RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1215
(260 letters)
>gnl|CDD|173847 cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and
eukaryotic short/branched chain acyl-CoA dehydrogenases.
Short chain acyl-CoA dehydrogenase (SCAD). SCAD is a
mitochondrial beta-oxidation enzyme. It catalyzes the
alpha,beta dehydrogenation of the corresponding
trans-enoyl-CoA by FAD, which becomes reduced. The
reduced form of SCAD is reoxidized in the oxidative
half-reaction by electron-transferring flavoprotein
(ETF), from which the electrons are transferred to the
mitochondrial respiratory chain coupled with ATP
synthesis. This subgroup also contains the eukaryotic
short/branched chain acyl-CoA dehydrogenase(SBCAD), the
bacterial butyryl-CoA dehydorgenase(BCAD) and
2-methylbutyryl-CoA dehydrogenase, which is involved in
isoleucine catabolism. These enzymes are homotetramers.
Length = 373
Score = 345 bits (886), Expect = e-119
Identities = 132/230 (57%), Positives = 166/230 (72%)
Query: 23 REHLYPKEQIKKMGELGLMGVEVPEDLGAASTVAKQDSNGWTLNGTKAWITNGYESEATV 82
+++L P +K+G L D A T AK+D + + LNG+K WITNG E++ +
Sbjct: 102 KKYLPPLATGEKIGAFALSEPGAGSDAAALKTTAKKDGDDYVLNGSKMWITNGGEADFYI 161
Query: 83 VFATTDKSKKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGE 142
VFA TD SK ++GI+AFIV++ T GLS+GKKEDKLGI SST LIFED +P EN+LGE
Sbjct: 162 VFAVTDPSKGYRGITAFIVERDTPGLSVGKKEDKLGIRGSSTTELIFEDVRVPKENILGE 221
Query: 143 PGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIAD 202
G GFKIAM TLD GRIGIA+QALGIAQA+LD AV+YA +R FG+PI Q IQ K+AD
Sbjct: 222 EGEGFKIAMQTLDGGRIGIAAQALGIAQAALDAAVDYAKERKQFGKPIADFQGIQFKLAD 281
Query: 203 MSLKLESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
M+ ++E+ARLLT++AA LKDN +PF KEAAMAKL ASE A A+QI
Sbjct: 282 MATEIEAARLLTYKAARLKDNGEPFIKEAAMAKLFASEVAMRVTTDAVQI 331
Score = 79.2 bits (196), Expect = 4e-17
Identities = 28/52 (53%), Positives = 40/52 (76%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLGAA 52
M+ KTVRDF E E+ P+AA++D + +P+E IK+M ELGLMG+ +PE+ G A
Sbjct: 5 MIRKTVRDFAEKEIAPLAAEMDEKGEFPREVIKEMAELGLMGIPIPEEYGGA 56
>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 = 254 bits (652), Expect = 2e-84
Identities = 108/285 (37%), Positives = 161/285 (56%), Gaps = 33/285 (11%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGV----------------- 43
L + R+F EL+P A + P E + ++G L +
Sbjct: 5 ELRDSAREFAAEELEPYARERRETPEEPWELLAELGLLLGAALLLAYGTEEQKERYLPPL 64
Query: 44 --------------EVPEDLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDK 89
DL T A++D +G+ LNG K +I+NG +++ +V A TD+
Sbjct: 65 ASGEAIAAFALTEPGAGSDLAGIRTTARKDGDGYVLNGRKIFISNGGDADLFIVLARTDE 124
Query: 90 S-KKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFK 148
H+GISAF+V T G+++G+ DK+G+ S T L+F+D +P +NLLGE G GF+
Sbjct: 125 EGPGHRGISAFLVPADTPGVTVGRIWDKMGMRGSGTGELVFDDVRVPEDNLLGEEGGGFE 184
Query: 149 IAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLE 208
+AM L+ GR+ +A+ ALG A+A+LD AVEYA +R FG+P+ + Q++Q K+ADM+ +LE
Sbjct: 185 LAMKGLNVGRLLLAAVALGAARAALDEAVEYAKQRKQFGKPLAEFQAVQFKLADMAAELE 244
Query: 209 SARLLTWRAAYLKDNKQPF-TKEAAMAKLAASETATYNAHQAIQI 252
+ARLL +RAA+L D EAAMAKL A+E A A A+QI
Sbjct: 245 AARLLLYRAAWLLDQGPDEARLEAAMAKLFATEAAREVADLAMQI 289
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 230 bits (589), Expect = 4e-74
Identities = 105/223 (47%), Positives = 142/223 (63%), Gaps = 6/223 (2%)
Query: 36 GELGLMGVEVPE---DLGAA-STVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKS- 90
+G + P DL + +T A +D + LNG K WI+N ++ +V A TD +
Sbjct: 124 ELIGAFALTEPGAGSDLASLRTTAAVRDDGDYVLNGQKIWISNAPVADWLLVLARTDPAP 183
Query: 91 KKHKGISAFIVDK-PTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKI 149
KHKGIS F+V K T G+S+G K+G+ S+T + F+D +PAENLLGE G GFKI
Sbjct: 184 GKHKGISLFLVPKDLTPGVSVGPILKKMGLRGSATGEVFFDDVRVPAENLLGEEGDGFKI 243
Query: 150 AMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLES 209
AM TL+ R+GIA+QALGIA+A+L+ AV YA +R FG+PI Q +Q K+ADM+ +LE+
Sbjct: 244 AMETLNVERLGIAAQALGIAEAALEEAVAYARERKQFGRPIADFQLVQFKLADMAAELEA 303
Query: 210 ARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
ARLL RAA L D EAAMAKL A+E A A +A+Q+
Sbjct: 304 ARLLVLRAAELADAGDDAGAEAAMAKLFATEAALEVADEAVQV 346
Score = 47.5 bits (113), Expect = 3e-06
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHL---YPKEQIKKMGELGLMGVEVPEDLGAA 52
L VR+F E EL P AA++DR +P+E ++ + E GL+G+ +PE+ G
Sbjct: 11 ALRAEVREFAEEELAPEAAEIDRRIEDERFPRELLRALAEAGLLGLTIPEEYGGL 65
>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 = 197 bits (502), Expect = 3e-61
Identities = 95/234 (40%), Positives = 132/234 (56%), Gaps = 7/234 (2%)
Query: 23 REHLYPK----EQIKKMGELGLMGVEVPEDLGAASTVAKQDSNGWTLNGTKAWITNGYES 78
+E PK E I G L + D+ + A++ + + LNG+K WITNG ++
Sbjct: 104 KEKYLPKLISGEHI---GALAMSEPNAGSDVVSMKLRAEKKGDRYVLNGSKMWITNGPDA 160
Query: 79 EATVVFATTDKSKKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAEN 138
+ VV+A TD S GI+AFIV+K G S +K DKLG+ S+TC L+FEDC +P EN
Sbjct: 161 DTLVVYAKTDPSAGAHGITAFIVEKGMPGFSRAQKLDKLGMRGSNTCELVFEDCEVPEEN 220
Query: 139 LLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQ 198
+LG G + M LD R+ +A +GI QA+LD A+ YA +R FGQPI + Q +Q
Sbjct: 221 ILGGENKGVYVLMSGLDYERLVLAGGPIGIMQAALDVAIPYAHQRKQFGQPIGEFQLVQG 280
Query: 199 KIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
K+ADM +L ++R + A D K+AA L A+E AT A AIQI
Sbjct: 281 KLADMYTRLNASRSYLYTVAKACDRGNMDPKDAAGVILYAAEKATQVALDAIQI 334
Score = 59.0 bits (143), Expect = 4e-10
Identities = 23/52 (44%), Positives = 41/52 (78%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLGAA 52
ML ++VR+F + E+ P+AAK+DR++ +P++ +KMG+LGL+G+ PE+ G +
Sbjct: 8 MLRQSVREFAQKEIAPLAAKIDRDNEFPRDLWRKMGKLGLLGITAPEEYGGS 59
>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 = 194 bits (496), Expect = 2e-60
Identities = 92/206 (44%), Positives = 128/206 (62%), Gaps = 2/206 (0%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKG 107
D A T A ++ + + LNG+KA+I+ +S+ VV A T + KGIS F+V+K T G
Sbjct: 128 DAAALRTRAVREGDHYVLNGSKAFISGAGDSDVYVVMARTG-GEGPKGISCFVVEKGTPG 186
Query: 108 LSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALG 167
LS G E K+G NA T ++IFEDC +P EN LG G GF IAM L+ GR+ IAS +LG
Sbjct: 187 LSFGANEKKMGWNAQPTRAVIFEDCRVPVENRLGGEGQGFGIAMAGLNGGRLNIASCSLG 246
Query: 168 IAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQP- 226
AQA+LD A Y +R FG+P+ Q++Q K+ADM+ +L ++RL+ RAA D P
Sbjct: 247 AAQAALDLARAYLEERKQFGKPLADFQALQFKLADMATELVASRLMVRRAASALDRGDPD 306
Query: 227 FTKEAAMAKLAASETATYNAHQAIQI 252
K AMAK A++ A+QA+Q+
Sbjct: 307 AVKLCAMAKRFATDECFDVANQALQL 332
Score = 44.4 bits (105), Expect = 3e-05
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 4 KTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLG 50
+ R F E+ P AA D++ +P + ++K ELG G+ + +D+G
Sbjct: 10 EVARAFAAKEMAPHAADWDQKKHFPVDVLRKAAELGFGGIYIRDDVG 56
>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 = 175 bits (445), Expect = 2e-52
Identities = 81/214 (37%), Positives = 122/214 (57%), Gaps = 10/214 (4%)
Query: 48 DLGAASTVAKQDSNG--WTLNGTKAWITNGYESEATVVFATT-----DKSKKHKGISAFI 100
D + T A +G + LNG+K WITNG ++ VFA T S K K I+AFI
Sbjct: 152 DAASIRTTAVLSEDGKHYVLNGSKIWITNGGIADIFTVFAKTEVKDATGSVKDK-ITAFI 210
Query: 101 VDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIG 160
V++ G++ G E K+GI S+T + FED IP EN+LGE G GFK+AM L+ GR G
Sbjct: 211 VERSFGGVTNGPPEKKMGIKGSNTAEVYFEDVKIPVENVLGEVGDGFKVAMNILNNGRFG 270
Query: 161 IASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYL 220
+ + +G + ++ AV+YA+ R FG+ I + IQ+K+A+M++ + + + +
Sbjct: 271 MGAALIGTMKRCIEKAVDYANNRKQFGKKIHEFGLIQEKLANMAILQYATESMAYMTSGN 330
Query: 221 KDN--KQPFTKEAAMAKLAASETATYNAHQAIQI 252
D K + EAA++K+ ASE A +AIQI
Sbjct: 331 MDRGLKAEYQIEAAISKVFASEAAWLVVDEAIQI 364
Score = 43.2 bits (102), Expect = 7e-05
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLG 50
ML V F E P AK D+ P++ + ++ ELGL G++VPE+ G
Sbjct: 33 MLVGPVEKFFEEVNDP--AKNDQLEKIPRKTLTQLKELGLFGLQVPEEYG 80
>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 = 174 bits (442), Expect = 2e-52
Identities = 75/206 (36%), Positives = 117/206 (56%), Gaps = 1/206 (0%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTD-KSKKHKGISAFIVDKPTK 106
DL T A++D + + LNG+K +ITNG ++ +V A T +++ GIS F+V++ T
Sbjct: 126 DLQGIRTTARKDGDHYVLNGSKTFITNGMLADVVIVVARTGGEARGAGGISLFLVERGTP 185
Query: 107 GLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQAL 166
G S G+K K+G A T L F+DC +PAENLLGE GF M L R+ IA+ AL
Sbjct: 186 GFSRGRKLKKMGWKAQDTAELFFDDCRVPAENLLGEENKGFYYLMQNLPQERLLIAAGAL 245
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQP 226
A+ L+ Y +R AFG+ + +LQ ++ KIA+++ K+ R A+ + +
Sbjct: 246 AAAEFMLEETRNYVKQRKAFGKTLAQLQVVRHKIAELATKVAVTRAFLDNCAWRHEQGRL 305
Query: 227 FTKEAAMAKLAASETATYNAHQAIQI 252
EA+MAK A+E A++ +Q+
Sbjct: 306 DVAEASMAKYWATELQNRVAYECVQL 331
Score = 44.4 bits (105), Expect = 2e-05
Identities = 17/52 (32%), Positives = 25/52 (48%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLGAA 52
VR F E+ P + ++ P+E +K GE GL+GV PE+ G
Sbjct: 5 AFRDVVRRFFAKEVAPFHHEWEKAGEVPREVWRKAGEQGLLGVGFPEEYGGI 56
>gnl|CDD|215284 PLN02519, PLN02519, isovaleryl-CoA dehydrogenase.
Length = 404
Score = 174 bits (442), Expect = 4e-52
Identities = 85/197 (43%), Positives = 118/197 (59%)
Query: 56 AKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGLSLGKKED 115
A++ G+ LNG K W TNG ++ VV+A TD + KGI+AFI++K G S +K D
Sbjct: 164 AERVDGGYVLNGNKMWCTNGPVAQTLVVYAKTDVAAGSKGITAFIIEKGMPGFSTAQKLD 223
Query: 116 KLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDC 175
KLG+ S TC L+FE+C +P EN+LG+ G G + M LD R+ +A+ LG+ QA LD
Sbjct: 224 KLGMRGSDTCELVFENCFVPEENVLGQEGKGVYVMMSGLDLERLVLAAGPLGLMQACLDV 283
Query: 176 AVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMAK 235
+ Y +R FG+PI + Q IQ K+ADM L+S+R + A DN + K+ A
Sbjct: 284 VLPYVRQREQFGRPIGEFQFIQGKLADMYTSLQSSRSYVYSVARDCDNGKVDRKDCAGVI 343
Query: 236 LAASETATYNAHQAIQI 252
L A+E AT A QAIQ
Sbjct: 344 LCAAERATQVALQAIQC 360
Score = 38.3 bits (89), Expect = 0.003
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 4 KTVRDFTEGELKPIAAKLDREHLYPKEQ--IKKMGELGLMGVEVPEDLG 50
++V+ F + + P AA +D + +PK+ K MG+ L G+ PE+ G
Sbjct: 35 ESVQQFAQENIAPHAAAIDATNSFPKDVNLWKLMGDFNLHGITAPEEYG 83
>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 = 163 bits (414), Expect = 3e-48
Identities = 89/237 (37%), Positives = 130/237 (54%), Gaps = 13/237 (5%)
Query: 29 KEQIKK----MGELGLMGVEVPEDLGAASTV------AKQDSNGWTLNGTKAWITNGYES 78
EQ KK M E LM + GA S V A++ + + +NG K WITNG ++
Sbjct: 99 DEQKKKYLGRMTEEPLMCAYCVTEPGAGSDVAGIKTKAEKKGDEYIINGQKMWITNGGKA 158
Query: 79 EATVVFATTD---KSKKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIP 135
+ A +D K K + FIV+ T G+ G+KE +G S T + FED +P
Sbjct: 159 NWYFLLARSDPDPKCPASKAFTGFIVEADTPGIQPGRKELNMGQRCSDTRGITFEDVRVP 218
Query: 136 AENLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQS 195
EN+L G GFKIAM D R +A+ A+G+AQ +LD A +YA +R FG+ I + Q+
Sbjct: 219 KENVLIGEGAGFKIAMGAFDKTRPPVAAGAVGLAQRALDEATKYALERKTFGKLIAEHQA 278
Query: 196 IQQKIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
+ +ADM++K+E ARL RAA+ D+ + T A++AK A++ A A A+QI
Sbjct: 279 VSFMLADMAMKVELARLAYQRAAWEVDSGRRNTYYASIAKAFAADIANQLATDAVQI 335
Score = 46.4 bits (110), Expect = 6e-06
Identities = 21/46 (45%), Positives = 27/46 (58%)
Query: 5 TVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLG 50
T R F E+ P+AA+ D+ YP IK+ ELGLM +PED G
Sbjct: 11 TARKFAREEIIPVAAEYDKSGEYPWPLIKRAWELGLMNTHIPEDCG 56
>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 = 147 bits (372), Expect = 6e-42
Identities = 72/220 (32%), Positives = 110/220 (50%), Gaps = 6/220 (2%)
Query: 31 QIKKMGELGLMGVEVPEDLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKS 90
+ +G GL D G T A++D G+ LNG+K WITN ++ VV+A D++
Sbjct: 123 SGELIGCFGLTEPNHGSDPGGMETRARKDGGGYKLNGSKTWITNSPIADVFVVWARNDET 182
Query: 91 KKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGM-GFKI 149
K +G FI+++ KGLS K + K + AS T ++ ++ +P ENLL PG G +
Sbjct: 183 GKIRG---FILERGMKGLSAPKIQGKFSLRASITGEIVMDNVFVPEENLL--PGAEGLRG 237
Query: 150 AMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLES 209
L+ R GIA ALG A+ A +Y R FG+P+ Q +Q+K+ADM ++
Sbjct: 238 PFKCLNNARYGIAWGALGAAEDCYHTARQYVLDRKQFGRPLAAFQLVQKKLADMLTEIAL 297
Query: 210 ARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQA 249
L R LKD + ++ ++ K A A A
Sbjct: 298 GLLACLRVGRLKDQGKATPEQISLLKRNNCGKALEIARTA 337
Score = 37.3 bits (87), Expect = 0.006
Identities = 16/42 (38%), Positives = 26/42 (61%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMG 42
+ T R+F + EL P + RE + ++ I++MGELGL+G
Sbjct: 19 AIRDTAREFCQEELAPRVLEAYREEKFDRKIIEEMGELGLLG 60
>gnl|CDD|185640 PTZ00461, PTZ00461, isovaleryl-CoA dehydrogenase; Provisional.
Length = 410
Score = 143 bits (363), Expect = 2e-40
Identities = 95/242 (39%), Positives = 134/242 (55%), Gaps = 17/242 (7%)
Query: 18 AAKLDREHLYPKEQIKKMGE-LGLMGVEVP---EDLGAASTVAKQDSNG-WTLNGTKAWI 72
A+ R PK GE +G MG+ P D+ T AK+DSNG + LNG+K WI
Sbjct: 134 ASPAQRARWLPKVL---TGEHVGAMGMSEPGAGTDVLGMRTTAKKDSNGNYVLNGSKIWI 190
Query: 73 TNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDC 132
TNG ++ +++A D I+AF+V++ TKG + G K DK G+ AS C L FED
Sbjct: 191 TNGTVADVFLIYAKVDGK-----ITAFVVERGTKGFTQGPKIDKCGMRASHMCQLFFEDV 245
Query: 133 SIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIK 192
+PAENLLGE G G M L+ R+ +A+ A+GIA+ S++ YAS+R AFG+PI
Sbjct: 246 VVPAENLLGEEGKGMVGMMRNLELERVTLAAMAVGIAERSVELMTSYASERKAFGKPISN 305
Query: 193 LQSIQQKIADMSLKLESARLLTWRAAY--LKDNKQPFTKEAAMAKLAASETATYNAHQAI 250
IQ+ IA+ E+A+ L + ++ NK +A AKL A+ A A AI
Sbjct: 306 FGQIQRYIAEGYADTEAAKALVYSVSHNVHPGNKNRLGSDA--AKLFATPIAKKVADSAI 363
Query: 251 QI 252
Q+
Sbjct: 364 QV 365
Score = 37.6 bits (87), Expect = 0.005
Identities = 18/52 (34%), Positives = 29/52 (55%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLGAA 52
L +TV F+ + A + D + ++ K++G+LG+MGV VPE G A
Sbjct: 43 ALRETVAKFSREVVDKHAREDDINMHFNRDLFKQLGDLGVMGVTVPEADGGA 94
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 141 bits (356), Expect = 1e-39
Identities = 73/235 (31%), Positives = 115/235 (48%), Gaps = 13/235 (5%)
Query: 30 EQIKKMGELGLMGVEVPEDLGAASTVAKQDSNGWT-----------LNGTKAWITNGYES 78
EQ++K E L + L A D+N T LNG K +IT E
Sbjct: 103 EQLRKTAESTLETGDPAYALALTEPGAGSDNNSATTTYTRKNGKVYLNGQKTFITGAKEY 162
Query: 79 EATVVFATTDKSK-KHKGISAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAE 137
+V A + K K + + VD G+ + K+G + STC + ++ +
Sbjct: 163 PYMLVLARDPQPKDPKKAFTLWWVDSSKPGIKINPLH-KIGWHMLSTCEVYLDNVEVEES 221
Query: 138 NLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQ 197
+L+GE GMGF M + R+ A+++LG A+ + + A YA++R FG+PI Q IQ
Sbjct: 222 DLVGEEGMGFLNVMYNFEMERLINAARSLGFAECAFEDAARYANQRIQFGKPIGHNQLIQ 281
Query: 198 QKIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
+K+ M++K+E+ R + ++ A+ DN Q AA+AKL + TA AIQI
Sbjct: 282 EKLTLMAIKIENMRNMVYKVAWQADNGQSLRTSAALAKLYCARTAMEVIDDAIQI 336
>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 = 130 bits (330), Expect = 3e-38
Identities = 57/109 (52%), Positives = 76/109 (69%)
Query: 144 GMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADM 203
G GF +AM TL+ R+ IA+ ALG+A+ +LD A+EYA +R AFG+P+I Q I+ K+ADM
Sbjct: 1 GRGFAVAMETLNHERLLIAAAALGLARRALDEAIEYARQRKAFGRPLIDFQLIRHKLADM 60
Query: 204 SLKLESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETATYNAHQAIQI 252
+ +LE+ARLL +RAA D P EAAMAKL ASE A A A+Q+
Sbjct: 61 AAELEAARLLVYRAAEALDAGGPDPAEAAMAKLYASELAQEVADLAMQL 109
>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 = 122 bits (307), Expect = 1e-32
Identities = 70/196 (35%), Positives = 110/196 (56%), Gaps = 2/196 (1%)
Query: 56 AKQDSNGWTLNGTKAWITNGYESEATVVFATT-DKSKKHKGISAFIVDKPTKGLSLGKKE 114
A++D + + LNG K I+ +++A VVFA T +++ +GISAF+V G++ + +
Sbjct: 136 AERDGDDYVLNGEKTSISAADQADAAVVFARTGSEAEGARGISAFLVPMDLPGITRNRFD 195
Query: 115 DKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLD 174
G A S+ FE+ +PA+++LG G GF M D R I Q L +A+A+LD
Sbjct: 196 C-HGQRAIGRGSIFFENVRVPADHMLGNEGQGFVQVMQGFDFSRALIGLQVLAVARAALD 254
Query: 175 CAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMA 234
Y ++R AFG+P+ Q + +AD ++E+ARLL + +LKD+ P T EAAM
Sbjct: 255 ETWRYVAERQAFGKPLSAFQGVSHPLADAETQVEAARLLCLQTLWLKDHGLPHTSEAAMC 314
Query: 235 KLAASETATYNAHQAI 250
K A + A HQ +
Sbjct: 315 KWWAPKLAYDVIHQCL 330
Score = 34.5 bits (79), Expect = 0.044
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 2 LYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLG 50
L T R F + P + D+ + +E ++ MGE+G +G E+PE+ G
Sbjct: 8 LADTARRFARERIAPGFKERDKTRVLDRELMRDMGEMGFIGPELPEEHG 56
>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 = 107 bits (269), Expect = 5e-27
Identities = 66/253 (26%), Positives = 111/253 (43%), Gaps = 39/253 (15%)
Query: 36 GELGLMGVEVPE---DLGAASTVAKQDSNG-WTLNGTKAWITNG----YESEATVVFATT 87
G M + P+ DLGA T A ++G W +NG K +I+ G E+ +V A +
Sbjct: 116 EWTGTMCLTEPDAGSDLGALRTKAVYQADGSWRINGVKRFISAGEHDMSENIVHLVLARS 175
Query: 88 -DKSKKHKGISAFIVDK-----PTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLG 141
KG+S F+V K G+++ + E+K+G++ S TC L+F++ L+G
Sbjct: 176 EGAPPGVKGLSLFLVPKFLDDGERNGVTVARIEEKMGLHGSPTCELVFDNAKGE---LIG 232
Query: 142 EPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQP--------IIKL 193
E GMG ++ R+G+ +Q G+A+A+ A+ YA +R G II
Sbjct: 233 EEGMGLAQMFAMMNGARLGVGTQGTGLAEAAYLNALAYAKERKQGGDLIKAAPAVTIIHH 292
Query: 194 QSIQQKIADMSLKLESARLLTWRAAYLKD--NKQPFTKEAA------------MAKLAAS 239
+++ + E +R L A ++D ++ E + K S
Sbjct: 293 PDVRRSLMTQKAYAEGSRALDLYTATVQDLAERKATEGEDRKALSALADLLTPVVKGFGS 352
Query: 240 ETATYNAHQAIQI 252
E A AIQ+
Sbjct: 353 EAALEAVSDAIQV 365
Score = 32.4 bits (74), Expect = 0.25
Identities = 18/57 (31%), Positives = 23/57 (40%), Gaps = 11/57 (19%)
Query: 5 TVRDFTEGELKPIAAKLDRE--------HLYP---KEQIKKMGELGLMGVEVPEDLG 50
V E L P+ A DRE + P KE + E G M + VPE+ G
Sbjct: 4 EVARLAENVLAPLNADGDREGPVFDDGRVVVPPPFKEALDAFAEAGWMALGVPEEYG 60
>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 = 107 bits (268), Expect = 8e-27
Identities = 68/214 (31%), Positives = 108/214 (50%), Gaps = 14/214 (6%)
Query: 48 DLGAASTVAKQDSNG-WTLNGTKAWITNGYESEATVVFATTDKSKK-HKGISAFIV---- 101
DLGA T A++ G + LNG K W + ++A +V A + + +G+S F+V
Sbjct: 161 DLGANETTAERSGGGVYRLNGHK-WFASAPLADAALVLARPEGAPAGARGLSLFLVPRLL 219
Query: 102 -DKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAEN-LLGEPGMGFKIAMMTLDAGRI 159
D G + + +DKLG + +T + F+D AE L+G+ G G + L+ R+
Sbjct: 220 EDGTRNGYRIRRLKDKLGTRSVATGEVEFDD----AEAYLIGDEGKGIYYILEMLNISRL 275
Query: 160 GIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAY 219
A ALGI + +L A YA R AFG+P+I +++ +A+M + +E+A LT+RAA
Sbjct: 276 DNAVAALGIMRRALSEAYHYARHRRAFGKPLIDHPLMRRDLAEMEVDVEAATALTFRAAR 335
Query: 220 LKDNKQP-FTKEAAMAKLAASETATYNAHQAIQI 252
D EA MA+LA +A +
Sbjct: 336 AFDRAAADKPVEAHMARLATPVAKLIACKRAAPV 369
>gnl|CDD|179566 PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated.
Length = 380
Score = 103 bits (258), Expect = 1e-25
Identities = 61/205 (29%), Positives = 99/205 (48%), Gaps = 1/205 (0%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKG 107
D+G+ T + + LNG+K +IT+ + VV A S + + VD G
Sbjct: 132 DVGSLKTTYTRRNGKVYLNGSKCFITSSAYTPYIVVMARDGASPDKPVYTEWFVDMSKPG 191
Query: 108 LSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALG 167
+ + K E KLG+ S C + F+D + +++ G G GF D R +A G
Sbjct: 192 IKVTKLE-KLGLRMDSCCEITFDDVELDEKDMFGREGNGFNRVKEEFDHERFLVALTNYG 250
Query: 168 IAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQPF 227
A + + A YA++R FG+ I + Q IQ+K A M++KL S + + + AA+ DN
Sbjct: 251 TAMCAFEDAARYANQRVQFGEAIGRFQLIQEKFAHMAIKLNSMKNMLYEAAWKADNGTIT 310
Query: 228 TKEAAMAKLAASETATYNAHQAIQI 252
+ +AAM K + A A+Q+
Sbjct: 311 SGDAAMCKYFCANAAFEVVDSAMQV 335
>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 = 102 bits (255), Expect = 4e-25
Identities = 57/197 (28%), Positives = 96/197 (48%), Gaps = 7/197 (3%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTD-KSKKHKGISAFIVDKPTK 106
DL T A +D + W +NG K W + + ++ + TD ++ KH+GIS +VD +
Sbjct: 131 DLAGLRTRAVRDGDDWVVNGQKIWTSGAHYADWAWLLVRTDPEAPKHRGISILLVDMDSP 190
Query: 107 GLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQAL 166
G+++ G + +D +P N +GE G+K+AM TL+ R+ I
Sbjct: 191 GVTVRPIRSING--GEFFNEVFLDDVRVPDANRVGEVNDGWKVAMTTLNFERVSIG---- 244
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQP 226
G A + + T G+P+I ++Q++A + + E+ RLL +R A +P
Sbjct: 245 GSAATFFELLLARLLLLTRDGRPLIDDPLVRQRLARLEAEAEALRLLVFRLASALAAGKP 304
Query: 227 FTKEAAMAKLAASETAT 243
EA++AKL SE A
Sbjct: 305 PGAEASIAKLFGSELAQ 321
>gnl|CDD|173844 cd01155, ACAD_FadE2, Acyl-CoA dehydrogenases similar to fadE2.
FadE2-like Acyl-CoA dehydrogenase (ACAD). Acyl-CoA
dehydrogenases (ACAD) catalyze the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. The reduced form of ACAD is
reoxidized in the oxidative half-reaction by
electron-transferring flavoprotein (ETF), from which the
electrons are transferred to the mitochondrial
respiratory chain coupled with ATP synthesis. The ACAD
family includes the eukaryotic beta-oxidation, as well
as amino acid catabolism enzymes. These enzymes share
high sequence similarity, but differ in their substrate
specificities. ACAD's are generally homotetramers and
have an active site glutamate at a conserved position.
Length = 394
Score = 97.8 bits (244), Expect = 1e-23
Identities = 57/202 (28%), Positives = 97/202 (48%), Gaps = 8/202 (3%)
Query: 59 DSNGWTLNGTKAWITNGYES--EATVVFATT--DKSKKHKGISAFIVDKPTKGLSLGKKE 114
D + + +NG K W + + + +V T D + +H+ S +V T G+++ +
Sbjct: 151 DGDDYVINGRKWWSSGAGDPRCKIAIVMGRTDPDGAPRHRQQSMILVPMDTPGVTIIRPL 210
Query: 115 DKLGI--NASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALGIAQAS 172
G + F++ +PA NL+ G GF+IA L GRI + +G A+ +
Sbjct: 211 SVFGYDDAPHGHAEITFDNVRVPASNLILGEGRGFEIAQGRLGPGRIHHCMRLIGAAERA 270
Query: 173 LDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQP--FTKE 230
L+ + A R AFG+ + + + IA +++E ARLL +AA++ D KE
Sbjct: 271 LELMCQRAVSREAFGKKLAQHGVVAHWIAKSRIEIEQARLLVLKAAHMIDTVGNKAARKE 330
Query: 231 AAMAKLAASETATYNAHQAIQI 252
AM K+AA A +AIQ+
Sbjct: 331 IAMIKVAAPRMALKIIDRAIQV 352
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 94.9 bits (236), Expect = 2e-22
Identities = 58/201 (28%), Positives = 94/201 (46%), Gaps = 10/201 (4%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKG 107
D + +T A + GW LNG K WI N ++ V+FA + + I+ FIV K G
Sbjct: 156 DASSLNTTATKVEGGWILNGQKRWIGNSTFADVLVIFARNTTTNQ---INGFIVKKGAPG 212
Query: 108 LSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGM-GFKIAMMTLDAGRIGIASQAL 166
L K E+K+G+ ++ +D +P E+ L PG+ F+ L R+ +A Q +
Sbjct: 213 LKATKIENKIGLRMVQNGDIVLKDVFVPDEDRL--PGVNSFQDTNKVLAVSRVMVAWQPI 270
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQP 226
GI+ D Y +R FG P+ Q Q+K+ M +++ L+ WR L ++ +
Sbjct: 271 GISMGVYDMCHRYLKERKQFGAPLAAFQINQEKLVRMLGNIQAMFLVGWRLCKLYESGKM 330
Query: 227 FTKEAAMAK----LAASETAT 243
A++ K A ET
Sbjct: 331 TPGHASLGKAWITKKARETVA 351
Score = 29.8 bits (67), Expect = 1.4
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 2 LYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMG 42
L K VR+ E E+ PI + + +P I K+G LG+ G
Sbjct: 36 LRKRVRECMEKEVAPIMTEYWEKAEFPFHIIPKLGSLGIAG 76
>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 = 92.0 bits (228), Expect = 1e-21
Identities = 58/208 (27%), Positives = 103/208 (49%), Gaps = 6/208 (2%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHK-GISAFIVDKPTK 106
DLG ST AK+ +GW ++G K + NG ++ +V A T +++ + GI F+V K
Sbjct: 132 DLGDVSTTAKKTGDGWVIDGEKFVVLNGETADTLIVTARTKGARRDRTGIGVFLVPAGAK 191
Query: 107 GLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQAL 166
G+++ + G++A+ + F + A+ +G+P + +D R + ++A+
Sbjct: 192 GVTIKGYPTQDGLHAAD---ITFTGVVVGADAAIGDPENALPLIERVVDDARAALCAEAV 248
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKD--NK 224
G+ SL VEY R FG PI Q +Q + ADM + +E AR + A D +
Sbjct: 249 GLMDESLKTTVEYIKTRKQFGVPIGSFQVLQHRAADMFVAVEQARSMAMFATMASDFDDA 308
Query: 225 QPFTKEAAMAKLAASETATYNAHQAIQI 252
+ A AK+ ++ + Q+IQ+
Sbjct: 309 KERANAIAAAKVQIGKSLKFVGQQSIQL 336
>gnl|CDD|215473 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 77.5 bits (191), Expect = 3e-16
Identities = 68/209 (32%), Positives = 100/209 (47%), Gaps = 13/209 (6%)
Query: 53 STVAKQDSNGWTLNGTKAWITNGYESEATV--VFATTD-KSKKHKGISAFIVDKPTKGLS 109
S + DS + +NGTK W + + V V TD + KHK S +VD T G+
Sbjct: 572 SIRRQGDS--YVINGTKWWTSGAMDPRCRVLIVMGKTDFNAPKHKQQSMILVDIQTPGVQ 629
Query: 110 LGKKEDKLGINAS--STCSLIFEDCSIPAEN-LLGEPGMGFKIAMMTLDAGRIGIASQAL 166
+ + G + + + FE+ +PA+N LLGE G GF+IA L GR+ + +
Sbjct: 630 IKRPLLVFGFDDAPHGHAEISFENVRVPAKNILLGE-GRGFEIAQGRLGPGRLHHCMRLI 688
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKD---N 223
G A+ + V+ A R AFG+ I + S +A ++LE RLL AA D N
Sbjct: 689 GAAERGMQLMVQRALSRKAFGKLIAQHGSFLSDLAKCRVELEQTRLLVLEAADQLDRLGN 748
Query: 224 KQPFTKEAAMAKLAASETATYNAHQAIQI 252
K+ AMAK+AA A A+Q+
Sbjct: 749 KKA-RGIIAMAKVAAPNMALKVLDMAMQV 776
>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 = 77.0 bits (189), Expect = 3e-16
Identities = 48/170 (28%), Positives = 86/170 (50%), Gaps = 5/170 (2%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTD-KSKKHKGISAFIVDKPTK 106
DL + T A++ + W +NG K W T ++ TD +KK GIS +VD +K
Sbjct: 135 DLASLKTKAEKKGDKWIINGQKTWTTLAQHADWIFCLCRTDPTAKKQMGISFILVDMKSK 194
Query: 107 GLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQAL 166
G+++ + G + F+D +P ENL+GE G+ A L R GIA +
Sbjct: 195 GITVRPIQTIDG--GVEVNEVFFDDVEVPYENLVGEENKGWDYAKFLLGNERTGIAR--V 250
Query: 167 GIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWR 216
G+++ + + A+K + G+P+I+ ++K+A + ++L++ L R
Sbjct: 251 GVSKERIRRIKDLAAKVESGGKPVIEDAKFREKLAAVEIELKALELTQLR 300
>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 = 71.0 bits (175), Expect = 9e-16
Identities = 24/50 (48%), Positives = 35/50 (70%)
Query: 1 MLYKTVRDFTEGELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLG 50
L TVR+F E E+ P AA+ D E +P+E +K+GELGL+G+ +PE+ G
Sbjct: 6 ALRDTVREFAEEEVAPHAAEWDEEGEFPRELWRKLGELGLLGLTIPEEYG 55
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 61.4 bits (149), Expect = 9e-11
Identities = 49/165 (29%), Positives = 76/165 (46%), Gaps = 22/165 (13%)
Query: 38 LGLMGVEVPE---DLGAASTVAKQDSNG-WTLNGTKAWITNG----YESEATVVFATTDK 89
G M + P+ DLG T A+ ++G + + GTK +I+ G E+ +V A
Sbjct: 182 SGTMCLTEPQCGTDLGQVKTKAEPSADGSYKITGTKIFISAGDHDLTENIVHIVLARLPN 241
Query: 90 SKKH-KGISAFIVDK----------PTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAEN 138
S KG+S F+V + K + E K+GI SSTC L FE+
Sbjct: 242 SLPTTKGLSLFLVPRHVVKPDGSLETAKNVKCIGLEKKMGIKGSSTCQLSFEN---SVGY 298
Query: 139 LLGEPGMGFKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKR 183
L+GEP G K ++ R+G A + + A+ + A+ YA +R
Sbjct: 299 LIGEPNAGMKQMFTFMNTARVGTALEGVCHAELAFQNALRYARER 343
>gnl|CDD|219705 pfam08028, Acyl-CoA_dh_2, Acyl-CoA dehydrogenase, C-terminal
domain.
Length = 134
Score = 56.9 bits (138), Expect = 2e-10
Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 10/95 (10%)
Query: 159 IGIASQALGIAQASLDCAVEYASKR--TAFGQPIIKLQSIQQKIADMSLKLESARLLTWR 216
+G A+ ALG A+ +L +E A +R G P+ + + Q ++A+ + ++++ARLL R
Sbjct: 1 LGFAAPALGAARGALAAFIERARERVRAYGGAPLAEDPATQTRLAEAAAEIDAARLLLER 60
Query: 217 AAYLK----DNKQPFTK----EAAMAKLAASETAT 243
AA D T A A+E A
Sbjct: 61 AADRIWAHADRGDEVTPEERARARRDAALAAELAV 95
>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 = 54.3 bits (131), Expect = 2e-08
Identities = 48/209 (22%), Positives = 86/209 (41%), Gaps = 19/209 (9%)
Query: 49 LGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGL 108
G T +D G+ LNG K + T S+ V A ++ K + V G+
Sbjct: 117 PGTFLTATVRDGGGYVLNGKKFYSTGALFSDWVTVSALDEEGK----LVFAAVPTDRPGI 172
Query: 109 SLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQALGI 168
++ D G +++ ++ F++ + + +L P + ++T + A GI
Sbjct: 173 TVVDDWDGFGQRLTASGTVTFDNVRVEPDEVLPRPNAPDRGTLLTAIYQLVLAAV-LAGI 231
Query: 169 AQASLDCAVEYASKRT-AFGQPIIKLQS----IQQKIADMSLKLESARLLTWRAAYLKDN 223
A+A+LD AV Y RT + + +QQ + D++ +L +A L +AA D
Sbjct: 232 ARAALDDAVAYVRSRTRPWIHSGAESARDDPYVQQVVGDLAARLHAAEALVLQAARALDA 291
Query: 224 KQPFTKEAAMAKLAASETATYNAHQAIQI 252
AA A A + A A+ +
Sbjct: 292 -------AAAAGTALTAEA--RGEAALAV 311
>gnl|CDD|183199 PRK11561, PRK11561, isovaleryl CoA dehydrogenase; Provisional.
Length = 538
Score = 54.4 bits (131), Expect = 2e-08
Identities = 66/225 (29%), Positives = 110/225 (48%), Gaps = 29/225 (12%)
Query: 25 HLYPKEQIKKMGELGLMGVEVPE---DLGAASTVAKQDSNG-WTLNGTKAWITNGYESEA 80
HL P Q K G L MG+ + D+ + +T A++ ++G + L G K W + +S+A
Sbjct: 168 HLLPGGQ--KRGLLIGMGMTEKQGGSDVLSNTTRAERLADGSYRLVGHK-WFFSVPQSDA 224
Query: 81 TVVFATTDKSKKHKGISAFIV-----DKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIP 135
+V A G+S F V D + L + +DKLG ++++ + F+D
Sbjct: 225 HLVLAQAKG-----GLSCFFVPRFLPDGQRNAIRLERLKDKLGNRSNASSEVEFQDAI-- 277
Query: 136 AENLLGEPGMG----FKIAMMTLDAGRIGIASQALGIAQASLDCAVEYASKRTAFGQPII 191
LLGE G G K+ MT R A + G+ + + A+ +A +R FG+P+I
Sbjct: 278 -GWLLGEEGEGIRLILKMGGMT----RFDCALGSHGLMRRAFSVAIYHAHQRQVFGKPLI 332
Query: 192 KLQSIQQKIADMSLKLESARLLTWRAAYLKDNKQPFTKEAAMAKL 236
+ ++Q ++ M+L+LE L +R A D + KEA A+L
Sbjct: 333 EQPLMRQVLSRMALQLEGQTALLFRLARAWDRRAD-AKEALWARL 376
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 52.7 bits (127), Expect = 6e-08
Identities = 65/231 (28%), Positives = 100/231 (43%), Gaps = 37/231 (16%)
Query: 39 GLMGVEVPEDLGA---ASTVAKQDSNG-----WTLNGTKAWITNGYESEATVV---FATT 87
L G E D GA V + + G L K +IT ATV+ F
Sbjct: 197 ALTGPEAGSDAGAIPDTGIVCRGEFEGEEVLGLRLTWDKRYITLA--PVATVLGLAFKLR 254
Query: 88 DK-----SKKHKGISAFIVDKPTKGLSLGKKEDKLGI---NASSTCSLIFEDCSIPAENL 139
D KK GI+ ++ G+ +G++ + LG+ N ++ +F IP + +
Sbjct: 255 DPDGLLGDKKELGITCALIPTDHPGVEIGRRHNPLGMAFMNGTTRGKDVF----IPLDWI 310
Query: 140 LGEP---GMGFKIAMMTLDAGRIGIASQALGIAQASLD--CAVEYASKRTAFGQPIIKLQ 194
+G P G G+++ + L AGR GI+ ALG A + YA R FG PI + +
Sbjct: 311 IGGPDYAGRGWRMLVECLSAGR-GISLPALGTASGHMATRTTGAYAYVRRQFGMPIGQFE 369
Query: 195 SIQQKIADMSLK---LESARLLTWRAAYLKDNKQPFTKEAAMAKLAASETA 242
+Q+ +A ++ LE+AR LT L T A+AK +E A
Sbjct: 370 GVQEALARIAGNTYLLEAARRLTTTGLDLGVKPSVVT---AIAKYHMTELA 417
>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 = 47.5 bits (114), Expect = 7e-08
Identities = 18/41 (43%), Positives = 25/41 (60%)
Query: 48 DLGAASTVAKQDSNGWTLNGTKAWITNGYESEATVVFATTD 88
DL + T A++D +GW LNG K WITN ++ +V A T
Sbjct: 12 DLASLETTAERDGDGWVLNGRKWWITNAALADLALVLARTG 52
>gnl|CDD|236528 PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.
Length = 777
Score = 52.5 bits (127), Expect = 9e-08
Identities = 41/138 (29%), Positives = 62/138 (44%), Gaps = 38/138 (27%)
Query: 110 LGKKEDKLGINASSTCSLI-------------------F-------EDCSIPAENLLGEP 143
LG KED LGI TC+LI F +D IP + ++G P
Sbjct: 261 LGDKED-LGI----TCALIPTDTPGVEIGRRHFPLNVPFQNGPTRGKDVFIPLDYIIGGP 315
Query: 144 ---GMGFKIAMMTLDAGR-IGIASQALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQK 199
G G+++ M L GR I + S + G A+ + YA R F PI K + I++
Sbjct: 316 KMAGQGWRMLMECLSVGRGISLPSNSTGGAKLAALATGAYARIRRQFKLPIGKFEGIEEP 375
Query: 200 IADMSLK---LESARLLT 214
+A ++ +++AR LT
Sbjct: 376 LARIAGNAYLMDAARTLT 393
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 48.3 bits (115), Expect = 2e-06
Identities = 53/191 (27%), Positives = 74/191 (38%), Gaps = 43/191 (22%)
Query: 68 TKAWITNG-YESEATVVFA-----TTD-KSKKHKGISAFIVDKPTK---------GLSLG 111
K WI N + VFA T D K G+ AFIV P + G+ +
Sbjct: 214 IKWWIGNAAVHGKFATVFARLKLPTHDSKGVSDMGVHAFIV--PIRDMKTHQVLPGVEIR 271
Query: 112 KKEDKLGINASSTCSLIFEDCSIPAENLLGEPG----------------MGFKIAMMTLD 155
K+G+N +L F IP +NLL G F + L
Sbjct: 272 DCGHKVGLNGVDNGALRFRSVRIPRDNLLNRFGDVSRDGKYTSSLPTINKRFAATLGELV 331
Query: 156 AGRIGIASQALGIAQASLDCAVEYASKRTAFGQP------IIKLQSIQQKIADMSLKLES 209
GR+G+A ++G+ +AS A+ Y+ R FG P I+ QS Q K+ M L S
Sbjct: 332 GGRVGLAYGSVGVLKASNTIAIRYSLLRQQFGPPKQPEISILDYQSQQHKLMPM---LAS 388
Query: 210 ARLLTWRAAYL 220
+ YL
Sbjct: 389 TYAFHFATEYL 399
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 45.5 bits (108), Expect = 1e-05
Identities = 37/142 (26%), Positives = 60/142 (42%), Gaps = 25/142 (17%)
Query: 69 KAWITNGYESEAT--VVFATTDKSKKHKGISAFIVD------KPTKGLSLGKKEDKLGIN 120
K WI G + AT +VF+ + K++G+ AFI + + K+G+N
Sbjct: 227 KYWI-GGAANHATHTIVFSQLHINGKNEGVHAFIAQIRDQDGNICPNIRIADCGHKIGLN 285
Query: 121 ASSTCSLIFEDCSIPAENLLG----------------EPGMGFKIAMMTLDAGRIGIASQ 164
+ F++ IP ENLL +P F + L +GR+ IA
Sbjct: 286 GVDNGRIWFDNLRIPRENLLNSVADVSPDGKYVSAIKDPDQRFGAFLAPLTSGRVTIAVS 345
Query: 165 ALGIAQASLDCAVEYASKRTAF 186
A+ ++ L A+ Y+ R AF
Sbjct: 346 AIYSSKVGLAIAIRYSLSRRAF 367
>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 = 44.6 bits (106), Expect = 3e-05
Identities = 57/231 (24%), Positives = 85/231 (36%), Gaps = 45/231 (19%)
Query: 64 TLNGTKAWITN-GYESEATVVFATTDKSKKHKGISAFIVD-------KPTKGLSLGKKED 115
TK W N G + VVFA K+ G+ AFIV +P G+++G
Sbjct: 171 DFTATKWWPGNLGKTATHAVVFAQLITPGKNHGLHAFIVPIRDPKTHQPLPGVTVGDIGP 230
Query: 116 KLGINASSTCSLIFEDCSIPAENLLG----------------EPGMGFKIAMMTLDAGRI 159
K+G+N L F + IP ENLL +P + + T GR+
Sbjct: 231 KMGLNGVDNGFLQFRNVRIPRENLLNRFGDVSPDGTYVSPFKDPNKRYGAMLGTRSGGRV 290
Query: 160 GIASQALGIAQASLDCAVEYASKRTAFGQ-------PIIKLQSIQQKIADMSLKLESARL 212
G+ A + + A+ Y++ R FG I+ Q Q ++ L +A
Sbjct: 291 GLIYDAAMSLKKAATIAIRYSAVRRQFGPKPSDPEVQILDYQLQQYRLFPQ---LAAAYA 347
Query: 213 LTWRAAYLKDNKQPFTKEAAMAK---------LAAS--ETATYNAHQAIQI 252
+ A L + KE L+A AT+ A Q IQ
Sbjct: 348 FHFAAKSLVEMYHEIIKELLQGNSELLAELHALSAGLKAVATWTAAQGIQE 398
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 40.2 bits (94), Expect = 7e-04
Identities = 38/154 (24%), Positives = 64/154 (41%), Gaps = 32/154 (20%)
Query: 75 GYESEATVVFATTDKSKKHKGISAFIVD-------KPTKGLSLGKKEDKLGINASSTCSL 127
G+ +V+A + K+KG+ F+V KP +G+ +G K+G L
Sbjct: 176 GFLCNFALVYAKLIVNGKNKGVHPFMVRIRDKETHKPLQGVEVGDIGPKMGYAVKDNGFL 235
Query: 128 IFEDCSIPAENLL---------------GEPGMGFKIAMMTLDAGRIGIASQALGIAQAS 172
F+ IP ++LL G P + + +MM + R I Q A +
Sbjct: 236 SFDHYRIPLDSLLARYIKVSEDGQVERQGNPKVSYA-SMMYM---RNLIIDQYPRFAAQA 291
Query: 173 LDCAVEYASKRTAF----GQP--IIKLQSIQQKI 200
L A+ Y+ R F Q +++ Q+ QQK+
Sbjct: 292 LTVAIRYSIYRQQFTNDNKQENSVLEYQTQQQKL 325
>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 = 35.4 bits (82), Expect = 0.021
Identities = 34/207 (16%), Positives = 80/207 (38%), Gaps = 23/207 (11%)
Query: 56 AKQDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGLSLGKKED 115
A++ G+ ++GT + + ++ +V A + AF+V P +
Sbjct: 113 AERVDGGYRVSGTWPFASGCDHADWILVGAIVEDDDGGPLPRAFVV--PRAEYEIVDTWH 170
Query: 116 KLGINASSTCSLIFEDCSIPAENLLGEPGM-----------GFKIAMMTLDAGRIGIASQ 164
+G+ + + +++ +D +P L M +++ + + + A+
Sbjct: 171 VVGLRGTGSNTVVVDDVFVPEHRTLTAGDMMAGDGPGGSTPVYRMPLRQVFP--LSFAAV 228
Query: 165 ALGIAQASLDCAVEYASKR---TAFGQPIIKLQSIQQKIADMSLKLESARLL---TWRAA 218
+LG A+ +L +E A KR + + Q ++A+ + +L++AR R
Sbjct: 229 SLGAAEGALAEFLELAGKRVRQYGAAVKMAEAPITQLRLAEAAAELDAARAFLERATRDL 288
Query: 219 Y--LKDNKQPFTKEAAMAKLAASETAT 243
+ +E A + A+ A
Sbjct: 289 WAHALAGGPIDVEERARIRRDAAYAAK 315
>gnl|CDD|109652 pfam00604, Flu_PB2, Influenza RNA-dependent RNA polymerase subunit
PB2. PB2 can bind 5' end cap structure of RNA.
Length = 759
Score = 32.9 bits (75), Expect = 0.17
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 30 EQIKKMGELGLMGVEVPEDLGAAS-TVAKQDSNGWTLNGTKAWITNGYE 77
+ G + L +V E G T+ W +NG K+ + N Y+
Sbjct: 503 RVRDQRGNVLLSPEDVSETQGTEKLTITYSSPMMWEINGPKSVLVNTYQ 551
>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 = 31.8 bits (73), Expect = 0.33
Identities = 44/207 (21%), Positives = 82/207 (39%), Gaps = 35/207 (16%)
Query: 58 QDSNGWTLNGTKAWITNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGLSLGKKEDKL 117
+D +G+ LNG K + T + V A D + AF V + GL++
Sbjct: 137 RDGDGYRLNGRKFYSTGALFAHWIPVLALDDDGRPVL---AF-VPRDAPGLTVIDDWSGF 192
Query: 118 GINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRIGIASQA---LGIAQASLD 174
G +++ +++ +D +PAE+++ + AG + A GIA+A+L
Sbjct: 193 GQRTTASGTVLLDDVRVPAEHVVP----IQRAFDRPTAAGPVAQIIHAAIDAGIARAALA 248
Query: 175 CAVEYASKRT----------AFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDNK 224
+ + +R A P+ ++ D++++L +A L RA D
Sbjct: 249 DTLAFVRERARPWIDSGVERASDDPL-----TIAEVGDLAIRLHAAEALLERAGRAVDAA 303
Query: 225 QPFTKEA---------AMAKLAASETA 242
+ E A AK+ +E A
Sbjct: 304 RAEPTEESVAAASIAVAEAKVLTTEIA 330
Score = 29.9 bits (68), Expect = 1.5
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 13 ELKPIAAKLDREHLYPKEQIKKMGELGLMGVEVPEDLGAAS----TVAK 57
E P AA+ DRE P ++ + GL G+ VP G A T+A+
Sbjct: 20 EFAPGAAERDRERRLPWAELDAFSQSGLWGITVPRAYGGAGVSYATLAE 68
>gnl|CDD|178062 PLN02443, PLN02443, acyl-coenzyme A oxidase.
Length = 664
Score = 31.7 bits (72), Expect = 0.41
Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 64 TLNGTKAWITN-GYESEATVVFATTDKSKKHKGISAFIVD-------KPTKGLSLGKKED 115
TL +K W G S VV+A + K GI FIV P G+++G
Sbjct: 168 TLTSSKWWPGGLGKVSTHAVVYARLITNGKDHGIHGFIVQLRSLDDHSPLPGVTVGDIGM 227
Query: 116 KLGINASSTCS---LIFEDCSIPAENLL 140
K G A +T L F+ IP + +L
Sbjct: 228 KFGNGAYNTMDNGFLRFDHVRIPRDQML 255
>gnl|CDD|185636 PTZ00457, PTZ00457, acyl-CoA dehydrogenase; Provisional.
Length = 520
Score = 30.6 bits (69), Expect = 0.84
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 14/72 (19%)
Query: 97 SAFIVDKPTKGLSLGKKEDKLGINASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDA 156
S FI K KG+S +N S ++FE+ PA +++G G GFK AM+TL
Sbjct: 203 SFFICAKDAKGVS---------VNGDS---VVFEN--TPAADVVGVVGEGFKDAMITLFT 248
Query: 157 GRIGIASQALGI 168
+ A+ LGI
Sbjct: 249 EQYLYAASLLGI 260
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 29.7 bits (67), Expect = 1.9
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 122 SSTCSLIFEDCSIPAENLLGEPGM--GFKIAMMTLDAGRIG 160
S+ +LIFE C + L +P M G I MM+ D RI
Sbjct: 318 SALNALIFEKCFTISSKSLAQPDMNTGRIINMMSTDVERIN 358
>gnl|CDD|153352 cd07668, BAR_SNX9, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 9. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. Sorting nexins (SNXs)
are Phox homology (PX) domain containing proteins that
are involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. SNX9, also known as SH3PX1, is a
cytosolic protein that interacts with proteins
associated with clathrin-coated pits such as
Cdc-42-associated tyrosine kinase 2 (ACK2). It binds
class I polyproline sequences found in dynamin 1/2 and
the WASP/N-WASP actin regulators. SNX9 is localized to
plasma membrane endocytic sites and acts primarily in
clathrin-mediated endocytosis. Its array of interacting
partners suggests that SNX9 functions at the interface
between endocytosis and actin cytoskeletal organization.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 210
Score = 28.8 bits (64), Expect = 2.5
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 73 TNGYESEATVVFATTDKSKKHKGISAFIVDKPTKGL 108
T+GY+ E + A T+ K ++ I++ + ++P K L
Sbjct: 66 TSGYQGETDLNDAITEAGKTYEEIASLVAEQPKKDL 101
>gnl|CDD|185759 cd09220, GH64-GluB-like, glycoside hydrolase family 64:
beta-1,3-glucanase B (GluB)-like. This subfamily is
represented by GluB, beta-1,3-glucanase B , from
Lysobacter enzymogenes Strain N4-7 and related bacterial
and ascomycete proteins. GluB is a member of the
glycoside hydrolase family 64 (GH64) involved in the
cleavage of long-chain polysaccharide beta-1,3-glucans,
into specific pentasaccharide oligomers. Among bacteria,
many beta-1,3-glucanases are implicated in fungal cell
wall degradation. GluB possesses the conserved Glu and
Asp residues required to cleave substrate
beta-1,3-glucans. Recombinant GluB demonstrated higher
relative activity toward the branched-chain beta-1,3
glucan substrate zymosan A than toward linear beta-1,3
glucan substrates. Based on the structure of
laminaripentaose-producing, beta-1,3-glucanase (LPHase)
of Streptomyces matensis, which belongs to the same
family as GluB but to a different subfamily, this cd is
a two-domain model. Sometimes these two domains are
found associated with other domains such as in the
Catenulispora acidiphila DSM 44928 carbohydrate binding
family 6 protein in which they are positioned N-terminal
of a carbohydrate binding module, family 6 (CBM_6)
domain.
Length = 369
Score = 28.8 bits (65), Expect = 2.5
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 120 NASSTCSLIFEDCSIPAENLLGEPGMGFKIAMMTLDAGRI 159
+ S+ S + DC+IP LG PG + + L GRI
Sbjct: 43 SPSAVPSPLGADCAIP----LGAPGSTTTVTIPILAGGRI 78
>gnl|CDD|106256 PRK13296, PRK13296, tRNA CCA-pyrophosphorylase; Provisional.
Length = 360
Score = 27.6 bits (61), Expect = 7.5
Identities = 23/89 (25%), Positives = 39/89 (43%)
Query: 164 QALGIAQASLDCAVEYASKRTAFGQPIIKLQSIQQKIADMSLKLESARLLTWRAAYLKDN 223
+AL I ++ C + ++ F PI K +I +KI LK+ +L R L N
Sbjct: 199 EALKIIFPNISCILPLIPNKSFFENPIYKGSNINEKITLCLLKIPQQQLDDIRKELLLTN 258
Query: 224 KQPFTKEAAMAKLAASETATYNAHQAIQI 252
K +A++A E + A + Q+
Sbjct: 259 KHYKLLKASIAISKILEDRSITAEEIFQL 287
>gnl|CDD|182486 PRK10473, PRK10473, multidrug efflux system protein MdtL;
Provisional.
Length = 392
Score = 27.3 bits (61), Expect = 8.2
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 146 GFKIAMMTLDAG---RIGIASQALGIAQASL 173
GF +AM R G+AS LGIAQ
Sbjct: 309 GFGVAMSQALGPFSLRAGVASSTLGIAQVCG 339
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 0.130 0.365
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,715,156
Number of extensions: 1164688
Number of successful extensions: 1081
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1035
Number of HSP's successfully gapped: 73
Length of query: 260
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 165
Effective length of database: 6,723,972
Effective search space: 1109455380
Effective search space used: 1109455380
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: 58 (26.2 bits)