RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12953
(136 letters)
>gnl|CDD|200467 cd11328, AmyAc_maltase, Alpha amylase catalytic domain found in
maltase (also known as alpha glucosidase) and related
proteins. Maltase (EC 3.2.1.20) hydrolyzes the
terminal, non-reducing (1->4)-linked alpha-D-glucose
residues in maltose, releasing alpha-D-glucose. In most
cases, maltase is equivalent to alpha-glucosidase, but
the term "maltase" emphasizes the disaccharide nature of
the substrate from which glucose is cleaved, and the
term "alpha-glucosidase" emphasizes the bond, whether
the substrate is a disaccharide or polysaccharide. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 470
Score = 158 bits (403), Expect = 1e-47
Identities = 50/90 (55%), Positives = 70/90 (77%)
Query: 25 KEWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLG 84
K+WW+ A+ YQIYPRSF+D +GDG GD++GITEKLD+F D+GI+++W+ P + + D G
Sbjct: 2 KDWWENAVFYQIYPRSFKDSDGDGIGDLKGITEKLDYFKDIGIDAIWLSPIFKSPMVDFG 61
Query: 85 YDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
YD+S++ D+DP+FG M DFE LI EA G
Sbjct: 62 YDISDFTDIDPIFGTMEDFEELIAEAKKLG 91
>gnl|CDD|200469 cd11330, AmyAc_OligoGlu, Alpha amylase catalytic domain found in
oligo-1,6-glucosidase (also called isomaltase;
sucrase-isomaltase; alpha-limit dextrinase) and related
proteins. Oligo-1,6-glucosidase (EC 3.2.1.10)
hydrolyzes the alpha-1,6-glucosidic linkage of
isomalto-oligosaccharides, pannose, and dextran. Unlike
alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
hydrolyze the alpha-1,4-glucosidic bonds of
maltosaccharides. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 472
Score = 154 bits (391), Expect = 8e-46
Identities = 49/89 (55%), Positives = 66/89 (74%)
Query: 26 EWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGY 85
WW+ A++YQIYPRSF D NGDG GD+ GITEKLD+ LG++++W+ PF+ + D GY
Sbjct: 1 PWWRGAVIYQIYPRSFLDSNGDGIGDLPGITEKLDYIASLGVDAIWLSPFFKSPMKDFGY 60
Query: 86 DVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
DVS+Y VDPLFG + DF+ L+ AH+ G
Sbjct: 61 DVSDYCAVDPLFGTLDDFDRLVARAHALG 89
>gnl|CDD|200470 cd11331, AmyAc_OligoGlu_like, Alpha amylase catalytic domain found
in oligo-1,6-glucosidase (also called isomaltase;
sucrase-isomaltase; alpha-limit dextrinase) and related
proteins. Oligo-1,6-glucosidase (EC 3.2.1.10)
hydrolyzes the alpha-1,6-glucosidic linkage of
isomalto-oligosaccharides, pannose, and dextran. Unlike
alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
hydrolyze the alpha-1,4-glucosidic bonds of
maltosaccharides. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 450
Score = 150 bits (380), Expect = 2e-44
Identities = 52/89 (58%), Positives = 70/89 (78%)
Query: 26 EWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGY 85
WWQT ++YQIYPRSF+D NGDG GD+RGI +LD+ DLG++++W+ P YP+ AD GY
Sbjct: 1 LWWQTGVIYQIYPRSFQDSNGDGVGDLRGIISRLDYLSDLGVDAVWLSPIYPSPMADFGY 60
Query: 86 DVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
DVS+Y +DPLFG + DF+ L+ EAH+RG
Sbjct: 61 DVSDYCGIDPLFGTLEDFDRLVAEAHARG 89
>gnl|CDD|200471 cd11332, AmyAc_OligoGlu_TS, Alpha amylase catalytic domain found in
oligo-1,6-glucosidase (also called isomaltase;
sucrase-isomaltase; alpha-limit dextrinase), trehalose
synthase (also called maltose
alpha-D-glucosyltransferase), and related proteins.
Oligo-1,6-glucosidase (EC 3.2.1.10) hydrolyzes the
alpha-1,6-glucosidic linkage of
isomaltooligosaccharides, pannose, and dextran. Unlike
alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
hydrolyze the alpha-1,4-glucosidic bonds of
maltosaccharides. Trehalose synthase (EC 5.4.99.16)
catalyzes the isomerization of maltose to produce
trehalulose. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 481
Score = 148 bits (376), Expect = 1e-43
Identities = 47/89 (52%), Positives = 65/89 (73%)
Query: 26 EWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGY 85
WW+ A++YQ+YPRSF D NGDG GD+ GI +L + LG++++W+ PFYP+ AD GY
Sbjct: 1 PWWRDAVVYQVYPRSFADANGDGIGDLAGIRARLPYLAALGVDAIWLSPFYPSPMADGGY 60
Query: 86 DVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
DV++Y DVDPLFG + DF+ L+ AH G
Sbjct: 61 DVADYRDVDPLFGTLADFDALVAAAHELG 89
>gnl|CDD|200494 cd11359, AmyAc_SLC3A1, Alpha amylase catalytic domain found in
Solute Carrier family 3 member 1 proteins. SLC3A1, also
called Neutral and basic amino acid transport protein
rBAT or NBAT, plays a role in amino acid and cystine
absorption. Mutations in the gene encoding SLC3A1 causes
cystinuria, an autosomal recessive disorder
characterized by the failure of proximal tubules to
reabsorb filtered cystine and dibasic amino acids. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 456
Score = 145 bits (369), Expect = 9e-43
Identities = 49/88 (55%), Positives = 67/88 (76%)
Query: 27 WWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYD 86
WWQT+++YQIYPRSF+D NGDG GD++GI EKLD+ LG++++W+ P Y + D GYD
Sbjct: 2 WWQTSVIYQIYPRSFKDSNGDGNGDLKGIREKLDYLKYLGVKTVWLSPIYKSPMKDFGYD 61
Query: 87 VSNYVDVDPLFGDMHDFEILIEEAHSRG 114
VS++ D+DP+FG M DFE L+ H RG
Sbjct: 62 VSDFTDIDPMFGTMEDFERLLAAMHDRG 89
>gnl|CDD|200472 cd11333, AmyAc_SI_OligoGlu_DGase, Alpha amylase catalytic domain
found in Sucrose isomerases, oligo-1,6-glucosidase (also
called isomaltase; sucrase-isomaltase; alpha-limit
dextrinase), dextran glucosidase (also called glucan
1,6-alpha-glucosidase), and related proteins. The
sucrose isomerases (SIs) Isomaltulose synthase (EC
5.4.99.11) and Trehalose synthase (EC 5.4.99.16)
catalyze the isomerization of sucrose and maltose to
produce isomaltulose and trehalulose, respectively.
Oligo-1,6-glucosidase (EC 3.2.1.10) hydrolyzes the
alpha-1,6-glucosidic linkage of
isomaltooligosaccharides, pannose, and dextran. Unlike
alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
hydrolyze the alpha-1,4-glucosidic bonds of
maltosaccharides. Dextran glucosidase (DGase, EC
3.2.1.70) hydrolyzes alpha-1,6-glucosidic linkages at
the non-reducing end of panose, isomaltooligosaccharides
and dextran to produce alpha-glucose.The common reaction
chemistry of the alpha-amylase family enzymes is based
on a two-step acid catalytic mechanism that requires two
critical carboxylates: one acting as a general acid/base
(Glu) and the other as a nucleophile (Asp). Both
hydrolysis and transglycosylation proceed via the
nucleophilic substitution reaction between the anomeric
carbon, C1 and a nucleophile. Both enzymes contain the
three catalytic residues (Asp, Glu and Asp) common to
the alpha-amylase family as well as two histidine
residues which are predicted to be critical to binding
the glucose residue adjacent to the scissile bond in the
substrates. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues performs catalysis. Other members of this
family have lost the catalytic activity as in the case
of the human 4F2hc, or only have 2 residues that serve
as the catalytic nucleophile and the acid/base, such as
Thermus A4 beta-galactosidase with 2 Glu residues (GH42)
and human alpha-galactosidase with 2 Asp residues
(GH31). The family members are quite extensive and
include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 428
Score = 144 bits (366), Expect = 2e-42
Identities = 48/86 (55%), Positives = 65/86 (75%)
Query: 29 QTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVS 88
+ A++YQIYPRSF+D NGDG GD+ GI KLD+ DLG++++W+ P YP+ D GYD+S
Sbjct: 1 KEAVVYQIYPRSFKDSNGDGIGDLPGIISKLDYLKDLGVDAIWLSPIYPSPQVDNGYDIS 60
Query: 89 NYVDVDPLFGDMHDFEILIEEAHSRG 114
+Y +DP FG M DF+ LI+EAH RG
Sbjct: 61 DYRAIDPEFGTMEDFDELIKEAHKRG 86
>gnl|CDD|233851 TIGR02403, trehalose_treC, alpha,alpha-phosphotrehalase. Trehalose
is a glucose disaccharide that serves in many biological
systems as a compatible solute for protection against
hyperosmotic and thermal stress. This family describes
trehalose-6-phosphate hydrolase, product of the treC (or
treA) gene, which is often found together with a
trehalose uptake transporter and a trehalose operon
repressor.
Length = 543
Score = 135 bits (342), Expect = 2e-38
Identities = 49/88 (55%), Positives = 63/88 (71%)
Query: 27 WWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYD 86
WWQ ++YQIYP+SF D GDGTGD+RGI EKLD+ LG++ +W+ PFY + D GYD
Sbjct: 1 WWQKKVIYQIYPKSFYDSTGDGTGDLRGIIEKLDYLKKLGVDYIWLNPFYVSPQKDNGYD 60
Query: 87 VSNYVDVDPLFGDMHDFEILIEEAHSRG 114
VS+Y ++PLFG M DFE L+ EA R
Sbjct: 61 VSDYYAINPLFGTMADFEELVSEAKKRN 88
>gnl|CDD|200473 cd11334, AmyAc_TreS, Alpha amylase catalytic domain found in
Trehalose synthetase. Trehalose synthetase (TreS)
catalyzes the reversible interconversion of trehalose
and maltose. The enzyme catalyzes the reaction in both
directions, but the preferred substrate is maltose.
Glucose is formed as a by-product of this reaction. It
is believed that the catalytic mechanism may involve the
cutting of the incoming disaccharide and transfer of a
glucose to an enzyme-bound glucose. This enzyme also
catalyzes production of a glucosamine disaccharide from
maltose and glucosamine. The Alpha-amylase family
comprises the largest family of glycoside hydrolases
(GH), with the majority of enzymes acting on starch,
glycogen, and related oligo- and polysaccharides. These
proteins catalyze the transformation of alpha-1,4 and
alpha-1,6 glucosidic linkages with retention of the
anomeric center. The protein is described as having 3
domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a
loop between the beta 3 strand and alpha 3 helix of A; C
is the C-terminal extension characterized by a Greek
key. The majority of the enzymes have an active site
cleft found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc, or
only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 447
Score = 128 bits (325), Expect = 2e-36
Identities = 43/88 (48%), Positives = 61/88 (69%)
Query: 27 WWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYD 86
W++ A++YQ+ R+F D NGDG GD RG+TEKLD+ LG+ ++W+ PFYP+ D GYD
Sbjct: 1 WYKNAVIYQLDVRTFMDSNGDGIGDFRGLTEKLDYLQWLGVTAIWLLPFYPSPLRDDGYD 60
Query: 87 VSNYVDVDPLFGDMHDFEILIEEAHSRG 114
+++Y VDP G + DF + EAH RG
Sbjct: 61 IADYYGVDPRLGTLGDFVEFLREAHERG 88
>gnl|CDD|182849 PRK10933, PRK10933, trehalose-6-phosphate hydrolase; Provisional.
Length = 551
Score = 123 bits (311), Expect = 4e-34
Identities = 44/88 (50%), Positives = 66/88 (75%)
Query: 27 WWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYD 86
WWQ ++YQIYP+SF+D G GTGD+RG+T++LD+ LG++++W+ PFY + D GYD
Sbjct: 7 WWQNGVIYQIYPKSFQDTTGSGTGDLRGVTQRLDYLQKLGVDAIWLTPFYVSPQVDNGYD 66
Query: 87 VSNYVDVDPLFGDMHDFEILIEEAHSRG 114
V+NY +DP +G + DF+ L+ +A SRG
Sbjct: 67 VANYTAIDPTYGTLDDFDELVAQAKSRG 94
>gnl|CDD|200455 cd11316, AmyAc_bac2_AmyA, Alpha amylase catalytic domain found in
bacterial Alpha-amylases (also called
1,4-alpha-D-glucan-4-glucanohydrolase). AmyA (EC
3.2.1.1) catalyzes the hydrolysis of alpha-(1,4)
glycosidic linkages of glycogen, starch, related
polysaccharides, and some oligosaccharides. This group
includes Chloroflexi, Dictyoglomi, and Fusobacteria. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 403
Score = 115 bits (291), Expect = 9e-32
Identities = 41/84 (48%), Positives = 59/84 (70%), Gaps = 1/84 (1%)
Query: 31 AIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNY 90
+ Y+I+ RSF D +GDG GD+ G+TEKLD+ DLG+ +W+ P +P+ + GYDV++Y
Sbjct: 1 GVFYEIFVRSFYDSDGDGIGDLNGLTEKLDYLNDLGVNGIWLMPIFPS-PSYHGYDVTDY 59
Query: 91 VDVDPLFGDMHDFEILIEEAHSRG 114
++P +G M DFE LI EAH RG
Sbjct: 60 YAIEPDYGTMEDFERLIAEAHKRG 83
>gnl|CDD|200486 cd11348, AmyAc_2, Alpha amylase catalytic domain found in an
uncharacterized protein family. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The catalytic triad (DED) is not
present here. The family members are quite extensive and
include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 429
Score = 107 bits (269), Expect = 1e-28
Identities = 38/83 (45%), Positives = 52/83 (62%)
Query: 32 IMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYV 91
+ Y+IYP+SF D NGDG GD++GI KLD+ LG ++W+ P + + D GYDV +Y
Sbjct: 1 VFYEIYPQSFYDSNGDGIGDLQGIISKLDYIKSLGCNAIWLNPCFDSPFKDAGYDVRDYY 60
Query: 92 DVDPLFGDMHDFEILIEEAHSRG 114
V P +G D L +EAH RG
Sbjct: 61 KVAPRYGTNEDLVRLFDEAHKRG 83
>gnl|CDD|233874 TIGR02456, treS_nterm, trehalose synthase. Trehalose synthase
interconverts maltose and alpha, alpha-trehalose by
transglucosylation. This is one of at least three
mechanisms for biosynthesis of trehalose, an important
and widespread compatible solute. However, it is not
driven by phosphate activation of sugars and its
physiological role may tend toward trehalose
degradation. This view is accentuated by numerous
examples of fusion to a probable maltokinase domain. The
sequence region described by this model is found both as
the whole of a trehalose synthase and as the N-terminal
region of a larger fusion protein that includes
trehalose synthase activity. Several of these fused
trehalose synthases have a domain homologous to proteins
with maltokinase activity from Actinoplanes
missouriensis and Streptomyces coelicolor
(PMID:15378530) [Energy metabolism, Biosynthesis and
degradation of polysaccharides].
Length = 539
Score = 105 bits (264), Expect = 1e-27
Identities = 41/89 (46%), Positives = 62/89 (69%)
Query: 26 EWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGY 85
W++ A+ Y+++ RSF D NGDG GD G+T KLD+ LG+++LW+ PF+ + D GY
Sbjct: 1 LWYKDAVFYEVHVRSFFDSNGDGIGDFPGLTSKLDYLKWLGVDALWLLPFFQSPLRDDGY 60
Query: 86 DVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
DVS+Y + P FG + DF+ ++EAH+RG
Sbjct: 61 DVSDYRAILPEFGTIDDFKDFVDEAHARG 89
>gnl|CDD|223443 COG0366, AmyA, Glycosidases [Carbohydrate transport and
metabolism].
Length = 505
Score = 105 bits (263), Expect = 2e-27
Identities = 47/90 (52%), Positives = 63/90 (70%), Gaps = 6/90 (6%)
Query: 31 AIMYQIYPRSFRDVNG------DGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLG 84
A++YQIYP F D NG DG GD++GITEKLD+ +LG++++W+ P + + AD G
Sbjct: 1 AVIYQIYPDRFADSNGSNGPDYDGGGDLKGITEKLDYLKELGVDAIWLSPIFESPQADHG 60
Query: 85 YDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
YDVS+Y VDP FG DF+ L+EEAH RG
Sbjct: 61 YDVSDYTKVDPHFGTEEDFKELVEEAHKRG 90
>gnl|CDD|214758 smart00642, Aamy, Alpha-amylase domain.
Length = 166
Score = 97.4 bits (243), Expect = 1e-26
Identities = 40/83 (48%), Positives = 57/83 (68%), Gaps = 3/83 (3%)
Query: 35 QIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPA---GGADLGYDVSNYV 91
QIYP F D NGDG GD++GI EKLD+ DLG+ ++W+ P + + + GYD+S+Y
Sbjct: 1 QIYPDRFADGNGDGGGDLQGIIEKLDYLKDLGVTAIWLSPIFESPQGYPSYHGYDISDYK 60
Query: 92 DVDPLFGDMHDFEILIEEAHSRG 114
+DP FG M DF+ L++ AH+RG
Sbjct: 61 QIDPRFGTMEDFKELVDAAHARG 83
>gnl|CDD|215737 pfam00128, Alpha-amylase, Alpha amylase, catalytic domain. Alpha
amylase is classified as family 13 of the glycosyl
hydrolases. The structure is an 8 stranded alpha/beta
barrel containing the active site, interrupted by a ~70
a.a. calcium-binding domain protruding between beta
strand 3 and alpha helix 3, and a carboxyl-terminal
Greek key beta-barrel domain.
Length = 314
Score = 90.0 bits (224), Expect = 1e-22
Identities = 29/65 (44%), Positives = 47/65 (72%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEE 109
GD++GI +KLD+ DLG+ ++W+ P + + + GYD+++Y +DP FG M DF+ LI++
Sbjct: 1 GDLQGIIDKLDYLKDLGVTAIWLSPIFDSPQSYHGYDITDYYKIDPHFGTMDDFKELIDK 60
Query: 110 AHSRG 114
AH RG
Sbjct: 61 AHERG 65
>gnl|CDD|200451 cd00551, AmyAc_family, Alpha amylase catalytic domain family. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; and C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost this catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 260
Score = 84.5 bits (209), Expect = 8e-21
Identities = 33/89 (37%), Positives = 53/89 (59%), Gaps = 6/89 (6%)
Query: 32 IMYQIYPRSFRDVN---GDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVS 88
++YQ++P F D + GDG GD++GI +KLD+ DLG+ ++W+ P + + D
Sbjct: 1 VIYQLFPDRFTDGDSSGGDGGGDLKGIIDKLDYLKDLGVTAIWLTPIFESPEYDGYDKDD 60
Query: 89 NYVD---VDPLFGDMHDFEILIEEAHSRG 114
Y+D +DP G DF+ L++ AH RG
Sbjct: 61 GYLDYYEIDPRLGTEEDFKELVKAAHKRG 89
>gnl|CDD|200452 cd11313, AmyAc_arch_bac_AmyA, Alpha amylase catalytic domain found
in archaeal and bacterial Alpha-amylases (also called
1,4-alpha-D-glucan-4-glucanohydrolase). AmyA (EC
3.2.1.1) catalyzes the hydrolysis of alpha-(1,4)
glycosidic linkages of glycogen, starch, related
polysaccharides, and some oligosaccharides. This group
includes firmicutes, bacteroidetes, and proteobacteria.
The Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 336
Score = 80.7 bits (200), Expect = 5e-19
Identities = 30/94 (31%), Positives = 49/94 (52%), Gaps = 11/94 (11%)
Query: 27 WWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPA------GG 80
W + A++Y++ R F G + +T+ L DLG++ LW+ P +P G
Sbjct: 1 WLRDAVIYEVNVRQFTP-----EGTFKAVTKDLPRLKDLGVDILWLMPIHPIGEKNRKGS 55
Query: 81 ADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
Y V +Y V+P +G + DF+ L++EAH RG
Sbjct: 56 LGSPYAVKDYRAVNPEYGTLEDFKALVDEAHDRG 89
>gnl|CDD|200477 cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in
cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54), neopullulanase
(NPase; EC 3.2.1.135), and maltogenic amylase (MA; EC
3.2.1.133) catalyze the hydrolysis of alpha-(1,4)
glycosidic linkages on a number of substrates including
cyclomaltodextrins (CDs), pullulan, and starch. These
enzymes hydrolyze CDs and starch to maltose and pullulan
to panose by cleavage of alpha-1,4 glycosidic bonds
whereas alpha-amylases essentially lack activity on CDs
and pullulan. They also catalyze transglycosylation of
oligosaccharides to the C3-, C4- or C6-hydroxyl groups
of various acceptor sugar molecules. Since these
proteins are nearly indistinguishable from each other,
they are referred to as cyclomaltodextrinases (CMDs).
The Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 389
Score = 79.1 bits (196), Expect = 2e-18
Identities = 37/118 (31%), Positives = 56/118 (47%), Gaps = 37/118 (31%)
Query: 31 AIMYQIYPRSFRDVNGDGT----------------------------------GDMRGIT 56
A+ YQI+P F NGD + GD++GI
Sbjct: 2 AVFYQIFPDRFA--NGDPSNDPKGGEYNYFGWPDLPDYPPPWGGEPTRRDFYGGDLQGII 59
Query: 57 EKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
EKLD+ DLG+ ++++ P + A ++ YD ++Y +DP G DF+ L+EEAH RG
Sbjct: 60 EKLDYLKDLGVNAIYLNPIFEAP-SNHKYDTADYFKIDPHLGTEEDFKELVEEAHKRG 116
>gnl|CDD|200463 cd11324, AmyAc_Amylosucrase, Alpha amylase catalytic domain found
in Amylosucrase. Amylosucrase is a glucosyltransferase
that catalyzes the transfer of a D-glucopyranosyl moiety
from sucrose onto an acceptor molecule. When the
acceptor is another saccharide, only alpha-1,4 linkages
are produced. Unlike most amylopolysaccharide synthases,
it does not require any alpha-D-glucosyl nucleoside
diphosphate substrate. In the presence of glycogen it
catalyzes the transfer of a D-glucose moiety onto a
glycogen branch, but in its absence, it hydrolyzes
sucrose and synthesizes polymers, smaller
maltosaccharides, and sucrose isoforms. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 536
Score = 61.0 bits (149), Expect = 6e-12
Identities = 27/67 (40%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFY--PAGGADLGYDVSNYVDVDPLFGDMHDFEILI 107
GD++G+ EK+ + +LG+ L + P P G D GY VS+Y +VDP G M D L
Sbjct: 83 GDLKGLAEKIPYLKELGVTYLHLMPLLKPPEGDNDGGYAVSDYREVDPRLGTMEDLRALA 142
Query: 108 EEAHSRG 114
E RG
Sbjct: 143 AELRERG 149
>gnl|CDD|200479 cd11340, AmyAc_bac_CMD_like_3, Alpha amylase catalytic domain found
in bacterial cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54),
neopullulanase (NPase; EC 3.2.1.135), and maltogenic
amylase (MA; EC 3.2.1.133) catalyze the hydrolysis of
alpha-(1,4) glycosidic linkages on a number of
substrates including cyclomaltodextrins (CDs), pullulan,
and starch. These enzymes hydrolyze CDs and starch to
maltose and pullulan to panose by cleavage of alpha-1,4
glycosidic bonds whereas alpha-amylases essentially lack
activity on CDs and pullulan. They also catalyze
transglycosylation of oligosaccharides to the C3-, C4-
or C6-hydroxyl groups of various acceptor sugar
molecules. Since these proteins are nearly
indistinguishable from each other, they are referred to
as cyclomaltodextrinases (CMDs). This group of CMDs is
bacterial. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 407
Score = 58.8 bits (143), Expect = 4e-11
Identities = 23/68 (33%), Positives = 41/68 (60%), Gaps = 3/68 (4%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFYP---AGGADLGYDVSNYVDVDPLFGDMHDFEIL 106
GD++GI + LD+ DLG+ ++W+ P + GY +++ +DP FG D++ L
Sbjct: 42 GDIQGIIDHLDYLQDLGVTAIWLTPLLENDMPSYSYHGYAATDFYRIDPRFGSNEDYKEL 101
Query: 107 IEEAHSRG 114
+ +AH+RG
Sbjct: 102 VSKAHARG 109
>gnl|CDD|200459 cd11320, AmyAc_AmyMalt_CGTase_like, Alpha amylase catalytic domain
found in maltogenic amylases, cyclodextrin
glycosyltransferase, and related proteins. Enzymes such
as amylases, cyclomaltodextrinase (CDase), and
cyclodextrin glycosyltransferase (CGTase) degrade starch
to smaller oligosaccharides by hydrolyzing the
alpha-D-(1,4) linkages between glucose residues. In the
case of CGTases, an additional cyclization reaction is
catalyzed yielding mixtures of cyclic oligosaccharides
which are referred to as alpha-, beta-, or
gamma-cyclodextrins (CDs), consisting of six, seven, or
eight glucose residues, respectively. CGTases are
characterized depending on the major product of the
cyclization reaction. Besides having similar catalytic
site residues, amylases and CGTases contain carbohydrate
binding domains that are distant from the active site
and are implicated in attaching the enzyme to raw starch
granules and in guiding the amylose chain into the
active site. The maltogenic alpha-amylase from Bacillus
is a five-domain structure, unlike most alpha-amylases,
but similar to that of cyclodextrin glycosyltransferase.
In addition to the A, B, and C domains, they have a
domain D and a starch-binding domain E. Maltogenic
amylase is an endo-acting amylase that has activity on
cyclodextrins, terminally modified linear maltodextrins,
and amylose. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 389
Score = 57.7 bits (140), Expect = 8e-11
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFY-------PAGG--ADLGYDVSNYVDVDPLFGDM 100
GD +GI +KL + DLG+ ++WI P GG GY ++ + FG
Sbjct: 44 GDWQGIIDKLPYLKDLGVTAIWISPPVENINSPIEGGGNTGYHGYWARDFKRTNEHFGTW 103
Query: 101 HDFEILIEEAHSRG 114
DF+ L++ AH+ G
Sbjct: 104 EDFDELVDAAHANG 117
>gnl|CDD|200483 cd11345, AmyAc_SLC3A2, Alpha amylase catalytic domain found in
solute carrier family 3 member 2 proteins. 4F2
cell-surface antigen heavy chain (hc) is a protein that
in humans is encoded by the SLC3A2 gene. 4F2hc is a
multifunctional type II membrane glycoprotein involved
in amino acid transport and cell fusion, adhesion, and
transformation. It is related to bacterial
alpha-glycosidases, but lacks alpha-glycosidase
activity. The Alpha-amylase family comprises the largest
family of glycoside hydrolases (GH), with the majority
of enzymes acting on starch, glycogen, and related
oligo- and polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 326
Score = 57.4 bits (139), Expect = 9e-11
Identities = 26/95 (27%), Positives = 44/95 (46%), Gaps = 8/95 (8%)
Query: 21 ELPQKEWWQTAIMYQIY-PRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAG 79
+P+ WW +YQI ++F G ++G+ KLD+ L ++ L + P +
Sbjct: 6 PIPEMNWWNEGPLYQIGDLQAFS-----EAGGLKGVEGKLDYLSQLKVKGLVLGPIHVVQ 60
Query: 80 GADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
G N ++DP G + DF L+ AH +G
Sbjct: 61 ADQPG--ELNLTEIDPDLGTLEDFTSLLTAAHKKG 93
>gnl|CDD|200478 cd11339, AmyAc_bac_CMD_like_2, Alpha amylase catalytic domain found
in bacterial cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54),
neopullulanase (NPase; EC 3.2.1.135), and maltogenic
amylase (MA; EC 3.2.1.133) catalyze the hydrolysis of
alpha-(1,4) glycosidic linkages on a number of
substrates including cyclomaltodextrins (CDs), pullulan,
and starch. These enzymes hydrolyze CDs and starch to
maltose and pullulan to panose by cleavage of alpha-1,4
glycosidic bonds whereas alpha-amylases essentially lack
activity on CDs and pullulan. They also catalyze
transglycosylation of oligosaccharides to the C3-, C4-
or C6-hydroxyl groups of various acceptor sugar
molecules. Since these proteins are nearly
indistinguishable from each other, they are referred to
as cyclomaltodextrinases (CMDs). This group of CMDs is
bacterial. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 344
Score = 55.3 bits (134), Expect = 5e-10
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 50 GDMRGITEKLDHFVDLGIESLWI-----QPFYPAGGADL-GYDVSNYVDVDPLFGDMHDF 103
GD +G+ +KLD+ DLG ++WI AG A GY ++ +DP G D
Sbjct: 42 GDFKGLIDKLDYIKDLGFTAIWITPVVKNRSVQAGSAGYHGYWGYDFYRIDPHLGTDADL 101
Query: 104 EILIEEAHSRG 114
+ LI+ AH+RG
Sbjct: 102 QDLIDAAHARG 112
>gnl|CDD|200489 cd11352, AmyAc_5, Alpha amylase catalytic domain found in an
uncharacterized protein family. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 443
Score = 55.4 bits (134), Expect = 6e-10
Identities = 25/68 (36%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFY---PAGGADLGYDVSNYVDVDPLFGDMHDFEIL 106
G ++G+ KL + LG+ +LW+ P + P GY + N++DVDP FG D L
Sbjct: 47 GTLKGVRSKLGYLKRLGVTALWLSPVFKQRPELETYHGYGIQNFLDVDPRFGTREDLRDL 106
Query: 107 IEEAHSRG 114
++ AH+RG
Sbjct: 107 VDAAHARG 114
>gnl|CDD|200488 cd11350, AmyAc_4, Alpha amylase catalytic domain found in an
uncharacterized protein family. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
(GH31). The family members are quite extensive and
include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 390
Score = 53.0 bits (128), Expect = 4e-09
Identities = 33/99 (33%), Positives = 50/99 (50%), Gaps = 13/99 (13%)
Query: 19 QVELPQKEWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLG---IESLWIQPF 75
ELP KE ++Y++ R F GD +G+ +KLD+ DLG IE + +Q F
Sbjct: 7 DFELPAKE---DLVIYELLVRDF-----TERGDFKGVIDKLDYLQDLGVNAIELMPVQEF 58
Query: 76 YPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
G GY+ +Y +D +G D + L++E H RG
Sbjct: 59 --PGNDSWGYNPRHYFALDKAYGTPEDLKRLVDECHQRG 95
>gnl|CDD|200491 cd11354, AmyAc_bac_CMD_like, Alpha amylase catalytic domain found
in bacterial cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54),
neopullulanase (NPase; EC 3.2.1.135), and maltogenic
amylase (MA; EC 3.2.1.133) catalyze the hydrolysis of
alpha-(1,4) glycosidic linkages on a number of
substrates including cyclomaltodextrins (CDs), pullulan,
and starch. These enzymes hydrolyze CDs and starch to
maltose and pullulan to panose by cleavage of alpha-1,4
glycosidic bonds whereas alpha-amylases essentially lack
activity on CDs and pullulan. They also catalyze
transglycosylation of oligosaccharides to the C3-, C4-
or C6-hydroxyl groups of various acceptor sugar
molecules. Since these proteins are nearly
indistinguishable from each other, they are referred to
as cyclomaltodextrinases (CMDs). This group of CMDs is
bacterial. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 357
Score = 50.4 bits (121), Expect = 3e-08
Identities = 29/91 (31%), Positives = 43/91 (47%), Gaps = 9/91 (9%)
Query: 31 AIMYQIYPRSF-------RDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADL 83
AI + +YP F R+ + + LD+ V+LG L + P + + A
Sbjct: 2 AIWWHVYPLGFVGAPIRPREPEAAVEHRLDRLEPWLDYAVELGCNGLLLGPVFES--ASH 59
Query: 84 GYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
GYD ++ +DP GD DF+ LI AH RG
Sbjct: 60 GYDTLDHYRIDPRLGDDEDFDALIAAAHERG 90
>gnl|CDD|236543 PRK09505, malS, alpha-amylase; Reviewed.
Length = 683
Score = 50.4 bits (121), Expect = 3e-08
Identities = 40/143 (27%), Positives = 53/143 (37%), Gaps = 46/143 (32%)
Query: 11 GFLSLVSCQVELPQKEWWQTAIMYQIYPRSFRDVNGD-----------------GT---G 50
G L L + E W A +Y + F NGD GT G
Sbjct: 170 GLLLLERAETEAAAPFDWHNATVYFVLTDRF--ENGDPSNDHSYGRHKDGMQEIGTFHGG 227
Query: 51 DMRGITEKLDHFVDLGIESLWIQ------------------PFYP-AGGADLGYDVSNYV 91
D+RG+TEKLD+ LG+ +LWI P Y G L ++
Sbjct: 228 DLRGLTEKLDYLQQLGVNALWISSPLEQIHGWVGGGTKGDFPHYAYHGYYTL-----DWT 282
Query: 92 DVDPLFGDMHDFEILIEEAHSRG 114
+D G D L++EAH RG
Sbjct: 283 KLDANMGTEADLRTLVDEAHQRG 305
>gnl|CDD|225819 COG3280, TreY, Maltooligosyl trehalose synthase [Carbohydrate
transport and metabolism].
Length = 889
Score = 48.6 bits (116), Expect = 1e-07
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 57 EKLDHFVDLGIESLWIQPFYPA-GGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
LD+ DLGI L++ P + A G+ GYDV + +++P G E L+ SRG
Sbjct: 23 ALLDYLADLGISHLYLSPIFTARPGSTHGYDVVDPTEINPELGGEEGLERLVAALKSRG 81
>gnl|CDD|200476 cd11337, AmyAc_CMD_like, Alpha amylase catalytic domain found in
cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54), neopullulanase
(NPase; EC 3.2.1.135), and maltogenic amylase (MA; EC
3.2.1.133) catalyze the hydrolysis of alpha-(1,4)
glycosidic linkages on a number of substrates including
cyclomaltodextrins (CDs), pullulan, and starch. These
enzymes hydrolyze CDs and starch to maltose and pullulan
to panose by cleavage of alpha-1,4 glycosidic bonds
whereas alpha-amylases essentially lack activity on CDs
and pullulan. They also catalyze transglycosylation of
oligosaccharides to the C3-, C4- or C6-hydroxyl groups
of various acceptor sugar molecules. Since these
proteins are nearly indistinguishable from each other,
they are referred to as cyclomaltodextrinases (CMDs).
This group of CMDs is mainly bacterial. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 328
Score = 46.7 bits (112), Expect = 5e-07
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 32 IMYQIYPRSF------RDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGY 85
I Y IYP F D +G + + + L H +LG +L++ P + + GY
Sbjct: 1 IFYHIYPLGFCGAPIRNDFDGPPEHRLLKLEDWLPHLKELGCNALYLGPVFESDSH--GY 58
Query: 86 DVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
D +Y +D G DF+ L+ H RG
Sbjct: 59 DTRDYYRIDRRLGTNEDFKALVAALHERG 87
>gnl|CDD|200464 cd11325, AmyAc_GTHase, Alpha amylase catalytic domain found in
Glycosyltrehalose trehalohydrolase (also called
Maltooligosyl trehalose Trehalohydrolase).
Glycosyltrehalose trehalohydrolase (GTHase) was
discovered as part of a coupled system for the
production of trehalose from soluble starch. In the
first half of the reaction, glycosyltrehalose synthase
(GTSase), an intramolecular glycosyl transferase,
converts the glycosidic bond between the last two
glucose residues of amylose from an alpha-1,4 bond to an
alpha-1,1 bond, making a non-reducing glycosyl
trehaloside. In the second half of the reaction, GTHase
cleaves the alpha-1,4 glycosidic bond adjacent to the
trehalose moiety to release trehalose and
malto-oligosaccharide. Like isoamylase and other
glycosidases that recognize branched oligosaccharides,
GTHase contains an N-terminal extension and does not
have the conserved calcium ion present in other alpha
amylase family enzymes. The Alpha-amylase family
comprises the largest family of glycoside hydrolases
(GH), with the majority of enzymes acting on starch,
glycogen, and related oligo- and polysaccharides. These
proteins catalyze the transformation of alpha-1,4 and
alpha-1,6 glucosidic linkages with retention of the
anomeric center. The protein is described as having 3
domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a
loop between the beta 3 strand and alpha 3 helix of A; C
is the C-terminal extension characterized by a Greek
key. The majority of the enzymes have an active site
cleft found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc, or
only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Glycosyltrehalose Trehalohydrolase
Maltooligosyltrehalose Trehalohydrolase.
Length = 436
Score = 45.6 bits (109), Expect = 2e-06
Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 20/110 (18%)
Query: 18 CQVELPQKEWWQTA----------IMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLG- 66
V P WW A ++Y+++ +F +GT E+LD+ DLG
Sbjct: 15 SVVVDPSAFWWTDAGWRGPPLEELVIYELHVGTF---TPEGT--FDAAIERLDYLADLGV 69
Query: 67 --IESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
IE + + F G + GYD + +G D + L++ AH RG
Sbjct: 70 TAIELMPVAEF--PGERNWGYDGVLPFAPESSYGGPDDLKRLVDAAHRRG 117
>gnl|CDD|236759 PRK10785, PRK10785, maltodextrin glucosidase; Provisional.
Length = 598
Score = 45.4 bits (108), Expect = 2e-06
Identities = 28/124 (22%), Positives = 41/124 (33%), Gaps = 36/124 (29%)
Query: 26 EWWQTAIMYQIYPRSFRDVNGDGT-----------------------------------G 50
+W + YQI+P F G
Sbjct: 117 QWVADQVFYQIFPDRFARSLPREAVQDHVYYHHAAGQEIILRDWDEPVTAQAGGSTFYGG 176
Query: 51 DMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEA 110
D+ GI+EKL + LG+ +L++ P + A + YD +Y VDP G L
Sbjct: 177 DLDGISEKLPYLKKLGVTALYLNPIFTA-PSVHKYDTEDYRHVDPQLGGDAALLRLRHAT 235
Query: 111 HSRG 114
RG
Sbjct: 236 QQRG 239
>gnl|CDD|200458 cd11319, AmyAc_euk_AmyA, Alpha amylase catalytic domain found in
eukaryotic Alpha-amylases (also called
1,4-alpha-D-glucan-4-glucanohydrolase). AmyA (EC
3.2.1.1) catalyzes the hydrolysis of alpha-(1,4)
glycosidic linkages of glycogen, starch, related
polysaccharides, and some oligosaccharides. This group
includes eukaryotic alpha-amylases including proteins
from fungi, sponges, and protozoans. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 375
Score = 42.9 bits (102), Expect = 1e-05
Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 19/106 (17%)
Query: 28 WQTAIMYQIYPRSFRDVNGDGT------------GDMRGITEKLDHFVDLGIESLWIQP- 74
W++ +YQ+ F +G T G +GI KLD+ +G +++WI P
Sbjct: 6 WRSRSIYQVLTDRFARTDGSSTAPCDTADRTYCGGTWKGIINKLDYIQGMGFDAIWISPI 65
Query: 75 ------FYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
G A GY + ++P FG D + L + H RG
Sbjct: 66 VKNIEGNTAYGEAYHGYWAQDLYSLNPHFGTADDLKALSKALHKRG 111
>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
transport and metabolism].
Length = 628
Score = 43.1 bits (102), Expect = 1e-05
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 11/103 (10%)
Query: 19 QVELPQKEW----WQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLG---IESLW 71
Q E + W W+ ++Y+++ SF G E L + +LG IE +
Sbjct: 129 QDERWDRAWRGRFWEPIVIYELHVGSFTP--DRFLGYFELAIELLPYLKELGITHIELMP 186
Query: 72 IQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
+ G GY + Y +G DF+ L++ AH G
Sbjct: 187 VAEH--PGDRSWGYQGTGYYAPTSRYGTPEDFKALVDAAHQAG 227
>gnl|CDD|237740 PRK14511, PRK14511, maltooligosyl trehalose synthase; Provisional.
Length = 879
Score = 42.7 bits (101), Expect = 2e-05
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 56 TEKLDHFVDLGIESLWIQP-FYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
E + +F DLG+ L++ P G+ GYDV ++ ++P G L + G
Sbjct: 23 AELVPYFADLGVSHLYLSPILAARPGSTHGYDVVDHTRINPELGGEEGLRRLAAALRAHG 82
>gnl|CDD|200490 cd11353, AmyAc_euk_bac_CMD_like, Alpha amylase catalytic domain
found in eukaryotic and bacterial cyclomaltodextrinases
and related proteins. Cyclomaltodextrinase (CDase;
EC3.2.1.54), neopullulanase (NPase; EC 3.2.1.135), and
maltogenic amylase (MA; EC 3.2.1.133) catalyze the
hydrolysis of alpha-(1,4) glycosidic linkages on a
number of substrates including cyclomaltodextrins (CDs),
pullulan, and starch. These enzymes hydrolyze CDs and
starch to maltose and pullulan to panose by cleavage of
alpha-1,4 glycosidic bonds whereas alpha-amylases
essentially lack activity on CDs and pullulan. They also
catalyze transglycosylation of oligosaccharides to the
C3-, C4- or C6-hydroxyl groups of various acceptor sugar
molecules. Since these proteins are nearly
indistinguishable from each other, they are referred to
as cyclomaltodextrinases (CMDs). This group of CMDs is
mainly bacterial. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 366
Score = 42.2 bits (100), Expect = 2e-05
Identities = 24/90 (26%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 31 AIMYQIYPRSF----RDVNGDGTGDMR--GITEKLDHFVDLGIESLWIQPFYPAGGADLG 84
A+ Y IYP F ++ + DG + R + + + H LGI +++ P + + G
Sbjct: 2 AVFYHIYPLGFCGAPKENDFDGETEHRILKLEDWIPHLKKLGINAIYFGPVFESDSH--G 59
Query: 85 YDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
YD +Y +D G DF+ + ++ H G
Sbjct: 60 YDTRDYYKIDRRLGTNEDFKAVCKKLHENG 89
>gnl|CDD|233849 TIGR02401, trehalose_TreY, malto-oligosyltrehalose synthase. This
enzyme, formally named (1->4)-alpha-D-glucan
1-alpha-D-glucosylmutase, is the TreY enzyme of the
TreYZ pathway of trehalose biosynthesis, an alternative
to the OtsAB pathway. Trehalose may be incorporated into
more complex compounds but is best known as compatible
solute. It is one of the most effective osmoprotectants,
and unlike the various betaines does not require
nitrogen for its synthesis [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 825
Score = 42.0 bits (99), Expect = 3e-05
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 59 LDHFVDLGIESLWIQPFYPA-GGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
L + LG+ L++ P A G+ GYDV ++ +++P G L E A +RG
Sbjct: 22 LPYLKSLGVSHLYLSPILTAVPGSTHGYDVVDHSEINPELGGEEGLRRLSEAARARG 78
>gnl|CDD|236518 PRK09441, PRK09441, cytoplasmic alpha-amylase; Reviewed.
Length = 479
Score = 41.0 bits (97), Expect = 6e-05
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 11/71 (15%)
Query: 55 ITEKLDHFVDLGIESLWIQPFY--PAGGADLGYDVSNYVD---------VDPLFGDMHDF 103
+ E+ + GI ++W+ P Y +GG D+GY V + D V +G +
Sbjct: 24 LAERAPELAEAGITAVWLPPAYKGTSGGYDVGYGVYDLFDLGEFDQKGTVRTKYGTKEEL 83
Query: 104 EILIEEAHSRG 114
I+ H G
Sbjct: 84 LNAIDALHENG 94
>gnl|CDD|233850 TIGR02402, trehalose_TreZ, malto-oligosyltrehalose
trehalohydrolase. Members of this family are the
trehalose biosynthetic enzyme malto-oligosyltrehalose
trehalohydrolase, formally known as
4-alpha-D-{(1->4)-alpha-D-glucano}trehalose
trehalohydrolase (EC 3.2.1.141). It is the TreZ protein
of the TreYZ pathway for trehalose biosynthesis, and
alternative to the OtsAB system [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 544
Score = 40.0 bits (94), Expect = 1e-04
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 28 WQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGA-DLGYD 86
+ A++Y+++ +F G EKL + DLGI ++ + P G GYD
Sbjct: 91 LEEAVIYELHVGTFTP-----EGTFDAAIEKLPYLADLGITAIELMPVAQFPGTRGWGYD 145
Query: 87 -VSNYVDVDPLFGDMHDFEILIEEAHSRG 114
V Y + +G D + L++ AH G
Sbjct: 146 GVLPYAPHEA-YGGPDDLKALVDAAHGLG 173
>gnl|CDD|237739 PRK14510, PRK14510, putative bifunctional
4-alpha-glucanotransferase/glycogen debranching enzyme;
Provisional.
Length = 1221
Score = 37.9 bits (88), Expect = 8e-04
Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 18/105 (17%)
Query: 28 WQTAIMYQIYPRSFRDVNGDGTGDMRGITEKL------DHFVDLGIESLWIQPFY----- 76
W + +Y++ R F + G++RG KL + LG+ + + P +
Sbjct: 156 WDDSPLYEMNVRGFTLRHDFFPGNLRGTFAKLAAPEAISYLKKLGVSIVELNPIFASVDE 215
Query: 77 ---PAGGAD--LGYDVSNYVDVDPLFG--DMHDFEILIEEAHSRG 114
P G GY+ ++ DP +F I+EA S G
Sbjct: 216 HHLPQLGLSNYWGYNTVAFLAPDPRLAPGGEEEFAQAIKEAQSAG 260
>gnl|CDD|200475 cd11336, AmyAc_MTSase, Alpha amylase catalytic domain found in
maltooligosyl trehalose synthase (MTSase).
Maltooligosyl trehalose synthase (MTSase) domain. MTSase
and maltooligosyl trehalose trehalohydrolase (MTHase)
work together to produce trehalose. MTSase is
responsible for converting the alpha-1,4-glucosidic
linkage to an alpha,alpha-1,1-glucosidic linkage at the
reducing end of the maltooligosaccharide through an
intramolecular transglucosylation reaction, while MTHase
hydrolyzes the penultimate alpha-1,4 linkage of the
reducing end, resulting in the release of trehalose. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 660
Score = 37.9 bits (89), Expect = 8e-04
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 59 LDHFVDLGIESLWIQPFYPA-GGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
+ + DLGI L+ P A G+ GYDV ++ ++P G L + G
Sbjct: 20 VPYLADLGISHLYASPILTARPGSTHGYDVVDHTRINPELGGEEGLRRLAAALRAHG 76
>gnl|CDD|200487 cd11349, AmyAc_3, Alpha amylase catalytic domain found in an
uncharacterized protein family. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 456
Score = 36.9 bits (86), Expect = 0.001
Identities = 32/119 (26%), Positives = 41/119 (34%), Gaps = 36/119 (30%)
Query: 32 IMYQIYPRSF------RDVNGD----GTGDMRGITEK-LDHFVDLGIESLW--------I 72
I+YQ+ PR F NG G G + L LG +W
Sbjct: 2 IIYQLLPRLFGNKNTTNIPNGTIEENGVGKFNDFDDTALKEIKSLGFTHVWYTGVIRHAT 61
Query: 73 QPFYPA------------GGADLGYDVSNYVDVDPLFGD-----MHDFEILIEEAHSRG 114
Q Y A G A Y + +Y DVDP M +FE L+E H+ G
Sbjct: 62 QTDYSAYGIPPDDPDIVKGRAGSPYAIKDYYDVDPDLATDPTNRMEEFEALVERTHAAG 120
>gnl|CDD|163564 TIGR03852, sucrose_gtfA, sucrose phosphorylase. In the forward
direction, this enzyme uses phosphate to cleave sucrose
into D-fructose + alpha-D-glucose 1-phosphate.
Characterized representatives from Streptococcus mutans
and Bifidobacterium adolescentis represent
well-separated branches of a molecular phylogenetic
tree. In S. mutans, the region including this gene has
been associated with neighboring transporter genes and
multiple sugar metabolism.
Length = 470
Score = 37.0 bits (86), Expect = 0.002
Identities = 18/59 (30%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 51 DMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEE 109
+++ + + L+++ + + + PF+P+ G D G+ +Y +VDP FGD D E L E+
Sbjct: 15 NLKELNKVLENYFKDAVGGVHLLPFFPSTG-DRGFAPMDYTEVDPAFGDWSDVEALSEK 72
>gnl|CDD|200492 cd11355, AmyAc_Sucrose_phosphorylase, Alpha amylase catalytic
domain found in sucrose phosphorylase (also called
sucrose glucosyltransferase, disaccharide
glucosyltransferase, and sucrose-phosphate alpha-D
glucosyltransferase). Sucrose phosphorylase is a
bacterial enzyme that catalyzes the phosphorolysis of
sucrose to yield glucose-1-phosphate and fructose. These
enzymes do not have the conserved calcium ion present in
other alpha amylase family enzymes. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 433
Score = 36.4 bits (85), Expect = 0.002
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 49 TGDMRGITEKLD-HFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILI 107
G+++ + LD +F + + I PF+P+ D G+D +Y +VDP FG D E L
Sbjct: 14 GGNLKDLNTVLDTYFKGV-FGGVHILPFFPSSD-DRGFDPIDYTEVDPRFGTWDDIEALG 71
Query: 108 EE 109
E+
Sbjct: 72 ED 73
>gnl|CDD|200481 cd11343, AmyAc_Sucrose_phosphorylase-like, Alpha amylase catalytic
domain found in sucrose phosphorylase (also called
sucrose glucosyltransferase, disaccharide
glucosyltransferase, and sucrose-phosphate alpha-D
glucosyltransferase). Sucrose phosphorylase is a
bacterial enzyme that catalyzes the phosphorolysis of
sucrose to yield glucose-1-phosphate and fructose. These
enzymes do not have the conserved calcium ion present in
other alpha amylase family enzymes. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 445
Score = 34.0 bits (79), Expect = 0.013
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 37 YPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPL 96
Y S +G ++ + + LD + I + I PF+P +D G+ V +Y +VDP
Sbjct: 9 YGDSLGR---EGEKPLKTLNKFLDEHLKGAIGGVHILPFFPYS-SDDGFSVIDYTEVDPR 64
Query: 97 FGDMHDFEILIEE 109
GD D E L E+
Sbjct: 65 LGDWDDIEALAED 77
>gnl|CDD|237528 PRK13840, PRK13840, sucrose phosphorylase; Provisional.
Length = 495
Score = 33.9 bits (78), Expect = 0.015
Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 48 GTGDMRGITEKLDHFVDLGIESLWIQPFY-PAGGADLGYDVSNYVDVDPLFGDMHD 102
G G ++ +T LD +D + I PF+ P GAD G+D ++ VDP GD D
Sbjct: 15 GDGGLKSLTALLDGRLDGLFGGVHILPFFYPIDGADAGFDPIDHTKVDPRLGDWDD 70
>gnl|CDD|200462 cd11323, AmyAc_AGS, Alpha amylase catalytic domain found in Alpha
1,3-glucan synthase (also called uridine
diphosphoglucose-1,3-alpha-glucan glucosyltransferase
and 1,3-alpha-D-glucan synthase). Alpha 1,3-glucan
synthase (AGS, EC 2.4.1.183) is an enzyme that catalyzes
the reversible chemical reaction of UDP-glucose and
[alpha-D-glucosyl-(1-3)]n to form UDP and
[alpha-D-glucosyl-(1-3)]n+1. AGS is a component of
fungal cell walls. The cell wall of filamentous fungi is
composed of 10-15% chitin and 10-35% alpha-1,3-glucan.
AGS is triggered in fungi as a response to cell wall
stress and elongates the glucan chains in cell wall
synthesis. This group includes proteins from Ascomycetes
and Basidomycetes. The Alpha-amylase family comprises
the largest family of glycoside hydrolases (GH), with
the majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 569
Score = 33.8 bits (78), Expect = 0.019
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 17/92 (18%)
Query: 30 TAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWI-------QPFYPAGGAD 82
T IY R +G GD+ G+ + LD+ +GI+ ++I P+ GAD
Sbjct: 79 TVFEQDIYETQLR--HG---GDIVGLVDSLDYLQGMGIKGIYIAGTPFINMPW----GAD 129
Query: 83 LGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
GY ++ +D FG + D+ I+E H RG
Sbjct: 130 -GYSPLDFTLLDHHFGTIADWRAAIDEIHRRG 160
>gnl|CDD|200453 cd11314, AmyAc_arch_bac_plant_AmyA, Alpha amylase catalytic domain
found in archaeal, bacterial, and plant Alpha-amylases
(also called 1,4-alpha-D-glucan-4-glucanohydrolase).
AmyA (EC 3.2.1.1) catalyzes the hydrolysis of
alpha-(1,4) glycosidic linkages of glycogen, starch,
related polysaccharides, and some oligosaccharides. This
group includes AmyA from bacteria, archaea, water fleas,
and plants. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 302
Score = 33.3 bits (77), Expect = 0.023
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 55 ITEKLDHFVDLGIESLWI-QPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSR 113
+ K G ++W+ P G+ +GYD + D++ +G + LI H++
Sbjct: 20 LESKAPELAAAGFTAIWLPPPSKSVSGSSMGYDPGDLYDLNSRYGSEAELRSLIAALHAK 79
Query: 114 G 114
G
Sbjct: 80 G 80
>gnl|CDD|215519 PLN02960, PLN02960, alpha-amylase.
Length = 897
Score = 32.1 bits (73), Expect = 0.074
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 83 LGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
+GY V+N+ V FG DF+ L++EAH G
Sbjct: 448 VGYKVTNFFAVSSRFGTPDDFKRLVDEAHGLG 479
>gnl|CDD|200484 cd11346, AmyAc_plant_IsoA, Alpha amylase catalytic domain family
found in plant isoamylases. Two types of debranching
enzymes exist in plants: isoamylase-type (EC 3.2.1.68)
and a pullulanase-type (EC 3.2.1.41, also known as
limit-dextrinase). These efficiently hydrolyze
alpha-(1,6)-linkages in amylopectin and pullulan. This
group does not contain the conserved catalytic triad
present in other alpha-amylase-like proteins. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 347
Score = 31.7 bits (72), Expect = 0.088
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 7/72 (9%)
Query: 50 GDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYD-------VSNYVDVDPLFGDMHD 102
G G+ EK+DH LG+ ++ +QP + Y Y D +
Sbjct: 29 GTFLGVLEKVDHLKSLGVNTVLLQPIFAFARVKGPYYPPSFFSAPDPYGAGDSSLSASAE 88
Query: 103 FEILIEEAHSRG 114
+++ HS G
Sbjct: 89 LRAMVKGLHSNG 100
>gnl|CDD|166345 PLN02704, PLN02704, flavonol synthase.
Length = 335
Score = 31.3 bits (71), Expect = 0.11
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 27 WWQTAIMYQIYPR---SFRDVNGDGTGDMRGITEKLDHFVDLGI 67
W +AI YQ +P+ S+R+VN + +RG+ +KL + LG+
Sbjct: 138 WPPSAINYQFWPKNPPSYREVNEEYAKYLRGVADKLFKTLSLGL 181
>gnl|CDD|200482 cd11344, AmyAc_GlgE_like, Alpha amylase catalytic domain found in
GlgE-like proteins. GlgE is a
(1,4)-a-D-glucan:phosphate a-D-maltosyltransferase,
involved in a-glucan biosynthesis in bacteria. It is
also an anti-tuberculosis drug target. GlgE isoform I
from Streptomyces coelicolor has the same catalytic and
very similar kinetic properties to GlgE from
Mycobacterium tuberculosis. GlgE from Streptomyces
coelicolor forms a homodimer with each subunit
comprising five domains (A, B, C, N, and S) and 2
inserts. Domain A is a catalytic alpha-amylase-type
domain that along with domain N, which has a
beta-sandwich fold and forms the core of the dimer
interface, binds cyclodextrins. Domain A, B, and the 2
inserts define a well conserved donor pocket that binds
maltose. Cyclodextrins competitively inhibit the binding
of maltooligosaccharides to the S. coelicolor enzyme,
indicating that the hydrophobic patch overlaps with the
acceptor binding site. This is not the case in M.
tuberculosis GlgE because cyclodextrins do not inhibit
this enzyme, despite acceptor length specificity being
conserved. Domain C is hypothesized to help stabilize
domain A and could be involved in substrate binding.
Domain S is a helix bundle that is inserted within the N
domain and it plays a role in the dimer interface and
interacts directly with domain B. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 355
Score = 31.4 bits (72), Expect = 0.11
Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 21/101 (20%)
Query: 34 YQIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYP--------------AG 79
Y+ +PRS G G R +L +G + L++ P +P AG
Sbjct: 5 YEFFPRSAGADPGRH-GTFRDAEARLPRIAAMGFDVLYLPPIHPIGRTNRKGKNNALVAG 63
Query: 80 GADLG--YDVSN----YVDVDPLFGDMHDFEILIEEAHSRG 114
D G + + + + + P G + DF+ L+ EA G
Sbjct: 64 PGDPGSPWAIGSEEGGHDAIHPELGTLEDFDRLVAEARELG 104
>gnl|CDD|237737 PRK14507, PRK14507, putative bifunctional
4-alpha-glucanotransferase/malto-oligosyltrehalose
synthase; Provisional.
Length = 1693
Score = 30.1 bits (68), Expect = 0.37
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 65 LGIESLWIQPFYPA-GGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
LGI ++ P A G+ GYD+ ++ ++P G FE + G
Sbjct: 770 LGISHVYASPILKARPGSTHGYDIVDHSQINPEIGGEEGFERFCAALKAHG 820
>gnl|CDD|200457 cd11318, AmyAc_bac_fung_AmyA, Alpha amylase catalytic domain
found in bacterial and fungal Alpha amylases (also
called 1,4-alpha-D-glucan-4-glucanohydrolase). AmyA
(EC 3.2.1.1) catalyzes the hydrolysis of alpha-(1,4)
glycosidic linkages of glycogen, starch, related
polysaccharides, and some oligosaccharides. This group
includes bacterial and fungal proteins. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 391
Score = 29.4 bits (67), Expect = 0.56
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 57 EKLDHFVDLGIESLWIQPFYPA--GGADLGYDV 87
E +LGI ++W+ P Y G D+GYDV
Sbjct: 24 EDAPELAELGITAVWLPPAYKGASGTEDVGYDV 56
>gnl|CDD|200460 cd11321, AmyAc_bac_euk_BE, Alpha amylase catalytic domain found in
bacterial and eukaryotic branching enzymes. Branching
enzymes (BEs) catalyze the formation of alpha-1,6 branch
points in either glycogen or starch by cleavage of the
alpha-1,4 glucosidic linkage yielding a non-reducing end
oligosaccharide chain, and subsequent attachment to the
alpha-1,6 position. By increasing the number of
non-reducing ends, glycogen is more reactive to
synthesis and digestion as well as being more soluble.
This group includes bacterial and eukaryotic proteins.
The Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 406
Score = 29.5 bits (67), Expect = 0.56
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 74 PFYPAGGADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
+Y A GY V+N+ FG D + LI+ AH G
Sbjct: 65 AYY----ASFGYQVTNFFAASSRFGTPEDLKYLIDTAHGMG 101
>gnl|CDD|233730 TIGR02104, pulA_typeI, pullulanase, type I. Pullulan is an
unusual, industrially important polysaccharide in which
short alpha-1,4 chains (maltotriose) are connected in
alpha-1,6 linkages. Enzymes that cleave alpha-1,6
linkages in pullulan and release maltotriose are called
pullulanases although pullulan itself may not be the
natural substrate. This family consists of pullulanases
related to the subfamilies described in TIGR02102 and
TIGR02103 but having a different domain architecture
with shorter sequences. Members are called type I
pullulanases.
Length = 605
Score = 29.6 bits (67), Expect = 0.57
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 23/83 (27%)
Query: 31 AIMYQIYPRSFRDVNGDGT---GDMRGITEK-----------LDHFVDLGIESLWIQPFY 76
AI+Y+++ R F G G G+TE LD+ +LG+ + + P +
Sbjct: 128 AIIYELHIRDFSIHENSGVKNKGKYLGLTETGTKGPNGVSTGLDYLKELGVTHVQLLPVF 187
Query: 77 PAGGAD---------LGYDVSNY 90
G D GYD NY
Sbjct: 188 DFAGVDEEDPNNAYNWGYDPLNY 210
>gnl|CDD|200493 cd11356, AmyAc_Sucrose_phosphorylase-like_1, Alpha amylase
catalytic domain found in sucrose phosphorylase-like
proteins (also called sucrose glucosyltransferase,
disaccharide glucosyltransferase, and sucrose-phosphate
alpha-D glucosyltransferase). Sucrose phosphorylase is
a bacterial enzyme that catalyzes the phosphorolysis of
sucrose to yield glucose-1-phosphate and fructose. These
enzymes do not have the conserved calcium ion present in
other alpha amylase family enzymes. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 458
Score = 29.4 bits (67), Expect = 0.57
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 59 LDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVDPLFGDMHDFEIL 106
L + I + I PF+P +D G+ V +Y V+P GD D E L
Sbjct: 30 LKEHLKDTISGVHILPFFPYS-SDDGFSVIDYRQVNPELGDWEDIEAL 76
>gnl|CDD|233728 TIGR02102, pullulan_Gpos, pullulanase, extracellular,
Gram-positive. Pullulan is an unusual, industrially
important polysaccharide in which short alpha-1,4 chains
(maltotriose) are connected in alpha-1,6 linkages.
Enzymes that cleave alpha-1,6 linkages in pullulan and
release maltotriose are called pullulanases although
pullulan itself may not be the natural substrate. In
contrast, a glycogen debranching enzyme such GlgX,
homologous to this family, can release glucose at
alpha,1-6 linkages from glycogen first subjected to
limit degradation by phosphorylase. Characterized
members of this family include a surface-located
pullulanase from Streptococcus pneumoniae
(PMID:11083842) and an extracellular bifunctional
amylase/pullulanase with C-terminal pullulanase activity
(PMID:8798645).
Length = 1111
Score = 28.7 bits (64), Expect = 1.1
Identities = 30/119 (25%), Positives = 48/119 (40%), Gaps = 33/119 (27%)
Query: 29 QTAIMYQIYPRSF---RDVNGDGT---GDMRGITEKLDHFVDLGIESLWIQPF------- 75
+ AI+Y+ + R F + GD T G EKLD+ DLG+ + + P
Sbjct: 450 EDAIIYEAHVRDFTSDPAIAGDLTAQFGTFAAFVEKLDYLQDLGVTHIQLLPVLSYFFVN 509
Query: 76 ----------YPAGGADL--GYDVSNYVDVDPLFGD--------MHDFEILIEEAHSRG 114
Y + + GYD NY + ++ + + +F+ LI E H RG
Sbjct: 510 EFKNKERMLDYASSNTNYNWGYDPQNYFALSGMYSEDPKDPELRIAEFKNLINEIHKRG 568
>gnl|CDD|234493 TIGR04189, surface_SprA, cell surface protein SprA. SprA is a cell
surface protein widely distributed in the Bacteroidetes
lineage. In Flavobacterium johnsoniae, a species that
shows gliding motility, mutation disrupts gliding.
Length = 2315
Score = 28.9 bits (65), Expect = 1.1
Identities = 9/43 (20%), Positives = 17/43 (39%)
Query: 22 LPQKEWWQTAIMYQIYPRSFRDVNGDGTGDMRGITEKLDHFVD 64
LP ++T + FRDV+ G G + + + +
Sbjct: 1644 LPSSISFRTDLNRSFSETQFRDVDLSGPGTGEPVLYQKNFTFN 1686
>gnl|CDD|215246 PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme.
Length = 758
Score = 28.5 bits (64), Expect = 1.1
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 81 ADLGYDVSNYVDVDPLFGDMHDFEILIEEAHSRG 114
GY V+N+ V G D + LI++AHS G
Sbjct: 280 GSFGYHVTNFFAVSSRSGTPEDLKYLIDKAHSLG 313
>gnl|CDD|188493 TIGR03978, rSAM_paired_1, His-Xaa-Ser system radical SAM maturase
HxsB. This model describes the upstream member, HxsB,
of a pair of uncharacterized radical SAM proteins,
regularly found in the context of a small protein with
four or more repeats of the tripeptide His-Xaa-Ser
(HXS). This enzyme appears to be part of a peptide
modification system.
Length = 466
Score = 28.0 bits (63), Expect = 1.5
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 57 EKLDHFVDLGIESLWIQPFYPAGGA-----DLGYDVSNYVD 92
E +D +V LG S++++P P G A +GY ++
Sbjct: 252 EIVDEYVRLGFNSIFLRPLSPYGFARKNEQKIGYTAEEFLA 292
>gnl|CDD|234013 TIGR02785, addA_Gpos, helicase-exonuclease AddAB, AddA subunit,
Firmicutes type. AddAB, also called RexAB, substitutes
for RecBCD in several bacterial lineages. These DNA
recombination proteins act before synapse and are
particularly important for DNA repair of double-stranded
breaks by homologous recombination. The term AddAB is
used broadly, with AddA homologous between the
Firmicutes (as modeled here) and the
alphaproteobacteria, while the partner AddB proteins
show no strong homology across the two groups of species
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 1230
Score = 28.1 bits (63), Expect = 1.6
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 91 VDVDPLF--GDMHDFEILIE-------EAHSRGKPKRTFREVTKSFANNQG 132
+D+DP F + +LI+ E + K F E+ +F+ ++
Sbjct: 112 LDLDPSFRILTDTEQLLLIKEVLDDVFEEEYYKEDKEAFFELVDNFSGDRS 162
>gnl|CDD|237052 PRK12313, PRK12313, glycogen branching enzyme; Provisional.
Length = 633
Score = 27.9 bits (63), Expect = 1.7
Identities = 16/87 (18%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 34 YQIYPRSFRDVNGDGTGDMRGITEKL-DHFVDLG---IESLWI--QPFYPAGGADLGYDV 87
Y+++ S++ R + ++L + ++G +E + + P + GY +
Sbjct: 151 YEVHLGSWKRNEDGRPLSYRELADELIPYVKEMGYTHVEFMPLMEHPLDGS----WGYQL 206
Query: 88 SNYVDVDPLFGDMHDFEILIEEAHSRG 114
+ Y +G DF L++ H G
Sbjct: 207 TGYFAPTSRYGTPEDFMYLVDALHQNG 233
>gnl|CDD|200474 cd11335, AmyAc_MTase_N, Alpha amylase catalytic domain found in
maltosyltransferase. Maltosyltransferase (MTase), a
maltodextrin glycosyltransferase, acts on starch and
maltooligosaccharides. It catalyzes the transfer of
maltosyl units from alpha-1,4-linked glucans or
maltooligosaccharides to other alpha-1,4-linked glucans,
maltooligosaccharides or glucose. MTase is a homodimer.
The catalytic core domain has the (beta/alpha) 8 barrel
fold with the active-site cleft formed at the C-terminal
end of the barrel. Substrate binding experiments have
led to the location of two distinct maltose-binding
sites: one lies in the active-site cleft and the other
is located in a pocket adjacent to the active-site
cleft. It is a member of the alpha-amylase family, but
unlike typical alpha-amylases, MTase does not require
calcium for activity and lacks two histidine residues
which are predicted to be critical for binding the
glucose residue adjacent to the scissile bond in the
substrates. The common reaction chemistry of the
alpha-amylase family of enzymes is based on a two-step
acid catalytic mechanism that requires two critical
carboxylates: one acting as a general acid/base (Glu)
and the other as a nucleophile (Asp). Both hydrolysis
and transglycosylation proceed via the nucleophilic
substitution reaction between the anomeric carbon, C1
and a nucleophile. The Alpha-amylase family comprises
the largest family of glycoside hydrolases (GH), with
the majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 538
Score = 27.7 bits (62), Expect = 2.1
Identities = 21/97 (21%), Positives = 43/97 (44%), Gaps = 20/97 (20%)
Query: 23 PQKEWWQTAIMYQIYPRSFRDVNGDGTG-----DMRGITEK---------LDHFVDLGIE 68
+ +W +++ +Y ++ R+ + DG G ++ G E L + +GI
Sbjct: 38 SKGDWIKSSSVYSLFVRTTTAWDHDGDGALEPENLYGFRETGTFLKMIALLPYLKRMGIN 97
Query: 69 SLWIQPFYPAG----GADLG--YDVSNYVDVDPLFGD 99
++++ P +LG Y V N+ ++DPL D
Sbjct: 98 TIYLLPITKISKKFKKGELGSPYAVKNFFEIDPLLHD 134
>gnl|CDD|115278 pfam06608, DUF1143, Protein of unknown function (DUF1143). This
family consists of several hypothetical mammalian
proteins (from mouse and human). The function of this
family is unknown.
Length = 149
Score = 27.0 bits (59), Expect = 2.5
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 85 YDVSNYVDVDPL---FGDMHDFEILIEEAHSRGKPKRTFR 121
YD+ N V PL FG H FE + ++ KP T R
Sbjct: 77 YDLKNIVKPKPLPSQFG--HAFETTYDANYNNKKPLSTHR 114
>gnl|CDD|217983 pfam04241, DUF423, Protein of unknown function (DUF423). This
family of proteins with unknown function is a possible
integral membrane protein from Caenorhabditis elegans.
This family of proteins has GO references indicating
the protein is involved in nematode larval development
and is a positive regulator of growth rate.
Length = 89
Score = 25.6 bits (57), Expect = 4.5
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 24 QKEWWQTAIMYQIY 37
Q E ++TA+ YQ+Y
Sbjct: 18 QLEAFETAVQYQLY 31
>gnl|CDD|225857 COG3320, COG3320, Putative dehydrogenase domain of multifunctional
non-ribosomal peptide synthetases and related enzymes
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 382
Score = 26.6 bits (59), Expect = 5.4
Identities = 20/87 (22%), Positives = 26/87 (29%), Gaps = 17/87 (19%)
Query: 35 QIYPRSFRDVNGDGTGDMRGITEKLDHFVDLGIESLWIQPFYPAGGADLGYDVSNYVDVD 94
P+ V+ G+ TE +F G GY S +V
Sbjct: 124 TGKPKPLHYVSSISVGE----TEYYSNFTVD--FDEISPTRNVGQGLAGGYGRSKWVA-- 175
Query: 95 PLFGDMHDFEILIEEAHSRGKPKRTFR 121
E L+ EA RG P FR
Sbjct: 176 ---------EKLVREAGDRGLPVTIFR 193
>gnl|CDD|237909 PRK15102, PRK15102, trimethylamine N-oxide reductase I catalytic
subunit; Provisional.
Length = 825
Score = 26.6 bits (59), Expect = 6.0
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 93 VDPLFGDMHDFEILIEEAHSRGKPK 117
V+PLF DF+I E G+ K
Sbjct: 545 VEPLFESRSDFDIFRELCRRFGREK 569
>gnl|CDD|235432 PRK05367, PRK05367, glycine dehydrogenase; Provisional.
Length = 954
Score = 26.2 bits (59), Expect = 6.3
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 10/39 (25%)
Query: 86 DVSNYVDVDPLF----------GDMHDFEILIEEAHSRG 114
D + +D D +F G++ D+ LI AH+RG
Sbjct: 197 DAAKALDHDDVFGVLLQYPGTSGEVRDYTALIAAAHARG 235
>gnl|CDD|223321 COG0243, BisC, Anaerobic dehydrogenases, typically
selenocysteine-containing [Energy production and
conversion].
Length = 765
Score = 26.3 bits (58), Expect = 6.9
Identities = 8/28 (28%), Positives = 11/28 (39%)
Query: 93 VDPLFGDMHDFEILIEEAHSRGKPKRTF 120
V+P D+ I+IE A F
Sbjct: 509 VEPPGEARPDYWIIIELAKRLLGEGVGF 536
>gnl|CDD|188150 TIGR01515, branching_enzym, alpha-1,4-glucan:alpha-1,4-glucan
6-glycosyltransferase. This model describes the
glycogen branching enzymes which are responsible for the
transfer of chains of approx. 7 alpha(1--4)-linked
glucosyl residues to other similar chains (in new
alpha(1--6) linkages) in the biosynthesis of glycogen.
This enzyme is a member of the broader amylase family of
starch hydrolases which fold as (beta/alpha)8 barrels,
the so-called TIM-barrel structure. All of the sequences
comprising the seed of this model have been
experimentally characterized. (For instance,). This
model encompasses both bacterial and eukaryotic species.
No archaea have this enzyme, although Aquifex aolicus
does. Two species, Bacillus thuringiensis and
Clostridium perfringens have two sequences each which
are annotated as amylases. These annotations are
aparrently in error. GP|18143720 from C. perfringens,
for instance, contains the note "674 aa, similar to
gp:A14658_1 amylase (1,4-alpha-glucan branching enzyme
(EC 2.4.1.18) ) from Bacillus thuringiensis (648 aa);
51.1% identity in 632 aa overlap." A branching enzyme
from Porphyromonas gingivales, OMNI|PG1793, appears to
be more closely related to the eukaryotic species
(across a deep phylogenetic split) and may represent an
instance of lateral transfer from this species' host. A
sequence from Arabidopsis thaliana, GP|9294564, scores
just above trusted, but appears either to contain
corrupt sequence or, more likely, to be a pseudogene as
some of the conserved catalytic residues common to the
alpha amylase family are not conserved here [Energy
metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 618
Score = 26.3 bits (58), Expect = 7.1
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 53 RGITEKLDHFV-DLGIESLWIQPFY--PAGGADLGYDVSNYVDVDPLFGDMHDFEILIEE 109
R + ++L +V +LG + + P P G+ GY V+ Y FG DF ++
Sbjct: 161 RELADQLIPYVKELGFTHIELLPVAEHPFDGS-WGYQVTGYYAPTSRFGTPDDFMYFVDA 219
Query: 110 AHSRG 114
H G
Sbjct: 220 CHQAG 224
>gnl|CDD|217241 pfam02821, Staphylokinase, Staphylokinase/Streptokinase family.
Length = 124
Score = 25.5 bits (56), Expect = 7.7
Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 81 ADLGYDVS---NYVDVDPLFGDMHDFEILIEEAHSRGKPKRTFREV 123
+ GY VS VD D + + + ++ + ++
Sbjct: 6 VNTGYKVSFNVKGVDSDFNPLLVDLGTLANGKTLTKQELLAAAQDK 51
>gnl|CDD|177167 MTH00105, ND2, NADH dehydrogenase subunit 2; Provisional.
Length = 347
Score = 25.6 bits (57), Expect = 9.1
Identities = 7/15 (46%), Positives = 9/15 (60%), Gaps = 4/15 (26%)
Query: 28 WQ----TAIMYQIYP 38
WQ +I+YQI P
Sbjct: 133 WQKLAPLSILYQISP 147
>gnl|CDD|131219 TIGR02164, torA, trimethylamine-N-oxide reductase TorA. This very
narrowly defined family represents TorA, part of a
family of related molybdoenzymes that include biotin
sulfoxide reductases, dimethyl sulfoxide reductases, and
at least two different subfamilies of
trimethylamine-N-oxide reductases. A single enzyme from
the larger family may have more than one activity. TorA
typically is located in the periplasm, has a Tat
(twin-arginine translocation)-dependent signal sequence,
and is encoded in a torCAD operon.
Length = 822
Score = 26.0 bits (57), Expect = 9.1
Identities = 13/25 (52%), Positives = 13/25 (52%)
Query: 93 VDPLFGDMHDFEILIEEAHSRGKPK 117
VDPLF DFEI E GK K
Sbjct: 542 VDPLFDSRSDFEIFTELCRRFGKEK 566
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
0.324 0.142 0.447
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,289,989
Number of extensions: 665212
Number of successful extensions: 620
Number of sequences better than 10.0: 1
Number of HSP's gapped: 588
Number of HSP's successfully gapped: 82
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.6 bits)