = 4/199 (2%)
Query: 6 STILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARK 65
ST + VH+ L I G++ QK+ YLPS V C+ ++EP GSDA+++ TTA K
Sbjct: 107 STFILVHSSLAMLTIALCGSEAQKQKYLPSLAQLDTVACWALTEPDYGSDASSLNTTATK 166
Query: 66 ESDHWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLG 125
W+LNG K WI N A V A+ + + I FI+ +PGL K E+K+G
Sbjct: 167 VEGGWILNGQKRWIGNSTFADVLVIFARNTTTNQ---INGFIVKKGAPGLKATKIENKIG 223
Query: 126 IRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAME 185
+R +++L+DV +P + L F+ + +R+ +A Q IGI+ +D
Sbjct: 224 LRMVQNGDIVLKDVFVPDEDRL-PGVNSFQDTNKVLAVSRVMVAWQPIGISMGVYDMCHR 282
Query: 186 YAGKRIAFGAPILKLQAVQ 204
Y +R FGAP+ Q Q
Sbjct: 283 YLKERKQFGAPLAAFQINQ 301
>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 = 124 bits (313), Expect = 3e-34
Identities = 50/152 (32%), Positives = 86/152 (56%), Gaps = 3/152 (1%)
Query: 20 INKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTKSWI 79
I +GT +QK +LP + G + C G SEPG+GSD A + T A ++ D WV+NG K W
Sbjct: 96 ILAYGTDEQKRRFLPPILSGEEIWCQGFSEPGAGSDLAGLRTRAVRDGDDWVVNGQKIWT 155
Query: 80 TNGYEAKAFVCIAQAD-KSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASSTCNVILED 138
+ + A + + D ++ KH+GI+ ++ MDSPG+++ G V L+D
Sbjct: 156 SGAHYADWAWLLVRTDPEAPKHRGISILLVDMDSPGVTVRPIRSING--GEFFNEVFLDD 213
Query: 139 VKIPLDSVLGKEGEGFKVGLTGIDCARIGMAS 170
V++P + +G+ +G+KV +T ++ R+ +
Sbjct: 214 VRVPDANRVGEVNDGWKVAMTTLNFERVSIGG 245
>gnl|CDD|179566 PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated.
Length = 380
Score = 111 bits (278), Expect = 4e-29
Identities = 57/182 (31%), Positives = 90/182 (49%), Gaps = 1/182 (0%)
Query: 24 GTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTKSWITNGY 83
GT++Q + + G + I+EPG+GSD ++ TT + + LNG+K +IT+
Sbjct: 101 GTQEQIDKIMAFRGTGKQMWNSAITEPGAGSDVGSLKTTYTRRNGKVYLNGSKCFITSSA 160
Query: 84 EAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASSTCNVILEDVKIPL 143
V +A+ S T + + M PG+ + K E KLG+R S C + +DV++
Sbjct: 161 YTPYIVVMARDGASPDKPVYTEWFVDMSKPGIKVTKLE-KLGLRMDSCCEITFDDVELDE 219
Query: 144 DSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAV 203
+ G+EG GF D R +A G A AF+ A YA +R+ FG I + Q +
Sbjct: 220 KDMFGREGNGFNRVKEEFDHERFLVALTNYGTAMCAFEDAARYANQRVQFGEAIGRFQLI 279
Query: 204 QL 205
Q
Sbjct: 280 QE 281
>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 = 109 bits (275), Expect = 2e-28
Identities = 58/214 (27%), Positives = 102/214 (47%), Gaps = 16/214 (7%)
Query: 1 GCGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANML 60
G A + GT+ Q+E ++P +G G ++EP +GSD +
Sbjct: 79 GDAPLMYASGTQGA--AATLLAHGTEAQREKWIPRLAEGEWTGTMCLTEPDAGSDLGALR 136
Query: 61 TTARKESD-HWVLNGTKSWITNGYEAKA-----FVCIAQADKSKKHKGITAFIIP----- 109
T A ++D W +NG K +I+ G + V KG++ F++P
Sbjct: 137 TKAVYQADGSWRINGVKRFISAGEHDMSENIVHLVLARSEGAPPGVKGLSLFLVPKFLDD 196
Query: 110 MDSPGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMA 169
+ G+++ + E+K+G+ S TC ++ ++ K L +G+EG G ++ AR+G+
Sbjct: 197 GERNGVTVARIEEKMGLHGSPTCELVFDNAKGEL---IGEEGMGLAQMFAMMNGARLGVG 253
Query: 170 SQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAV 203
+QG G+A+AA+ A+ YA +R G I AV
Sbjct: 254 TQGTGLAEAAYLNALAYAKERKQGGDLIKAAPAV 287
>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 = 108 bits (270), Expect = 5e-28
Identities = 60/176 (34%), Positives = 99/176 (56%), Gaps = 2/176 (1%)
Query: 32 YLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTKSWITNGYEAKAFVCI 91
+L + G + ++EP GSDAA + A ++ D +VLNG K+ I+ +A A V
Sbjct: 105 WLGQLIAGEALFAIALTEPRGGSDAARLRLRAERDGDDYVLNGEKTSISAADQADAAVVF 164
Query: 92 AQ-ADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKE 150
A+ +++ +GI+AF++PMD PG++ + + G RA ++ E+V++P D +LG E
Sbjct: 165 ARTGSEAEGARGISAFLVPMDLPGITRNRFDC-HGQRAIGRGSIFFENVRVPADHMLGNE 223
Query: 151 GEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAVQLP 206
G+GF + G D +R + Q + +A+AA D Y +R AFG P+ Q V P
Sbjct: 224 GQGFVQVMQGFDFSRALIGLQVLAVARAALDETWRYVAERQAFGKPLSAFQGVSHP 279
>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 = 99.3 bits (247), Expect = 1e-24
Identities = 55/186 (29%), Positives = 99/186 (53%), Gaps = 7/186 (3%)
Query: 19 LINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTKSW 78
+I FG ++QK+ +LP + + C G SEPGSGSD A++ T A K+ D W++NG K+W
Sbjct: 99 VIYTFGNEEQKKRFLPRIANVDDWWCQGFSEPGSGSDLASLKTKAEKKGDKWIINGQKTW 158
Query: 79 ITNGYEAKAFVCIAQAD-KSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASSTCN-VIL 136
T A C+ + D +KK GI+ ++ M S G+++ + I N V
Sbjct: 159 TTLAQHADWIFCLCRTDPTAKKQMGISFILVDMKSKGITVRPIQT---IDGGVEVNEVFF 215
Query: 137 EDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAP 196
+DV++P ++++G+E +G+ + R G+A +G+++ + A K + G P
Sbjct: 216 DDVEVPYENLVGEENKGWDYAKFLLGNERTGIAR--VGVSKERIRRIKDLAAKVESGGKP 273
Query: 197 ILKLQA 202
+++
Sbjct: 274 VIEDAK 279
>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 = 97.5 bits (243), Expect = 5e-24
Identities = 47/200 (23%), Positives = 97/200 (48%), Gaps = 23/200 (11%)
Query: 20 INKFGTKKQKETYLPSFVDGTNVGCFGISEPG-SGSDAANMLTTARKESDHWVLNGTKSW 78
++++G+++QK+ +L +DG F ++EP + SDA N+ + ++ D +V+NG K W
Sbjct: 104 LHRYGSEEQKKQWLEPLLDGKIRSAFAMTEPDVASSDATNIECSIERDGDDYVINGRKWW 163
Query: 79 ITNGYEAKA----FVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASST--- 131
+ + + + D + +H+ + ++PMD+PG+++ IR S
Sbjct: 164 SSGAGDPRCKIAIVMGRTDPDGAPRHRQQSMILVPMDTPGVTI--------IRPLSVFGY 215
Query: 132 -------CNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAM 184
+ ++V++P +++ EG GF++ + RI + IG A+ A +
Sbjct: 216 DDAPHGHAEITFDNVRVPASNLILGEGRGFEIAQGRLGPGRIHHCMRLIGAAERALELMC 275
Query: 185 EYAGKRIAFGAPILKLQAVQ 204
+ A R AFG + + V
Sbjct: 276 QRAVSREAFGKKLAQHGVVA 295
>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 = 85.8 bits (212), Expect = 8e-20
Identities = 48/188 (25%), Positives = 89/188 (47%), Gaps = 4/188 (2%)
Query: 18 GLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWVLNGTKS 77
G + G+ QK +LP +DG+ F E S D ++ TTA+K D WV++G K
Sbjct: 95 GFLRHAGSAAQKAAHLPGIIDGSKTFAFAQLEKNSRYDLGDVSTTAKKTGDGWVIDGEKF 154
Query: 78 WITNGYEAKAFVCIAQADKSKKHK-GITAFIIPMDSPGLSLGKKEDKLGIRASSTCNVIL 136
+ NG A + A+ +++ + GI F++P + G+++ + G+ A+ ++
Sbjct: 155 VVLNGETADTLIVTARTKGARRDRTGIGVFLVPAGAKGVTIKGYPTQDGLHAA---DITF 211
Query: 137 EDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAP 196
V + D+ +G + +D AR + ++ +G+ + +EY R FG P
Sbjct: 212 TGVVVGADAAIGDPENALPLIERVVDDARAALCAEAVGLMDESLKTTVEYIKTRKQFGVP 271
Query: 197 ILKLQAVQ 204
I Q +Q
Sbjct: 272 IGSFQVLQ 279
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 84.9 bits (210), Expect = 2e-19
Identities = 57/183 (31%), Positives = 91/183 (49%), Gaps = 19/183 (10%)
Query: 24 GTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESD-HWVLNGTKSWITNG 82
G+++QKE YL V G G ++EP G+D + T A +D + + GTK +I+ G
Sbjct: 164 GSEEQKEQYLTKLVSGEWSGTMCLTEPQCGTDLGQVKTKAEPSADGSYKITGTKIFISAG 223
Query: 83 ----YEAKAFVCIAQADKSKKH-KGITAFIIP--MDSPGLSLGKK--------EDKLGIR 127
E + +A+ S KG++ F++P + P SL E K+GI+
Sbjct: 224 DHDLTENIVHIVLARLPNSLPTTKGLSLFLVPRHVVKPDGSLETAKNVKCIGLEKKMGIK 283
Query: 128 ASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYA 187
SSTC + E+ L +G+ G K T ++ AR+G A +G+ A+ AF A+ YA
Sbjct: 284 GSSTCQLSFENSVGYL---IGEPNAGMKQMFTFMNTARVGTALEGVCHAELAFQNALRYA 340
Query: 188 GKR 190
+R
Sbjct: 341 RER 343
>gnl|CDD|173843 cd01154, AidB, Proteins involved in DNA damage response, similar to
the AidB gene product. AidB is one of several genes
involved in the SOS adaptive response to DNA alkylation
damage, whose expression is activated by the Ada
protein. Its function has not been entirely elucidated;
however, it is similar in sequence and function to
acyl-CoA dehydrogenases. It has been proposed that aidB
directly destroys DNA alkylating agents such as
nitrosoguanidines (nitrosated amides) or their reaction
intermediates.
Length = 418
Score = 83.6 bits (207), Expect = 6e-19
Identities = 46/161 (28%), Positives = 78/161 (48%), Gaps = 11/161 (6%)
Query: 46 GISEPGSGSDAANMLTTARK-ESDHWVLNGTKSWITNGYEAKAFVCIAQADKSKK-HKGI 103
++E GSD TTA + + LNG K W + A A + +A+ + + +G+
Sbjct: 152 WMTEKQGGSDLGANETTAERSGGGVYRLNGHK-WFASAPLADAALVLARPEGAPAGARGL 210
Query: 104 TAFIIPMDSP-----GLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGL 158
+ F++P G + + +DKLG R+ +T V +D + L +G EG+G L
Sbjct: 211 SLFLVPRLLEDGTRNGYRIRRLKDKLGTRSVATGEVEFDDAEAYL---IGDEGKGIYYIL 267
Query: 159 TGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILK 199
++ +R+ A +GI + A A YA R AFG P++
Sbjct: 268 EMLNISRLDNAVAALGIMRRALSEAYHYARHRRAFGKPLID 308
>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 = 73.3 bits (181), Expect = 8e-18
Identities = 24/52 (46%), Positives = 34/52 (65%)
Query: 44 CFGISEPGSGSDAANMLTTARKESDHWVLNGTKSWITNGYEAKAFVCIAQAD 95
F ++EPG+GSD A++ TTA ++ D WVLNG K WITN A + +A+
Sbjct: 1 AFALTEPGAGSDLASLETTAERDGDGWVLNGRKWWITNAALADLALVLARTG 52
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 80.0 bits (198), Expect = 1e-17
Identities = 69/221 (31%), Positives = 101/221 (45%), Gaps = 36/221 (16%)
Query: 11 VHNCLYAG-LINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTA---RKE 66
V N L G L+ +GT++QK+ +LP DGT + CF ++ P +GSDA + T R E
Sbjct: 161 VPNSLGPGELLTHYGTQEQKDYWLPRLADGTEIPCFALTGPEAGSDAGAIPDTGIVCRGE 220
Query: 67 SD-HWVL----NGTKSWITNGYEAK----AFVCIAQADK---SKKHKGITAFIIPMDSPG 114
+ VL K +IT A AF + D KK GIT +IP D PG
Sbjct: 221 FEGEEVLGLRLTWDKRYITLAPVATVLGLAFK-LRDPDGLLGDKKELGITCALIPTDHPG 279
Query: 115 LSLGKKEDKLG-------IRASSTCNVILEDVKIPLDSVLG---KEGEGFKVGLTGIDCA 164
+ +G++ + LG R +DV IPLD ++G G G+++ + +
Sbjct: 280 VEIGRRHNPLGMAFMNGTTRG--------KDVFIPLDWIIGGPDYAGRGWRMLVECLSAG 331
Query: 165 R-IGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAVQ 204
R I + + G A YA R FG PI + + VQ
Sbjct: 332 RGISLPALGTASGHMATRTTGAYAYVRRQFGMPIGQFEGVQ 372
>gnl|CDD|236528 PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.
Length = 777
Score = 67.1 bits (165), Expect = 3e-13
Identities = 67/236 (28%), Positives = 96/236 (40%), Gaps = 62/236 (26%)
Query: 11 VHNCLYAG-LINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDH 69
V N L G L+ +GT +QK+ YLP G + CF ++ P +GSDA ++ T
Sbjct: 162 VPNSLGPGELLLHYGTDEQKDHYLPRLARGEEIPCFALTSPEAGSDAGSIPDTGVVCKGE 221
Query: 70 WV--------LNGTKSWITNGYEAK----AFVCIAQADK---------SKKHKGITAFII 108
W L K +IT A AF K K+ GIT +I
Sbjct: 222 WQGEEVLGMRLTWNKRYITLAPIATVLGLAF-------KLYDPDGLLGDKEDLGITCALI 274
Query: 109 PMDSPGLSLGKKEDKLG-------IRASSTCNVILEDVKIPLDSVLGKE---GEGFK--- 155
P D+PG+ +G++ L R +DV IPLD ++G G+G++
Sbjct: 275 PTDTPGVEIGRRHFPLNVPFQNGPTRG--------KDVFIPLDYIIGGPKMAGQGWRMLM 326
Query: 156 ----VGLTGIDCAR-IGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAVQLP 206
VG R I + S G A+ A YA R F PI K + ++ P
Sbjct: 327 ECLSVG-------RGISLPSNSTGGAKLAALATGAYARIRRQFKLPIGKFEGIEEP 375
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 66.0 bits (161), Expect = 8e-13
Identities = 61/239 (25%), Positives = 98/239 (41%), Gaps = 43/239 (17%)
Query: 9 LTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKE-- 66
L V L+ G + GTKK ++ Y + GCF ++E GS+ + TTA +
Sbjct: 141 LGVQYSLWGGSVINLGTKKHRDKYFDGIDNLDYPGCFAMTELHHGSNVQGLQTTATFDPL 200
Query: 67 SDHWVLN-----GTKSWITN----GYEAKAFVCI---AQADKSKKHKGITAFIIPMDS-- 112
+D +V+N K WI N G A F + K G+ AFI+P+
Sbjct: 201 TDEFVINTPNDGAIKWWIGNAAVHGKFATVFARLKLPTHDSKGVSDMGVHAFIVPIRDMK 260
Query: 113 -----PGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGE--------------- 152
PG+ + K+G+ + V+IP D++L + G+
Sbjct: 261 THQVLPGVEIRDCGHKVGLNGVDNGALRFRSVRIPRDNLLNRFGDVSRDGKYTSSLPTIN 320
Query: 153 -GFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAP------ILKLQAVQ 204
F L + R+G+A +G+ +A+ A+ Y+ R FG P IL Q+ Q
Sbjct: 321 KRFAATLGELVGGRVGLAYGSVGVLKASNTIAIRYSLLRQQFGPPKQPEISILDYQSQQ 379
>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 = 65.0 bits (159), Expect = 2e-12
Identities = 57/239 (23%), Positives = 94/239 (39%), Gaps = 38/239 (15%)
Query: 4 GTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTA 63
L +H L+ I GT + ++ +L + +GCF +E G GS+ + TTA
Sbjct: 97 SLGAKLGLHLGLFGNAIKNLGTDEHQDYWLQGANNLEIIGCFAQTELGHGSNLQGLETTA 156
Query: 64 R--KESDHWVLN-----GTKSWITN-GYEAKAFVCIAQADKSKKHKGITAFIIPMDS--- 112
+ +V+N TK W N G A V AQ K+ G+ AFI+P+
Sbjct: 157 TYDPLTQEFVINTPDFTATKWWPGNLGKTATHAVVFAQLITPGKNHGLHAFIVPIRDPKT 216
Query: 113 ----PGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGE---------------- 152
PG+++G K+G+ + +V+IP +++L + G+
Sbjct: 217 HQPLPGVTVGDIGPKMGLNGVDNGFLQFRNVRIPRENLLNRFGDVSPDGTYVSPFKDPNK 276
Query: 153 GFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFG-------APILKLQAVQ 204
+ L R+G+ + A A+ Y+ R FG IL Q Q
Sbjct: 277 RYGAMLGTRSGGRVGLIYDAAMSLKKAATIAIRYSAVRRQFGPKPSDPEVQILDYQLQQ 335
>gnl|CDD|215473 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 62.1 bits (151), Expect = 2e-11
Identities = 46/182 (25%), Positives = 89/182 (48%), Gaps = 6/182 (3%)
Query: 22 KFGTKKQKETYLPSFVDGTNVGCFGISEPG-SGSDAANMLTTARKESDHWVLNGTKSWIT 80
++G K+Q+ +L ++G F ++EP + SDA N+ + R++ D +V+NGTK W +
Sbjct: 531 RYGNKEQQLEWLIPLLEGKIRSGFAMTEPQVASSDATNIECSIRRQGDSYVINGTKWWTS 590
Query: 81 NGYEAKAFVCIAQAD---KSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRAS--STCNVI 135
+ + V I + KHK + ++ + +PG+ + + G + +
Sbjct: 591 GAMDPRCRVLIVMGKTDFNAPKHKQQSMILVDIQTPGVQIKRPLLVFGFDDAPHGHAEIS 650
Query: 136 LEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGA 195
E+V++P ++L EG GF++ + R+ + IG A+ ++ A R AFG
Sbjct: 651 FENVRVPAKNILLGEGRGFEIAQGRLGPGRLHHCMRLIGAAERGMQLMVQRALSRKAFGK 710
Query: 196 PI 197
I
Sbjct: 711 LI 712
>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 = 59.3 bits (144), Expect = 2e-10
Identities = 45/185 (24%), Positives = 79/185 (42%), Gaps = 12/185 (6%)
Query: 8 ILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKES 67
L H + + G ++ ++ + ++G G +SE GS LT ++
Sbjct: 72 ALRAH-FGFVEALLLAGPEQFRKRWFGRVLNGWIFGN-AVSERGS-VRPGTFLTATVRDG 128
Query: 68 DHWVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIR 127
+VLNG K + T + A ++ K + +P D PG+++ D G R
Sbjct: 129 GGYVLNGKKFYSTGALFSDWVTVSALDEEGK----LVFAAVPTDRPGITVVDDWDGFGQR 184
Query: 128 --ASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAME 185
AS T V ++V++ D VL + + L ++ +A+ GIA+AA D A+
Sbjct: 185 LTASGT--VTFDNVRVEPDEVLPRPNAPDRGTLLTA-IYQLVLAAVLAGIARAALDDAVA 241
Query: 186 YAGKR 190
Y R
Sbjct: 242 YVRSR 246
>gnl|CDD|201229 pfam00441, Acyl-CoA_dh_1, Acyl-CoA dehydrogenase, C-terminal
domain. C-terminal domain of Acyl-CoA dehydrogenase is
an all-alpha, four helical up-and-down bundle.
Length = 150
Score = 56.1 bits (136), Expect = 3e-10
Identities = 20/54 (37%), Positives = 35/54 (64%)
Query: 151 GEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAPILKLQAVQ 204
G GF V + ++ R+ +A+ +G+A+ A D A+EYA +R AFG P++ Q ++
Sbjct: 1 GRGFAVAMETLNHERLLIAAAALGLARRALDEAIEYARQRKAFGRPLIDFQLIR 54
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 57.2 bits (138), Expect = 1e-09
Identities = 42/163 (25%), Positives = 75/163 (46%), Gaps = 15/163 (9%)
Query: 2 CGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLT 61
C + I TVH + GT +Q ++PS ++ VGC+ +E G GSD N+ T
Sbjct: 88 CPQGTFISTVHFAMVIPAFQVLGTDEQINLWMPSLLNFEIVGCYAQTELGHGSDVQNLET 147
Query: 62 TAR--KESDHWVLN-----GTKSWITN-GYEAKAFVCIAQADKSKKHKGITAFIIPMDS- 112
TA K+++ +V++ K W G+ + A+ + K+KG+ F++ +
Sbjct: 148 TATYDKQTNEFVIHTPSVEAVKFWPGELGFLCNFALVYAKLIVNGKNKGVHPFMVRIRDK 207
Query: 113 ------PGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGK 149
G+ +G K+G + + +IPLDS+L +
Sbjct: 208 ETHKPLQGVEVGDIGPKMGYAVKDNGFLSFDHYRIPLDSLLAR 250
>gnl|CDD|183199 PRK11561, PRK11561, isovaleryl CoA dehydrogenase; Provisional.
Length = 538
Score = 55.9 bits (135), Expect = 2e-09
Identities = 50/164 (30%), Positives = 84/164 (51%), Gaps = 25/164 (15%)
Query: 46 GISEPGSGSDAANMLTTARKESDH-WVLNGTKSWITNGYEAKAFVCIAQADKSKKHKGIT 104
G++E GSD + T A + +D + L G K W + ++ A + +AQA G++
Sbjct: 183 GMTEKQGGSDVLSNTTRAERLADGSYRLVGHK-WFFSVPQSDAHLVLAQAKG-----GLS 236
Query: 105 AFIIPMDSP-----GLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKV--- 156
F +P P + L + +DKLG R++++ V +D L LG+EGEG ++
Sbjct: 237 CFFVPRFLPDGQRNAIRLERLKDKLGNRSNASSEVEFQDAIGWL---LGEEGEGIRLILK 293
Query: 157 --GLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAFGAPIL 198
G+T DCA + S G+ + AF A+ +A +R FG P++
Sbjct: 294 MGGMTRFDCA---LGSHGL--MRRAFSVAIYHAHQRQVFGKPLI 332
>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 = 48.6 bits (117), Expect = 7e-08
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 1 GCGGTSTILTVHNCLYAGLINKFGTKKQKETYLPSFVDG 39
L+VH+ L A I +FGT++QKE YLP G
Sbjct: 74 ADASVGLALSVHSSLVAPPILRFGTEEQKEKYLPKLASG 112
>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 = 47.6 bits (114), Expect = 1e-06
Identities = 45/179 (25%), Positives = 82/179 (45%), Gaps = 8/179 (4%)
Query: 12 HNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTARKESDHWV 71
H ++ G+++QK + + G G SE G+ + + T R++ D +
Sbjct: 87 HFYA-LEVLRLTGSEEQKRFFFGEVLAGERFGN-AFSERGT-RNVLDFQTRLRRDGDGYR 143
Query: 72 LNGTKSWITNGYEAKAFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKKEDKLGIRASST 131
LNG K + T A +A D + AF+ P D+PGL++ G R +++
Sbjct: 144 LNGRKFYSTGALFAHWIPVLALDDDGRPV---LAFV-PRDAPGLTVIDDWSGFGQRTTAS 199
Query: 132 CNVILEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIGIAQAAFDCAMEYAGKR 190
V+L+DV++P + V+ + + G A+I A+ GIA+AA + + +R
Sbjct: 200 GTVLLDDVRVPAEHVVPIQRAFDRPTAAG-PVAQIIHAAIDAGIARAALADTLAFVRER 257
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 46.7 bits (111), Expect = 3e-06
Identities = 51/215 (23%), Positives = 90/215 (41%), Gaps = 30/215 (13%)
Query: 9 LTVHNCLYAGLINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANM--LTTARKE 66
L VH L+ G I GTK+ + +L D GCF ++E G GS+ + +TT +
Sbjct: 153 LGVHFFLWGGAIKFLGTKRHHDKWLKDTEDYVVKGCFAMTELGHGSNVRGIETVTTYDPK 212
Query: 67 SDHWVLN-----GTKSWITNGYE-AKAFVCIAQADKSKKHKGITAFIIPMDS------PG 114
++ +V+N K WI A + +Q + K++G+ AFI + P
Sbjct: 213 TEEFVINTPCESAQKYWIGGAANHATHTIVFSQLHINGKNEGVHAFIAQIRDQDGNICPN 272
Query: 115 LSLGKKEDKLGIRASSTCNVILEDVKIP----LDSVLGKEGEG------------FKVGL 158
+ + K+G+ + ++++IP L+SV +G F L
Sbjct: 273 IRIADCGHKIGLNGVDNGRIWFDNLRIPRENLLNSVADVSPDGKYVSAIKDPDQRFGAFL 332
Query: 159 TGIDCARIGMASQGIGIAQAAFDCAMEYAGKRIAF 193
+ R+ +A I ++ A+ Y+ R AF
Sbjct: 333 APLTSGRVTIAVSAIYSSKVGLAIAIRYSLSRRAF 367
>gnl|CDD|178062 PLN02443, PLN02443, acyl-coenzyme A oxidase.
Length = 664
Score = 42.5 bits (100), Expect = 8e-05
Identities = 39/142 (27%), Positives = 69/142 (48%), Gaps = 18/142 (12%)
Query: 24 GTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAANMLTTAR--KESDHWVLN-----GTK 76
GT++Q++ +LP +GC+ +E G GS+ + TTA ++D +V++ +K
Sbjct: 114 GTEEQQKKWLPLAYKMQIIGCYAQTELGHGSNVQGLETTATFDPKTDEFVIHSPTLTSSK 173
Query: 77 SWITN-GYEAKAFVCIAQADKSKKHKGITAFIIPMDS-------PGLSLGKKEDKLGIRA 128
W G + V A+ + K GI FI+ + S PG+++G K G A
Sbjct: 174 WWPGGLGKVSTHAVVYARLITNGKDHGIHGFIVQLRSLDDHSPLPGVTVGDIGMKFGNGA 233
Query: 129 SSTCN---VILEDVKIPLDSVL 147
+T + + + V+IP D +L
Sbjct: 234 YNTMDNGFLRFDHVRIPRDQML 255
>gnl|CDD|185636 PTZ00457, PTZ00457, acyl-CoA dehydrogenase; Provisional.
Length = 520
Score = 39.1 bits (91), Expect = 0.001
Identities = 56/215 (26%), Positives = 82/215 (38%), Gaps = 44/215 (20%)
Query: 1 GCGGTSTIL-TVHNCLYAG-LINKFGTKKQKETYLPSFVDGTNVGCFGISEPGSGSDAAN 58
G S +L T+ + + L++ G+K+ K YL + DGT + + E G GSD +
Sbjct: 92 GTNCDSKLLSTIQHSGFCTYLLSTVGSKELKGKYLTAMSDGTIMMGWATEE-GCGSDISM 150
Query: 59 MLTTARKESD-HWVLNGTKSWITNGYE------AKAFVCIAQADKSKKHKGITAFIIPMD 111
T A D +VL G K AK A + + + + FI D
Sbjct: 151 NTTKASLTDDGSYVLTGQKRCEFAASATHFLVLAKTLTQTAAEEGATEVSRNSFFICAKD 210
Query: 112 SPGLSLGKKEDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFK--------------VG 157
+ G+S+ +V+ E+ P V+G GEGFK
Sbjct: 211 AKGVSVNGD------------SVVFENT--PAADVVGVVGEGFKDAMITLFTEQYLYAAS 256
Query: 158 LTGI-----DCARIGMASQGIGIAQAAFDCAMEYA 187
L GI R A +G A+F CAM YA
Sbjct: 257 LLGIMKRVVQELRGSNAEEGATDTVASFACAM-YA 290
>gnl|CDD|219705 pfam08028, Acyl-CoA_dh_2, Acyl-CoA dehydrogenase, C-terminal
domain.
Length = 134
Score = 36.1 bits (84), Expect = 0.003
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 166 IGMASQGIGIAQAAFDCAMEYAGKRI--AFGAPILKLQAVQL 205
+G A+ +G A+ A +E A +R+ GAP+ + A Q
Sbjct: 1 LGFAAPALGAARGALAAFIERARERVRAYGGAPLAEDPATQT 42
>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 = 36.6 bits (85), Expect = 0.007
Identities = 27/145 (18%), Positives = 51/145 (35%), Gaps = 23/145 (15%)
Query: 62 TARKESDHWVLNGTKSWITNGYEAK-AFVCIAQADKSKKHKGITAFIIPMDSPGLSLGKK 120
A + + ++GT + + A V D AF++P +
Sbjct: 112 RAERVDGGYRVSGTWPFASGCDHADWILVGAIVEDDDGG-PLPRAFVVPRA--EYEIVDT 168
Query: 121 EDKLGIRASSTCNVILEDVKIPLDSVLGKEGEGFKVGLTG------IDCARI-------- 166
+G+R + + V+++DV +P L + G R+
Sbjct: 169 WHVVGLRGTGSNTVVVDDVFVPEHRTLT-----AGDMMAGDGPGGSTPVYRMPLRQVFPL 223
Query: 167 GMASQGIGIAQAAFDCAMEYAGKRI 191
A+ +G A+ A +E AGKR+
Sbjct: 224 SFAAVSLGAAEGALAEFLELAGKRV 248
>gnl|CDD|221226 pfam11794, HpaB_N, 4-hydroxyphenylacetate 3-hydroxylase N terminal.
HpaB encodes part of the 4-hydroxyphenylacetate
3-hydroxylase from Escherichia coli. HpaB is part of a
heterodimeric enzyme that also requires HpaC. The enzyme
is NADH-dependent and uses FAD as the redox chromophore.
This family also includes PvcC, which may play a role in
one of the proposed hydroxylation steps of pyoverdine
chromophore biosynthesis.
Length = 265
Score = 33.6 bits (78), Expect = 0.044
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 12/55 (21%)
Query: 105 AFIIPMDSPGLSL-------GKKEDKLGIRASS-----TCNVILEDVKIPLDSVL 147
AF +PMD+PGL L + SS V+ +DV +P + V
Sbjct: 210 AFAVPMDAPGLKLICRRSYEDGRASPFDYPLSSRFDENDALVVFDDVFVPWERVF 264
>gnl|CDD|225243 COG2368, COG2368, Aromatic ring hydroxylase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 493
Score = 31.2 bits (71), Expect = 0.38
Identities = 20/93 (21%), Positives = 34/93 (36%), Gaps = 16/93 (17%)
Query: 71 VLNGTKSWITNGYEAKA-FVCIAQADKSKKHKGITAFIIPMDSPGLSL------------ 117
V+ G K+ T FV ++ + AF IPMD+ G+
Sbjct: 183 VVRGAKALATGSALTDEIFVLPTRSMQEDDKDFAVAFAIPMDTEGVKFICRRSYELGRGA 242
Query: 118 --GKKEDKLGIRAS-STCNVILEDVKIPLDSVL 147
G + L R + ++ +DV +P + V
Sbjct: 243 EGGPFDYPLSSRFDENDAILVFDDVFVPWERVF 275
>gnl|CDD|109652 pfam00604, Flu_PB2, Influenza RNA-dependent RNA polymerase subunit
PB2. PB2 can bind 5' end cap structure of RNA.
Length = 759
Score = 31.0 bits (70), Expect = 0.42
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 60 LTTARKESDHWVLNGTKSWITNGYEA 85
LT W +NG KS + N Y+
Sbjct: 527 LTITYSSPMMWEINGPKSVLVNTYQW 552
>gnl|CDD|234931 PRK01265, PRK01265, heat shock protein HtpX; Provisional.
Length = 324
Score = 29.3 bits (66), Expect = 1.1
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 175 IAQAAFDCAMEY----AGKRIAFGAPILKL 200
IA F A Y AGKRIA P+LK+
Sbjct: 105 IADVPFPNAFAYGSPIAGKRIAITLPLLKI 134
>gnl|CDD|237683 PRK14344, PRK14344, lipoate-protein ligase B; Provisional.
Length = 223
Score = 27.3 bits (61), Expect = 4.4
Identities = 23/58 (39%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 136 LEDVKIPLDSVLGKEGEGFKVGLTGIDCARIGMASQGIG----IAQAAF----DCAME 185
LE V I + + LG +GE GLTG+ +AS GIG I Q F DC +E
Sbjct: 123 LEQVLIDVLADLGIDGERLD-GLTGVWIGNKKVASIGIGCRRWITQHGFSLNVDCDLE 179
>gnl|CDD|224523 COG1607, COG1607, Acyl-CoA hydrolase [Lipid metabolism].
Length = 157
Score = 26.1 bits (58), Expect = 9.5
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 8/31 (25%)
Query: 175 IAQAAFDCAMEYAGKR--------IAFGAPI 197
+ AA A +AG R + F P+
Sbjct: 40 MDLAAAIAASRHAGGRVVTASVDSVDFKKPV 70
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
0.318 0.136 0.407
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,109,817
Number of extensions: 919464
Number of successful extensions: 720
Number of sequences better than 10.0: 1
Number of HSP's gapped: 667
Number of HSP's successfully gapped: 49
Length of query: 206
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 114
Effective length of database: 6,857,034
Effective search space: 781701876
Effective search space used: 781701876
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: 57 (25.6 bits)