RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2177
(677 letters)
>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 = 594 bits (1533), Expect = 0.0
Identities = 258/369 (69%), Positives = 295/369 (79%), Gaps = 3/369 (0%)
Query: 51 SFTMNMFRGQLNTNQVFPYPEVLTEDQSDTLKMLVDPVTKFFDEVNDPLKNDSLETVEPN 110
SF +NMF G + T QVFPYP VLTE+Q++ L MLV PV KFF+EVNDP KND LE +
Sbjct: 1 SFALNMFLGDIVTKQVFPYPSVLTEEQTEELNMLVGPVEKFFEEVNDPAKNDQLEKIPRK 60
Query: 111 TLEGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILL 170
TL L +LG F LQVP++ GGLGL NTQYAR+ EIVG DL + LGAHQSIGFKGILL
Sbjct: 61 TLTQLKELGLFGLQVPEEYGGLGLNNTQYARLAEIVG-MDLGFSVTLGAHQSIGFKGILL 119
Query: 171 VGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWIS 230
G QK KYLP++++G+ AAF LTEP+SGSDA SI+T AVLS DGKHY+LNGSKIWI+
Sbjct: 120 FGTEAQKEKYLPKLASGEWIAAFALTEPSSGSDAASIRTTAVLSEDGKHYVLNGSKIWIT 179
Query: 231 NGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVY 290
NGG A+I TVFA+T VKD TG V DK+TAFIVERSFGGVT+GPPEKKMGIK SNTAEVY
Sbjct: 180 NGGIADIFTVFAKTEVKDA-TGSVKDKITAFIVERSFGGVTNGPPEKKMGIKGSNTAEVY 238
Query: 291 YEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGR 350
+EDVK+PVENVLG VG+GFKVAM ILNNGRFGM AAL GTM+ +KAVD+A R QFG+
Sbjct: 239 FEDVKIPVENVLGEVGDGFKVAMNILNNGRFGMGAALIGTMKRCIEKAVDYANNRKQFGK 298
Query: 351 RIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGS-QDYHLEAAISKVFASEAAWYVT 409
+I FG IQEKLA MA+L Y TES+AYM SGNMD G +Y +EAAISKVFASEAAW V
Sbjct: 299 KIHEFGLIQEKLANMAILQYATESMAYMTSGNMDRGLKAEYQIEAAISKVFASEAAWLVV 358
Query: 410 DEAIQILGG 418
DEAIQI GG
Sbjct: 359 DEAIQIHGG 367
Score = 87.9 bits (218), Expect = 2e-18
Identities = 40/69 (57%), Positives = 49/69 (71%)
Query: 447 SFTMNMFRGQLNTNQVFPYPEVLTEDQSDTLKMLVDPVTKFFDEVNDPLKNDSLETVEPN 506
SF +NMF G + T QVFPYP VLTE+Q++ L MLV PV KFF+EVNDP KND LE +
Sbjct: 1 SFALNMFLGDIVTKQVFPYPSVLTEEQTEELNMLVGPVEKFFEEVNDPAKNDQLEKIPRK 60
Query: 507 TLEGIQYAG 515
TL ++ G
Sbjct: 61 TLTQLKELG 69
>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 = 300 bits (771), Expect = 3e-96
Identities = 140/342 (40%), Positives = 200/342 (58%), Gaps = 10/342 (2%)
Query: 79 DTLKMLVDPVTKFFDEVNDPL--KNDSLETVEPNTLEGLWDLGAFSLQVPQDLGGLGLTN 136
+ +M+ V F ++ PL + D ++ + +LG + +P++ GG GL
Sbjct: 1 EEHQMIRKTVRDFAEKEIAPLAAEMDEKGEFPREVIKEMAELGLMGIPIPEEYGGAGLDF 60
Query: 137 TQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLT 196
YA +E + D +V +++ H S+G I+ G EQK KYLP ++TG++ AF L+
Sbjct: 61 LAYAIAIEELAKVDASVAVIVSVHNSLGANPIIKFGTEEQKKKYLPPLATGEKIGAFALS 120
Query: 197 EPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGKVVD 256
EP +GSDA ++KT A DG Y+LNGSK+WI+NGG A+ VFA T G
Sbjct: 121 EPGAGSDAAALKTTAKK--DGDDYVLNGSKMWITNGGEADFYIVFAVTDPSKGYRG---- 174
Query: 257 KVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAMQIL 316
+TAFIVER G++ G E K+GI+ S+T E+ +EDV+VP EN+LG G GFK+AMQ L
Sbjct: 175 -ITAFIVERDTPGLSVGKKEDKLGIRGSSTTELIFEDVRVPKENILGEEGEGFKIAMQTL 233
Query: 317 NNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTESLA 376
+ GR G+AA G ++ AVD+A +R QFG+ I F IQ KLA MA L
Sbjct: 234 DGGRIGIAAQALGIAQAALDAAVDYAKERKQFGKPIADFQGIQFKLADMATEIEAARLLT 293
Query: 377 YMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGG 418
Y + DNG + + EAA++K+FASE A VT +A+QI GG
Sbjct: 294 YKAARLKDNG-EPFIKEAAMAKLFASEVAMRVTTDAVQIFGG 334
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 284 bits (727), Expect = 2e-89
Identities = 132/356 (37%), Positives = 191/356 (53%), Gaps = 15/356 (4%)
Query: 76 DQSDTLKMLVDPVTKFFDEVNDPLKNDSLETVEPNTL-EGLW----DLGAFSLQVPQDLG 130
D S+ + L V +F +E P + +E L + G L +P++ G
Sbjct: 4 DLSEEQEALRAEVREFAEEELAPEAAEIDRRIEDERFPRELLRALAEAGLLGLTIPEEYG 63
Query: 131 GLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGF---KGILLVGNPEQKAKYLPRVSTG 187
GLGL+ + A ++E + D + LG IL G EQK +YLPR+++G
Sbjct: 64 GLGLSPLEQAAVLEELARADAGGALALGLTHGGLGALAPTILRFGTEEQKRRYLPRLASG 123
Query: 188 KEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVK 247
+ AF LTEP +GSD S++T A + DG Y+LNG KIWISN A+ + V A+T
Sbjct: 124 ELIGAFALTEPGAGSDLASLRTTAAVRDDG-DYVLNGQKIWISNAPVADWLLVLART--- 179
Query: 248 DEKTGKVVDKVTAFIVERSFG-GVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVG 306
+ ++ F+V + GV+ GP KKMG++ S T EV+++DV+VP EN+LG G
Sbjct: 180 -DPAPGKHKGISLFLVPKDLTPGVSVGPILKKMGLRGSATGEVFFDDVRVPAENLLGEEG 238
Query: 307 NGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMA 366
+GFK+AM+ LN R G+AA G + ++AV +A +R QFGR I F +Q KLA MA
Sbjct: 239 DGFKIAMETLNVERLGIAAQALGIAEAALEEAVAYARERKQFGRPIADFQLVQFKLADMA 298
Query: 367 LLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGGINLL 422
L + D G D EAA++K+FA+EAA V DEA+Q+ GG
Sbjct: 299 AELEAARLLVLRAAELADAG-DDAGAEAAMAKLFATEAALEVADEAVQVHGGYGYT 353
>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 = 277 bits (711), Expect = 7e-88
Identities = 108/252 (42%), Positives = 152/252 (60%), Gaps = 6/252 (2%)
Query: 168 ILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKI 227
+L G EQK +YLP +++G+ AAF LTEP +GSD I+T A DG Y+LNG KI
Sbjct: 48 LLAYGTEEQKERYLPPLASGEAIAAFALTEPGAGSDLAGIRTTAR--KDGDGYVLNGRKI 105
Query: 228 WISNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTA 287
+ISNGG A++ V A+T + + +AF+V GVT G KMG++ S T
Sbjct: 106 FISNGGDADLFIVLARTDEEGPGHRGI----SAFLVPADTPGVTVGRIWDKMGMRGSGTG 161
Query: 288 EVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQ 347
E+ ++DV+VP +N+LG G GF++AM+ LN GR +AA G R+ +AV++A QR Q
Sbjct: 162 ELVFDDVRVPEDNLLGEEGGGFELAMKGLNVGRLLLAAVALGAARAALDEAVEYAKQRKQ 221
Query: 348 FGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWY 407
FG+ + F +Q KLA MA L Y + +D G + LEAA++K+FA+EAA
Sbjct: 222 FGKPLAEFQAVQFKLADMAAELEAARLLLYRAAWLLDQGPDEARLEAAMAKLFATEAARE 281
Query: 408 VTDEAIQILGGI 419
V D A+QI GG
Sbjct: 282 VADLAMQIHGGR 293
>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 = 233 bits (597), Expect = 1e-70
Identities = 117/343 (34%), Positives = 178/343 (51%), Gaps = 10/343 (2%)
Query: 78 SDTLKMLVDPVTKFFDEVNDPL--KNDSLETVEPNTLEGLWDLGAFSLQVPQDLGGLGLT 135
D ++ML V +F + PL K D + + LG + P++ GG G+
Sbjct: 3 DDEIEMLRQSVREFAQKEIAPLAAKIDRDNEFPRDLWRKMGKLGLLGITAPEEYGGSGMG 62
Query: 136 NTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCL 195
+ ++E + +V + GAH ++ I G+ QK KYLP++ +G+ A +
Sbjct: 63 YLAHVIIMEEISRASGSVALSYGAHSNLCINQIYRNGSAAQKEKYLPKLISGEHIGALAM 122
Query: 196 TEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGKVV 255
+EP +GSD S+K RA G Y+LNGSK+WI+NG A+ + V+A+T G
Sbjct: 123 SEPNAGSDVVSMKLRA--EKKGDRYVLNGSKMWITNGPDADTLVVYAKTDPSAGAHG--- 177
Query: 256 DKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAMQI 315
+TAFIVE+ G + K+G++ SNT E+ +ED +VP EN+LGG G V M
Sbjct: 178 --ITAFIVEKGMPGFSRAQKLDKLGMRGSNTCELVFEDCEVPEENILGGENKGVYVLMSG 235
Query: 316 LNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTESL 375
L+ R +A G M++ A+ +A QR QFG+ I F +Q KLA M + S
Sbjct: 236 LDYERLVLAGGPIGIMQAALDVAIPYAHQRKQFGQPIGEFQLVQGKLADMYTRLNASRSY 295
Query: 376 AYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGG 418
Y ++ D G+ D +AA ++A+E A V +AIQILGG
Sbjct: 296 LYTVAKACDRGNMD-PKDAAGVILYAAEKATQVALDAIQILGG 337
>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 = 203 bits (517), Expect = 5e-59
Identities = 105/301 (34%), Positives = 166/301 (55%), Gaps = 9/301 (2%)
Query: 118 LGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQK 177
LG + + D+GG GL+ + + E + ++ + H + I GN EQ+
Sbjct: 44 LGFGGIYIRDDVGGSGLSRLDASIIFEALSTGCVSTAAYISIHNMCAWM-IDSFGNDEQR 102
Query: 178 AKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEI 237
++LP + T ++ A++CLTEP SGSDA +++TRAV +G HY+LNGSK +IS G +++
Sbjct: 103 ERFLPDLCTMEKLASYCLTEPGSGSDAAALRTRAVR--EGDHYVLNGSKAFISGAGDSDV 160
Query: 238 MTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVP 297
V A+T + K ++ F+VE+ G++ G EKKMG A T V +ED +VP
Sbjct: 161 YVVMARTGGEGPK------GISCFVVEKGTPGLSFGANEKKMGWNAQPTRAVIFEDCRVP 214
Query: 298 VENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGT 357
VEN LGG G GF +AM LN GR +A+ G ++ A + +R QFG+ + F
Sbjct: 215 VENRLGGEGQGFGIAMAGLNGGRLNIASCSLGAAQAALDLARAYLEERKQFGKPLADFQA 274
Query: 358 IQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILG 417
+Q KLA MA + + + +D G D A++K FA++ + V ++A+Q+ G
Sbjct: 275 LQFKLADMATELVASRLMVRRAASALDRGDPDAVKLCAMAKRFATDECFDVANQALQLHG 334
Query: 418 G 418
G
Sbjct: 335 G 335
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 192 bits (490), Expect = 5e-55
Identities = 112/308 (36%), Positives = 166/308 (53%), Gaps = 12/308 (3%)
Query: 115 LWDL-GAFSLQ---VPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILL 170
LW L G F+L P++ GGLGL + +E + +VG+ GAH ++ ++
Sbjct: 64 LWKLMGDFNLHGITAPEEYGGLGLGYLYHCIAMEEISRASGSVGLSYGAHSNLCINQLVR 123
Query: 171 VGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWIS 230
G P QK KYLP++ +G+ A ++EP SGSD S+K +A G Y+LNG+K+W +
Sbjct: 124 NGTPAQKEKYLPKLISGEHVGALAMSEPNSGSDVVSMKCKAERVDGG--YVLNGNKMWCT 181
Query: 231 NGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVY 290
NG A+ + V+A+T V G +TAFI+E+ G ++ K+G++ S+T E+
Sbjct: 182 NGPVAQTLVVYAKTDVAAGSKG-----ITAFIIEKGMPGFSTAQKLDKLGMRGSDTCELV 236
Query: 291 YEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGR 350
+E+ VP ENVLG G G V M L+ R +AA G M++ + + QR QFGR
Sbjct: 237 FENCFVPEENVLGQEGKGVYVMMSGLDLERLVLAAGPLGLMQACLDVVLPYVRQREQFGR 296
Query: 351 RIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTD 410
I F IQ KLA M + S Y ++ + DNG D + A + A+E A V
Sbjct: 297 PIGEFQFIQGKLADMYTSLQSSRSYVYSVARDCDNGKVDRK-DCAGVILCAAERATQVAL 355
Query: 411 EAIQILGG 418
+AIQ LGG
Sbjct: 356 QAIQCLGG 363
>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 = 189 bits (481), Expect = 7e-54
Identities = 121/354 (34%), Positives = 180/354 (50%), Gaps = 24/354 (6%)
Query: 73 LTEDQSDTLKMLVDPVTKFFDEVNDPLKNDSLETVE-P-NTLEGLWDLGAFSLQVPQDLG 130
LTE Q K + KF E P+ + ++ E P ++ W+LG + +P+D G
Sbjct: 1 LTEQQ----KEFQETARKFAREEIIPVAAEYDKSGEYPWPLIKRAWELGLMNTHIPEDCG 56
Query: 131 GLGLTNTQYARMVEIVGGNDLA---VGIVLGAH-QSIGFKGILLVGNPEQKAKYLPRVST 186
GLGL + E +LA G+ S+G +++ GN EQK KYL R++
Sbjct: 57 GLGLGTFDTCLITE-----ELAYGCTGVQTAIEANSLGQMPVIISGNDEQKKKYLGRMTE 111
Query: 187 GKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQT-P 245
A+C+TEP +GSD IKT+A G YI+NG K+WI+NGG A + A++ P
Sbjct: 112 EPLMCAYCVTEPGAGSDVAGIKTKAE--KKGDEYIINGQKMWITNGGKANWYFLLARSDP 169
Query: 246 VKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGV 305
K T FIVE G+ G E MG + S+T + +EDV+VP ENVL G
Sbjct: 170 DPKCPASKAF---TGFIVEADTPGIQPGRKELNMGQRCSDTRGITFEDVRVPKENVLIGE 226
Query: 306 GNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARM 365
G GFK+AM + R +AA G + +A +A +R FG+ I + LA M
Sbjct: 227 GAGFKIAMGAFDKTRPPVAAGAVGLAQRALDEATKYALERKTFGKLIAEHQAVSFMLADM 286
Query: 366 ALLHYVTESLAYMISGN-MDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGG 418
A + LAY + +D+G ++ + A+I+K FA++ A + +A+QI GG
Sbjct: 287 A-MKVELARLAYQRAAWEVDSGRRNTY-YASIAKAFAADIANQLATDAVQIFGG 338
>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 = 185 bits (472), Expect = 1e-52
Identities = 98/300 (32%), Positives = 154/300 (51%), Gaps = 8/300 (2%)
Query: 119 GAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKA 178
G + P++ GG+G + A ++ G L H I I G+PEQK
Sbjct: 43 GLLGVGFPEEYGGIG-GDLLSAAVLWEELARAGGSGPGLSLHTDIVSPYITRAGSPEQKE 101
Query: 179 KYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIM 238
+ LP++ GK+ A +TEP +GSD I+T A DG HY+LNGSK +I+NG A+++
Sbjct: 102 RVLPQMVAGKKIGAIAMTEPGAGSDLQGIRTTARK--DGDHYVLNGSKTFITNGMLADVV 159
Query: 239 TVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPV 298
V A+T + G + + F+VER G + G KKMG KA +TAE++++D +VP
Sbjct: 160 IVVARTGGEARGAGGI----SLFLVERGTPGFSRGRKLKKMGWKAQDTAELFFDDCRVPA 215
Query: 299 ENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTI 358
EN+LG GF MQ L R +AA + ++ ++ QR FG+ + +
Sbjct: 216 ENLLGEENKGFYYLMQNLPQERLLIAAGALAAAEFMLEETRNYVKQRKAFGKTLAQLQVV 275
Query: 359 QEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGG 418
+ K+A +A VT + + + G D EA+++K +A+E V E +Q+ GG
Sbjct: 276 RHKIAELATKVAVTRAFLDNCAWRHEQGRLDV-AEASMAKYWATELQNRVAYECVQLHGG 334
>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 = 171 bits (435), Expect = 2e-47
Identities = 98/301 (32%), Positives = 153/301 (50%), Gaps = 24/301 (7%)
Query: 71 EVLTEDQSDTLKMLVDPVTKFFDEVNDPLKNDS--LETVEPNTLEGLWDLGAFSLQVPQD 128
++LTE++ + + D +F E P ++ E + +E + +LG +
Sbjct: 11 DLLTEEE----RAIRDTAREFCQEELAPRVLEAYREEKFDRKIIEEMGELGLLGAT-IKG 65
Query: 129 LGGLGLTNTQY---ARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVS 185
G GL++ Y AR VE V D + S+ I G+ EQK KYLP+++
Sbjct: 66 YGCAGLSSVAYGLIAREVERV---DSGYRSFMSVQSSLVMLPIYDFGSEEQKQKYLPKLA 122
Query: 186 TGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTP 245
+G+ F LTEP GSD G ++TRA DG Y LNGSK WI+N A++ V+A
Sbjct: 123 SGELIGCFGLTEPNHGSDPGGMETRA--RKDGGGYKLNGSKTWITNSPIADVFVVWA--- 177
Query: 246 VKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGV 305
++++TG K+ FI+ER G+++ + K ++AS T E+ ++V VP EN+L G
Sbjct: 178 -RNDETG----KIRGFILERGMKGLSAPKIQGKFSLRASITGEIVMDNVFVPEENLLPGA 232
Query: 306 GNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARM 365
G + + LNN R+G+A G A + R QFGR + +F +Q+KLA M
Sbjct: 233 -EGLRGPFKCLNNARYGIAWGALGAAEDCYHTARQYVLDRKQFGRPLAAFQLVQKKLADM 291
Query: 366 A 366
Sbjct: 292 L 292
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 172 bits (436), Expect = 2e-47
Identities = 110/340 (32%), Positives = 173/340 (50%), Gaps = 14/340 (4%)
Query: 82 KMLVDPVTKFFDEVNDPLKNDSLETVEPNT--LEGLWDLGAFSLQVPQDLGGLGLTNTQY 139
L + V KF EV D + + N + L DLG + VP+ GG G+
Sbjct: 42 AALRETVAKFSREVVDKHAREDDINMHFNRDLFKQLGDLGVMGVTVPEADGGAGMDAVAA 101
Query: 140 ARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPA 199
+ + D + AH + +P Q+A++LP+V TG+ A ++EP
Sbjct: 102 VIIHHELSKYDPGFCLAYLAHSMLFVNNFYYSASPAQRARWLPKVLTGEHVGAMGMSEPG 161
Query: 200 SGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGKVVDKVT 259
+G+D ++T A +G Y+LNGSKIWI+NG A++ ++A KV K+T
Sbjct: 162 AGTDVLGMRTTAKKDSNGN-YVLNGSKIWITNGTVADVFLIYA----------KVDGKIT 210
Query: 260 AFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNG 319
AF+VER G T GP K G++AS+ ++++EDV VP EN+LG G G M+ L
Sbjct: 211 AFVVERGTKGFTQGPKIDKCGMRASHMCQLFFEDVVVPAENLLGEEGKGMVGMMRNLELE 270
Query: 320 RFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTESLAYMI 379
R +AA G + +A++R FG+ I +FG IQ +A ++L Y +
Sbjct: 271 RVTLAAMAVGIAERSVELMTSYASERKAFGKPISNFGQIQRYIAEGYADTEAAKALVYSV 330
Query: 380 SGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGGI 419
S N+ G+++ L + +K+FA+ A V D AIQ++GG+
Sbjct: 331 SHNVHPGNKN-RLGSDAAKLFATPIAKKVADSAIQVMGGM 369
>gnl|CDD|179566 PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated.
Length = 380
Score = 153 bits (388), Expect = 5e-41
Identities = 100/314 (31%), Positives = 156/314 (49%), Gaps = 23/314 (7%)
Query: 112 LEGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSI------GF 165
++ L D+G SL +P++ GGL A + +G LGA + GF
Sbjct: 43 VKALADMGIDSLLIPEEHGGLDAGFVTLAAVWMELGR--------LGAPTYVLYQLPGGF 94
Query: 166 KGILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGS 225
L G EQ K + TGK+ +TEP +GSD GS+KT +GK Y LNGS
Sbjct: 95 NTFLREGTQEQIDKIMAFRGTGKQMWNSAITEPGAGSDVGSLKT-TYTRRNGKVY-LNGS 152
Query: 226 KIWISNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASN 285
K +I++ + + V A+ +K T + V+ S G+ EK +G++ +
Sbjct: 153 KCFITSSAYTPYIVVMARDGASPDKP-----VYTEWFVDMSKPGIKVTKLEK-LGLRMDS 206
Query: 286 TAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQR 345
E+ ++DV++ +++ G GNGF + ++ RF +A GT + A +A QR
Sbjct: 207 CCEITFDDVELDEKDMFGREGNGFNRVKEEFDHERFLVALTNYGTAMCAFEDAARYANQR 266
Query: 346 VQFGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAA 405
VQFG I F IQEK A MA+ +++ Y + DNG+ +AA+ K F + AA
Sbjct: 267 VQFGEAIGRFQLIQEKFAHMAIKLNSMKNMLYEAAWKADNGTITSG-DAAMCKYFCANAA 325
Query: 406 WYVTDEAIQILGGI 419
+ V D A+Q+LGG+
Sbjct: 326 FEVVDSAMQVLGGV 339
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 147 bits (374), Expect = 5e-39
Identities = 95/310 (30%), Positives = 139/310 (44%), Gaps = 16/310 (5%)
Query: 113 EGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVG 172
L D G L VP++ GG ++E V A ++ Q I + G
Sbjct: 44 RALADNGISMLGVPEEFGGTPADYVTQMLVLEEVSKCG-APAFLITNGQCI--HSMRRFG 100
Query: 173 NPEQKAK-YLPRVSTGKEFAAFCL--TEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWI 229
+ EQ K + TG A+ L TEP +GSD S T +GK Y LNG K +I
Sbjct: 101 SAEQLRKTAESTLETGD--PAYALALTEPGAGSDNNSATTTYT-RKNGKVY-LNGQKTFI 156
Query: 230 SNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEV 289
+ M V A+ P + T + V+ S G+ P K +G +T EV
Sbjct: 157 TGAKEYPYMLVLARDPQPKDPK----KAFTLWWVDSSKPGIKINPLHK-IGWHMLSTCEV 211
Query: 290 YYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFG 349
Y ++V+V +++G G GF M R AA G + A +A QR+QFG
Sbjct: 212 YLDNVEVEESDLVGEEGMGFLNVMYNFEMERLINAARSLGFAECAFEDAARYANQRIQFG 271
Query: 350 RRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVT 409
+ I IQEKL MA+ ++ Y ++ DNG Q AA++K++ + A V
Sbjct: 272 KPIGHNQLIQEKLTLMAIKIENMRNMVYKVAWQADNG-QSLRTSAALAKLYCARTAMEVI 330
Query: 410 DEAIQILGGI 419
D+AIQI+GG+
Sbjct: 331 DDAIQIMGGL 340
>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 = 144 bits (365), Expect = 9e-38
Identities = 84/322 (26%), Positives = 137/322 (42%), Gaps = 52/322 (16%)
Query: 115 LWDLGAFSLQVPQDLGGLGLTNTQ---------YARMVEIVGGNDLAVGIVLGAHQSIGF 165
L G + P++ GG G + + A GI L
Sbjct: 44 LAAAGWAAPGWPKEYGGRGASLMEQLIFREEMAAAGAPVPFNQI----GIDLAGPT---- 95
Query: 166 KGILLVGNPEQKAKYLPRVSTGKEFAAFCL--TEPASGSDAGSIKTRAVLSPDGKHYILN 223
IL G EQK ++LP + +G+E +C +EP +GSD ++TRAV DG +++N
Sbjct: 96 --ILAYGTDEQKRRFLPPILSGEEI--WCQGFSEPGAGSDLAGLRTRAVR--DGDDWVVN 149
Query: 224 GSKIWISNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKA 283
G KIW S +A+ + +T + K ++ +V+ GVT P G
Sbjct: 150 GQKIWTSGAHYADWAWLLVRTDPEAPKH----RGISILLVDMDSPGVTVRPIRSING--G 203
Query: 284 SNTAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHAT 343
EV+ +DV+VP N +G V +G+KVAM LN R ++ +
Sbjct: 204 EFFNEVFLDDVRVPDANRVGEVNDGWKVAMTTLNFER--------VSIGGSAATFFELLL 255
Query: 344 QRVQFGRRIDSFGT----IQEKLARMAL----LHYVTESLAYMISGNMDNGSQDYHLEAA 395
R+ R ++++LAR+ L + LA + G + EA+
Sbjct: 256 ARLLLLTRDGRPLIDDPLVRQRLARLEAEAEALRLLVFRLASA----LAAG-KPPGAEAS 310
Query: 396 ISKVFASEAAWYVTDEAIQILG 417
I+K+F SE A + + A+++LG
Sbjct: 311 IAKLFGSELAQELAELALELLG 332
>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 = 135 bits (342), Expect = 2e-34
Identities = 90/335 (26%), Positives = 135/335 (40%), Gaps = 45/335 (13%)
Query: 114 GLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGN 173
G LG VP++ GG GL T Y+ + EI D + G +L G
Sbjct: 49 GWMALG-----VPEEYGGQGLPITVYSALAEIFSRGDAPLMYASGTQG--AAATLLAHGT 101
Query: 174 PEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGG 233
Q+ K++PR++ G+ CLTEP +GSD G+++T+AV DG I NG K +IS G
Sbjct: 102 EAQREKWIPRLAEGEWTGTMCLTEPDAGSDLGALRTKAVYQADGSWRI-NGVKRFISAGE 160
Query: 234 FAEIMTVFAQTPVKDEKTGKVVDKVTAFIV-------ERSFGGVTSGPPEKKMGIKASNT 286
+ + E V ++ F+V ER GVT E+KMG+ S T
Sbjct: 161 HDMSENIVHLVLARSEGAPPGVKGLSLFLVPKFLDDGER--NGVTVARIEEKMGLHGSPT 218
Query: 287 AEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRV 346
E+ +++ K ++G G G ++N R G+ G + A+ +A +R
Sbjct: 219 CELVFDNAKGE---LIGEEGMGLAQMFAMMNGARLGVGTQGTGLAEAAYLNALAYAKERK 275
Query: 347 QFGRRIDSFGTIQEKL-----------------ARMALLHYVTESLAYMISGNMDNGSQD 389
Q G I + + +R L+ T G
Sbjct: 276 QGGDLIKAAPAVTIIHHPDVRRSLMTQKAYAEGSRALDLYTATVQDL--AERKATEGEDR 333
Query: 390 YHLEA------AISKVFASEAAWYVTDEAIQILGG 418
L A + K F SEAA +AIQ+ GG
Sbjct: 334 KALSALADLLTPVVKGFGSEAALEAVSDAIQVHGG 368
>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 = 127 bits (320), Expect = 1e-31
Identities = 91/317 (28%), Positives = 142/317 (44%), Gaps = 25/317 (7%)
Query: 113 EGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGIL-LV 171
EGLW+L F +P+ G GLTN +YA + E G + A + G +L
Sbjct: 53 EGLWNL--F---LPEVSGLSGLTNLEYAYLAEETGRSFFAPEVFNCQAPDTGNMEVLHRY 107
Query: 172 GNPEQKAKYLPRVSTGKEFAAFCLTEPA-SGSDAGSIKTRAVLSPDGKHYILNGSKIWIS 230
G+ EQK ++L + GK +AF +TEP + SDA +I+ + DG Y++NG K W S
Sbjct: 108 GSEEQKKQWLEPLLDGKIRSAFAMTEPDVASSDATNIECS--IERDGDDYVINGRKWWSS 165
Query: 231 NGGF--AEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKAS--NT 286
G +I V +T + + +V GVT P G +
Sbjct: 166 GAGDPRCKIAIVMGRTDPDGAPRHRQQSMI---LVPMDTPGVTIIRPLSVFGYDDAPHGH 222
Query: 287 AEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRV 346
AE+ +++V+VP N++ G G GF++A L GR L G + A R
Sbjct: 223 AEITFDNVRVPASNLILGEGRGFEIAQGRLGPGRIHHCMRLIGAAERALELMCQRAVSRE 282
Query: 347 QFGRRIDSFGTIQEKLA--RMAL--LHYVTESLAYMISGNMDN-GSQDYHLEAAISKVFA 401
FG+++ G + +A R+ + + A+M +D G++ E A+ KV A
Sbjct: 283 AFGKKLAQHGVVAHWIAKSRIEIEQARLLVLKAAHM----IDTVGNKAARKEIAMIKVAA 338
Query: 402 SEAAWYVTDEAIQILGG 418
A + D AIQ+ G
Sbjct: 339 PRMALKIIDRAIQVHGA 355
>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 = 107 bits (269), Expect = 3e-27
Identities = 48/113 (42%), Positives = 65/113 (57%), Gaps = 1/113 (0%)
Query: 306 GNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARM 365
G GF VAM+ LN+ R +AAA G R +A+++A QR FGR + F I+ KLA M
Sbjct: 1 GRGFAVAMETLNHERLLIAAAALGLARRALDEAIEYARQRKAFGRPLIDFQLIRHKLADM 60
Query: 366 ALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILGG 418
A L Y + +D G D EAA++K++ASE A V D A+Q+LGG
Sbjct: 61 AAELEAARLLVYRAAEALDAGGPD-PAEAAMAKLYASELAQEVADLAMQLLGG 112
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 110 bits (276), Expect = 7e-26
Identities = 76/233 (32%), Positives = 112/233 (48%), Gaps = 11/233 (4%)
Query: 133 GLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAA 192
GL+ T A V D + + H S+ I L G+ QK KYLP ++ A
Sbjct: 86 GLSITASAIATAEVARVDASCSTFILVHSSLAMLTIALCGSEAQKQKYLPSLAQLDTVAC 145
Query: 193 FCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTG 252
+ LTEP GSDA S+ T A G +ILNG K WI N FA+++ +FA+ ++ G
Sbjct: 146 WALTEPDYGSDASSLNTTATKVEGG--WILNGQKRWIGNSTFADVLVIFARNTTTNQING 203
Query: 253 KVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVA 312
FIV++ G+ + E K+G++ ++ +DV VP E+ L GV N F+
Sbjct: 204 --------FIVKKGAPGLKATKIENKIGLRMVQNGDIVLKDVFVPDEDRLPGV-NSFQDT 254
Query: 313 MQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARM 365
++L R +A G V + +R QFG + +F QEKL RM
Sbjct: 255 NKVLAVSRVMVAWQPIGISMGVYDMCHRYLKERKQFGAPLAAFQINQEKLVRM 307
>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 = 105 bits (264), Expect = 2e-24
Identities = 86/344 (25%), Positives = 152/344 (44%), Gaps = 15/344 (4%)
Query: 78 SDTLKMLVDPVTKFFDEVNDP--LKNDSLETVEPNTLEGLWDLGAFSLQVPQDLGGLGLT 135
++ L+ L D +F E P + D ++ + + ++G ++P++ GGLG+
Sbjct: 2 NEDLQALADTARRFARERIAPGFKERDKTRVLDRELMRDMGEMGFIGPELPEEHGGLGMG 61
Query: 136 NTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGN--PEQKAKYLPRVSTGKEFAAF 193
+ E + DL++ V + G +L + PE +L ++ G+ A
Sbjct: 62 CLAAGVIHEQIARADLSMSYV---NLLASLNGQILAQHARPEIAKPWLGQLIAGEALFAI 118
Query: 194 CLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGK 253
LTEP GSDA ++ RA DG Y+LNG K IS A+ VFA+T + E
Sbjct: 119 ALTEPRGGSDAARLRLRAE--RDGDDYVLNGEKTSISAADQADAAVVFARTGSEAEGA-- 174
Query: 254 VVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAM 313
++AF+V G+T + G +A +++E+V+VP +++LG G GF M
Sbjct: 175 --RGISAFLVPMDLPGITRNRFDC-HGQRAIGRGSIFFENVRVPADHMLGNEGQGFVQVM 231
Query: 314 QILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTE 373
Q + R + + R+ + + +R FG+ + +F + LA
Sbjct: 232 QGFDFSRALIGLQVLAVARAALDETWRYVAERQAFGKPLSAFQGVSHPLADAETQVEAAR 291
Query: 374 SLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTDEAIQILG 417
L D+G + EAA+ K +A + A+ V + + G
Sbjct: 292 LLCLQTLWLKDHGLP-HTSEAAMCKWWAPKLAYDVIHQCLLTHG 334
>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 = 99.8 bits (249), Expect = 2e-22
Identities = 66/269 (24%), Positives = 108/269 (40%), Gaps = 24/269 (8%)
Query: 166 KGILLVGNPEQKAKYLPRVSTGKE---FAAFCLTEPASGSDAGSIKTRAVLSPDGKHYIL 222
+ G E K +S + +TE GSD G+ +T A S G Y L
Sbjct: 121 YALRKYGPEELKQYLPGLLSDRYKTGLLGGTWMTEKQGGSDLGANETTAERSGGGV-YRL 179
Query: 223 NGSKIWISNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPE-----K 277
NG K W ++ A+ V A+ + + F+V R T
Sbjct: 180 NGHK-WFASAPLADAALVLARPEGAPAGARGL----SLFLVPRLLEDGTRNGYRIRRLKD 234
Query: 278 KMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKK 337
K+G ++ T EV ++D ++G G G +++LN R A A G MR +
Sbjct: 235 KLGTRSVATGEVEFDDA---EAYLIGDEGKGIYYILEMLNISRLDNAVAALGIMRRALSE 291
Query: 338 AVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEA--- 394
A +A R FG+ + ++ LA M + +L + + D + D +EA
Sbjct: 292 AYHYARHRRAFGKPLIDHPLMRRDLAEMEVDVEAATALTFRAARAFDRAAADKPVEAHMA 351
Query: 395 ----AISKVFASEAAWYVTDEAIQILGGI 419
++K+ A + A VT EA+++ GG
Sbjct: 352 RLATPVAKLIACKRAAPVTSEAMEVFGGN 380
>gnl|CDD|185636 PTZ00457, PTZ00457, acyl-CoA dehydrogenase; Provisional.
Length = 520
Score = 98.8 bits (246), Expect = 1e-21
Identities = 101/366 (27%), Positives = 154/366 (42%), Gaps = 65/366 (17%)
Query: 51 SFTMNMFRGQLNTNQVFPYP-EVLTEDQSDTLKMLVDPVTKFFDEVNDPLKNDSLETVEP 109
S+ +F ++ ++FPYP L D+++ L+ L++ + ND
Sbjct: 17 SYAAGLFNFKIVPEEMFPYPCRKLDGDEAENLQSLLEQIRS----------ND------- 59
Query: 110 NTLEGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGIL 169
L L+ GA ++ + GGLGL +T +A + E VG N + + H GF L
Sbjct: 60 KILGNLY--GA---RIATEYGGLGLGHTAHALIYEEVGTNCDSKLLSTIQHS--GFCTYL 112
Query: 170 L--VGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKI 227
L VG+ E K KYL +S G + TE GSD T+A L+ DG Y+L G K
Sbjct: 113 LSTVGSKELKGKYLTAMSDGTIMMGWA-TEEGCGSDISMNTTKASLTDDGS-YVLTGQKR 170
Query: 228 WISNGGFAEIMTVF-----AQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIK 282
FA T F T E+ V + + FI + GV+
Sbjct: 171 CE----FAASATHFLVLAKTLTQTAAEEGATEVSRNSFFICAKDAKGVSV---------- 216
Query: 283 ASNTAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHA 342
N V +E+ P +V+G VG GFK AM L ++ AA+L G M+ V
Sbjct: 217 --NGDSVVFENT--PAADVVGVVGEGFKDAMITLFTEQYLYAASLLGIMKRV-------- 264
Query: 343 TQRVQFGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEAAISKVF-- 400
VQ R ++ + +A A Y ES Y ++ N+D ++D LE + F
Sbjct: 265 ---VQELRGSNAEEGATDTVASFACAMYAMESTLYALTANLDLPTEDSLLECTLVSAFVQ 321
Query: 401 ASEAAW 406
++
Sbjct: 322 STTNQL 327
Score = 58.7 bits (142), Expect = 5e-09
Identities = 38/112 (33%), Positives = 58/112 (51%), Gaps = 6/112 (5%)
Query: 539 VKKRGLKSIGLSTPPSLHHVVHANLAESGVLCSKSVVLFGEAVESLLLKYGKGVVEEQFL 598
++ R L+S+G+ + ++ +L + +VV FG AVE+ ++ G V +Q L
Sbjct: 386 MQARTLRSLGVRDRVPIKNLPDCSLIDE------AVVAFGNAVEATFVRSGSQVPYQQLL 439
Query: 599 LNRLAAAAFDTYTMAVVLSRATRSLNKNLPSASHEQLLAELWCYEAAERVSQ 650
LNRL AA Y + V SRA+ ++K LPSA E LA + A R Q
Sbjct: 440 LNRLGEAASLLYAASAVASRASMCVSKGLPSAKVEGELASAFIAMAVSRARQ 491
>gnl|CDD|215473 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 91.4 bits (227), Expect = 5e-19
Identities = 87/302 (28%), Positives = 138/302 (45%), Gaps = 23/302 (7%)
Query: 129 LGGLGLTNTQYARMVEIVGGNDLAVGIV-LGAHQSIGFKGILLVGNPEQKAKYLPRVSTG 187
L G GL+N +Y + EI+G + A + GA + + +L GN EQ+ ++L + G
Sbjct: 489 LLGAGLSNLEYGYLCEIMGRSVWAPQVFNCGAPDTGNMEVLLRYGNKEQQLEWLIPLLEG 548
Query: 188 KEFAAFCLTEP-ASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGF---AEIMTVFAQ 243
K + F +TEP + SDA +I+ + G Y++NG+K W S G ++ V +
Sbjct: 549 KIRSGFAMTEPQVASSDATNIECS--IRRQGDSYVINGTKWWTS-GAMDPRCRVLIVMGK 605
Query: 244 T----PVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKAS--NTAEVYYEDVKVP 297
T P +++ +VD T GV P G + AE+ +E+V+VP
Sbjct: 606 TDFNAPKHKQQSMILVDIQTP--------GVQIKRPLLVFGFDDAPHGHAEISFENVRVP 657
Query: 298 VENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGT 357
+N+L G G GF++A L GR L G + V A R FG+ I G+
Sbjct: 658 AKNILLGEGRGFEIAQGRLGPGRLHHCMRLIGAAERGMQLMVQRALSRKAFGKLIAQHGS 717
Query: 358 IQEKLARMALLHYVTESLAYMISGNMDN-GSQDYHLEAAISKVFASEAAWYVTDEAIQIL 416
LA+ + T L + +D G++ A++KV A A V D A+Q+
Sbjct: 718 FLSDLAKCRVELEQTRLLVLEAADQLDRLGNKKARGIIAMAKVAAPNMALKVLDMAMQVH 777
Query: 417 GG 418
G
Sbjct: 778 GA 779
>gnl|CDD|236528 PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.
Length = 777
Score = 91.0 bits (227), Expect = 6e-19
Identities = 89/326 (27%), Positives = 151/326 (46%), Gaps = 30/326 (9%)
Query: 115 LWDL----GAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILL 170
+W G F + +P++ GGL + ++R+++ + + + + S+G G LL
Sbjct: 114 VWQFIKEHGFFGMIIPKEYGGLEFSAYAHSRVLQKLASRSGTLAVTVMVPNSLG-PGELL 172
Query: 171 V--GNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVL---SPDGKHYI---L 222
+ G EQK YLPR++ G+E F LT P +GSDAGSI V+ G+ + L
Sbjct: 173 LHYGTDEQKDHYLPRLARGEEIPCFALTSPEAGSDAGSIPDTGVVCKGEWQGEEVLGMRL 232
Query: 223 NGSKIWISNGGFAEIMTVF-----AQTPVKDEKTGKVVD-KVTAFIVERSFGGVTSGPPE 276
+K +I+ A I TV P D G D +T ++ GV G
Sbjct: 233 TWNKRYIT---LAPIATVLGLAFKLYDP--DGLLGDKEDLGITCALIPTDTPGVEIGRRH 287
Query: 277 KKMGIKASNTAEVYYEDVKVPVENVLGG---VGNGFKVAMQILNNGR-FGMAAALAGTMR 332
+ + N +DV +P++ ++GG G G+++ M+ L+ GR + + G +
Sbjct: 288 FPLNVPFQN-GPTRGKDVFIPLDYIIGGPKMAGQGWRMLMECLSVGRGISLPSNSTGGAK 346
Query: 333 SVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHL 392
+A R QF I F I+E LAR+A Y+ ++ + + +D G + L
Sbjct: 347 LAALATGAYARIRRQFKLPIGKFEGIEEPLARIAGNAYLMDAARTLTTAAVDLGEKPSVL 406
Query: 393 EAAISKVFASEAAWYVTDEAIQILGG 418
+AI+K +E V ++A+ I GG
Sbjct: 407 -SAIAKYHLTERGRQVINDAMDIHGG 431
>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 = 89.3 bits (221), Expect = 6e-19
Identities = 67/238 (28%), Positives = 111/238 (46%), Gaps = 12/238 (5%)
Query: 126 PQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVS 185
P+ GG G T+ Q+ E + + G S+ I GN EQK ++LPR++
Sbjct: 60 PKQYGGTGWTSVQHYIFNEELQSAPAPQPLAFGV--SMVGPVIYTFGNEEQKKRFLPRIA 117
Query: 186 TGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQTP 245
++ +EP SGSD S+KT+A G +I+NG K W + A+ + +T
Sbjct: 118 NVDDWWCQGFSEPGSGSDLASLKTKA--EKKGDKWIINGQKTWTTLAQHADWIFCLCRT- 174
Query: 246 VKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGV 305
+ T K ++ +V+ G+T P + G EV+++DV+VP EN++G
Sbjct: 175 ---DPTAKKQMGISFILVDMKSKGITVRPIQTIDG--GVEVNEVFFDDVEVPYENLVGEE 229
Query: 306 GNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLA 363
G+ A +L N R G+A G + ++ D A + G+ + +EKLA
Sbjct: 230 NKGWDYAKFLLGNERTGIAR--VGVSKERIRRIKDLAAKVESGGKPVIEDAKFREKLA 285
>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 = 81.8 bits (203), Expect = 9e-19
Identities = 36/113 (31%), Positives = 57/113 (50%), Gaps = 2/113 (1%)
Query: 78 SDTLKMLVDPVTKFFDEVNDPL--KNDSLETVEPNTLEGLWDLGAFSLQVPQDLGGLGLT 135
++ + L D V +F +E P + D L +LG L +P++ GG GL
Sbjct: 1 TEEQEALRDTVREFAEEEVAPHAAEWDEEGEFPRELWRKLGELGLLGLTIPEEYGGAGLD 60
Query: 136 NTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGK 188
+YA + E + D +VG+ L H S+ IL G EQK KYLP++++G+
Sbjct: 61 YLEYALVAEELARADASVGLALSVHSSLVAPPILRFGTEEQKEKYLPKLASGE 113
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 89.2 bits (222), Expect = 2e-18
Identities = 90/333 (27%), Positives = 153/333 (45%), Gaps = 32/333 (9%)
Query: 115 LWDL----GAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILL 170
+WD G F+L +P++ GG G + + +V + ++ + + S+G G LL
Sbjct: 113 VWDYLKKEGFFALIIPKEYGGKGFSAYANSTIVSKIATRSVSAAVTVMVPNSLG-PGELL 171
Query: 171 V--GNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSP---DGKHYI---L 222
G EQK +LPR++ G E F LT P +GSDAG+I ++ +G+ + L
Sbjct: 172 THYGTQEQKDYWLPRLADGTEIPCFALTGPEAGSDAGAIPDTGIVCRGEFEGEEVLGLRL 231
Query: 223 NGSKIWISNGGFAEIMTV----FAQTPVKDEKT---GKVVDKVTAFIVERSFGGVTSGPP 275
K +I+ A + TV F ++D K +T ++ GV G
Sbjct: 232 TWDKRYIT---LAPVATVLGLAFK---LRDPDGLLGDKKELGITCALIPTDHPGVEIGRR 285
Query: 276 EKKMGIKASNTAEVYYEDVKVPVENVLGG---VGNGFKVAMQILNNGRFGMAAALAGTMR 332
+G+ N +DV +P++ ++GG G G+++ ++ L+ GR AL
Sbjct: 286 HNPLGMAFMN-GTTRGKDVFIPLDWIIGGPDYAGRGWRMLVECLSAGRGISLPALGTASG 344
Query: 333 SVTKKAVD-HATQRVQFGRRIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYH 391
+ + +A R QFG I F +QE LAR+A Y+ E+ + + +D G
Sbjct: 345 HMATRTTGAYAYVRRQFGMPIGQFEGVQEALARIAGNTYLLEAARRLTTTGLDLG-VKPS 403
Query: 392 LEAAISKVFASEAAWYVTDEAIQILGGINLLLG 424
+ AI+K +E A V ++A+ I G + LG
Sbjct: 404 VVTAIAKYHMTELARDVVNDAMDIHAGKGIQLG 436
>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 = 77.9 bits (193), Expect = 4e-18
Identities = 25/53 (47%), Positives = 34/53 (64%), Gaps = 2/53 (3%)
Query: 192 AFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFAEIMTVFAQT 244
AF LTEP +GSD S++T A DG ++LNG K WI+N A++ V A+T
Sbjct: 1 AFALTEPGAGSDLASLETTAERDGDG--WVLNGRKWWITNAALADLALVLART 51
>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 = 81.6 bits (201), Expect = 2e-16
Identities = 68/255 (26%), Positives = 122/255 (47%), Gaps = 14/255 (5%)
Query: 172 GNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISN 231
G+ QKA +LP + G + AF E S D G + T A + DG ++++G K + N
Sbjct: 101 GSAAQKAAHLPGIIDGSKTFAFAQLEKNSRYDLGDVSTTAKKTGDG--WVIDGEKFVVLN 158
Query: 232 GGFAEIMTVFAQTP-VKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVY 290
G A+ + V A+T + ++TG + F+V GVT + G+ A A++
Sbjct: 159 GETADTLIVTARTKGARRDRTG-----IGVFLVPAGAKGVTIKGYPTQDGLHA---ADIT 210
Query: 291 YEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGR 350
+ V V + +G N + +++++ R + A G M K V++ R QFG
Sbjct: 211 FTGVVVGADAAIGDPENALPLIERVVDDARAALCAEAVGLMDESLKTTVEYIKTRKQFGV 270
Query: 351 RIDSFGTIQEKLARMALLHYVTESLAYM--ISGNMDNGSQDYHLEAAISKVFASEAAWYV 408
I SF +Q + A M + S+A ++ + D+ + + AA +KV ++ +V
Sbjct: 271 PIGSFQVLQHRAADMFVAVEQARSMAMFATMASDFDDAKERANAIAA-AKVQIGKSLKFV 329
Query: 409 TDEAIQILGGINLLL 423
++IQ+ GGI + +
Sbjct: 330 GQQSIQLHGGIGMTM 344
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 79.5 bits (196), Expect = 2e-15
Identities = 67/226 (29%), Positives = 104/226 (46%), Gaps = 27/226 (11%)
Query: 119 GAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIG-FKGILLVGNPEQK 177
G + P++ GG L + E++ + + G SIG ++ G+ EQK
Sbjct: 112 GWTGISEPEEYGGQALPLSVGFITRELMATANWGFSMYPG--LSIGAANTLMAWGSEEQK 169
Query: 178 AKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNG--GFA 235
+YL ++ +G+ CLTEP G+D G +KT+A S DG Y + G+KI+IS G
Sbjct: 170 EQYLTKLVSGEWSGTMCLTEPQCGTDLGQVKTKAEPSADGS-YKITGTKIFISAGDHDLT 228
Query: 236 E--IMTVFAQTPVKDEKTGKVVDKVTAFIVER----------SFGGVTSGPPEKKMGIKA 283
E + V A+ P T K ++ F+V R + V EKKMGIK
Sbjct: 229 ENIVHIVLARLP-NSLPTTK---GLSLFLVPRHVVKPDGSLETAKNVKCIGLEKKMGIKG 284
Query: 284 SNTAEVYYEDVKVPVENVLGGVGNGFKVAMQILNNGRFGMAAALAG 329
S+T ++ +E+ V ++G G K +N R + AL G
Sbjct: 285 SSTCQLSFEN---SVGYLIGEPNAGMKQMFTFMNTAR--VGTALEG 325
>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 = 70.8 bits (174), Expect = 5e-13
Identities = 78/348 (22%), Positives = 128/348 (36%), Gaps = 66/348 (18%)
Query: 117 DLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGF-KGILLVGNPE 175
G +L+VP++ GGLG + +V + D + L AH GF + +LL G +
Sbjct: 33 QSGLGTLRVPKEYGGLGASLPDLYEVVRELAAADSNIAQALRAH--FGFVEALLLAGPEQ 90
Query: 176 QKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILNGSKIWISNGGFA 235
+ ++ RV G F GS A + G Y+LNG K + + F+
Sbjct: 91 FRKRWFGRVLNGWIFGN---AVSERGSVRPGTFLTATVRDGG-GYVLNGKKFYSTGALFS 146
Query: 236 EIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIK--ASNTAEVYYED 293
+ +TV A K+ V G+T G + AS T +++
Sbjct: 147 DWVTVSALDE---------EGKLVFAAVPTDRPGITVVDDWDGFGQRLTASGTVT--FDN 195
Query: 294 VKVPVENVLGG-----VGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQF 348
V+V + VL G Q++ +AA LAG R+ AV + R
Sbjct: 196 VRVEPDEVLPRPNAPDRGTLLTAIYQLV------LAAVLAGIARAALDDAVAYVRSR--- 246
Query: 349 GR----------RIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYH------- 391
R R D + +Q+ + +A + E+L + +D +
Sbjct: 247 TRPWIHSGAESARDDPY--VQQVVGDLAARLHAAEALVLQAARALDAAAAAGTALTAEAR 304
Query: 392 LEAAIS----KVFASEAAWYVTDEAIQILGGINLLLGRLASASAAVKA 435
EAA++ KV + A T ++ G ASA+A
Sbjct: 305 GEAALAVAAAKVVVTRLALDATSRLFEVGG---------ASATAREHN 343
>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 = 69.3 bits (170), Expect = 3e-12
Identities = 73/320 (22%), Positives = 121/320 (37%), Gaps = 52/320 (16%)
Query: 146 VGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAG 205
+GG DL++G LG H + I +G E + +L + + F TE GS+
Sbjct: 91 LGGYDLSLGAKLGLHLGLFGNAIKNLGTDEHQDYWLQGANNLEIIGCFAQTELGHGSNLQ 150
Query: 206 SIKTRAVLSPDGKHYILN-----GSKIWISNGGF-AEIMTVFAQTPVKDEKTGKVVDKVT 259
++T A P + +++N +K W N G A VFAQ + G +
Sbjct: 151 GLETTATYDPLTQEFVINTPDFTATKWWPGNLGKTATHAVVFAQLITPGKNHG-----LH 205
Query: 260 AFIVE-------RSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLG--------- 303
AFIV + GVT G KMG+ + + + +V++P EN+L
Sbjct: 206 AFIVPIRDPKTHQPLPGVTVGDIGPKMGLNGVDNGFLQFRNVRIPRENLLNRFGDVSPDG 265
Query: 304 -------GVGNGFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHATQRVQFGRR----- 351
+ + + GR G+ A +++ A+ ++ R QFG +
Sbjct: 266 TYVSPFKDPNKRYGAMLGTRSGGRVGLIYDAAMSLKKAATIAIRYSAVRRQFGPKPSDPE 325
Query: 352 --IDSFGTIQEK----LARMALLHYVTESLAYMISGNMDNGSQ-------DYHLEAAISK 398
I + Q + LA H+ +SL M + Q + H +A K
Sbjct: 326 VQILDYQLQQYRLFPQLAAAYAFHFAAKSLVEMYHEIIKELLQGNSELLAELHALSAGLK 385
Query: 399 VFASEAAWYVTDEAIQILGG 418
A+ A E + GG
Sbjct: 386 AVATWTAAQGIQECREACGG 405
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 66.0 bits (161), Expect = 4e-11
Identities = 75/290 (25%), Positives = 118/290 (40%), Gaps = 54/290 (18%)
Query: 138 QYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLTE 197
+Y + E VG D+++GI LG S+ ++ +G + + KY + F +TE
Sbjct: 122 KYFAITEAVGSVDMSLGIKLGVQYSLWGGSVINLGTKKHRDKYFDGIDNLDYPGCFAMTE 181
Query: 198 PASGSDAGSIKTRAVLSPDGKHYILN-----GSKIWISN----GGFAEIMTVFA--QTPV 246
GS+ ++T A P +++N K WI N G FA TVFA + P
Sbjct: 182 LHHGSNVQGLQTTATFDPLTDEFVINTPNDGAIKWWIGNAAVHGKFA---TVFARLKLPT 238
Query: 247 KDEKTGKVVDK-VTAFIV-------ERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPV 298
D K V D V AFIV + GV K+G+ + + + V++P
Sbjct: 239 HDSKG--VSDMGVHAFIVPIRDMKTHQVLPGVEIRDCGHKVGLNGVDNGALRFRSVRIPR 296
Query: 299 ENVLGGVGN----------------GFKVAMQILNNGRFGMAAALAGTMRSVTKKAVDHA 342
+N+L G+ F + L GR G+A G +++ A+ ++
Sbjct: 297 DNLLNRFGDVSRDGKYTSSLPTINKRFAATLGELVGGRVGLAYGSVGVLKASNTIAIRYS 356
Query: 343 TQRVQFGR------RIDSFGTIQEKLARMALL------HYVTESLAYMIS 380
R QFG I + + Q KL M +L H+ TE L S
Sbjct: 357 LLRQQFGPPKQPEISILDYQSQQHKL--MPMLASTYAFHFATEYLVERYS 404
>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 = 53.4 bits (129), Expect = 2e-07
Identities = 53/196 (27%), Positives = 83/196 (42%), Gaps = 33/196 (16%)
Query: 114 GLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGN 173
GLW + VP+ GG G++ A ++ I+ D ++G + H + L G+
Sbjct: 46 GLWGIT-----VPRAYGGAGVSYATLAEVIAIISAADPSLGQIPQNHFYALEV-LRLTGS 99
Query: 174 PEQKAKYLPRVSTGKEFA-AFCLTEPASGS-DAGSIKTRAVLSPDGKHYILNGSKIWISN 231
EQK + V G+ F AF G+ + +TR L DG Y LNG K + +
Sbjct: 100 EEQKRFFFGEVLAGERFGNAF----SERGTRNVLDFQTR--LRRDGDGYRLNGRKFYSTG 153
Query: 232 GGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVT-----SGPPEKKMGIKASNT 286
FA + V A D+ + V R G+T SG G + + +
Sbjct: 154 ALFAHWIPVLAL----DDD-----GRPVLAFVPRDAPGLTVIDDWSG-----FGQRTTAS 199
Query: 287 AEVYYEDVKVPVENVL 302
V +DV+VP E+V+
Sbjct: 200 GTVLLDDVRVPAEHVV 215
>gnl|CDD|183199 PRK11561, PRK11561, isovaleryl CoA dehydrogenase; Provisional.
Length = 538
Score = 45.9 bits (109), Expect = 6e-05
Identities = 64/236 (27%), Positives = 102/236 (43%), Gaps = 27/236 (11%)
Query: 195 LTEPASGSDAGSIKTRAVLSP-DGKHYILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGK 253
+TE GSD S TRA Y L G K W + ++ V AQ K G
Sbjct: 184 MTEKQGGSDVLSNTTRA--ERLADGSYRLVGHK-WFFSVPQSDAHLVLAQA-----KGGL 235
Query: 254 VVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGVGNGFKVAM 313
V F+ + + + K+G +++ ++EV ++D + +LG G G +
Sbjct: 236 SCFFVPRFLPDGQRNAIRLERLKDKLGNRSNASSEVEFQDA---IGWLLGEEGEGIR--- 289
Query: 314 QILNNG---RFGMAAALAGTMRSVTKKAVDHATQRVQFGRRIDSFGTIQEKLARMALLHY 370
IL G RF A G MR A+ HA QR FG+ + +++ L+RMAL
Sbjct: 290 LILKMGGMTRFDCALGSHGLMRRAFSVAIYHAHQRQVFGKPLIEQPLMRQVLSRMALQLE 349
Query: 371 VTESLAYMISGNMDNGSQDYHLEAAISKVFASEAAWYVTD-------EAIQILGGI 419
+L + ++ D D EA +++F A + + EA+++LGGI
Sbjct: 350 GQTALLFRLARAWDR-RADAK-EALWARLFTPAAKFVICKRGIPFVAEAMEVLGGI 403
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 43.7 bits (103), Expect = 3e-04
Identities = 30/146 (20%), Positives = 59/146 (40%), Gaps = 18/146 (12%)
Query: 170 LVGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSIKTRAVLSPDGKHYILN-----G 224
++G EQ ++P + + + TE GSD +++T A ++++
Sbjct: 108 VLGTDEQINLWMPSLLNFEIVGCYAQTELGHGSDVQNLETTATYDKQTNEFVIHTPSVEA 167
Query: 225 SKIWISNGGF-AEIMTVFAQTPVKDEKTGKVVDKVTAFIVE-------RSFGGVTSGPPE 276
K W GF V+A+ V + G V F+V + GV G
Sbjct: 168 VKFWPGELGFLCNFALVYAKLIVNGKNKG-----VHPFMVRIRDKETHKPLQGVEVGDIG 222
Query: 277 KKMGIKASNTAEVYYEDVKVPVENVL 302
KMG + + ++ ++P++++L
Sbjct: 223 PKMGYAVKDNGFLSFDHYRIPLDSLL 248
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 42.5 bits (100), Expect = 8e-04
Identities = 42/182 (23%), Positives = 76/182 (41%), Gaps = 21/182 (11%)
Query: 140 ARMVEIVGGNDLAVGIVLGAHQSIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPA 199
++E++G D ++ I LG H + I +G K+L F +TE
Sbjct: 136 LALLEVIGIYDHSLAIKLGVHFFLWGGAIKFLGTKRHHDKWLKDTEDYVVKGCFAMTELG 195
Query: 200 SGSDAGSIKTRAVLSPDGKHYILN-----GSKIWISNGGFAEIMT---VFAQTPVKDEKT 251
GS+ I+T P + +++N K WI GG A T VF+Q + +
Sbjct: 196 HGSNVRGIETVTTYDPKTEEFVINTPCESAQKYWI--GGAANHATHTIVFSQLHINGKNE 253
Query: 252 GKVVDKVTAFIVE------RSFGGVTSGPPEKKMGIKASNTAEVYYEDVKVPVENVLGGV 305
G V AFI + + K+G+ + ++++++++P EN+L V
Sbjct: 254 G-----VHAFIAQIRDQDGNICPNIRIADCGHKIGLNGVDNGRIWFDNLRIPRENLLNSV 308
Query: 306 GN 307
+
Sbjct: 309 AD 310
>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 = 41.6 bits (98), Expect = 0.001
Identities = 49/281 (17%), Positives = 93/281 (33%), Gaps = 43/281 (15%)
Query: 102 DSLETVEPNTLEGLWDLGAFSLQVPQDLGGLGLTNTQYARMVEIVGGNDLAVGIVLGAHQ 161
+ + + L ++G F + VP+ GGL ++A + + + V
Sbjct: 18 ERARRLPDEVVRALREIGFFRMFVPKRYGGLEGDFAEFAEAIATLAEACGSAAWVAS--- 74
Query: 162 SIGFKGILLVGNPEQKAKYLPRVSTGKEFAAFCLTEPASGSDAGSI--KTRAVLSPDGKH 219
+V + P +E + AGS RA G
Sbjct: 75 --------IVATHSRMLAAFPP-EAQEEV----WGDGPDTLLAGSYAPGGRAERVDGG-- 119
Query: 220 YILNGSKIWISNGGFAEIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKM 279
Y ++G+ + S A+ + V A D AF+V R+ +
Sbjct: 120 YRVSGTWPFASGCDHADWILVGAIVEDDDGG-----PLPRAFVVPRA--EYEIVDTWHVV 172
Query: 280 GIKASNTAEVYYEDVKVPVENVL-----------GGVGNGFKVAMQILNNGRFGMAAALA 328
G++ + + V +DV VP L GG +++ ++ + AA
Sbjct: 173 GLRGTGSNTVVVDDVFVPEHRTLTAGDMMAGDGPGGSTPVYRMPLRQVFP--LSFAAVSL 230
Query: 329 GTMRSVTKKAVDHATQRVQ---FGRRIDSFGTIQEKLARMA 366
G + ++ A +RV+ ++ Q +LA A
Sbjct: 231 GAAEGALAEFLELAGKRVRQYGAAVKMAEAPITQLRLAEAA 271
>gnl|CDD|219705 pfam08028, Acyl-CoA_dh_2, Acyl-CoA dehydrogenase, C-terminal
domain.
Length = 134
Score = 30.7 bits (70), Expect = 0.88
Identities = 26/109 (23%), Positives = 37/109 (33%), Gaps = 15/109 (13%)
Query: 322 GMAAALAGTMRSVTKKAVDHATQRVQ--FGRRIDSFGTIQEKLARMA-------LLHYVT 372
G AA G R ++ A +RV+ G + Q +LA A LL
Sbjct: 2 GFAAPALGAARGALAAFIERARERVRAYGGAPLAEDPATQTRLAEAAAEIDAARLLLERA 61
Query: 373 ESLAYMISGNMDNGSQ---DYHLEAAISKVFASEAAWYVTDEAIQILGG 418
A I + D G + + A A+E A D + GG
Sbjct: 62 ---ADRIWAHADRGDEVTPEERARARRDAALAAELAVAAVDRLFRAAGG 107
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 31.3 bits (72), Expect = 2.1
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 236 EIMTVFAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYEDVK 295
+ + V PV++E+ V ++ +ER GP E ++ + N A VY +
Sbjct: 438 QTVVV----PVEEEEEKSPVWRLAEKEIEREIKRYLPGPVEVEV--VSDNKAVVYVPEKD 491
Query: 296 VP 297
+P
Sbjct: 492 IP 493
>gnl|CDD|131197 TIGR02142, modC_ABC, molybdenum ABC transporter, ATP-binding
protein. This model represents the ATP-binding cassette
(ABC) protein of the three subunit molybdate ABC
transporter. The three proteins of this complex are
homologous to proteins of the sulfate ABC transporter.
Molybdenum may be used in nitrogenases of
nitrogen-fixing bacteria and in molybdopterin cofactors.
In some cases, molybdate may be transported by a sulfate
transporter rather than by a specific molybdate
transporter [Transport and binding proteins, Anions].
Length = 354
Score = 30.1 bits (68), Expect = 4.0
Identities = 13/44 (29%), Positives = 17/44 (38%)
Query: 351 RIDSFGTIQEKLARMALLHYVTESLAYMISGNMDNGSQDYHLEA 394
R+ + G I E A L E +I G + Q Y L A
Sbjct: 209 RVAAAGPIAEVWASPDLPWLAREDQGSLIEGVVAEHDQHYGLTA 252
>gnl|CDD|235731 PRK06188, PRK06188, acyl-CoA synthetase; Validated.
Length = 524
Score = 30.0 bits (68), Expect = 4.4
Identities = 25/74 (33%), Positives = 32/74 (43%), Gaps = 18/74 (24%)
Query: 216 DGKHYILNGSKIWISNGGF----AEIMTVFAQTP---------VKDEKTGKVVDKVTAFI 262
DG +YI++ K I GGF E+ V A+ P V DEK G + VTA +
Sbjct: 406 DGFYYIVDRKKDMIVTGGFNVFPREVEDVLAEHPAVAQVAVIGVPDEKWG---EAVTAVV 462
Query: 263 VERSFGGVTSGPPE 276
V R G E
Sbjct: 463 VLRP--GAAVDAAE 474
>gnl|CDD|224991 COG2080, CoxS, Aerobic-type carbon monoxide dehydrogenase, small
subunit CoxS/CutS homologs [Energy production and
conversion].
Length = 156
Score = 28.7 bits (65), Expect = 5.4
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 507 TLEGIQYAGGHLRELQKAFK 526
T+EG+ G L +Q+AF
Sbjct: 74 TIEGLAKKDGGLHPVQQAFL 93
>gnl|CDD|240002 cd04631, CBS_pair_18, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 125
Score = 28.4 bits (64), Expect = 6.2
Identities = 24/63 (38%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 235 AEIMTV--FAQTPVKDEKTGKVVDKVTAFIVERSFGGVTSGPPEKKMGIKASNTAEVYYE 292
A+IM F + PV DE TGK+V +TA + + GG EK IK N E E
Sbjct: 16 AKIMVRNGFRRLPVVDEGTGKLVGIITATDILKYLGGG-----EKFNKIKTGNGLEAINE 70
Query: 293 DVK 295
V+
Sbjct: 71 PVR 73
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
0.315 0.132 0.368
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,961,987
Number of extensions: 3375365
Number of successful extensions: 3101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3015
Number of HSP's successfully gapped: 57
Length of query: 677
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 574
Effective length of database: 6,369,140
Effective search space: 3655886360
Effective search space used: 3655886360
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 (21.6 bits)
S2: 62 (27.6 bits)