RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1771
(217 letters)
>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 = 256 bits (655), Expect = 3e-82
Identities = 112/246 (45%), Positives = 136/246 (55%), Gaps = 47/246 (19%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL------- 59
W LGK ATHA+VFA+LITP +HGLHAF+VPIRDPKT P PGVTVGD+
Sbjct: 177 WWPGNLGKTATHAVVFAQLITPGK-NHGLHAFIVPIRDPKTHQPLPGVTVGDIGPKMGLN 235
Query: 60 ----------------------------EGTYTSPFRDPGKRFGSSLGALSTGRVSIIGF 91
+GTY SPF+DP KR+G+ LG S GRV +I
Sbjct: 236 GVDNGFLQFRNVRIPRENLLNRFGDVSPDGTYVSPFKDPNKRYGAMLGTRSGGRVGLIYD 295
Query: 92 CVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRV 151
L KA TIA+RY+ VRRQFGP SD E +L+Y+L Q+RLFP LAA Y
Sbjct: 296 AAMSLKKAATIAIRYSAVRRQFGPK--PSDPEV---QILDYQLQQYRLFPQLAAAYAFHF 350
Query: 152 FSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACG 211
+ +L++G + AE+HALS+ K +A W A GIQECREACG
Sbjct: 351 AAKSLVEMYHEIIKELLQGNSEL------LAELHALSAGLKAVATWTAAQGIQECREACG 404
Query: 212 GHGYLK 217
GHGYL
Sbjct: 405 GHGYLA 410
>gnl|CDD|178062 PLN02443, PLN02443, acyl-coenzyme A oxidase.
Length = 664
Score = 144 bits (364), Expect = 6e-40
Identities = 86/252 (34%), Positives = 117/252 (46%), Gaps = 54/252 (21%)
Query: 3 TVLQWIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL--- 59
T +W LGK +THA+V+ARLIT + DHG+H F+V +R P PGVTVGD+
Sbjct: 170 TSSKWWPGGLGKVSTHAVVYARLIT-NGKDHGIHGFIVQLRSLDDHSPLPGVTVGDIGMK 228
Query: 60 --EGTYTS---------PFRDP--------------GKRFGSSL------GALSTGRVSI 88
G Y + R P GK S + G + R +I
Sbjct: 229 FGNGAYNTMDNGFLRFDHVRIPRDQMLMRLSKVTREGKYVQSDVPRQLVYGTMVYVRQTI 288
Query: 89 IGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYM 148
+ LS+A+ IA RY+ VRRQFG S E V++Y+ Q RLFP LA+ Y
Sbjct: 289 VADASTALSRAVCIATRYSAVRRQFG-----SQDGGPETQVIDYKTQQSRLFPLLASAYA 343
Query: 149 LRVFSDY----FTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQ 204
R ++ +T R + D+ + E HA ++ K L DGI+
Sbjct: 344 FRFVGEWLKWLYTDVTQRLE--------ANDF--STLPEAHACTAGLKSLTTSATADGIE 393
Query: 205 ECREACGGHGYL 216
ECR+ CGGHGYL
Sbjct: 394 ECRKLCGGHGYL 405
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 130 bits (328), Expect = 6e-35
Identities = 89/257 (34%), Positives = 118/257 (45%), Gaps = 62/257 (24%)
Query: 2 GTVLQWIVYKLGKCATH---AIVFARLI--TPDS---VDHGLHAFLVPIRDPKTLLPYPG 53
G + WI G A H A VFARL T DS D G+HAF+VPIRD KT PG
Sbjct: 212 GAIKWWI----GNAAVHGKFATVFARLKLPTHDSKGVSDMGVHAFIVPIRDMKTHQVLPG 267
Query: 54 VTV---------------------------------GDL--EGTYTSPFRDPGKRFGSSL 78
V + GD+ +G YTS KRF ++L
Sbjct: 268 VEIRDCGHKVGLNGVDNGALRFRSVRIPRDNLLNRFGDVSRDGKYTSSLPTINKRFAATL 327
Query: 79 GALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWR 138
G L GRV + V L + TIA+RY+ +R+QFGPPKQ E+ +L+Y+ Q +
Sbjct: 328 GELVGGRVGLAYGSVGVLKASNTIAIRYSLLRQQFGPPKQ------PEISILDYQSQQHK 381
Query: 139 LFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSAGKPLAGWI 198
L P LA+ Y ++Y +MK K + + A++HALS+ K
Sbjct: 382 LMPMLASTYAFHFATEYLVERYS--EMK-------KTHDDQLVADVHALSAGLKAYITSY 432
Query: 199 ARDGIQECREACGGHGY 215
+ CREACGGHGY
Sbjct: 433 TAKALSTCREACGGHGY 449
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 99 bits (249), Expect = 3e-24
Identities = 68/242 (28%), Positives = 108/242 (44%), Gaps = 57/242 (23%)
Query: 11 KLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL--EGTYTSP-- 66
+LG A+V+A+LI + + G+H F+V IRD +T P GV VGD+ + Y
Sbjct: 174 ELGFLCNFALVYAKLIV-NGKNKGVHPFMVRIRDKETHKPLQGVEVGDIGPKMGYAVKDN 232
Query: 67 -------FRDP--------------GK--RFGS---SLGALSTGRVSIIGFCVAYLSKAI 100
+R P G+ R G+ S ++ R II + ++A+
Sbjct: 233 GFLSFDHYRIPLDSLLARYIKVSEDGQVERQGNPKVSYASMMYMRNLIIDQYPRFAAQAL 292
Query: 101 TIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREM 160
T+A+RY+ R+QF ++ +E VLEY+ Q +L P LA Y +F
Sbjct: 293 TVAIRYSIYRQQF------TNDNKQENSVLEYQTQQQKLLPLLAEFYAC-IFGG------ 339
Query: 161 GRFQMKLMEGGGD-------KDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGH 213
+K+ E D D+ ++ HA+ SA K + + + CR +CGGH
Sbjct: 340 ----LKIKELVDDNFNRVQKNDF--SLLQLTHAILSAAKANYTYFVSNCAEWCRLSCGGH 393
Query: 214 GY 215
GY
Sbjct: 394 GY 395
>gnl|CDD|215178 PLN02312, PLN02312, acyl-CoA oxidase.
Length = 680
Score = 99.5 bits (248), Expect = 3e-24
Identities = 71/238 (29%), Positives = 103/238 (43%), Gaps = 63/238 (26%)
Query: 16 ATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDL---------------- 59
ATH IVF++L + + G+HAF+ IRD + P + + D
Sbjct: 237 ATHTIVFSQLHI-NGKNEGVHAFIAQIRDQDGNI-CPNIRIADCGHKIGLNGVDNGRIWF 294
Query: 60 -------------------EGTYTSPFRDPGKRFGSSLGALSTGRVSIIGFCVAYLSK-A 99
+G Y S +DP +RFG+ L L++GRV+I + Y SK
Sbjct: 295 DNLRIPRENLLNSVADVSPDGKYVSAIKDPDQRFGAFLAPLTSGRVTIAVSAI-YSSKVG 353
Query: 100 ITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTRE 159
+ IA+RY+ RR F G PE L +L+Y Q RL P LA Y + ++
Sbjct: 354 LAIAIRYSLSRRAFSVTPNG----PEVL-LLDYPSHQRRLLPLLAKTYAMSFAAND---- 404
Query: 160 MGRFQMKLMEGGGDKDYLG---AMGAEIHALSSAGKPLAGWIARDGIQECREACGGHG 214
+K++ Y+ IH +SS K + W +QECREACGG G
Sbjct: 405 -----LKMI-------YVKRTPESNKAIHVVSSGFKAVLTWHNMRTLQECREACGGQG 450
>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 = 88.5 bits (220), Expect = 5e-21
Identities = 51/221 (23%), Positives = 76/221 (34%), Gaps = 55/221 (24%)
Query: 16 ATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSPFRD--- 69
A IV AR G+ AFLVP P GVTVG + G S +
Sbjct: 113 ADLFIVLARTDEEGPGHRGISAFLVPADTP-------GVTVGRIWDKMGMRGSGTGELVF 165
Query: 70 -------------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPP 116
G F ++ L+ GR+ + + A+ AV YA R+QFG
Sbjct: 166 DDVRVPEDNLLGEEGGGFELAMKGLNVGRLLLAAVALGAARAALDEAVEYAKQRKQFGK- 224
Query: 117 KQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDY 176
P+ E++ +Q++L A + R L++ G D
Sbjct: 225 -----------PLAEFQAVQFKLADMAAELEAAR----LLLYRAAW----LLDQGPD--- 262
Query: 177 LGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
E ++ K A AR+ + GG GY +
Sbjct: 263 ------EARLEAAMAKLFATEAAREVADLAMQIHGGRGYSR 297
>gnl|CDD|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
Length = 393
Score = 63.3 bits (154), Expect = 7e-12
Identities = 50/230 (21%), Positives = 78/230 (33%), Gaps = 57/230 (24%)
Query: 7 WIVYKLGKCATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE------ 60
WI A +V AR G+ FLVP PGV+VG +
Sbjct: 163 WISN--APVADWLLVLARTDPAPGKHKGISLFLVPKDLT------PGVSVGPILKKMGLR 214
Query: 61 GTYTSP--FRD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYA 107
G+ T F D G F ++ L+ R+ I + A+ AV YA
Sbjct: 215 GSATGEVFFDDVRVPAENLLGEEGDGFKIAMETLNVERLGIAAQALGIAEAALEEAVAYA 274
Query: 108 GVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKL 167
R+QFG P+ +++L+Q++L A + R+
Sbjct: 275 RERKQFGR------------PIADFQLVQFKLADMAAELEAARLLVLRAAELADA----- 317
Query: 168 MEGGGDKDYLGAMGAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
G + A ++ K A A + E + GG+GY +
Sbjct: 318 -------------GDDAGAEAAMAKLFATEAALEVADEAVQVHGGYGYTE 354
>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 = 41.1 bits (97), Expect = 7e-05
Identities = 27/147 (18%), Positives = 59/147 (40%), Gaps = 30/147 (20%)
Query: 71 GKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVL 130
G+ F ++ L+ R+ I + +A+ A+ YA R+ FG P++
Sbjct: 1 GRGFAVAMETLNHERLLIAAAALGLARRALDEAIEYARQRKAFGR------------PLI 48
Query: 131 EYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSA 190
+++L++ +L A + R+ + + ++ GG A ++
Sbjct: 49 DFQLIRHKLADMAAELEAARL--------LVYRAAEALDAGGP----------DPAEAAM 90
Query: 191 GKPLAGWIARDGIQECREACGGHGYLK 217
K A +A++ + GG+GY +
Sbjct: 91 AKLYASELAQEVADLAMQLLGGYGYSR 117
>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 = 40.7 bits (96), Expect = 2e-04
Identities = 35/120 (29%), Positives = 46/120 (38%), Gaps = 27/120 (22%)
Query: 16 ATHAIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLE---GTYTSP-----F 67
A IVFA P G+ AF+V PG++VG E G S F
Sbjct: 157 ADFYIVFAV-TDPSKGYRGITAFIVE-------RDTPGLSVGKKEDKLGIRGSSTTELIF 208
Query: 68 RD-----------PGKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPP 116
D G+ F ++ L GR+ I + A+ AV YA R+QFG P
Sbjct: 209 EDVRVPKENILGEEGEGFKIAMQTLDGGRIGIAAQALGIAQAALDAAVDYAKERKQFGKP 268
>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 = 36.3 bits (84), Expect = 0.008
Identities = 35/147 (23%), Positives = 61/147 (41%), Gaps = 28/147 (19%)
Query: 71 GKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVL 130
G F ++ L+ GR + + + + I AV YA R+QFG +
Sbjct: 254 GDGFKVAMNILNNGRFGMGAALIGTMKRCIEKAVDYANNRKQFGK------------KIH 301
Query: 131 EYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSA 190
E+ L+Q + LA + +L+ Y T M M+ G +Y + A I + ++
Sbjct: 302 EFGLIQEK----LANMAILQ----YATESMAYMTSGNMDRGLKAEY--QIEAAISKVFAS 351
Query: 191 GKPLAGWIARDGIQECREACGGHGYLK 217
A W+ D E + GG G+++
Sbjct: 352 E---AAWLVVD---EAIQIHGGMGFMR 372
>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 = 33.9 bits (78), Expect = 0.044
Identities = 50/217 (23%), Positives = 80/217 (36%), Gaps = 57/217 (26%)
Query: 20 IVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVG---DLEGTYTSP-----FRDPG 71
+V+A+ P + HG+ AF+V P G + D G S F D
Sbjct: 164 VVYAK-TDPSAGAHGITAFIVEKGMP-------GFSRAQKLDKLGMRGSNTCELVFEDCE 215
Query: 72 KRFGSSLGALSTG-----------RVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGS 120
+ LG + G R+ + G + + A+ +A+ YA R+QFG
Sbjct: 216 VPEENILGGENKGVYVLMSGLDYERLVLAGGPIGIMQAALDVAIPYAHQRKQFGQ----- 270
Query: 121 DSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAM 180
P+ E++L+Q +L M Y R + + D+ +
Sbjct: 271 -------PIGEFQLVQGKL------ADM------YTRLNASRSYLYTVAKACDRGNMDPK 311
Query: 181 GAEIHALSSAGKPLAGWIARDGIQECREACGGHGYLK 217
A L +A K A +A D IQ GG+GY+
Sbjct: 312 DAAGVILYAAEK--ATQVALDAIQ----ILGGNGYIN 342
>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 = 30.5 bits (69), Expect = 0.55
Identities = 36/147 (24%), Positives = 59/147 (40%), Gaps = 29/147 (19%)
Query: 71 GKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVL 130
G+ FG ++ L+ GR++I + A+ +A Y R+QFG P+
Sbjct: 223 GQGFGIAMAGLNGGRLNIASCSLGAAQAALDLARAYLEERKQFGK------------PLA 270
Query: 131 EYELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGAEIHALSSA 190
+++ LQ++L + R+ + R L G D L AM A+ A
Sbjct: 271 DFQALQFKLADMATELVASRLM-------VRRAASALDRGDPDAVKLCAM-AKRFATDEC 322
Query: 191 GKPLAGWIARDGIQECREACGGHGYLK 217
+A +Q GG+GYLK
Sbjct: 323 FD-----VANQALQ----LHGGYGYLK 340
>gnl|CDD|224536 COG1621, SacC, Beta-fructosidases (levanase/invertase)
[Carbohydrate transport and metabolism].
Length = 486
Score = 29.3 bits (66), Expect = 1.8
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 51 YPGVTVGDLEGTYTSPFRDP 70
Y G + D YT FRDP
Sbjct: 146 YSGNPIIDQPEGYTPHFRDP 165
>gnl|CDD|221133 pfam11554, DUF3232, Protein of unknown function (DUF3232). This
bacterial family of proteins has no known function.
Length = 149
Score = 28.5 bits (63), Expect = 1.9
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 9/68 (13%)
Query: 95 YLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEYELLQWRLFPHLAAVYMLRVFSD 154
Y +K + + +R R + E EEL L EL + R H AA+ L VF+
Sbjct: 50 YFNKVVEMEIRLQTARFRL---------EGEELRDLTEELDRSRRSAHEAAISSLHVFNR 100
Query: 155 YFTREMGR 162
Y +E G
Sbjct: 101 YAVKEYGE 108
>gnl|CDD|99994 cd03825, GT1_wcfI_like, This family is most closely related to the
GT1 family of glycosyltransferases. wcfI in Bacteroides
fragilis has been shown to be involved in the capsular
polysaccharide biosynthesis.
Length = 365
Score = 28.8 bits (65), Expect = 2.3
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 15 CATHAIVFARLITPDSVDHGLHAFLVPIRDPKTL 48
C T + F PD VDHG+ +L DP+ L
Sbjct: 287 CGTPVVAFDVGGIPDIVDHGVTGYLAKPGDPEDL 320
>gnl|CDD|239329 cd03031, GRX_GRX_like, Glutaredoxin (GRX) family, GRX-like domain
containing protein subfamily; composed of
uncharacterized eukaryotic proteins containing a
GRX-like domain having only one conserved cysteine,
aligning to the C-terminal cysteine of the CXXC motif of
GRXs. This subfamily is predominantly composed of plant
proteins. GRX is a glutathione (GSH) dependent
reductase, catalyzing the disulfide reduction of target
proteins via a redox active CXXC motif using a similar
dithiol mechanism employed by TRXs. GRX has preference
for mixed GSH disulfide substrates, in which it uses a
monothiol mechanism where only the N-terminal cysteine
is required. Proteins containing only the C-terminal
cysteine are generally redox inactive.
Length = 147
Score = 27.6 bits (62), Expect = 3.6
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 176 YLGAMGAE-IHALSSAGK--PLAGWIARDGIQECREACGGHGYL 216
YLG GAE + L+ +G+ L I E CGG ++
Sbjct: 70 YLG--GAEEVLRLNESGELRKLLKGIRARAGGGVCEGCGGARFV 111
>gnl|CDD|132002 TIGR02957, SigX4, RNA polymerase sigma-70 factor, TIGR02957 family.
This group of sigma factors are members of the sigma-70
family (TIGR02937). They and appear by homology, tree
building and bidirectional best hits, to represent a
conserved family. This family is found in a limited
number of bacterial lineages. This family includes
apparent paralogous expansion in Streptomyces coelicolor
A3(2), and multiple copies in Mycobacterium smegmatis
MC2, Streptomyces avermitilis MA-4680 and Nocardia
farcinica IFM10152.
Length = 281
Score = 27.7 bits (62), Expect = 4.0
Identities = 30/83 (36%), Positives = 38/83 (45%), Gaps = 16/83 (19%)
Query: 93 VAYLSKAIT---IAV-RYAGVRRQ--FGP----PKQGSDSEPEELPVLE------YELLQ 136
AYL+K +T I V R A RR+ GP P + ++P E L Y LL
Sbjct: 47 KAYLTKVVTRRCIDVLRSARARREVYVGPWLPEPLLTTSADPAESVELAESLSMAYLLLL 106
Query: 137 WRLFPHLAAVYMLRVFSDYFTRE 159
RL P AV++LR DY E
Sbjct: 107 ERLSPLERAVFVLREVFDYPYEE 129
>gnl|CDD|132983 cd06652, STKc_MEKK2, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 2.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 2
(MEKK2) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MEKK2 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. MEKK2 is a mitogen-activated protein kinase
(MAPK) kinase kinase (MAPKKK or MKKK or MAP3K), that
phosphorylates and activates the MAPK kinase MEK5 (or
MKK5), which in turn phosphorylates and activates
extracellular signal-regulated kinase 5 (ERK5). The ERK5
cascade plays roles in promoting cell proliferation,
differentiation, neuronal survival, and neuroprotection.
MEKK2 also activates ERK1/2, c-Jun N-terminal kinase
(JNK) and p38 through their respective MAPKKs MEK1/2,
JNK-activating kinase 2 (JNKK2), and MKK3/6. MEKK2 plays
roles in T cell receptor signaling, immune synapse
formation, cytokine gene expression, as well as in EGF
and FGF receptor signaling.
Length = 265
Score = 27.7 bits (61), Expect = 5.1
Identities = 32/110 (29%), Positives = 41/110 (37%), Gaps = 12/110 (10%)
Query: 73 RFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPPKQGSDSEPEELPVLEY 132
R G LG + GRV YL A + QF P S +E+ LE
Sbjct: 5 RLGKLLGQGAFGRV--------YLCYDADTGRELAVKQVQFDPE---SPETSKEVNALEC 53
Query: 133 ELLQWRLFPHLAAVYMLRVFSDYFTREMGRFQMKLMEGGGDKDYLGAMGA 182
E+ + H V D R + F M+ M GG KD L + GA
Sbjct: 54 EIQLLKNLLHERIVQYYGCLRDPMERTLSIF-MEHMPGGSIKDQLKSYGA 102
>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 = 27.2 bits (60), Expect = 6.8
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 15/55 (27%)
Query: 19 AIVFARLITPDSVDHGLHAFLVPIRDPKTLLPYPGVTVGDLEGTYTSPFRDPGKR 73
A+VFAR + G+ AFLVP+ DL G + F G+R
Sbjct: 161 AVVFARTGSEAEGARGISAFLVPM---------------DLPGITRNRFDCHGQR 200
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 27.4 bits (61), Expect = 7.2
Identities = 13/46 (28%), Positives = 18/46 (39%)
Query: 71 GKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPP 116
G F + + R+ + + A A RYA R QFG P
Sbjct: 228 GMGFLNVMYNFEMERLINAARSLGFAECAFEDAARYANQRIQFGKP 273
>gnl|CDD|215202 PLN02352, PLN02352, phospholipase D epsilon.
Length = 758
Score = 27.2 bits (60), Expect = 7.4
Identities = 10/22 (45%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 39 LVPIRDPKTLLPYP-GVTVGDL 59
+V +RDP+T +P+ GV +G+L
Sbjct: 214 MVLVRDPETDIPHARGVKLGEL 235
>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 = 27.1 bits (60), Expect = 7.8
Identities = 10/46 (21%), Positives = 15/46 (32%)
Query: 71 GKRFGSSLGALSTGRVSIIGFCVAYLSKAITIAVRYAGVRRQFGPP 116
K F + L R+ I +A + Y R+ FG
Sbjct: 223 NKGFYYLMQNLPQERLLIAAGALAAAEFMLEETRNYVKQRKAFGKT 268
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 26.4 bits (59), Expect = 9.0
Identities = 16/38 (42%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 48 LLPYPGVTVGDLEGTYTSPFRDPGKRFGSSLGALSTGR 85
LL G VG G YT R+ GKR G + L TG
Sbjct: 23 LLKEEGYKVG---GFYTEEVREGGKRIGFKIIDLDTGE 57
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.142 0.444
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,787,400
Number of extensions: 1149149
Number of successful extensions: 941
Number of sequences better than 10.0: 1
Number of HSP's gapped: 918
Number of HSP's successfully gapped: 42
Length of query: 217
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 124
Effective length of database: 6,812,680
Effective search space: 844772320
Effective search space used: 844772320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)