RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13265
(245 letters)
>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 = 429 bits (1105), Expect = e-153
Identities = 188/288 (65%), Positives = 216/288 (75%), Gaps = 47/288 (16%)
Query: 1 MPVVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKM 60
MPV+I+GN+ Q+KKYLGR+ EEP++ AYCVTEPGAGSDV G+KTKA KKGDE+I+NGQKM
Sbjct: 91 MPVIISGNDEQKKKYLGRMTEEPLMCAYCVTEPGAGSDVAGIKTKAEKKGDEYIINGQKM 150
Query: 61 WITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK-------------- 106
WITNGG ANWYF+LAR++PDPKCPASKAFTGFIVE DTPG+ PGRK
Sbjct: 151 WITNGGKANWYFLLARSDPDPKCPASKAFTGFIVEADTPGIQPGRKELNMGQRCSDTRGI 210
Query: 107 ---------------------------------VAAGAVGLAQRCLDEATKYALERKAFG 133
VAAGAVGLAQR LDEATKYALERK FG
Sbjct: 211 TFEDVRVPKENVLIGEGAGFKIAMGAFDKTRPPVAAGAVGLAQRALDEATKYALERKTFG 270
Query: 134 VPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCAT 193
IA HQAV+FMLADMA+ +E +RL + +AA EVD GRRNT YAS+AKA AAD+AN+ AT
Sbjct: 271 KLIAEHQAVSFMLADMAMKVELARLAYQRAAWEVDSGRRNTYYASIAKAFAADIANQLAT 330
Query: 194 DAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEK 241
DAVQ+FGGNGFNS+YPVEKLMRDAKIYQIYEGT+QIQRLI+SR + K
Sbjct: 331 DAVQIFGGNGFNSEYPVEKLMRDAKIYQIYEGTSQIQRLIISREHLGK 378
>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 = 276 bits (708), Expect = 2e-92
Identities = 123/287 (42%), Positives = 163/287 (56%), Gaps = 50/287 (17%)
Query: 1 MPVVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKM 60
P++ G E Q+KKYL L + A+ ++EPGAGSD +KT A K GD+++LNG KM
Sbjct: 90 NPIIKFGTEEQKKKYLPPLATGEKIGAFALSEPGAGSDAAALKTTAKKDGDDYVLNGSKM 149
Query: 61 WITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK-------------- 106
WITNGG A++Y V A T+P + T FIVERDTPGL+ G+K
Sbjct: 150 WITNGGEADFYIVFAVTDPSKG---YRGITAFIVERDTPGLSVGKKEDKLGIRGSSTTEL 206
Query: 107 ---------------------------------VAAGAVGLAQRCLDEATKYALERKAFG 133
+AA A+G+AQ LD A YA ERK FG
Sbjct: 207 IFEDVRVPKENILGEEGEGFKIAMQTLDGGRIGIAAQALGIAQAALDAAVDYAKERKQFG 266
Query: 134 VPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCAT 193
PIA Q + F LADMA IEA+RL KAA D G A++AK A++VA + T
Sbjct: 267 KPIADFQGIQFKLADMATEIEAARLLTYKAARLKDNGEPFIKEAAMAKLFASEVAMRVTT 326
Query: 194 DAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIE 240
DAVQ+FGG G+ DYPVE+ RDAKI +IYEGT++IQRL++++ +++
Sbjct: 327 DAVQIFGGYGYTKDYPVERYYRDAKITEIYEGTSEIQRLVIAKHLLK 373
>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 = 271 bits (695), Expect = 3e-91
Identities = 110/284 (38%), Positives = 161/284 (56%), Gaps = 50/284 (17%)
Query: 1 MPVVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKM 60
++ G E Q+++YL L +AA+ +TEPGAGSD+ G++T A K GD ++LNG+K+
Sbjct: 46 ALLLAYGTEEQKERYLPPLASGEAIAAFALTEPGAGSDLAGIRTTARKDGDGYVLNGRKI 105
Query: 61 WITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK-------------- 106
+I+NGG A+ + VLART+ + P + + F+V DTPG+T GR
Sbjct: 106 FISNGGDADLFIVLARTDEEG--PGHRGISAFLVPADTPGVTVGRIWDKMGMRGSGTGEL 163
Query: 107 ---------------------------------VAAGAVGLAQRCLDEATKYALERKAFG 133
+AA A+G A+ LDEA +YA +RK FG
Sbjct: 164 VFDDVRVPEDNLLGEEGGGFELAMKGLNVGRLLLAAVALGAARAALDEAVEYAKQRKQFG 223
Query: 134 VPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRN-TLYASVAKALAADVANKCA 192
P+A QAV F LADMA +EA+RL +AA +D G L A++AK A + A + A
Sbjct: 224 KPLAEFQAVQFKLADMAAELEAARLLLYRAAWLLDQGPDEARLEAAMAKLFATEAAREVA 283
Query: 193 TDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSR 236
A+Q+ GG G++ +YPVE+ +RDA+ +I EGTA+IQRLI++R
Sbjct: 284 DLAMQIHGGRGYSREYPVERYLRDARAARIAEGTAEIQRLIIAR 327
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 229 bits (585), Expect = 9e-74
Identities = 111/286 (38%), Positives = 159/286 (55%), Gaps = 51/286 (17%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVK-TKAVKKGDEWILNGQKMWITNG 65
G E Q+++YL RL ++ A+ +TEPGAGSD+ ++ T AV+ +++LNGQK+WI+N
Sbjct: 108 GTEEQKRRYLPRLASGELIGAFALTEPGAGSDLASLRTTAAVRDDGDYVLNGQKIWISNA 167
Query: 66 GVANWYFVLARTNPDPKCPASKAFTGFIVERD-TPGLTPGRK------------------ 106
VA+W VLART+P P K + F+V +D TPG++ G
Sbjct: 168 PVADWLLVLARTDPAP--GKHKGISLFLVPKDLTPGVSVGPILKKMGLRGSATGEVFFDD 225
Query: 107 -----------------------------VAAGAVGLAQRCLDEATKYALERKAFGVPIA 137
+AA A+G+A+ L+EA YA ERK FG PIA
Sbjct: 226 VRVPAENLLGEEGDGFKIAMETLNVERLGIAAQALGIAEAALEEAVAYARERKQFGRPIA 285
Query: 138 AHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQ 197
Q V F LADMA +EA+RL ++AA D G A++AK A + A + A +AVQ
Sbjct: 286 DFQLVQFKLADMAAELEAARLLVLRAAELADAGDDAGAEAAMAKLFATEAALEVADEAVQ 345
Query: 198 VFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKAK 243
V GG G+ +YPVE+ RDA+I +IYEGT++IQRLI++R ++
Sbjct: 346 VHGGYGYTEEYPVERYYRDARILRIYEGTSEIQRLIIARRLLGLPA 391
>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 = 208 bits (532), Expect = 5e-66
Identities = 98/280 (35%), Positives = 141/280 (50%), Gaps = 50/280 (17%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNGG 66
G+ AQ++KYL +L+ + A ++EP AGSDV +K +A KKGD ++LNG KMWITNG
Sbjct: 99 GSAAQKEKYLPKLISGEHIGALAMSEPNAGSDVVSMKLRAEKKGDRYVLNGSKMWITNGP 158
Query: 67 VANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK-------------------- 106
A+ V A+T+P + T FIVE+ PG + +K
Sbjct: 159 DADTLVVYAKTDPSAG---AHGITAFIVEKGMPGFSRAQKLDKLGMRGSNTCELVFEDCE 215
Query: 107 ---------------------------VAAGAVGLAQRCLDEATKYALERKAFGVPIAAH 139
+A G +G+ Q LD A YA +RK FG PI
Sbjct: 216 VPEENILGGENKGVYVLMSGLDYERLVLAGGPIGIMQAALDVAIPYAHQRKQFGQPIGEF 275
Query: 140 QAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQVF 199
Q V LADM + ASR A D G + A+ AA+ A + A DA+Q+
Sbjct: 276 QLVQGKLADMYTRLNASRSYLYTVAKACDRGNMDPKDAAGVILYAAEKATQVALDAIQIL 335
Query: 200 GGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAII 239
GGNG+ +DYP +L+RDAK+Y+I GT++I+R+++ R +
Sbjct: 336 GGNGYINDYPTGRLLRDAKLYEIGAGTSEIRRMVIGRELF 375
>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 = 196 bits (500), Expect = 2e-61
Identities = 99/283 (34%), Positives = 152/283 (53%), Gaps = 52/283 (18%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNGG 66
GN+ Q++++L L +A+YC+TEPG+GSD ++T+AV++GD ++LNG K +I+ G
Sbjct: 97 GNDEQRERFLPDLCTMEKLASYCLTEPGSGSDAAALRTRAVREGDHYVLNGSKAFISGAG 156
Query: 67 VANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK-------------------- 106
++ Y V+ART + K + F+VE+ TPGL+ G
Sbjct: 157 DSDVYVVMARTGGE----GPKGISCFVVEKGTPGLSFGANEKKMGWNAQPTRAVIFEDCR 212
Query: 107 ---------------------------VAAGAVGLAQRCLDEATKYALERKAFGVPIAAH 139
+A+ ++G AQ LD A Y ERK FG P+A
Sbjct: 213 VPVENRLGGEGQGFGIAMAGLNGGRLNIASCSLGAAQAALDLARAYLEERKQFGKPLADF 272
Query: 140 QAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRN-TLYASVAKALAADVANKCATDAVQV 198
QA+ F LADMA + ASRL +AA+ +D G + ++AK A D A A+Q+
Sbjct: 273 QALQFKLADMATELVASRLMVRRAASALDRGDPDAVKLCAMAKRFATDECFDVANQALQL 332
Query: 199 FGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEK 241
GG G+ DYPVE+ +RD +++QI EGT +I RLI++RA++ +
Sbjct: 333 HGGYGYLKDYPVEQYVRDLRVHQILEGTNEIMRLIIARALLTR 375
>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 = 191 bits (487), Expect = 2e-59
Identities = 89/281 (31%), Positives = 143/281 (50%), Gaps = 49/281 (17%)
Query: 6 AGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNG 65
AG+ Q+++ L ++V + A +TEPGAGSD+ G++T A K GD ++LNG K +ITNG
Sbjct: 94 AGSPEQKERVLPQMVAGKKIGAIAMTEPGAGSDLQGIRTTARKDGDHYVLNGSKTFITNG 153
Query: 66 GVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRK------------------- 106
+A+ V+ART + + + + F+VER TPG + GRK
Sbjct: 154 MLADVVIVVARTGGEAR--GAGGISLFLVERGTPGFSRGRKLKKMGWKAQDTAELFFDDC 211
Query: 107 ----------------------------VAAGAVGLAQRCLDEATKYALERKAFGVPIAA 138
+AAGA+ A+ L+E Y +RKAFG +A
Sbjct: 212 RVPAENLLGEENKGFYYLMQNLPQERLLIAAGALAAAEFMLEETRNYVKQRKAFGKTLAQ 271
Query: 139 HQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQV 198
Q V +A++A + +R A + GR + AS+AK A ++ N+ A + VQ+
Sbjct: 272 LQVVRHKIAELATKVAVTRAFLDNCAWRHEQGRLDVAEASMAKYWATELQNRVAYECVQL 331
Query: 199 FGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAII 239
GG G+ +YP+ + RDA++ IY GT +I + ++SR ++
Sbjct: 332 HGGWGYMREYPIARAYRDARVQPIYGGTTEIMKELISRQMV 372
>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 = 181 bits (460), Expect = 7e-55
Identities = 88/293 (30%), Positives = 141/293 (48%), Gaps = 52/293 (17%)
Query: 2 PVVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKK--GDEWILNGQK 59
+++ G EAQ++KYL +L +AA+ +TEP +GSD ++T AV G ++LNG K
Sbjct: 116 GILLFGTEAQKEKYLPKLASGEWIAAFALTEPSSGSDAASIRTTAVLSEDGKHYVLNGSK 175
Query: 60 MWITNGGVANWYFVLARTN-PDPKCPASKAFTGFIVERDTPGLTPGR------------- 105
+WITNGG+A+ + V A+T D T FIVER G+T G
Sbjct: 176 IWITNGGIADIFTVFAKTEVKDATGSVKDKITAFIVERSFGGVTNGPPEKKMGIKGSNTA 235
Query: 106 ----------------------------------KVAAGAVGLAQRCLDEATKYALERKA 131
+ A +G +RC+++A YA RK
Sbjct: 236 EVYFEDVKIPVENVLGEVGDGFKVAMNILNNGRFGMGAALIGTMKRCIEKAVDYANNRKQ 295
Query: 132 FGVPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVD--LGRRNTLYASVAKALAADVAN 189
FG I + LA+MAI A+ + +D L + A+++K A++ A
Sbjct: 296 FGKKIHEFGLIQEKLANMAILQYATESMAYMTSGNMDRGLKAEYQIEAAISKVFASEAAW 355
Query: 190 KCATDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKA 242
+A+Q+ GG GF +Y VE+++RD +I++I+EGT +I RL ++ ++ A
Sbjct: 356 LVVDEAIQIHGGMGFMREYGVERVLRDLRIFRIFEGTNEILRLFIALTGLQHA 408
>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 = 156 bits (397), Expect = 1e-48
Identities = 60/133 (45%), Positives = 94/133 (70%)
Query: 107 VAAGAVGLAQRCLDEATKYALERKAFGVPIAAHQAVAFMLADMAIGIEASRLTWMKAAAE 166
+AA A+GLA+R LDEA +YA +RKAFG P+ Q + LADMA +EA+RL +AA
Sbjct: 18 IAAAALGLARRALDEAIEYARQRKAFGRPLIDFQLIRHKLADMAAELEAARLLVYRAAEA 77
Query: 167 VDLGRRNTLYASVAKALAADVANKCATDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGT 226
+D G + A++AK A+++A + A A+Q+ GG G++ +YP+E+L RDA++ +I EGT
Sbjct: 78 LDAGGPDPAEAAMAKLYASELAQEVADLAMQLLGGYGYSREYPLERLYRDARVLRIGEGT 137
Query: 227 AQIQRLIVSRAII 239
++IQR I++R ++
Sbjct: 138 SEIQRNIIARRLL 150
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 163 bits (414), Expect = 3e-48
Identities = 91/281 (32%), Positives = 137/281 (48%), Gaps = 50/281 (17%)
Query: 3 VVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWI 62
+V G AQ++KYL +L+ V A ++EP +GSDV +K KA + ++LNG KMW
Sbjct: 121 LVRNGTPAQKEKYLPKLISGEHVGALAMSEPNSGSDVVSMKCKAERVDGGYVLNGNKMWC 180
Query: 63 TNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRKV--------------- 107
TNG VA V A+T+ SK T FI+E+ PG + +K+
Sbjct: 181 TNGPVAQTLVVYAKTDV---AAGSKGITAFIIEKGMPGFSTAQKLDKLGMRGSDTCELVF 237
Query: 108 --------------------------------AAGAVGLAQRCLDEATKYALERKAFGVP 135
AAG +GL Q CLD Y +R+ FG P
Sbjct: 238 ENCFVPEENVLGQEGKGVYVMMSGLDLERLVLAAGPLGLMQACLDVVLPYVRQREQFGRP 297
Query: 136 IAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDA 195
I Q + LADM +++SR A + D G+ + + AA+ A + A A
Sbjct: 298 IGEFQFIQGKLADMYTSLQSSRSYVYSVARDCDNGKVDRKDCAGVILCAAERATQVALQA 357
Query: 196 VQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSR 236
+Q GGNG+ ++YP +L+RDAK+Y+I GT++I+R+++ R
Sbjct: 358 IQCLGGNGYINEYPTGRLLRDAKLYEIGAGTSEIRRMLIGR 398
>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 = 160 bits (406), Expect = 4e-47
Identities = 88/283 (31%), Positives = 128/283 (45%), Gaps = 52/283 (18%)
Query: 2 PVVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMW 61
P+ G+E Q++KYL +L ++ + +TEP GSD G++T+A K G + LNG K W
Sbjct: 104 PIYDFGSEEQKQKYLPKLASGELIGCFGLTEPNHGSDPGGMETRARKDGGGYKLNGSKTW 163
Query: 62 ITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT------------------- 102
ITN +A+ + V AR + K GFI+ER GL+
Sbjct: 164 ITNSPIADVFVVWARNDETGK------IRGFILERGMKGLSAPKIQGKFSLRASITGEIV 217
Query: 103 ------------PGRK---------------VAAGAVGLAQRCLDEATKYALERKAFGVP 135
PG + +A GA+G A+ C A +Y L+RK FG P
Sbjct: 218 MDNVFVPEENLLPGAEGLRGPFKCLNNARYGIAWGALGAAEDCYHTARQYVLDRKQFGRP 277
Query: 136 IAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDA 195
+AA Q V LADM I L ++ D G+ S+ K A + A A
Sbjct: 278 LAAFQLVQKKLADMLTEIALGLLACLRVGRLKDQGKATPEQISLLKRNNCGKALEIARTA 337
Query: 196 VQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAI 238
++ GGNG + +Y + + M + + YEGT I LI+ RAI
Sbjct: 338 REMLGGNGISDEYHIIRHMVNLESVNTYEGTHDIHALILGRAI 380
>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 = 147 bits (373), Expect = 3e-42
Identities = 90/309 (29%), Positives = 122/309 (39%), Gaps = 78/309 (25%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGD-EWILNGQKMWITNG 65
G EAQ++K++ RL E C+TEP AGSD+ ++TKAV + D W +NG K +I+ G
Sbjct: 100 GTEAQREKWIPRLAEGEWTGTMCLTEPDAGSDLGALRTKAVYQADGSWRINGVKRFISAG 159
Query: 66 GVANW----YFVLARTNPDPKCPASKAFTGFIV-------ERDT---------------- 98
+ VLAR+ P P K + F+V ER+
Sbjct: 160 EHDMSENIVHLVLARSEGAP--PGVKGLSLFLVPKFLDDGERNGVTVARIEEKMGLHGSP 217
Query: 99 ---------PGLTPGRK-----------------VAAGAVGLAQRCLDEATKYALERKAF 132
G G + V GLA+ A YA ERK
Sbjct: 218 TCELVFDNAKGELIGEEGMGLAQMFAMMNGARLGVGTQGTGLAEAAYLNALAYAKERKQG 277
Query: 133 G--------VPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRR------------ 172
G V I H V L E SR + A DL R
Sbjct: 278 GDLIKAAPAVTIIHHPDVRRSLMTQKAYAEGSRALDLYTATVQDLAERKATEGEDRKALS 337
Query: 173 --NTLYASVAKALAADVANKCATDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQ 230
L V K ++ A + +DA+QV GG+G+ +YP+E+ RDA+I IYEGT IQ
Sbjct: 338 ALADLLTPVVKGFGSEAALEAVSDAIQVHGGSGYTREYPIEQYYRDARITTIYEGTTGIQ 397
Query: 231 RLIVSRAII 239
L + I
Sbjct: 398 ALDLIGRKI 406
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 141 bits (358), Expect = 5e-40
Identities = 88/286 (30%), Positives = 139/286 (48%), Gaps = 56/286 (19%)
Query: 6 AGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDE-WILNGQKMWITN 64
+ + AQ+ ++L +++ V A ++EPGAG+DV G++T A K + ++LNG K+WITN
Sbjct: 133 SASPAQRARWLPKVLTGEHVGAMGMSEPGAGTDVLGMRTTAKKDSNGNYVLNGSKIWITN 192
Query: 65 GGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTPGRKV----------------- 107
G VA+ + + A+ + T F+VER T G T G K+
Sbjct: 193 GTVADVFLIYAKVD--------GKITAFVVERGTKGFTQGPKIDKCGMRASHMCQLFFED 244
Query: 108 ------------------------------AAGAVGLAQRCLDEATKYALERKAFGVPIA 137
AA AVG+A+R ++ T YA ERKAFG PI+
Sbjct: 245 VVVPAENLLGEEGKGMVGMMRNLELERVTLAAMAVGIAERSVELMTSYASERKAFGKPIS 304
Query: 138 AHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQ 197
+ +A+ EA++ + V G +N L + AK A +A K A A+Q
Sbjct: 305 NFGQIQRYIAEGYADTEAAKALVYSVSHNVHPGNKNRLGSDAAKLFATPIAKKVADSAIQ 364
Query: 198 VFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKAK 243
V GG G++ D PVE+L RDAK+ +I GT + +++ +++ K
Sbjct: 365 VMGGMGYSRDMPVERLWRDAKLLEIGGGTIEAHHKNITKDLLKGLK 410
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 139 bits (352), Expect = 3e-39
Identities = 86/284 (30%), Positives = 124/284 (43%), Gaps = 49/284 (17%)
Query: 7 GNEAQQKKYLGRLVEEPIVA-AYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNG 65
G+ Q +K +E A A +TEPGAGSD N T +K + LNGQK +IT
Sbjct: 100 GSAEQLRKTAESTLETGDPAYALALTEPGAGSDNNSATTTYTRKNGKVYLNGQKTFITGA 159
Query: 66 GVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT--PGRKV---------------- 107
+ VLAR +P PK P KAFT + V+ PG+ P K+
Sbjct: 160 KEYPYMLVLAR-DPQPKDPK-KAFTLWWVDSSKPGIKINPLHKIGWHMLSTCEVYLDNVE 217
Query: 108 ----------------------------AAGAVGLAQRCLDEATKYALERKAFGVPIAAH 139
AA ++G A+ ++A +YA +R FG PI +
Sbjct: 218 VEESDLVGEEGMGFLNVMYNFEMERLINAARSLGFAECAFEDAARYANQRIQFGKPIGHN 277
Query: 140 QAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQVF 199
Q + L MAI IE R K A + D G+ A++AK A A + DA+Q+
Sbjct: 278 QLIQEKLTLMAIKIENMRNMVYKVAWQADNGQSLRTSAALAKLYCARTAMEVIDDAIQIM 337
Query: 200 GGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKAK 243
GG G+ + V + RD + +I GT +I I R I++ +
Sbjct: 338 GGLGYTDEARVSRFWRDVRCERIGGGTDEIMIYIAGRQILKDYQ 381
>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 (314), Expect = 1e-33
Identities = 72/287 (25%), Positives = 128/287 (44%), Gaps = 52/287 (18%)
Query: 2 PVVIA-GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKM 60
P ++A G + Q++++L ++ + +EPGAGSD+ G++T+AV+ GD+W++NGQK+
Sbjct: 94 PTILAYGTDEQKRRFLPPILSGEEIWCQGFSEPGAGSDLAGLRTRAVRDGDDWVVNGQKI 153
Query: 61 WITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT--PGRKVAA--------- 109
W + A+W ++L RT+P+ P + + +V+ D+PG+T P R +
Sbjct: 154 WTSGAHYADWAWLLVRTDPE--APKHRGISILLVDMDSPGVTVRPIRSINGGEFFNEVFL 211
Query: 110 -----------GAVG----LAQRCLD---------------EATKYALERKAFGVPIAAH 139
G V +A L+ L G P+
Sbjct: 212 DDVRVPDANRVGEVNDGWKVAMTTLNFERVSIGGSAATFFELLLARLLLLTRDGRPLIDD 271
Query: 140 QAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQVF 199
V LA + EA RL + A+ + G+ AS+AK +++A + A A+++
Sbjct: 272 PLVRQRLARLEAEAEALRLLVFRLASALAAGKPPGAEASIAKLFGSELAQELAELALELL 331
Query: 200 G--------GNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAI 238
G G E ++ IY GT++IQR I++ +
Sbjct: 332 GTAALLRDPAPGAELAGRWEADYLRSRATTIYGGTSEIQRNIIAERL 378
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 119 bits (301), Expect = 9e-32
Identities = 82/282 (29%), Positives = 115/282 (40%), Gaps = 52/282 (18%)
Query: 3 VVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWI 62
+ + G+EAQ++KYL L + VA + +TEP GSD + + T A K WILNGQK WI
Sbjct: 121 IALCGSEAQKQKYLPSLAQLDTVACWALTEPDYGSDASSLNTTATKVEGGWILNGQKRWI 180
Query: 63 TNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT-------------------- 102
N A+ + AR + GFIV++ PGL
Sbjct: 181 GNSTFADVLVIFARNT------TTNQINGFIVKKGAPGLKATKIENKIGLRMVQNGDIVL 234
Query: 103 -----------PGRK---------------VAAGAVGLAQRCLDEATKYALERKAFGVPI 136
PG VA +G++ D +Y ERK FG P+
Sbjct: 235 KDVFVPDEDRLPGVNSFQDTNKVLAVSRVMVAWQPIGISMGVYDMCHRYLKERKQFGAPL 294
Query: 137 AAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAV 196
AA Q L M I+A L + + G+ +AS+ KA A +
Sbjct: 295 AAFQINQEKLVRMLGNIQAMFLVGWRLCKLYESGKMTPGHASLGKAWITKKARETVALGR 354
Query: 197 QVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAI 238
++ GGNG +D+ V K D + YEGT I L+ R I
Sbjct: 355 ELLGGNGILADFLVAKAFCDLEPIYTYEGTYDINALVTGREI 396
>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 = 112 bits (282), Expect = 4e-29
Identities = 74/273 (27%), Positives = 121/273 (44%), Gaps = 55/273 (20%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPG-AGSDVNGVKTKAVKKGDEWILNGQKMWITNG 65
G+E Q+K++L L++ I +A+ +TEP A SD ++ + GD++++NG+K W +
Sbjct: 108 GSEEQKKQWLEPLLDGKIRSAFAMTEPDVASSDATNIECSIERDGDDYVINGRKWWSSGA 167
Query: 66 G--VANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT--------------------- 102
G V+ RT+PD P + + +V DTPG+T
Sbjct: 168 GDPRCKIAIVMGRTDPDGA-PRHRQQSMILVPMDTPGVTIIRPLSVFGYDDAPHGHAEIT 226
Query: 103 ---------------------------PGR-KVAAGAVGLAQRCLDEATKYALERKAFGV 134
PGR +G A+R L+ + A+ R+AFG
Sbjct: 227 FDNVRVPASNLILGEGRGFEIAQGRLGPGRIHHCMRLIGAAERALELMCQRAVSREAFGK 286
Query: 135 PIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVD-LGRRNTL-YASVAKALAADVANKCA 192
+A H VA +A I IE +RL +KAA +D +G + ++ K A +A K
Sbjct: 287 KLAQHGVVAHWIAKSRIEIEQARLLVLKAAHMIDTVGNKAARKEIAMIKVAAPRMALKII 346
Query: 193 TDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEG 225
A+QV G G + D P+ + A+ +I +G
Sbjct: 347 DRAIQVHGAAGVSQDTPLANMYAWARTLRIADG 379
>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 = 104 bits (262), Expect = 2e-26
Identities = 77/274 (28%), Positives = 129/274 (47%), Gaps = 57/274 (20%)
Query: 13 KKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNGGVANWYF 72
K +LG+L+ + A +TEP GSD ++ +A + GD+++LNG+K I+ A+
Sbjct: 103 KPWLGQLIAGEALFAIALTEPRGGSDAARLRLRAERDGDDYVLNGEKTSISAADQADAAV 162
Query: 73 VLARTNPDPKCPASKAFTGFIVERDTPGLTPG-------RKVAAGAV------------- 112
V ART + + ++ + F+V D PG+T R + G++
Sbjct: 163 VFARTGSEAE--GARGISAFLVPMDLPGITRNRFDCHGQRAIGRGSIFFENVRVPADHML 220
Query: 113 --------------------------GLAQRCLDEATKYALERKAFGVPIAAHQAVAFML 146
+A+ LDE +Y ER+AFG P++A Q V+ L
Sbjct: 221 GNEGQGFVQVMQGFDFSRALIGLQVLAVARAALDETWRYVAERQAFGKPLSAFQGVSHPL 280
Query: 147 ADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAK----ALAADVANKCATDAVQVFGGN 202
AD +EA+RL ++ D G +T A++ K LA DV ++C + G
Sbjct: 281 ADAETQVEAARLLCLQTLWLKDHGLPHTSEAAMCKWWAPKLAYDVIHQC----LLTHGHG 336
Query: 203 GFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSR 236
G++ +E+ +RD +QI +GTAQI + I++R
Sbjct: 337 GYDRG-DMEQRLRDVLGFQIGDGTAQIMKTIIAR 369
>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 = 105 bits (264), Expect = 2e-26
Identities = 74/282 (26%), Positives = 117/282 (41%), Gaps = 61/282 (21%)
Query: 15 YLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVK-KGDEWILNGQKMWITNGGVANWYFV 73
L + ++ +TE GSD+ +T A + G + LNG K W + +A+ V
Sbjct: 138 LLSDRYKTGLLGGTWMTEKQGGSDLGANETTAERSGGGVYRLNGHK-WFASAPLADAALV 196
Query: 74 LARTNPDPKCPASKAFTGFIVERDTPGLT------------------------------- 102
LAR P ++ + F+V R T
Sbjct: 197 LARPEGAP--AGARGLSLFLVPRLLEDGTRNGYRIRRLKDKLGTRSVATGEVEFDDAEAY 254
Query: 103 ----PGRKV--------------AAGAVGLAQRCLDEATKYALERKAFGVPIAAHQAVAF 144
G+ + A A+G+ +R L EA YA R+AFG P+ H +
Sbjct: 255 LIGDEGKGIYYILEMLNISRLDNAVAALGIMRRALSEAYHYARHRRAFGKPLIDHPLMRR 314
Query: 145 MLADMAIGIEASRLTWMKAAAEVDL--GRRNTLYA------SVAKALAADVANKCATDAV 196
LA+M + +EA+ +AA D + VAK +A A ++A+
Sbjct: 315 DLAEMEVDVEAATALTFRAARAFDRAAADKPVEAHMARLATPVAKLIACKRAAPVTSEAM 374
Query: 197 QVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAI 238
+VFGGNG+ ++PV +L R+A++ I+EGT IQ L V R +
Sbjct: 375 EVFGGNGYLEEWPVARLHREAQVTPIWEGTGNIQALDVLRVL 416
>gnl|CDD|179566 PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated.
Length = 380
Score = 95.7 bits (238), Expect = 6e-23
Identities = 68/283 (24%), Positives = 118/283 (41%), Gaps = 49/283 (17%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNGG 66
G + Q K + + +TEPGAGSDV +KT ++ + LNG K +IT+
Sbjct: 101 GTQEQIDKIMAFRGTGKQMWNSAITEPGAGSDVGSLKTTYTRRNGKVYLNGSKCFITSSA 160
Query: 67 VANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLTP----------------------- 103
+ V+AR P P +T + V+ PG+
Sbjct: 161 YTPYIVVMARDGASPDKPV---YTEWFVDMSKPGIKVTKLEKLGLRMDSCCEITFDDVEL 217
Query: 104 ------GRK-----------------VAAGAVGLAQRCLDEATKYALERKAFGVPIAAHQ 140
GR+ VA G A ++A +YA +R FG I Q
Sbjct: 218 DEKDMFGREGNGFNRVKEEFDHERFLVALTNYGTAMCAFEDAARYANQRVQFGEAIGRFQ 277
Query: 141 AVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQVFG 200
+ A MAI + + + +AA + D G + A++ K A+ A + A+QV G
Sbjct: 278 LIQEKFAHMAIKLNSMKNMLYEAAWKADNGTITSGDAAMCKYFCANAAFEVVDSAMQVLG 337
Query: 201 GNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKAK 243
G G ++ + + RD ++ ++ G+ ++Q L + RA++++ +
Sbjct: 338 GVGIAGNHRISRFWRDLRVDRVSGGSDEMQILTLGRAVLKQYR 380
>gnl|CDD|215473 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 89.9 bits (223), Expect = 2e-20
Identities = 78/294 (26%), Positives = 132/294 (44%), Gaps = 62/294 (21%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPG-AGSDVNGVKTKAVKKGDEWILNGQKMWITNG 65
GN+ QQ ++L L+E I + + +TEP A SD ++ ++GD +++NG K W T+G
Sbjct: 533 GNKEQQLEWLIPLLEGKIRSGFAMTEPQVASSDATNIECSIRRQGDSYVINGTKWW-TSG 591
Query: 66 GV---ANWYFVLARTNPDPKCPASKAFTGFIVERDTPG---------------------- 100
+ V+ +T D P K + +V+ TPG
Sbjct: 592 AMDPRCRVLIVMGKT--DFNAPKHKQQSMILVDIQTPGVQIKRPLLVFGFDDAPHGHAEI 649
Query: 101 -------------LTPGR--KVAAGA------------VGLAQRCLDEATKYALERKAFG 133
L GR ++A G +G A+R + + AL RKAFG
Sbjct: 650 SFENVRVPAKNILLGEGRGFEIAQGRLGPGRLHHCMRLIGAAERGMQLMVQRALSRKAFG 709
Query: 134 VPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVD-LGR---RNTLYASVAKALAADVAN 189
IA H + LA + +E +RL ++AA ++D LG R + ++AK A ++A
Sbjct: 710 KLIAQHGSFLSDLAKCRVELEQTRLLVLEAADQLDRLGNKKARGII--AMAKVAAPNMAL 767
Query: 190 KCATDAVQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRLIVSRAIIEKAK 243
K A+QV G G +SD + L A+ +I +G ++ +++ +++AK
Sbjct: 768 KVLDMAMQVHGAAGVSSDTVLAHLWATARTLRIADGPDEVHLGTIAKLELQRAK 821
>gnl|CDD|145755 pfam02770, Acyl-CoA_dh_M, Acyl-CoA dehydrogenase, middle domain.
Central domain of Acyl-CoA dehydrogenase has a
beta-barrel fold.
Length = 52
Score = 79.8 bits (198), Expect = 6e-20
Identities = 28/51 (54%), Positives = 38/51 (74%)
Query: 27 AYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNGGVANWYFVLART 77
A+ +TEPGAGSD+ ++T A + GD W+LNG+K WITN +A+ VLART
Sbjct: 1 AFALTEPGAGSDLASLETTAERDGDGWVLNGRKWWITNAALADLALVLART 51
>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 = 80.5 bits (198), Expect = 1e-17
Identities = 43/102 (42%), Positives = 61/102 (59%), Gaps = 3/102 (2%)
Query: 2 PVVIA-GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKM 60
PV+ GNE Q+K++L R+ +EPG+GSD+ +KTKA KKGD+WI+NGQK
Sbjct: 98 PVIYTFGNEEQKKRFLPRIANVDDWWCQGFSEPGSGSDLASLKTKAEKKGDKWIINGQKT 157
Query: 61 WITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT 102
W T A+W F L RT+P K +F +V+ + G+T
Sbjct: 158 WTTLAQHADWIFCLCRTDPTAKKQMGISF--ILVDMKSKGIT 197
>gnl|CDD|219705 pfam08028, Acyl-CoA_dh_2, Acyl-CoA dehydrogenase, C-terminal
domain.
Length = 134
Score = 69.6 bits (171), Expect = 4e-15
Identities = 40/130 (30%), Positives = 56/130 (43%), Gaps = 10/130 (7%)
Query: 107 VAAGAVGLAQRCLDEATKYALERK--AFGVPIAAHQAVAFMLADMAIGIEASRLTWMKAA 164
AA A+G A+ L + A ER G P+A A LA+ A I+A+RL +AA
Sbjct: 3 FAAPALGAARGALAAFIERARERVRAYGGAPLAEDPATQTRLAEAAAEIDAARLLLERAA 62
Query: 165 ----AEVDLGRRNT----LYASVAKALAADVANKCATDAVQVFGGNGFNSDYPVEKLMRD 216
A D G T A ALAA++A + GG+ D P+++ RD
Sbjct: 63 DRIWAHADRGDEVTPEERARARRDAALAAELAVAAVDRLFRAAGGSALFKDSPLQRFWRD 122
Query: 217 AKIYQIYEGT 226
A + G
Sbjct: 123 AHAGAAHAGL 132
>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 = 67.7 bits (165), Expect = 4e-13
Identities = 62/249 (24%), Positives = 95/249 (38%), Gaps = 44/249 (17%)
Query: 6 AGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWITNG 65
AG+ AQ+ +L +++ A+ E + D+ V T A K GD W+++G+K + NG
Sbjct: 100 AGSAAQKAAHLPGIIDGSKTFAFAQLEKNSRYDLGDVSTTAKKTGDGWVIDGEKFVVLNG 159
Query: 66 GVANWYFVLARTNPDPK---------CPASK-------------------AFTGFIVERD 97
A+ V ART + PA FTG +V D
Sbjct: 160 ETADTLIVTARTKGARRDRTGIGVFLVPAGAKGVTIKGYPTQDGLHAADITFTGVVVGAD 219
Query: 98 TPGLTPGRKVA--------------AGAVGLAQRCLDEATKYALERKAFGVPIAAHQAVA 143
P + A AVGL L +Y RK FGVPI + Q +
Sbjct: 220 AAIGDPENALPLIERVVDDARAALCAEAVGLMDESLKTTVEYIKTRKQFGVPIGSFQVLQ 279
Query: 144 FMLADMAIGIEASRLTWMKA--AAEVDLGRRNTLYASVAKALAADVANKCATDAVQVFGG 201
ADM + +E +R M A A++ D + + AK ++Q+ GG
Sbjct: 280 HRAADMFVAVEQARSMAMFATMASDFDDAKERANAIAAAKVQIGKSLKFVGQQSIQLHGG 339
Query: 202 NGFNSDYPV 210
G + +
Sbjct: 340 IGMTMEAKI 348
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 54.5 bits (131), Expect = 1e-08
Identities = 33/98 (33%), Positives = 50/98 (51%), Gaps = 7/98 (7%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGD-EWILNGQKMWITNG 65
G+E Q+++YL +LV C+TEP G+D+ VKTKA D + + G K++I+ G
Sbjct: 164 GSEEQKEQYLTKLVSGEWSGTMCLTEPQCGTDLGQVKTKAEPSADGSYKITGTKIFISAG 223
Query: 66 G---VAN-WYFVLARTNPDPKCPASKAFTGFIVERDTP 99
N + VLAR P +K + F+V R
Sbjct: 224 DHDLTENIVHIVLARLPNSL--PTTKGLSLFLVPRHVV 259
Score = 46.8 bits (111), Expect = 5e-06
Identities = 30/97 (30%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 141 AVAFMLADMAIGIEASRLTWMKAAAEV-----DLGRRNTLYASVAKALAADVANKCATDA 195
A A A+ ++ RL + AAA+ L Y +AK + + A+
Sbjct: 375 AKAVAEGGRALLLDVGRLLDIHAAAKDAATREALDHEIGFYTPIAKGCLTEWGVEAASRC 434
Query: 196 VQVFGGNGFNSDYPVEKLMRDAKIYQIYEGTAQIQRL 232
+QV+GG+G+ +E+++RDA+I +YEGT IQ L
Sbjct: 435 LQVWGGHGYIKGNGMEQILRDARIGTLYEGTTGIQAL 471
>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 = 43.9 bits (104), Expect = 4e-05
Identities = 28/113 (24%), Positives = 41/113 (36%), Gaps = 13/113 (11%)
Query: 1 MPVVIA-GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAV--KKGDEWILN- 56
+ G + Q +L I+ + TE G GS++ G++T A E+++N
Sbjct: 110 GNAIKNLGTDEHQDYWLQGANNLEIIGCFAQTELGHGSNLQGLETTATYDPLTQEFVINT 169
Query: 57 ----GQKMWITNGGV-ANWYFVLARTNPDPKCPASKAFTGFIVE-RDTPGLTP 103
K W N G A V A+ K FIV RD P
Sbjct: 170 PDFTATKWWPGNLGKTATHAVVFAQLITPGKN---HGLHAFIVPIRDPKTHQP 219
>gnl|CDD|183199 PRK11561, PRK11561, isovaleryl CoA dehydrogenase; Provisional.
Length = 538
Score = 42.0 bits (99), Expect = 1e-04
Identities = 40/142 (28%), Positives = 65/142 (45%), Gaps = 16/142 (11%)
Query: 108 AAGAVGLAQRCLDEATKYALERKAFGVPIAAHQAVAFMLADMAIGIEAS-----RL--TW 160
A G+ GL +R A +A +R+ FG P+ + +L+ MA+ +E RL W
Sbjct: 303 ALGSHGLMRRAFSVAIYHAHQRQVFGKPLIEQPLMRQVLSRMALQLEGQTALLFRLARAW 362
Query: 161 MK--AAAEVDLGRRNTLYA--SVAKALAADVANKCATDAVQVFGGNGFNSDYPVEKLMRD 216
+ A E R T A + K VA +A++V GG G+ + + +L R+
Sbjct: 363 DRRADAKEALWARLFTPAAKFVICKRGIPFVA-----EAMEVLGGIGYCEESELPRLYRE 417
Query: 217 AKIYQIYEGTAQIQRLIVSRAI 238
+ I+EG+ I L V R +
Sbjct: 418 MPVNSIWEGSGNIMCLDVLRVL 439
>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 = 41.1 bits (97), Expect = 3e-04
Identities = 58/256 (22%), Positives = 90/256 (35%), Gaps = 78/256 (30%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAY----CVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMWI 62
G+E Q++ + G ++A +E G +V +T+ + GD + LNG+K +
Sbjct: 98 GSEEQKRFFFGE-----VLAGERFGNAFSERG-TRNVLDFQTRLRRDGDGYRLNGRKFYS 151
Query: 63 TNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT-------------------- 102
T A+W VLA D AF V RD PGLT
Sbjct: 152 TGALFAHWIPVLAL---DDDGRPVLAF----VPRDAPGLTVIDDWSGFGQRTTASGTVLL 204
Query: 103 -----------PGRKV-----AAGAV----------GLAQRCLDEATKYALER------- 129
P ++ AAG V G+A+ L + + ER
Sbjct: 205 DDVRVPAEHVVPIQRAFDRPTAAGPVAQIIHAAIDAGIARAALADTLAFVRERARPWIDS 264
Query: 130 ---KAFGVPIAAHQAVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKALAAD 186
+A P+ + + D+AI + A+ +A VD R SVA A A
Sbjct: 265 GVERASDDPLTIAE-----VGDLAIRLHAAEALLERAGRAVDAARAEPTEESVAAASIAV 319
Query: 187 VANKCATDAVQVFGGN 202
K T + + +
Sbjct: 320 AEAKVLTTEIALLAAS 335
>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 = 38.9 bits (91), Expect = 0.001
Identities = 29/142 (20%), Positives = 52/142 (36%), Gaps = 16/142 (11%)
Query: 104 GRKVAAGAVGLAQRCLDEATKYALER---KAFGVPIAAHQAVAFMLADMAIGIEASRLTW 160
AA ++G A+ L E + A +R V +A LA+ A ++A+R
Sbjct: 222 PLSFAAVSLGAAEGALAEFLELAGKRVRQYGAAVKMAEAPITQLRLAEAAAELDAARAFL 281
Query: 161 MKAAAEVDLGRRNTLYASV-----AKALAADVANKCATDAVQVF---GGNGFNSDYPVEK 212
+A ++ V + AA A A ++F GG+ + P+++
Sbjct: 282 ERATRDLWAHALAGGPIDVEERARIRRDAAYAAKLSAEAVDRLFHAAGGSALYTASPLQR 341
Query: 213 LMRDAK-----IYQIYEGTAQI 229
+ RD E A+
Sbjct: 342 IWRDIHAAAQHAALNPETAAEA 363
>gnl|CDD|178062 PLN02443, PLN02443, acyl-coenzyme A oxidase.
Length = 664
Score = 38.7 bits (90), Expect = 0.002
Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAV--KKGDEWILN 56
G E QQKK+L + I+ Y TE G GS+V G++T A K DE++++
Sbjct: 114 GTEEQQKKWLPLAYKMQIIGCYAQTELGHGSNVQGLETTATFDPKTDEFVIH 165
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 38.7 bits (90), Expect = 0.002
Identities = 33/116 (28%), Positives = 53/116 (45%), Gaps = 12/116 (10%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAV--KKGDEWILN-----GQK 59
G + Q ++ L+ IV Y TE G GSDV ++T A K+ +E++++ K
Sbjct: 110 GTDEQINLWMPSLLNFEIVGCYAQTELGHGSDVQNLETTATYDKQTNEFVIHTPSVEAVK 169
Query: 60 MWITN-GGVANWYFVLARTNPDPKCPASKAFTGFIVE-RDTPGLTPGRKVAAGAVG 113
W G + N+ V A+ + K +K F+V RD P + V G +G
Sbjct: 170 FWPGELGFLCNFALVYAKLIVNGK---NKGVHPFMVRIRDKETHKPLQGVEVGDIG 222
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 38.4 bits (90), Expect = 0.002
Identities = 59/265 (22%), Positives = 94/265 (35%), Gaps = 75/265 (28%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVN-----GVKTKAVKKGDEWI---LNGQ 58
G + Q+ +L RL + + + +T P AGSD G+ + +G+E + L
Sbjct: 175 GTQEQKDYWLPRLADGTEIPCFALTGPEAGSDAGAIPDTGIVCRGEFEGEEVLGLRLTWD 234
Query: 59 KMWITNGGVANWYFV--LARTNPDPKC----PASKAFTGFIVERDTPGLTPGRK------ 106
K +IT VA V LA DP T ++ D PG+ GR+
Sbjct: 235 KRYITLAPVAT---VLGLAFKLRDPDGLLGDKKELGITCALIPTDHPGVEIGRRHNPLGM 291
Query: 107 ------------------------------------VAAG--------AVGLAQRCLDEA 122
++AG
Sbjct: 292 AFMNGTTRGKDVFIPLDWIIGGPDYAGRGWRMLVECLSAGRGISLPALGTASGHMATRTT 351
Query: 123 TKYALERKAFGVPIAAHQAVAFMLADMA---IGIEASR-LTWMKAAAEVDLGRRNTLYAS 178
YA R+ FG+PI + V LA +A +EA+R LT +DLG + ++ +
Sbjct: 352 GAYAYVRRQFGMPIGQFEGVQEALARIAGNTYLLEAARRLT----TTGLDLGVKPSVVTA 407
Query: 179 VAKALAADVANKCATDAVQVFGGNG 203
+AK ++A DA+ + G G
Sbjct: 408 IAKYHMTELARDVVNDAMDIHAGKG 432
>gnl|CDD|236528 PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.
Length = 777
Score = 37.5 bits (88), Expect = 0.005
Identities = 32/106 (30%), Positives = 52/106 (49%), Gaps = 18/106 (16%)
Query: 102 TPGRKVAAGAVGLAQRCLDEATKYALERKAFGVPIAAHQAVAFMLADMAIG----IEASR 157
T G K+AA A G YA R+ F +PI + + LA +A G ++A+R
Sbjct: 342 TGGAKLAALATG----------AYARIRRQFKLPIGKFEGIEEPLARIA-GNAYLMDAAR 390
Query: 158 LTWMKAAAEVDLGRRNTLYASVAKALAADVANKCATDAVQVFGGNG 203
+ AA VDLG + ++ +++AK + + DA+ + GG G
Sbjct: 391 --TLTTAA-VDLGEKPSVLSAIAKYHLTERGRQVINDAMDIHGGKG 433
Score = 36.7 bits (86), Expect = 0.010
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDV-----NGVKTKAVKKGDEWI---LNGQ 58
G + Q+ YL RL + + +T P AGSD GV K +G+E + L
Sbjct: 176 GTDEQKDHYLPRLARGEEIPCFALTSPEAGSDAGSIPDTGVVCKGEWQGEEVLGMRLTWN 235
Query: 59 KMWITNGGVA 68
K +IT +A
Sbjct: 236 KRYITLAPIA 245
>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 = 35.4 bits (82), Expect = 0.019
Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 19/105 (18%)
Query: 3 VVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVK-----TKAVKKGDEWILNG 57
+++AG E +K++ GR++ I A S+ V+ T V+ G ++LNG
Sbjct: 83 LLLAGPEQFRKRWFGRVLNGWIFG-------NAVSERGSVRPGTFLTATVRDGGGYVLNG 135
Query: 58 QKMWITNGGVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT 102
+K + T ++W V A V D PG+T
Sbjct: 136 KKFYSTGALFSDWVTVSALDEEGKL-------VFAAVPTDRPGIT 173
>gnl|CDD|185636 PTZ00457, PTZ00457, acyl-CoA dehydrogenase; Provisional.
Length = 520
Score = 35.6 bits (82), Expect = 0.019
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 7/100 (7%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGD-EWILNGQKMWITNG 65
G++ + KYL + + I+ + E G GSD++ TKA D ++L GQK
Sbjct: 117 GSKELKGKYLTAMSDGTIMMGWATEE-GCGSDISMNTTKASLTDDGSYVLTGQKRCE-FA 174
Query: 66 GVANWYFVLART----NPDPKCPASKAFTGFIVERDTPGL 101
A + VLA+T + + FI +D G+
Sbjct: 175 ASATHFLVLAKTLTQTAAEEGATEVSRNSFFICAKDAKGV 214
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 35.1 bits (81), Expect = 0.030
Identities = 32/113 (28%), Positives = 52/113 (46%), Gaps = 15/113 (13%)
Query: 7 GNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAV--KKGDEWILN-----GQK 59
G + K+L + + + +TE G GS+V G++T K +E+++N QK
Sbjct: 168 GTKRHHDKWLKDTEDYVVKGCFAMTELGHGSNVRGIETVTTYDPKTEEFVINTPCESAQK 227
Query: 60 MWITNGGVAN---WYFVLARTNPDPKCPASKAFTGFIVERDTPG-LTPGRKVA 108
WI GG AN V ++ + + K AF I RD G + P ++A
Sbjct: 228 YWI--GGAANHATHTIVFSQLHINGKNEGVHAFIAQI--RDQDGNICPNIRIA 276
Score = 28.2 bits (63), Expect = 4.9
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 101 LTPGR-KVAAGAVGLAQRCLDEATKYALERKAFGV 134
LT GR +A A+ ++ L A +Y+L R+AF V
Sbjct: 335 LTSGRVTIAVSAIYSSKVGLAIAIRYSLSRRAFSV 369
>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 = 0.060
Identities = 23/97 (23%), Positives = 38/97 (39%), Gaps = 9/97 (9%)
Query: 13 KKYLGRLVEEPIVAAYCVTEP------GAGSDVNGVKTKAVKKGDEWI-LNGQKMWITNG 65
++Y E + + +T+P + V V++ D+ I + G K T
Sbjct: 127 RRYYKYAQENDLYLTHAITDPKGDRSKPPHQEDPDVYVHVVEETDDGIVVRGAKALATGA 186
Query: 66 GVANWYFVLARTNPDPKCPASKAFTGFIVERDTPGLT 102
+A+ FV+ T P+ A F V D PGL
Sbjct: 187 AIADEIFVMP-TRAMPEEDKDYAV-AFAVPMDAPGLK 221
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 31.4 bits (71), Expect = 0.50
Identities = 28/103 (27%), Positives = 42/103 (40%), Gaps = 11/103 (10%)
Query: 3 VVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAV--KKGDEWILN---- 56
V+ G + + KY + + +TE GS+V G++T A DE+++N
Sbjct: 152 VINLGTKKHRDKYFDGIDNLDYPGCFAMTELHHGSNVQGLQTTATFDPLTDEFVINTPND 211
Query: 57 -GQKMWITNGGV-ANWYFVLAR---TNPDPKCPASKAFTGFIV 94
K WI N V + V AR D K + FIV
Sbjct: 212 GAIKWWIGNAAVHGKFATVFARLKLPTHDSKGVSDMGVHAFIV 254
>gnl|CDD|225803 COG3264, COG3264, Small-conductance mechanosensitive channel [Cell
envelope biogenesis, outer membrane].
Length = 835
Score = 31.2 bits (71), Expect = 0.62
Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 15/82 (18%)
Query: 91 GFIVERDTPGLTPGRKVAAGAVGLAQRCLDEATKYALER--KAFGVPIAAHQAVAFMLAD 148
+++ R+ PG R + LD T+Y++ + A+ ++
Sbjct: 571 TYVLTRNLPGWLEVRVLQRLD-------LDAGTRYSITTLLGYLLI------AIGGLVGL 617
Query: 149 MAIGIEASRLTWMKAAAEVDLG 170
+GI+ S L W+ A V LG
Sbjct: 618 STLGIDLSSLQWLAGALSVGLG 639
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 29.3 bits (66), Expect = 1.8
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 213 LMRDAKIYQIYEGTAQI---QRLIVSRAI---IEKAK 243
L +DA IY + E +A + QRL+ S+ I E +
Sbjct: 130 LSKDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNE 166
>gnl|CDD|236798 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 29.3 bits (66), Expect = 2.5
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 151 IGIEASRLTWMKAAAEVDLG 170
IGIE S+L W+ AA V LG
Sbjct: 895 IGIEWSKLQWLVAALGVGLG 914
>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 = 27.4 bits (62), Expect = 2.8
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 1 MPVVIAGNEAQQKKYLGRLVE 21
P++ G E Q++KYL +L
Sbjct: 91 PPILRFGTEEQKEKYLPKLAS 111
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 28.8 bits (65), Expect = 3.0
Identities = 11/29 (37%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 213 LMRDAKIYQIYEGTAQI---QRLIVSRAI 238
L R+A +Y + E +A + QR+IV++ I
Sbjct: 470 LSREADLYLLDEPSAYLDVEQRIIVAKVI 498
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 28.6 bits (65), Expect = 3.2
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 213 LMRDAKIYQIYEGTAQI---QRLIVSRAI 238
L RDA +Y + E +A + QRL V++AI
Sbjct: 468 LSRDADLYLLDEPSAHLDVEQRLAVAKAI 496
>gnl|CDD|183117 PRK11397, dacD, D-alanyl-D-alanine carboxypeptidase; Provisional.
Length = 388
Score = 28.2 bits (63), Expect = 4.4
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 124 KYALERKAFGVPIAAHQAV 142
KY L+ K PI+AHQ V
Sbjct: 330 KYVLDGKELEAPISAHQRV 348
>gnl|CDD|224560 COG1646, COG1646, Predicted phosphate-binding enzymes, TIM-barrel
fold [General function prediction only].
Length = 240
Score = 27.2 bits (61), Expect = 6.3
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 5 IAGNEAQQKKYLGRLVEEPIVAAYCVTEPGA 35
I G + + K +G+L E I Y V P
Sbjct: 104 IVGAQVEGAKLVGKLGLEVIPEGYIVVNPDG 134
>gnl|CDD|202027 pfam01884, PcrB, PcrB family. This family contains proteins that
are related to PcrB. The function of these proteins is
unknown.
Length = 231
Score = 27.1 bits (60), Expect = 7.5
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 5 IAGNEAQQKKYLGRLVEEPIVAAYCVTEPG 34
I G A + + ++ EE I Y V EP
Sbjct: 93 IVGAHALGAQTVKKIGEEIIPMGYIVVEPD 122
>gnl|CDD|106983 PHA00676, PHA00676, hypothetical protein.
Length = 96
Score = 26.3 bits (57), Expect = 7.7
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 3 VVIAGNEAQQKKYLGRLVEEPIVAAYCVTEPGAGSDVNGVKTKAVKKGDEWILNGQKMW 61
V++ G++A LG ++ P A Y VTE D+N T+A ++ W +G M+
Sbjct: 7 VMVGGSKADGSVTLG--IDVP--AKYGVTETPVEWDINQANTEADRRCKNWGYSGADMY 61
>gnl|CDD|214525 smart00128, IPPc, Inositol polyphosphate phosphatase, catalytic
domain homologues. Mg(2+)-dependent/Li(+)-sensitive
enzymes.
Length = 306
Score = 27.3 bits (61), Expect = 8.6
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 141 AVAFMLADMAIGIEASRLTWMKAAAEVDLGRRNTLYASVAKAL---AADVANKCATDAVQ 197
AV F L+D + S L AA ++ +RN Y ++ +AL + ++ D V
Sbjct: 129 AVRFKLSDTSFCFVNSHL----AAGASNVEQRNQDYKTILRALSFPERALLSQFDHDVVF 184
Query: 198 VFG 200
FG
Sbjct: 185 WFG 187
>gnl|CDD|236311 PRK08609, PRK08609, hypothetical protein; Provisional.
Length = 570
Score = 27.2 bits (61), Expect = 9.7
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 119 LDEATKYALERKAFGVPIA----AHQAVAFMLADMAIGIEASRLTWMK 162
LD + ++ + + GV +A AH ML DM G+ +R W++
Sbjct: 504 LDLSAEHLKKAQEAGVKLAINTDAHHTE--MLDDMKYGVATARKGWIQ 549
>gnl|CDD|235865 PRK06814, PRK06814, acylglycerophosphoethanolamine acyltransferase;
Provisional.
Length = 1140
Score = 27.2 bits (61), Expect = 9.9
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 226 TAQIQRLIVSRAIIEKAK 243
AQ++ ++ SRA IEKA+
Sbjct: 727 AAQVKTVLTSRAFIEKAR 744
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 0.132 0.391
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,699,793
Number of extensions: 1220406
Number of successful extensions: 1167
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1126
Number of HSP's successfully gapped: 96
Length of query: 245
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 151
Effective length of database: 6,768,326
Effective search space: 1022017226
Effective search space used: 1022017226
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: 58 (26.2 bits)