RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15051
(1065 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 = 248 bits (635), Expect = 1e-72
Identities = 97/224 (43%), Positives = 141/224 (62%), Gaps = 5/224 (2%)
Query: 781 REVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATS 840
REV+ ++M TEAYS SL+ KYYG T G H N+E++ S
Sbjct: 251 REVLDEYAKENNGDTRVMM--TEAYS-SLDNTMKYYGNETTYGAHFPFNFELITNLNKNS 307
Query: 841 NAKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYSPDLVDAMNMLTLLLPGTAVTF 900
NA D +++++ +L ++P G+ ++W++G H R+A+R+ + VD MNML++LLPG AVT+
Sbjct: 308 NATDFKDLIDKWLDNMPEGQTANWVLGNHDNPRVASRFGEERVDGMNMLSMLLPGVAVTY 367
Query: 901 AGDELGMESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPFQWNDQENAGFSKA-KSWL 959
G+E+GME + +ED DP G +NY RD +R PFQW+D +NAGFS A K+WL
Sbjct: 368 YGEEIGMEDTTISWEDTVDPPACNAGPENYEAYSRDPARTPFQWDDSKNAGFSTANKTWL 427
Query: 960 PVHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRATSGAVRMGDYK 1003
PV+PNY TLN +A+KK SHY++YK L LR + +R GD +
Sbjct: 428 PVNPNYKTLNLEAQKKDPRSHYNIYKKLAQLRKSPTFLR-GDLE 470
Score = 147 bits (374), Expect = 1e-37
Identities = 48/105 (45%), Positives = 65/105 (61%), Gaps = 15/105 (14%)
Query: 554 KEWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVET 613
K+WW+N V YQI SFKDS+ DGIGDL+G I EK+DY K++G++
Sbjct: 2 KDWWENAVFYQIYPRSFKDSDGDGIGDLKG---------------ITEKLDYFKDIGIDA 46
Query: 614 LWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+WL+P + P D GYDIS+ T++ FGTMEDF+EL+ G
Sbjct: 47 IWLSPIFKSPMVDFGYDISDFTDIDPIFGTMEDFEELIAEAKKLG 91
Score = 100 bits (252), Expect = 4e-22
Identities = 35/75 (46%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRPDSDPTAYDHIYTIDQPETYE 403
+L FWL +GVDGF +D+V L+E E F +EP E PD D DHIYT DQPETY+
Sbjct: 187 VLRFWLDKGVDGFRIDAVPHLFEDEDFLDEPYSDEPGADPD-DYDYLDHIYTKDQPETYD 245
Query: 404 MLYKWRTLVEKFGNQ 418
++Y+WR +++++ +
Sbjct: 246 LVYEWREVLDEYAKE 260
Score = 99.2 bits (248), Expect = 1e-21
Identities = 30/56 (53%), Positives = 43/56 (76%), Gaps = 2/56 (3%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGT--PPNNW 773
+ G+K++++FVPNHSS++H+WF KS ++ +PY +YYVW DG N GT PPNNW
Sbjct: 88 KKLGLKVILDFVPNHSSDEHEWFQKSVKRDEPYKDYYVWHDGKNNDNGTRVPPNNW 143
Score = 64.6 bits (158), Expect = 1e-10
Identities = 20/30 (66%), Positives = 24/30 (80%)
Query: 25 KEWWKNTVIYQILVPSFKDSNNDGIGDLRG 54
K+WW+N V YQI SFKDS+ DGIGDL+G
Sbjct: 2 KDWWENAVFYQIYPRSFKDSDGDGIGDLKG 31
>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 = 159 bits (405), Expect = 7e-42
Identities = 73/195 (37%), Positives = 111/195 (56%), Gaps = 12/195 (6%)
Query: 801 ITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATSNAKDLENVVNAYLKSLPSGK 860
ITE Y ++ +YYGT Q N+ +++ GA + + +V +++ ++P GK
Sbjct: 266 ITEVYDD-IDTTMRYYGTSFKQEADFPFNFYLLD-LGANLSGNSINELVESWMSNMPEGK 323
Query: 861 WSSWMVGGHSITRIATRYSPDLVDAMNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDP 920
W +W++G H +RIA+R P V AMNML L LPGT T+ G+E+GME + D+
Sbjct: 324 WPNWVLGNHDNSRIASRLGPQYVRAMNMLLLTLPGTPTTYYGEEIGMED-VDISVDKE-- 380
Query: 921 EGYIFGKDNYLKVCRDGSRVPFQWNDQENAGFSKA-KSWLPVHPNYWTLNAQAEKKTKPS 979
KD Y RD R P QWN+ NAGFS A K+WLPV+ +Y T+N + +K S
Sbjct: 381 ------KDPYTFESRDPERTPMQWNNSNNAGFSDANKTWLPVNSDYKTVNVEVQKTDPTS 434
Query: 980 HYSVYKDLTTLRATS 994
++Y++L LR++
Sbjct: 435 MLNLYRELLLLRSSE 449
Score = 128 bits (323), Expect = 3e-31
Identities = 51/103 (49%), Positives = 66/103 (64%), Gaps = 15/103 (14%)
Query: 556 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
WW+ +VIYQI SFKDSN DG GDL+G I EK+DYLK LGV+T+W
Sbjct: 2 WWQTSVIYQIYPRSFKDSNGDGNGDLKG---------------IREKLDYLKYLGVKTVW 46
Query: 616 LTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
L+P Y P D GYD+S+ T++ FGTMEDF+ L+ +H +G
Sbjct: 47 LSPIYKSPMKDFGYDVSDFTDIDPMFGTMEDFERLLAAMHDRG 89
Score = 93.2 bits (232), Expect = 1e-19
Identities = 37/98 (37%), Positives = 55/98 (56%), Gaps = 14/98 (14%)
Query: 690 IHSVYLNPVY------AGSGNQNWRA-----GNQNRAESM---EHRAGMKILVEFVPNHS 735
+ +V+L+P+Y G ++ G E + H GMK++++FVPNH+
Sbjct: 42 VKTVWLSPIYKSPMKDFGYDVSDFTDIDPMFGTMEDFERLLAAMHDRGMKLIMDFVPNHT 101
Query: 736 SNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNW 773
S+KH+WF S +PYT+YY+W D PGTPPNNW
Sbjct: 102 SDKHEWFQLSRNSTNPYTDYYIWADCTADGPGTPPNNW 139
Score = 58.9 bits (143), Expect = 8e-09
Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 7/97 (7%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEA-AGRPDSDPTAYDHIYTIDQPETY 402
+L FWL +GVDGF +D+V L E +EP++ + + H YT +Q +
Sbjct: 183 VLRFWLDKGVDGFRVDAVKHLLEATHLRDEPQVNPTQPPETQYNYSELYHDYTTNQEGVH 242
Query: 403 EMLYKWRTLVEKFGNQSADRQPSCADKFAIHSVYLNP 439
+++ WR ++K+ ++ +F I VY +
Sbjct: 243 DIIRDWRQTMDKYSSEPG------RYRFMITEVYDDI 273
Score = 58.5 bits (142), Expect = 1e-08
Identities = 21/37 (56%), Positives = 26/37 (70%)
Query: 27 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLE 63
WW+ +VIYQI SFKDSN DG GDL+G + YL+
Sbjct: 2 WWQTSVIYQIYPRSFKDSNGDGNGDLKGIREKLDYLK 38
>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 = 157 bits (398), Expect = 6e-41
Identities = 73/221 (33%), Positives = 105/221 (47%), Gaps = 11/221 (4%)
Query: 782 EVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATSN 841
E++R + VV F ++I E Y P L+++ YYG G G HL N+ +++ +
Sbjct: 240 EIVREMRRVVDEFG-DRVLIGEIYLP-LDRLVAYYGAG-RDGLHLPFNFHLIS---LPWD 293
Query: 842 AKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYSPDLVDAMNMLTLLLPGTAVTFA 901
A L + Y +LP+G W +W++G H RIA+R P ML L L GT +
Sbjct: 294 AAALARAIEEYEAALPAGAWPNWVLGNHDQPRIASRVGPAQARVAAMLLLTLRGTPTLYY 353
Query: 902 GDELGMESPILRYEDQRDPEGYIFGKDNYLKV-CRDGSRVPFQWNDQENAGFSKAKSWLP 960
GDELGME + E +DP + RD R P W+ NAGFS A WLP
Sbjct: 354 GDELGMEDVPIPPERVQDP----AELNQPGGGLGRDPERTPMPWDASPNAGFSAADPWLP 409
Query: 961 VHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRATSGAVRMGD 1001
+ P+ N ++ S S+Y+ L LR A+ G
Sbjct: 410 LSPDARQRNVATQEADPGSMLSLYRRLLALRRAHPALSAGS 450
Score = 125 bits (315), Expect = 3e-30
Identities = 48/104 (46%), Positives = 64/104 (61%), Gaps = 15/104 (14%)
Query: 555 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETL 614
WW+ VIYQI SF+DSN DG+GDLRG II ++DYL +LGV+ +
Sbjct: 1 LWWQTGVIYQIYPRSFQDSNGDGVGDLRG---------------IISRLDYLSDLGVDAV 45
Query: 615 WLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
WL+P Y P D GYD+S++ + FGT+EDFD LV H++G
Sbjct: 46 WLSPIYPSPMADFGYDVSDYCGIDPLFGTLEDFDRLVAEAHARG 89
Score = 76.6 bits (189), Expect = 2e-14
Identities = 23/56 (41%), Positives = 41/56 (73%), Gaps = 3/56 (5%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKS-AQKIDPYTNYYVWKDGLNGKPGTPPNNWK 774
H G+K++++FVPNH+S++H WF++S + + +P ++Y+W+D G PPNNW+
Sbjct: 86 HARGLKVILDFVPNHTSDQHPWFLESRSSRDNPKRDWYIWRDPAPD--GGPPNNWR 139
Score = 70.0 bits (172), Expect = 2e-12
Identities = 31/74 (41%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRPDSDP-TAYDHIYTIDQPETY 402
+L FWL RGVDGF +D + L + F + P P R P HIYT DQPET+
Sbjct: 182 VLRFWLDRGVDGFRVDVLWLLIKDPQFRDNPPNP--DWRGGMPPHERLLHIYTADQPETH 239
Query: 403 EMLYKWRTLVEKFG 416
E++ + R +V++FG
Sbjct: 240 EIVREMRRVVDEFG 253
Score = 59.3 bits (144), Expect = 6e-09
Identities = 25/44 (56%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 26 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLD 69
WW+ VIYQI SF+DSN DG+GDLRG R YL LG+D
Sbjct: 1 LWWQTGVIYQIYPRSFQDSNGDGVGDLRGIISRLDYLS-DLGVD 43
>gnl|CDD|223443 COG0366, AmyA, Glycosidases [Carbohydrate transport and metabolism].
Length = 505
Score = 156 bits (396), Expect = 2e-40
Identities = 114/528 (21%), Positives = 201/528 (38%), Gaps = 85/528 (16%)
Query: 560 TVIYQILVPSFKDSNN------DGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVET 613
VIYQI F DSN DG GDL+G I EK+DYLKELGV+
Sbjct: 1 AVIYQIYPDRFADSNGSNGPDYDGGGDLKG---------------ITEKLDYLKELGVDA 45
Query: 614 LWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVK--------------LVHSKGK 659
+WL+P + P D GYD+S++T+V FGT EDF ELV+ H+ +
Sbjct: 46 IWLSPIFESPQADHGYDVSDYTKVDPHFGTEEDFKELVEEAHKRGIKVILDLVFNHTSDE 105
Query: 660 QKISQKQTKNRSHQLYCHMYMYAICADKFAIHSVYLNPVYAGSGNQNWRAGNQNRAESME 719
++ ++ + Y++ + + + G W GN E
Sbjct: 106 HPWFKEARSSKPNPKRSDYYIWRDPDPDGTPPNNWFSV----FGGDAWTWGNTG-----E 156
Query: 720 HRAGMKILVEFVPNHSSNK-HDWFIKSAQK-----IDPY---TNYYVWKDGLNGKPGTPP 770
+ + + N + + + + + +D + ++ KD
Sbjct: 157 YYLHLFSSEQPDLNWENPEVREELLDVVKFWLDKGVDGFRLDAAKHISKDFGLPPSEENL 216
Query: 771 NNWKHINITSREVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDT------QGT 824
+ I E +R + V + + + EA E A + +
Sbjct: 217 TFLEEI----HEYLREENPDVLIYGEAITDVGEAPGAVKEDFADNTSFTNPELSMLFDFS 272
Query: 825 HLSVNYEIMNKFGATSNAKDLENVVNAYLKSLPSGK-WSSWMVGGHSITRIATRYSPD-- 881
H+ +++E + +A++L+ ++ + ++ W++ + H R+ +R+ D
Sbjct: 273 HVGLDFEALAPL----DAEELKEILADWPLAVNLNDGWNNLFLSNHDQPRLLSRFGDDVG 328
Query: 882 ----LVDAMNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDPEGYIFGKDNYLKVCRDG 937
+ L LLPGT + GDELG+ + D RDG
Sbjct: 329 GRDASAKLLAALLFLLPGTPFIYYGDELGLTNFKDPPIKYYDDVELDSIILLS----RDG 384
Query: 938 SRVPFQWNDQ-ENAGFSKAKSWLPVHPNYWTLNAQAEKKT---KPSHYSVYKDLTTLRAT 993
R P W++ NAGF+ K WL V+PN + S ++ Y+ L LR
Sbjct: 385 CRTPMPWDENGLNAGFTGGKPWLSVNPNDLLGINVEAQLADELPESLFNFYRRLIALRKQ 444
Query: 994 SGAVRMGDYK---ISTPNNYVFILTRTEGSTSVYLIINLNSRTETVDL 1038
A+ ++ + + R G ++ ++ NL+ + V+L
Sbjct: 445 HSALLANGEDFVLLADDDPSLLAFLRESGGETLLVVNNLSEEEQEVEL 492
Score = 36.5 bits (84), Expect = 0.076
Identities = 15/30 (50%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 31 TVIYQILVPSFKDSNN------DGIGDLRG 54
VIYQI F DSN DG GDL+G
Sbjct: 1 AVIYQIYPDRFADSNGSNGPDYDGGGDLKG 30
Score = 33.0 bits (75), Expect = 0.99
Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 13/68 (19%)
Query: 319 AWNPSCQTTVVDCQMFCYEITLLLC-----------ILEFWLKRGVDGFGMDSVLKLYEH 367
AW +F E L +++FWL +GVDGF +D+ K
Sbjct: 148 AWTWGNTGEYYL-HLFSSEQPDLNWENPEVREELLDVVKFWLDKGVDGFRLDAA-KHISK 205
Query: 368 ESFANEPR 375
+
Sbjct: 206 DFGLPPSE 213
>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 = 148 bits (376), Expect = 3e-38
Identities = 52/101 (51%), Positives = 64/101 (63%), Gaps = 15/101 (14%)
Query: 558 KNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLT 617
K V+YQI SFKDSN DGIGDL G II K+DYLK+LGV+ +WL+
Sbjct: 1 KEAVVYQIYPRSFKDSNGDGIGDLPG---------------IISKLDYLKDLGVDAIWLS 45
Query: 618 PFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P Y P D GYDIS++ + +FGTMEDFDEL+K H +G
Sbjct: 46 PIYPSPQVDNGYDISDYRAIDPEFGTMEDFDELIKEAHKRG 86
Score = 111 bits (279), Expect = 9e-26
Identities = 56/207 (27%), Positives = 88/207 (42%), Gaps = 37/207 (17%)
Query: 798 LMIITEAYSPSLEKVAKYYGTGDT------QGTHLSVNYEIMNKFGATS-NAKDLENVVN 850
+M + EA E+ KY G HL ++Y K+ + ++L+ +++
Sbjct: 244 IMTVGEAPGVDPEEALKYVGPDRGELSMVFNFEHLDLDYGPGGKWKPKPWDLEELKKILS 303
Query: 851 AYLKSLPSGKWSSWMVGGHSITRIATRYSPDLVD------AMNMLTLLLPGTAVTFAGDE 904
+ K+L W++ + H R +R+ D + L L L GT + G+E
Sbjct: 304 KWQKALQGDGWNALFLENHDQPRSVSRFGNDGEYRVESAKMLATLLLTLRGTPFIYQGEE 363
Query: 905 LGMESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPFQWNDQENAGFSKAKSWLPVHPN 964
+GM + RD +R P QW+D NAGFS K WLPV+PN
Sbjct: 364 IGMTNS------------------------RDNARTPMQWDDSPNAGFSTGKPWLPVNPN 399
Query: 965 YWTLNAQAEKKTKPSHYSVYKDLTTLR 991
Y +N +A+ S + YK L LR
Sbjct: 400 YKEINVEAQLADPDSVLNFYKKLIALR 426
Score = 79.8 bits (198), Expect = 2e-15
Identities = 27/58 (46%), Positives = 40/58 (68%), Gaps = 4/58 (6%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKDGLNGKPGTPPNNWKHI 776
H+ G+KI+++ V NH+S++H WF +S D PY +YY+W+D GK G PPNNW+
Sbjct: 83 HKRGIKIIMDLVVNHTSDEHPWFQESRSSRDNPYRDYYIWRD---GKDGKPPNNWRSF 137
Score = 59.8 bits (146), Expect = 4e-09
Identities = 18/26 (69%), Positives = 19/26 (73%)
Query: 29 KNTVIYQILVPSFKDSNNDGIGDLRG 54
K V+YQI SFKDSN DGIGDL G
Sbjct: 1 KEAVVYQIYPRSFKDSNGDGIGDLPG 26
Score = 46.7 bits (112), Expect = 5e-05
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 8/62 (12%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRPDSDPTAYDHIYTIDQPETYE 403
++ FWL +GVDGF +D + + + F + P P H Y + P +E
Sbjct: 178 MMRFWLDKGVDGFRLDVINLISKDPDFPDAP--------PGDGDGLSGHKYYANGPGVHE 229
Query: 404 ML 405
L
Sbjct: 230 YL 231
>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 = 137 bits (346), Expect = 4e-34
Identities = 48/104 (46%), Positives = 61/104 (58%), Gaps = 15/104 (14%)
Query: 555 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETL 614
WW+ VIYQI SF DSN DGIGDL G I EK+DY+ LGV+ +
Sbjct: 1 PWWRGAVIYQIYPRSFLDSNGDGIGDLPG---------------ITEKLDYIASLGVDAI 45
Query: 615 WLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
WL+PF+ P D GYD+S++ V FGT++DFD LV H+ G
Sbjct: 46 WLSPFFKSPMKDFGYDVSDYCAVDPLFGTLDDFDRLVARAHALG 89
Score = 106 bits (266), Expect = 7e-24
Identities = 59/207 (28%), Positives = 92/207 (44%), Gaps = 25/207 (12%)
Query: 806 SPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATSNAKDLENVVNAYLKSLPSGKWSSWM 865
LE +A+Y T H++ +++++ G +A + + + A+ P G W W
Sbjct: 269 DDPLEVMAEY--TSGGDRLHMAYSFDLL---GRPFSAAVVRDALEAFEAEAPDG-WPCWA 322
Query: 866 VGGHSITRIATRYSPDLVD---AMNMLTLL--LPGTAVTFAGDELGMESPILRYEDQRDP 920
H + R +R++ D A +L LL L G+ + G+ELG+ L +E+ +DP
Sbjct: 323 FSNHDVPRAVSRWAGGADDPALARLLLALLLSLRGSVCLYQGEELGLPEAELPFEELQDP 382
Query: 921 EG-----YIFGKDNYLKVCRDGSRVPFQWN-DQENAGFSKAKSWLPVHPNYWTLNAQAEK 974
G G RDG R P W D +AGFS AK WLPV P + L ++
Sbjct: 383 YGITFWPEFKG--------RDGCRTPMPWQADAPHAGFSTAKPWLPVPPEHLALAVDVQE 434
Query: 975 KTKPSHYSVYKDLTTLRATSGAVRMGD 1001
K S + Y+ R A+R G
Sbjct: 435 KDPGSVLNFYRRFLAWRKAQPALRTGT 461
Score = 68.8 bits (169), Expect = 6e-12
Identities = 25/56 (44%), Positives = 38/56 (67%), Gaps = 5/56 (8%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKDGLNGKP-GTPPNNW 773
H G+K++++ V +H+S++H WF +S Q D P ++YVW D KP G+PPNNW
Sbjct: 86 HALGLKVMIDQVLSHTSDQHPWFEESRQSRDNPKADWYVWAD---PKPDGSPPNNW 138
Score = 61.9 bits (151), Expect = 9e-10
Identities = 19/29 (65%), Positives = 20/29 (68%)
Query: 26 EWWKNTVIYQILVPSFKDSNNDGIGDLRG 54
WW+ VIYQI SF DSN DGIGDL G
Sbjct: 1 PWWRGAVIYQIYPRSFLDSNGDGIGDLPG 29
Score = 58.0 bits (141), Expect = 1e-08
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 341 LLCILEFWLKRGVDGFGMDSVLKLYEH-ESFANEPRLPEAAGRPDSDPTA----YDHIYT 395
LL + FWL RGVDGF +D+V Y H + + P P PT HI+
Sbjct: 179 LLDVARFWLDRGVDGFRLDAV-NFYMHDPALRDNPPRPPDEREDGVAPTNPYGMQLHIHD 237
Query: 396 IDQPETYEMLYKWRTLVEKFGN 417
QPE L + R L++++
Sbjct: 238 KSQPENLAFLERLRALLDEYPG 259
>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 = 136 bits (344), Expect = 5e-34
Identities = 46/103 (44%), Positives = 60/103 (58%), Gaps = 15/103 (14%)
Query: 556 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
W+KN VIYQ+ V +F DSN DGIGD RG + EK+DYL+ LGV +W
Sbjct: 1 WYKNAVIYQLDVRTFMDSNGDGIGDFRG---------------LTEKLDYLQWLGVTAIW 45
Query: 616 LTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
L PFY P D GYDI+++ V GT+ DF E ++ H +G
Sbjct: 46 LLPFYPSPLRDDGYDIADYYGVDPRLGTLGDFVEFLREAHERG 88
Score = 61.4 bits (150), Expect = 1e-09
Identities = 23/43 (53%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 27 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLD 69
W+KN VIYQ+ V +F DSN DGIGD RG + YL+ LG+
Sbjct: 1 WYKNAVIYQLDVRTFMDSNGDGIGDFRGLTEKLDYLQ-WLGVT 42
Score = 61.4 bits (150), Expect = 1e-09
Identities = 53/236 (22%), Positives = 91/236 (38%), Gaps = 65/236 (27%)
Query: 799 MIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFG---ATSNAKDLENVVNAYLKS 855
+++ EA E+V +Y+G GD H++ N+ + + A +A + + +
Sbjct: 234 ILLAEANQWP-EEVREYFGDGD--ELHMAFNFPLNPRLFLALAREDAFPIIDALRQTPPI 290
Query: 856 LPSGKWSSW----------MVGGHSITRIATRYSPD-----------------------L 882
+W+++ M+ + ++PD
Sbjct: 291 PEGCQWANFLRNHDELTLEMLTDEERDYVYAAFAPDPRMRIYNRGIRRRLAPMLGGDRRR 350
Query: 883 VDAMNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPF 942
++ L LPGT V + GDE+GM G + YL RDG R P
Sbjct: 351 IELAYSLLFSLPGTPVIYYGDEIGM------------------GDNLYLPD-RDGVRTPM 391
Query: 943 QWNDQENAGFSKA---KSWLPVHPN----YWTLNAQAEKKTKPSHYSVYKDLTTLR 991
QW+ N GFS A K +LPV + Y +N +A+++ S + + L LR
Sbjct: 392 QWSADRNGGFSTADPQKLYLPVIDDGPYGYERVNVEAQRRDPSSLLNWVRRLIALR 447
Score = 58.3 bits (142), Expect = 1e-08
Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 8/55 (14%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKDGLNGKPGTPPNNW 773
H G++++++ V NH+S++H WF + + D PY +YYVW D TPP
Sbjct: 85 HERGIRVIIDLVVNHTSDQHPWFQAARRDPDSPYRDYYVWSD-------TPPKYK 132
Score = 42.6 bits (101), Expect = 0.001
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 23/70 (32%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRPDSDPTAYDHIYTIDQPETYE 403
I++FWL GVDGF +D+V L E E E PET++
Sbjct: 181 IMDFWLDLGVDGFRLDAVPYLIEREGTNCENL-----------------------PETHD 217
Query: 404 MLYKWRTLVE 413
L + R V+
Sbjct: 218 FLKRLRAFVD 227
>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 = 128 bits (324), Expect = 6e-31
Identities = 49/103 (47%), Positives = 60/103 (58%), Gaps = 15/103 (14%)
Query: 556 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
WW+ VIYQI SF DS DG GDLRG IIEK+DYLK+LGV+ +W
Sbjct: 1 WWQKKVIYQIYPKSFYDSTGDGTGDLRG---------------IIEKLDYLKKLGVDYIW 45
Query: 616 LTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
L PFY P D GYD+S++ + FGTM DF+ELV +
Sbjct: 46 LNPFYVSPQKDNGYDVSDYYAINPLFGTMADFEELVSEAKKRN 88
Score = 93.6 bits (233), Expect = 1e-19
Identities = 51/168 (30%), Positives = 77/168 (45%), Gaps = 15/168 (8%)
Query: 888 MLTLLLPGTAVTFAGDELGMESP-ILRYEDQRDPEGY---------IFGKDNYLKV---- 933
LL GT + G+E+GM +P ED RD E ++ L +
Sbjct: 343 AAIHLLRGTPYIYQGEEIGMTNPKFTNIEDYRDVESLNAYDILLKKGKSEEEALAILKQK 402
Query: 934 CRDGSRVPFQWNDQENAGFSKAKSWLPVHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRAT 993
RD SR P QWN+++NAGF+ K WL V NY +N + S + Y+ L LR +
Sbjct: 403 SRDNSRTPMQWNNEKNAGFTTGKPWLGVATNYKEINVEKALADDNSIFYFYQKLIALRKS 462
Query: 994 SGAVRMGDYKISTPN-NYVFILTRTEGSTSVYLIINLNSRTETVDLSD 1040
+ GDY+ P+ V+ TRT + + +I N +T++L
Sbjct: 463 EPVITDGDYQFLLPDDPSVWAYTRTYKNQKLLVINNFYGEEKTIELPL 510
Score = 57.4 bits (139), Expect = 3e-08
Identities = 20/55 (36%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNWK 774
+ +KI+++ V NH+S +H+WF K+ PY ++Y+W+D G PP NW+
Sbjct: 85 KKRNIKIMLDMVFNHTSTEHEWFKKALAGDSPYRDFYIWRDP----KGKPPTNWQ 135
Score = 52.0 bits (125), Expect = 1e-06
Identities = 23/43 (53%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 27 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLD 69
WW+ VIYQI SF DS DG GDLRG + YL+ LG+D
Sbjct: 1 WWQKKVIYQIYPKSFYDSTGDGTGDLRGIIEKLDYLK-KLGVD 42
>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 = 125 bits (317), Expect = 2e-30
Identities = 43/104 (41%), Positives = 59/104 (56%), Gaps = 15/104 (14%)
Query: 555 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETL 614
WW++ V+YQ+ SF D+N DGIGDL G I ++ YL LGV+ +
Sbjct: 1 PWWRDAVVYQVYPRSFADANGDGIGDLAG---------------IRARLPYLAALGVDAI 45
Query: 615 WLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
WL+PFY P D GYD++++ +V FGT+ DFD LV H G
Sbjct: 46 WLSPFYPSPMADGGYDVADYRDVDPLFGTLADFDALVAAAHELG 89
Score = 84.6 bits (210), Expect = 6e-17
Identities = 60/240 (25%), Positives = 102/240 (42%), Gaps = 37/240 (15%)
Query: 782 EVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATSN 841
++ R + V+ + +++ EA+ P E++A+Y H + N++ + A +
Sbjct: 242 DIYREWRAVLDEYDPPRVLVAEAWVPDPERLARYLRPD---ELHQAFNFDFLK---APWD 295
Query: 842 AKDLENVVNAYLKSL-PSGKWSSWMVGGHSITRIATRY-----------------SPDLV 883
A L ++ L + G +W++ H + R +RY PDL
Sbjct: 296 AAALRRAIDRSLAAAAAVGAPPTWVLSNHDVVRHVSRYGLPTPGPDPSGIDGTDEPPDLA 355
Query: 884 ------DAMNMLTLLLPGTAVTFAGDELGM-ESPILRYEDQRDPEGYIFGKDNYLKVCRD 936
A +L L LPG+A + G+ELG+ E L ++DP I+ + + RD
Sbjct: 356 LGLRRARAAALLMLALPGSAYLYQGEELGLPEVEDLPDALRQDP---IWERSGGTERGRD 412
Query: 937 GSRVPFQWN-DQENAGFS--KAKSWLPVHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRAT 993
G RVP W+ D GFS A+ WLP + A++ S S+Y+ LR
Sbjct: 413 GCRVPLPWSGDAPPFGFSPGGAEPWLPQPAWWARYAVDAQEADPGSTLSLYRRALRLRRE 472
Score = 60.4 bits (147), Expect = 3e-09
Identities = 23/46 (50%), Positives = 30/46 (65%), Gaps = 5/46 (10%)
Query: 26 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKR--YLELTLGLD 69
WW++ V+YQ+ SF D+N DGIGDL G +R R YL LG+D
Sbjct: 1 PWWRDAVVYQVYPRSFADANGDGIGDLAG--IRARLPYLA-ALGVD 43
Score = 55.7 bits (135), Expect = 8e-08
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKS--AQKIDPYTNYYVWKDGLNGKPGTPPNNW 773
H G++++V+ VPNH+S++H WF + A P Y+++DG PPNNW
Sbjct: 86 HELGLRVIVDIVPNHTSDQHPWFQAALAAGPGSPERARYIFRDGRGPDGELPPNNW 141
Score = 46.1 bits (110), Expect = 7e-05
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRP-DSDPTAYDHIYTIDQPETY 402
+L FWL RGVDGF +D L A +P LP+A G H Y D+ E +
Sbjct: 189 VLRFWLDRGVDGFRIDVAHGL------AKDPGLPDAPGGGLPVGERPGSHPY-WDRDEVH 241
Query: 403 EMLYKWRTLVEKF 415
++ +WR +++++
Sbjct: 242 DIYREWRAVLDEY 254
>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 = 114 bits (286), Expect = 4e-26
Identities = 43/104 (41%), Positives = 61/104 (58%), Gaps = 15/104 (14%)
Query: 555 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETL 614
W+K+ V Y++ V SF DSN DGIGD G + K+DYLK LGV+ L
Sbjct: 1 LWYKDAVFYEVHVRSFFDSNGDGIGDFPG---------------LTSKLDYLKWLGVDAL 45
Query: 615 WLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
WL PF+ P D GYD+S++ + +FGT++DF + V H++G
Sbjct: 46 WLLPFFQSPLRDDGYDVSDYRAILPEFGTIDDFKDFVDEAHARG 89
Score = 60.1 bits (146), Expect = 4e-09
Identities = 42/161 (26%), Positives = 64/161 (39%), Gaps = 27/161 (16%)
Query: 886 MNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPFQWN 945
+ L L LPG+ + + GDE+GM G + +L R+G R P QW+
Sbjct: 356 LTALLLSLPGSPILYYGDEIGM------------------GDNIWLGD-RNGVRTPMQWS 396
Query: 946 DQENAGFSKAKS---WLPV--HPNYW--TLNAQAEKKTKPSHYSVYKDLTTLRATSGAVR 998
NAGFS A +LP P Y +N +A+ + S + + +R A
Sbjct: 397 PDRNAGFSSADPGQLFLPPVQDPVYGYQQVNVEAQLRDPSSLLHWTRRVLHVRKAHPAFG 456
Query: 999 MGDYK-ISTPNNYVFILTRTEGSTSVYLIINLNSRTETVDL 1038
G + T N V R V + N + + V+L
Sbjct: 457 RGSLTFLPTGNRRVLAFLREYEGERVLCVFNFSRNPQAVEL 497
Score = 55.1 bits (133), Expect = 1e-07
Identities = 21/44 (47%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 26 EWWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLD 69
W+K+ V Y++ V SF DSN DGIGD G + YL+ LG+D
Sbjct: 1 LWYKDAVFYEVHVRSFFDSNGDGIGDFPGLTSKLDYLK-WLGVD 43
Score = 52.8 bits (127), Expect = 7e-07
Identities = 17/42 (40%), Positives = 29/42 (69%), Gaps = 1/42 (2%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKD 760
H GM+++++ V NH+S++H WF ++ D PY ++YVW D
Sbjct: 86 HARGMRVIIDLVLNHTSDQHPWFQEARSNPDGPYRDFYVWSD 127
Score = 39.7 bits (93), Expect = 0.009
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 341 LLCILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPE 378
+ ++ FWL GVDGF +D+V LYE E + E LPE
Sbjct: 179 VHDVMRFWLDLGVDGFRLDAVPYLYEREGTSCE-NLPE 215
>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 = 109 bits (276), Expect = 2e-25
Identities = 40/98 (40%), Positives = 57/98 (58%), Gaps = 16/98 (16%)
Query: 561 VIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLTPFY 620
V Y+I V SF DS+ DGIGDL G + EK+DYL +LGV +WL P +
Sbjct: 2 VFYEIFVRSFYDSDGDGIGDLNG---------------LTEKLDYLNDLGVNGIWLMPIF 46
Query: 621 SGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P+ GYD++++ + D+GTMEDF+ L+ H +G
Sbjct: 47 PSPS-YHGYDVTDYYAIEPDYGTMEDFERLIAEAHKRG 83
Score = 77.2 bits (191), Expect = 9e-15
Identities = 51/235 (21%), Positives = 81/235 (34%), Gaps = 44/235 (18%)
Query: 773 WKHINITSREVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEI 832
WK R+ ++S K ++ E + +A YY +G + + I
Sbjct: 206 WKEF----RDYVKSVKPDA-------YLVGEVWD-DPSTIAPYYASGLDSAFNFDLAEAI 253
Query: 833 M----NKFGATSNAKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYSPDLVDAMNM 888
+ N AK L V Y K P + + H R+A++ D +
Sbjct: 254 IDSVKNGGSGAGLAKALLRVYELYAKYNPDYIDAP-FLSNHDQDRVASQLGGDE-AKAKL 311
Query: 889 ---LTLLLPGTAVTFAGDELGMESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPFQWN 945
L L LPG + G+E+GM D + R P W+
Sbjct: 312 AAALLLTLPGNPFIYYGEEIGMLGS---------------KPDENI-------RTPMSWD 349
Query: 946 DQENAGFSKAKSWLPVHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRATSGAVRMG 1000
AGF+ P + N T + +A++ S + YK L LR A+ G
Sbjct: 350 ADSGAGFTTWIPPRP-NTNATTASVEAQEADPDSLLNHYKRLIALRNEYPALARG 403
Score = 65.7 bits (161), Expect = 5e-11
Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKDGLNGKPGTPPNN-WKHIN 777
H+ G+K++++ V NH+S++H WF ++A D PY +YY+W D G + N W
Sbjct: 80 HKRGIKVIIDLVINHTSSEHPWFQEAASSPDSPYRDYYIWADDDPGGWSSWGGNVWHKAG 139
Score = 46.4 bits (111), Expect = 6e-05
Identities = 15/23 (65%), Positives = 17/23 (73%)
Query: 32 VIYQILVPSFKDSNNDGIGDLRG 54
V Y+I V SF DS+ DGIGDL G
Sbjct: 2 VFYEIFVRSFYDSDGDGIGDLNG 24
Score = 39.5 bits (93), Expect = 0.008
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYE 366
I +FWL +GVDGF +D+ +YE
Sbjct: 169 IAKFWLDKGVDGFRLDAAKHIYE 191
>gnl|CDD|182849 PRK10933, PRK10933, trehalose-6-phosphate hydrolase; Provisional.
Length = 551
Score = 111 bits (280), Expect = 2e-25
Identities = 46/103 (44%), Positives = 65/103 (63%), Gaps = 15/103 (14%)
Query: 556 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
WW+N VIYQI SF+D+ G GDLRG + +++DYL++LGV+ +W
Sbjct: 7 WWQNGVIYQIYPKSFQDTTGSGTGDLRG---------------VTQRLDYLQKLGVDAIW 51
Query: 616 LTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
LTPFY P D GYD++N+T + +GT++DFDELV S+G
Sbjct: 52 LTPFYVSPQVDNGYDVANYTAIDPTYGTLDDFDELVAQAKSRG 94
Score = 77.9 bits (192), Expect = 1e-14
Identities = 69/248 (27%), Positives = 112/248 (45%), Gaps = 29/248 (11%)
Query: 788 KDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGT------HLSVNYEIMNKFG-ATS 840
+DV P LM + E S SLE +Y ++ + HL V+Y K+ A
Sbjct: 238 RDVFT--PRGLMTVGEMSSTSLEHCQRYAALTGSELSMTFNFHHLKVDYPNGEKWTLAKP 295
Query: 841 NAKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYSPD---LVDAMNMLTLLL---P 894
+ L+ + + + + + W++ H RI +R+ + V A ML ++L
Sbjct: 296 DFVALKTLFRHWQQGMHNVAWNALFWCNHDQPRIVSRFGDEGEYRVPAAKMLAMVLHGMQ 355
Query: 895 GTAVTFAGDELGMESP-ILRYEDQRDPEGY-IFG--------KDNYLKV----CRDGSRV 940
GT + G+E+GM +P R D RD E +F D L + RD SR
Sbjct: 356 GTPYIYQGEEIGMTNPHFTRITDYRDVESLNMFAELRNDGRDADELLAILASKSRDNSRT 415
Query: 941 PFQWNDQENAGFSKAKSWLPVHPNYWTLNAQAEKKTKPSHYSVYKDLTTLRATSGAVRMG 1000
P QW++ +NAGF++ + W+ + NY +N +A + S + Y+ L LR + G
Sbjct: 416 PMQWDNGDNAGFTQGEPWIGLCDNYQEINVEAALADEDSVFYTYQKLIALRKQEPVLTWG 475
Query: 1001 DYKISTPN 1008
DY+ PN
Sbjct: 476 DYQDLLPN 483
Score = 67.1 bits (164), Expect = 3e-11
Identities = 23/55 (41%), Positives = 37/55 (67%), Gaps = 3/55 (5%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNWK 774
G++I+++ V NH+S +H WF ++ K PY +Y+W+D G+P TPPNNW+
Sbjct: 91 KSRGIRIILDMVFNHTSTQHAWFREALNKESPYRQFYIWRD---GEPETPPNNWR 142
Score = 55.1 bits (133), Expect = 1e-07
Identities = 23/43 (53%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 27 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLD 69
WW+N VIYQI SF+D+ G GDLRG R YL+ LG+D
Sbjct: 7 WWQNGVIYQIYPKSFQDTTGSGTGDLRGVTQRLDYLQ-KLGVD 48
>gnl|CDD|214758 smart00642, Aamy, Alpha-amylase domain.
Length = 166
Score = 102 bits (256), Expect = 5e-25
Identities = 44/98 (44%), Positives = 56/98 (57%), Gaps = 18/98 (18%)
Query: 564 QILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLTPFYSGP 623
QI F D N DG GDL+G IIEK+DYLK+LGV +WL+P + P
Sbjct: 1 QIYPDRFADGNGDGGGDLQG---------------IIEKLDYLKDLGVTAIWLSPIFESP 45
Query: 624 NG---DIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
G GYDIS++ ++ FGTMEDF ELV H++G
Sbjct: 46 QGYPSYHGYDISDYKQIDPRFGTMEDFKELVDAAHARG 83
Score = 34.2 bits (79), Expect = 0.17
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 35 QILVPSFKDSNNDGIGDLRG 54
QI F D N DG GDL+G
Sbjct: 1 QIYPDRFADGNGDGGGDLQG 20
Score = 33.8 bits (78), Expect = 0.21
Identities = 7/18 (38%), Positives = 14/18 (77%)
Query: 720 HRAGMKILVEFVPNHSSN 737
H G+K++++ V NH+S+
Sbjct: 80 HARGIKVILDVVINHTSD 97
>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 = 97.2 bits (242), Expect = 3e-22
Identities = 40/104 (38%), Positives = 52/104 (50%), Gaps = 21/104 (20%)
Query: 561 VIYQILVPSFKDSN---NDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLT 617
VIYQ+ F D + DG GDL+G II+K+DYLK+LGV +WLT
Sbjct: 1 VIYQLFPDRFTDGDSSGGDGGGDLKG---------------IIDKLDYLKDLGVTAIWLT 45
Query: 618 PFYSGPNGDIGYDIS---NHTEVGKDFGTMEDFDELVKLVHSKG 658
P + P D ++ E+ GT EDF ELVK H +G
Sbjct: 46 PIFESPEYDGYDKDDGYLDYYEIDPRLGTEEDFKELVKAAHKRG 89
Score = 47.6 bits (113), Expect = 2e-05
Identities = 35/196 (17%), Positives = 64/196 (32%), Gaps = 34/196 (17%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDG--LNGKPGTPPNNWKHIN 777
H+ G+K++++ V NH + + + V DG L+ P
Sbjct: 86 HKRGIKVILDLVFNHDILRF------------WLDEGV--DGFRLDAAKHVPKPEPV--- 128
Query: 778 ITSREVMRSQKDVVQSFPLILMIITEAYSPSLEKVAKYYGTGDTQGT-HLSVNYEIMNKF 836
E +R + + +++ EA+ E +AK + + +
Sbjct: 129 ----EFLREIRKDAKLAKPDTLLLGEAWGGPDELLAKAGFDDGLDSVFDFPLLEALRDAL 184
Query: 837 GATSNAKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYS-------PDLVDAMNML 889
A ++ A L P G +G H R+A S + L
Sbjct: 185 KGGEGA---LAILAALLLLNPEGALLVNFLGNHDTFRLADLVSYKIVELRKARLKLALAL 241
Query: 890 TLLLPGTAVTFAGDEL 905
L LPGT + + +L
Sbjct: 242 LLTLPGTPMIYYIKKL 257
Score = 34.8 bits (80), Expect = 0.17
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 32 VIYQILVPSFKDSN---NDGIGDLRG 54
VIYQ+ F D + DG GDL+G
Sbjct: 1 VIYQLFPDRFTDGDSSGGDGGGDLKG 26
Score = 30.6 bits (69), Expect = 3.5
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 344 ILEFWLKRGVDGFGMD 359
IL FWL GVDGF +D
Sbjct: 102 ILRFWLDEGVDGFRLD 117
>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 = 97.4 bits (243), Expect = 3e-21
Identities = 39/98 (39%), Positives = 51/98 (52%), Gaps = 15/98 (15%)
Query: 561 VIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLTPFY 620
V Y+I SF DSN DGIGDL+G II K+DY+K LG +WL P +
Sbjct: 1 VFYEIYPQSFYDSNGDGIGDLQG---------------IISKLDYIKSLGCNAIWLNPCF 45
Query: 621 SGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P D GYD+ ++ +V +GT ED L H +G
Sbjct: 46 DSPFKDAGYDVRDYYKVAPRYGTNEDLVRLFDEAHKRG 83
Score = 64.6 bits (158), Expect = 1e-10
Identities = 38/131 (29%), Positives = 54/131 (41%), Gaps = 16/131 (12%)
Query: 863 SWMVGGHSITRIATRYSPDLVDAMNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDPEG 922
S H R+ R + + + L +PG + GDE+GM RY +
Sbjct: 312 SLPTCNHDTPRLNARLTEEELKLAFAFLLTMPGVPFIYYGDEIGM-----RY---IEGLP 363
Query: 923 YIFGKDNYLKVCRDGSRVPFQWNDQENAGFSKAKS---WLPVHPNYWTLNAQAEKKTKPS 979
G N R GSR P QW+ +NAGFS A + +LPV P A++ S
Sbjct: 364 SKEGGYN-----RTGSRTPMQWDSGKNAGFSTAPAERLYLPVDPAPDRPTVAAQEDDPNS 418
Query: 980 HYSVYKDLTTL 990
+ +DL L
Sbjct: 419 LLNFVRDLIAL 429
Score = 55.0 bits (133), Expect = 1e-07
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKI-DPYTNYYVWKDGLNGKPGTPP 770
H+ G+ +L++ VP H+S++H WF +S + + Y++ Y+W D + P
Sbjct: 80 HKRGIHVLLDLVPGHTSDEHPWFKESKKAENNEYSDRYIWTDSIWSGGPGLP 131
Score = 42.7 bits (101), Expect = 8e-04
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 32 VIYQILVPSFKDSNNDGIGDLRGKNVRKRYL-EL---TLGLDPCGSS 74
V Y+I SF DSN DGIGDL+G + Y+ L + L+PC S
Sbjct: 1 VFYEIYPQSFYDSNGDGIGDLQGIISKLDYIKSLGCNAIWLNPCFDS 47
>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 = 89.3 bits (222), Expect = 4e-19
Identities = 29/61 (47%), Positives = 43/61 (70%)
Query: 598 GIIEKIDYLKELGVETLWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSK 657
GII+K+DYLK+LGV +WL+P + P GYDI+++ ++ FGTM+DF EL+ H +
Sbjct: 5 GIIDKLDYLKDLGVTAIWLSPIFDSPQSYHGYDITDYYKIDPHFGTMDDFKELIDKAHER 64
Query: 658 G 658
G
Sbjct: 65 G 65
Score = 82.7 bits (205), Expect = 6e-17
Identities = 52/249 (20%), Positives = 88/249 (35%), Gaps = 63/249 (25%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID-PYTNYYVWKDG---LNGKPGTPPNNW-- 773
H G+K++++ VPNH+S++H WF +S D PY +YY+W+ N + W
Sbjct: 62 HERGIKVILDLVPNHTSDEHAWFQESRSSKDNPYRDYYIWRIYSPPNNWISYFGGSAWSD 121
Query: 774 ---------------KHINITSREVMRSQKDVVQ------------------SFPLI--- 797
N R+ + + VV+ S
Sbjct: 122 DEDGQYLFLVSLPDLNTENPEVRKEL--KDWVVKFWLDKGIDGFRIDAVKHISKGFWHEF 179
Query: 798 ----------LMIITEAYSPSLEKVAKYYGTGDTQGT------HLSVNYEIMNKF-GATS 840
+ + E + S E Y + H + + F
Sbjct: 180 TQEMNEYKPDVFTVGEVWGGSDEDARVYAYNSYMELESGFNFPHFDLGQNVFIPFRLNPF 239
Query: 841 NAKDLENVVNAYLKSLPSGKWSSWMVGGHSITRIATRYSPD--LVDAMNMLTLLLPGTAV 898
+AKDL+ +++++ P W +G H R +R+ D + L L LPGT
Sbjct: 240 SAKDLKEMISSWQSDYPDVDWLVTFLGNHDQPRFLSRFGDDSAKIKLALALLLTLPGTPY 299
Query: 899 TFAGDELGM 907
+ G+E GM
Sbjct: 300 IYYGEEQGM 308
Score = 33.8 bits (78), Expect = 0.38
Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 340 LLLCILEFWLKRGVDGFGMDSVLKLYEHE 368
L +++FWL +G+DGF +D+V K
Sbjct: 147 LKDWVVKFWLDKGIDGFRIDAV-KHISKG 174
>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 = 82.5 bits (205), Expect = 1e-16
Identities = 37/118 (31%), Positives = 53/118 (44%), Gaps = 20/118 (16%)
Query: 559 NTVIYQILVPSFKDSN-----NDGIGDLRGKNVRKRYLELTLGL------------GIIE 601
+ V YQI F + + G + G Y G GIIE
Sbjct: 1 DAVFYQIFPDRFANGDPSNDPKGGEYNYFGWPDLPDYPPPWGGEPTRRDFYGGDLQGIIE 60
Query: 602 KIDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
K+DYLK+LGV ++L P F + N YD +++ ++ GT EDF ELV+ H +G
Sbjct: 61 KLDYLKDLGVNAIYLNPIFEAPSNH--KYDTADYFKIDPHLGTEEDFKELVEEAHKRG 116
Score = 45.9 bits (110), Expect = 7e-05
Identities = 52/282 (18%), Positives = 91/282 (32%), Gaps = 85/282 (30%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKID--PYTNYYVWKDGLNGKPGTPPN--NWKH 775
H+ G++++++ V NH+ + +F + + Y +++ PPN +W
Sbjct: 113 HKRGIRVILDGVFNHTGDDSPYFQDVLKYGESSAYQDWFSIYYFWPYFTDEPPNYESWWG 172
Query: 776 I------NITSREVMRSQKDVVQ---SFPLI----------------------------- 797
+ N + EV V + I
Sbjct: 173 VPSLPKLNTENPEVREYLDSVARYWLKEGDIDGWRLDVADEVPHEFWREFRKAVKAVNPD 232
Query: 798 LMIITEAYSPSLEKVAKYYGTGDTQGTHL-SV-NY---EIMNKF--GATSNAKDLENVVN 850
II E + QG SV NY + + F G +A++ N +N
Sbjct: 233 AYIIGEVW---------EDARPWLQGDQFDSVMNYPFRDAVLDFLAGEEIDAEEFANRLN 283
Query: 851 AYLKSLPSGKWSS--WMVGGHSITRIATRYSPDLVDAMNMLTLL--LPGTAVTFAGDELG 906
+ + P + ++ H RI T D L L LPG + GDE+G
Sbjct: 284 SLRANYPKQVLYAMMNLLDSHDTPRILTLLGGDKARLKLALALQFTLPGAPCIYYGDEIG 343
Query: 907 MESPILRYEDQRDPEGYIFGKDNYLKVCRDGSRVPFQWNDQE 948
+E GKD +R P W++++
Sbjct: 344 LEG----------------GKDPD-------NRRPMPWDEEK 362
>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 = 81.8 bits (203), Expect = 2e-16
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 28/110 (25%)
Query: 556 WWKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
W ++ VIY++ V F G + + + + LK+LGV+ LW
Sbjct: 1 WLRDAVIYEVNVRQFTPE-----GTFKA---------------VTKDLPRLKDLGVDILW 40
Query: 616 LTPFY-------SGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
L P + G G Y + ++ V ++GT+EDF LV H +G
Sbjct: 41 LMPIHPIGEKNRKGSLGS-PYAVKDYRAVNPEYGTLEDFKALVDEAHDRG 89
Score = 59.1 bits (144), Expect = 4e-09
Identities = 38/232 (16%), Positives = 74/232 (31%), Gaps = 63/232 (27%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNWKHI--- 776
H GMK+++++V NH++ H + + +Y+ +G +W +
Sbjct: 86 HDRGMKVILDWVANHTAWDHPLV-------EEHPEWYLRDS--DGNITNKVFDWTDVADL 136
Query: 777 NITSREVMRSQKDVVQ---------------------SF-------------PLILMIIT 802
+ ++ E+ D ++ F + ++
Sbjct: 137 DYSNPELRDYMIDAMKYWVREFDVDGFRCDVAWGVPLDFWKEARAELRAVKPDVFMLAEA 196
Query: 803 EAYSPSLEKVAKYYG----TGDTQGTHLSVNYEIMNKFGA-TSNAKDLENVVNAYLKSLP 857
E Y T D + +N ++A DL + +NA P
Sbjct: 197 EPRDDDE-----LYSAFDMTYDWDL------HHTLNDVAKGKASASDLLDALNAQEAGYP 245
Query: 858 SGKWSSWMVGGHSITRIA-TRYSPDLVDAMNMLTLLLPGTAVTFAGDELGME 908
+ H R A T D + A L+ LPG + + G E G++
Sbjct: 246 KNAVKMRFLENHDENRWAGTVGEGDALRAAAALSFTLPGMPLIYNGQEYGLD 297
>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 = 74.2 bits (183), Expect = 8e-14
Identities = 43/121 (35%), Positives = 56/121 (46%), Gaps = 26/121 (21%)
Query: 558 KNTVIYQILVPSFKD---SNNDGIG----DLRGKNVRKRY----LELTLGLGIIEKIDYL 606
+ VIYQIL F D SNN D N++K Y + GII+K+ YL
Sbjct: 3 ETDVIYQILTDRFYDGDTSNNPPGSPGLYDPTHSNLKK-YWGGDWQ-----GIIDKLPYL 56
Query: 607 KELGVETLWLTPFY----SGPNGDI-----GYDISNHTEVGKDFGTMEDFDELVKLVHSK 657
K+LGV +W++P S G GY + + FGT EDFDELV H+
Sbjct: 57 KDLGVTAIWISPPVENINSPIEGGGNTGYHGYWARDFKRTNEHFGTWEDFDELVDAAHAN 116
Query: 658 G 658
G
Sbjct: 117 G 117
Score = 31.1 bits (71), Expect = 3.1
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 720 HRAGMKILVEFVPNHSS 736
H G+K++++FVPNHSS
Sbjct: 114 HANGIKVIIDFVPNHSS 130
>gnl|CDD|200468 cd11329, AmyAc_maltase-like, Alpha amylase catalytic domain family
found in maltase. Maltase (EC 3.2.1.20) hydrolyzes the
terminal, non-reducing (1->4)-linked alpha-D-glucose
residues in maltose, releasing alpha-D-glucose. The
catalytic triad (DED) which is highly conserved in the
other maltase group is not present in this subfamily.
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 = 477
Score = 72.0 bits (177), Expect = 7e-13
Identities = 23/55 (41%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 723 GMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNWKHIN 777
+K++++ PNHSS +H F S K PY + +VW D GK TPPNNW +
Sbjct: 128 DIKVILDLTPNHSSKQHPLFKDSVLKEPPYRSAFVWAD---GKGHTPPNNWLSVT 179
Score = 60.5 bits (147), Expect = 3e-09
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 6/72 (8%)
Query: 344 ILEFWLKRGVDGFGMDSVLKLYEHESFANEPRLPEAAGRPDSDPTAYD---HIYTIDQPE 400
+L+ WL GV GF + + L E + +E ++ P Y HI T + PE
Sbjct: 218 VLKHWLDLGVRGFRLANAKYLLEDPNLKDEEI---SSNTKGVTPNDYGFYTHIKTTNLPE 274
Query: 401 TYEMLYKWRTLV 412
E+L +WR++V
Sbjct: 275 LGELLREWRSVV 286
Score = 41.2 bits (97), Expect = 0.003
Identities = 22/104 (21%), Positives = 34/104 (32%), Gaps = 8/104 (7%)
Query: 812 VAKYYGTGDTQGTHLSVNYEIMNKFGATSNAKDLENVVNAYLKSLPSGKWSSWMVGGHSI 871
V + GT D L + + K A L ++ + + W W +
Sbjct: 306 VYQVNGTLDL-LIDLPLYGNFLAKLSKAITANALHKILASISTVSATTSWPQWNLRYRDT 364
Query: 872 TRIATRYSPDLVDAMNMLTLLLPGTAVTFAGDELGMESPILRYE 915
+A+ DA+ + T LLPGT V EL
Sbjct: 365 KVVAS-------DALTLFTSLLPGTPVVPLDSELYANVSKPTIS 401
>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 = 68.8 bits (169), Expect = 8e-12
Identities = 29/63 (46%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 598 GIIEKIDYLKELGVETLWLTPFYSGPNG--DIGYDISNHTEVGKDFGTMEDFDELVKLVH 655
G+ EKI YLKELGV L L P P G D GY +S++ EV GTMED L +
Sbjct: 87 GLAEKIPYLKELGVTYLHLMPLLKPPEGDNDGGYAVSDYREVDPRLGTMEDLRALAAELR 146
Query: 656 SKG 658
+G
Sbjct: 147 ERG 149
Score = 36.4 bits (85), Expect = 0.096
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 8/41 (19%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKI---DP-YTNYY 756
G+ ++++FV NH++++H+W AQK DP Y +YY
Sbjct: 146 RERGISLVLDFVLNHTADEHEW----AQKARAGDPEYQDYY 182
>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 = 67.3 bits (165), Expect = 1e-11
Identities = 32/113 (28%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 561 VIYQILVPSFKD---SNNDGIGD---LRGKNVRKRYLELTLG---LGIIEKIDYLKELGV 611
IY ++ F D SN++G GD Y G G+I+K+DY+K+LG
Sbjct: 4 TIYFVMTDRFYDGDPSNDNGGGDGDPRSNPTDNGPYH----GGDFKGLIDKLDYIKDLGF 59
Query: 612 ETLWLTP------FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+W+TP +G G GY + + GT D +L+ H++G
Sbjct: 60 TAIWITPVVKNRSVQAGSAGYHGYWGYDFYRIDPHLGTDADLQDLIDAAHARG 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 = 67.7 bits (166), Expect = 1e-11
Identities = 35/114 (30%), Positives = 46/114 (40%), Gaps = 16/114 (14%)
Query: 561 VIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGL-------------GIIEKIDYLK 607
V+Y +LV F D G + E G G+ K+ YLK
Sbjct: 1 VLYFLLVDRFSDGKERPRPLFDGNDPAVATWEDNFGWESQGQRFQGGTLKGVRSKLGYLK 60
Query: 608 ELGVETLWLTPFYSGPNGDI---GYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
LGV LWL+P + GY I N +V FGT ED +LV H++G
Sbjct: 61 RLGVTALWLSPVFKQRPELETYHGYGIQNFLDVDPRFGTREDLRDLVDAAHARG 114
>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 = 67.2 bits (165), Expect = 1e-11
Identities = 37/110 (33%), Positives = 55/110 (50%), Gaps = 17/110 (15%)
Query: 561 VIYQILVPSFK--DSNNDGIGDLRGK----NVRKRYLELTLG---LGIIEKIDYLKELGV 611
VIY I+ F D +ND + + K N R+ G GII+ +DYL++LGV
Sbjct: 5 VIYLIMPDRFANGDPSNDSVPGMLEKADRSNPNGRH-----GGDIQGIIDHLDYLQDLGV 59
Query: 612 ETLWLTPFY--SGPNGDI-GYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+WLTP P+ GY ++ + FG+ ED+ ELV H++G
Sbjct: 60 TAIWLTPLLENDMPSYSYHGYAATDFYRIDPRFGSNEDYKELVSKAHARG 109
Score = 31.4 bits (72), Expect = 2.5
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 11/55 (20%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYVWKDGLNGKPGTPPNNWK 774
H GMK++++ VPNH ++H W++K D T KD +N P N +
Sbjct: 106 HARGMKLIMDMVPNHCGSEH-WWMK-----DLPT-----KDWINQTPEYTQTNHR 149
>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 = 51.5 bits (124), Expect = 2e-06
Identities = 32/103 (31%), Positives = 50/103 (48%), Gaps = 23/103 (22%)
Query: 558 KNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWLT 617
++ VIY++LV F GD +G +I+K+DYL++LGV + L
Sbjct: 14 EDLVIYELLVRDF-----TERGDFKG---------------VIDKLDYLQDLGVNAIELM 53
Query: 618 PF--YSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P + G N GY+ ++ + K +GT ED LV H +G
Sbjct: 54 PVQEFPG-NDSWGYNPRHYFALDKAYGTPEDLKRLVDECHQRG 95
>gnl|CDD|225819 COG3280, TreY, Maltooligosyl trehalose synthase [Carbohydrate
transport and metabolism].
Length = 889
Score = 51.7 bits (124), Expect = 2e-06
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 600 IEKIDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+DYL +LG+ L+L+P F + P GYD+ + TE+ + G E + LV + S+G
Sbjct: 22 RALLDYLADLGISHLYLSPIFTARPGSTHGYDVVDPTEINPELGGEEGLERLVAALKSRG 81
>gnl|CDD|236543 PRK09505, malS, alpha-amylase; Reviewed.
Length = 683
Score = 50.1 bits (120), Expect = 5e-06
Identities = 36/129 (27%), Positives = 53/129 (41%), Gaps = 37/129 (28%)
Query: 557 WKNTVIYQILVPSFK--DSNNDG-----------IGDLRGKNVRKRYLELTLGLGIIEKI 603
W N +Y +L F+ D +ND IG G ++R G+ EK+
Sbjct: 187 WHNATVYFVLTDRFENGDPSNDHSYGRHKDGMQEIGTFHGGDLR----------GLTEKL 236
Query: 604 DYLKELGVETLWLTPFYS--------GPNGDI------GYDISNHTEVGKDFGTMEDFDE 649
DYL++LGV LW++ G GD GY + T++ + GT D
Sbjct: 237 DYLQQLGVNALWISSPLEQIHGWVGGGTKGDFPHYAYHGYYTLDWTKLDANMGTEADLRT 296
Query: 650 LVKLVHSKG 658
LV H +G
Sbjct: 297 LVDEAHQRG 305
>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 = 49.4 bits (118), Expect = 5e-06
Identities = 32/105 (30%), Positives = 44/105 (41%), Gaps = 23/105 (21%)
Query: 555 EWWKNTVIYQIL-VPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVET 613
WW +YQI + +F S G+ G+ K+DYL +L V+
Sbjct: 11 NWWNEGPLYQIGDLQAF--SEAGGLK------------------GVEGKLDYLSQLKVKG 50
Query: 614 LWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
L L P + G N TE+ D GT+EDF L+ H KG
Sbjct: 51 LVLGPIHVVQADQPG--ELNLTEIDPDLGTLEDFTSLLTAAHKKG 93
Score = 45.9 bits (109), Expect = 7e-05
Identities = 34/195 (17%), Positives = 68/195 (34%), Gaps = 44/195 (22%)
Query: 797 ILMIITEAYSPSLEKVAKYYGTGDTQGTHLSVNYEIMNKFGATSNAKDLENVVNAYLKSL 856
+L+ +T + S S + +T G L ++ +++ S + +++
Sbjct: 170 VLIGVTSSSSLSEISL-----LLNTSGVDLLLSGALLSASNRPSFGTLVTQLLSTT---- 220
Query: 857 PSGKWSSWMVGGHSITRIATRYSPDLVDAMNMLTLLLPGTAVTFAGDELGMESPILRYED 916
+ +W +G +A+ LV +L LPGT V GDE+G++
Sbjct: 221 -GQRSLAWGIGARQGGHLASLVPAALVRLYQLLLFTLPGTPVFNYGDEIGLQD------- 272
Query: 917 QRDPEGYIFGKDNYLKVCRDGSRVPFQWNDQENAGFSKAKSWLPVHPNYWTLNAQAEKKT 976
G + E + N + A+A+K+
Sbjct: 273 ------------------AQGKSPKMLRPNNE--------PEIAEEVN-ANMTAKAQKED 305
Query: 977 KPSHYSVYKDLTTLR 991
+ S S ++ L+ LR
Sbjct: 306 RGSLRSFFRSLSDLR 320
>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 = 50.1 bits (120), Expect = 6e-06
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 603 IDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+ YLK LGV L+L+P + P GYD+ +H+E+ + G E L + ++G
Sbjct: 22 LPYLKSLGVSHLYLSPILTAVPGSTHGYDVVDHSEINPELGGEEGLRRLSEAARARG 78
>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 = 49.1 bits (118), Expect = 8e-06
Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 597 LGIIEKIDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVH 655
L + + + +LKELG L+L P F S +G YD ++ + + GT EDF LV +H
Sbjct: 28 LKLEDWLPHLKELGCNALYLGPVFESDSHG---YDTRDYYRIDRRLGTNEDFKALVAALH 84
Query: 656 SKG 658
+G
Sbjct: 85 ERG 87
>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 = 48.3 bits (116), Expect = 1e-05
Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 10/109 (9%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWL 616
W++ IYQ+L F ++ + Y T GII K+DY++ +G + +W+
Sbjct: 6 WRSRSIYQVLTDRFARTDGSSTAPC--DTADRTYCGGTW-KGIINKLDYIQGMGFDAIWI 62
Query: 617 TPFYSGPNGDIGYDISNH-------TEVGKDFGTMEDFDELVKLVHSKG 658
+P G+ Y + H + FGT +D L K +H +G
Sbjct: 63 SPIVKNIEGNTAYGEAYHGYWAQDLYSLNPHFGTADDLKALSKALHKRG 111
>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 = 48.3 bits (116), Expect = 2e-05
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 603 IDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+ YL +LG+ L+ +P + P GYD+ +HT + + G E L + + G
Sbjct: 20 VPYLADLGISHLYASPILTARPGSTHGYDVVDHTRINPELGGEEGLRRLAAALRAHG 76
Score = 31.3 bits (72), Expect = 3.1
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 720 HRAGMKILVEFVPNH 734
GM ++++ VPNH
Sbjct: 73 RAHGMGLILDIVPNH 87
>gnl|CDD|237740 PRK14511, PRK14511, maltooligosyl trehalose synthase; Provisional.
Length = 879
Score = 46.9 bits (112), Expect = 5e-05
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 600 IEKIDYLKELGVETLWLTPFYSG-PNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
E + Y +LGV L+L+P + P GYD+ +HT + + G E L + + G
Sbjct: 23 AELVPYFADLGVSHLYLSPILAARPGSTHGYDVVDHTRINPELGGEEGLRRLAAALRAHG 82
Score = 31.1 bits (71), Expect = 3.5
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 720 HRAGMKILVEFVPNH 734
GM ++++ VPNH
Sbjct: 79 RAHGMGLILDIVPNH 93
>gnl|CDD|236759 PRK10785, PRK10785, maltodextrin glucosidase; Provisional.
Length = 598
Score = 46.5 bits (111), Expect = 6e-05
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 598 GIIEKIDYLKELGVETLWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSK 657
GI EK+ YLK+LGV L+L P ++ P+ YD ++ V G L +
Sbjct: 180 GISEKLPYLKKLGVTALYLNPIFTAPSVH-KYDTEDYRHVDPQLGGDAALLRLRHATQQR 238
Query: 658 G 658
G
Sbjct: 239 G 239
Score = 39.2 bits (92), Expect = 0.012
Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 13/62 (20%)
Query: 694 YLNPVYAGSGN-----QNWR------AGNQNRAESME--HRAGMKILVEFVPNHSSNKHD 740
YLNP++ +++R G+ + GM+++++ V NH+ + H
Sbjct: 197 YLNPIFTAPSVHKYDTEDYRHVDPQLGGDAALLRLRHATQQRGMRLVLDGVFNHTGDSHP 256
Query: 741 WF 742
WF
Sbjct: 257 WF 258
>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 = 45.6 bits (109), Expect = 9e-05
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 597 LGIIEKIDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVH 655
L + + I +LK+LG+ ++ P F S +G YD ++ ++ + GT EDF + K +H
Sbjct: 30 LKLEDWIPHLKKLGINAIYFGPVFESDSHG---YDTRDYYKIDRRLGTNEDFKAVCKKLH 86
Query: 656 SKG 658
G
Sbjct: 87 ENG 89
>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
transport and metabolism].
Length = 628
Score = 45.8 bits (109), Expect = 1e-04
Identities = 33/103 (32%), Positives = 43/103 (41%), Gaps = 18/103 (17%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWL 616
W+ VIY++ V SF G Y EL IE + YLKELG+ + L
Sbjct: 142 WEPIVIYELHVGSFTPDRFLG------------YFELA-----IELLPYLKELGITHIEL 184
Query: 617 TPFYSGP-NGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P P + GY + + +GT EDF LV H G
Sbjct: 185 MPVAEHPGDRSWGYQGTGYYAPTSRYGTPEDFKALVDAAHQAG 227
>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 = 41.8 bits (99), Expect = 0.001
Identities = 20/80 (25%), Positives = 31/80 (38%), Gaps = 20/80 (25%)
Query: 599 IIEKIDYLKELGVETLWLTP-------FYSGPN-------GDIG--YDISN----HTEVG 638
++ + +G + L+L P G N GD G + I + H +
Sbjct: 25 AEARLPRIAAMGFDVLYLPPIHPIGRTNRKGKNNALVAGPGDPGSPWAIGSEEGGHDAIH 84
Query: 639 KDFGTMEDFDELVKLVHSKG 658
+ GT+EDFD LV G
Sbjct: 85 PELGTLEDFDRLVAEARELG 104
>gnl|CDD|237737 PRK14507, PRK14507, putative bifunctional
4-alpha-glucanotransferase/malto-oligosyltrehalose
synthase; Provisional.
Length = 1693
Score = 42.0 bits (99), Expect = 0.002
Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 600 IEKIDYLKELGVETLWLTPFYSGPNGDI-GYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+ YL LG+ ++ +P G GYDI +H+++ + G E F+ + + G
Sbjct: 761 EAILPYLAALGISHVYASPILKARPGSTHGYDIVDHSQINPEIGGEEGFERFCAALKAHG 820
>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 = 41.2 bits (97), Expect = 0.003
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 866 VGGHSITRIATRYSPD-LVDAMNMLTLLLPGTAVTFAGDELG 906
VG H +TRIA++ D A +L +PG + GDE G
Sbjct: 262 VGNHDVTRIASQVGDDGAALAAAVL-FTVPGIPSIYYGDEQG 302
Score = 38.5 bits (90), Expect = 0.015
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 603 IDYLKELGVETLWLTP-FYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+DY ELG L L P F S +G YD +H + G EDFD L+ H +G
Sbjct: 37 LDYAVELGCNGLLLGPVFESASHG---YDTLDHYRIDPRLGDDEDFDALIAAAHERG 90
>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 = 40.6 bits (96), Expect = 0.003
Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 9/66 (13%)
Query: 598 GIIEKIDYLKELGVETLWLTP---FYSGPNGDI--GYDISNHTEVGKDFGTMEDFDELVK 652
IE++DYL +LGV + L P F G+ GYD +G +D LV
Sbjct: 56 AAIERLDYLADLGVTAIELMPVAEF----PGERNWGYDGVLPFAPESSYGGPDDLKRLVD 111
Query: 653 LVHSKG 658
H +G
Sbjct: 112 AAHRRG 117
>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 = 39.0 bits (91), Expect = 0.010
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 7/69 (10%)
Query: 597 LGIIEKIDYLKELGVETLWLTPFYSGPNGDIGYD-------ISNHTEVGKDFGTMEDFDE 649
LG++EK+D+LK LGV T+ L P ++ Y + +
Sbjct: 32 LGVLEKVDHLKSLGVNTVLLQPIFAFARVKGPYYPPSFFSAPDPYGAGDSSLSASAELRA 91
Query: 650 LVKLVHSKG 658
+VK +HS G
Sbjct: 92 MVKGLHSNG 100
>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 = 38.9 bits (91), Expect = 0.013
Identities = 25/103 (24%), Positives = 36/103 (34%), Gaps = 21/103 (20%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWL 616
+ VIY++ V +F G IEK+ YL +LG+ + L
Sbjct: 91 LEEAVIYELHVGTFTPE-----GTFDA---------------AIEKLPYLADLGITAIEL 130
Query: 617 TPFYSGP-NGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
P P GYD + +G +D LV H G
Sbjct: 131 MPVAQFPGTRGWGYDGVLPYAPHEAYGGPDDLKALVDAAHGLG 173
Score = 34.2 bits (79), Expect = 0.40
Identities = 32/125 (25%), Positives = 47/125 (37%), Gaps = 17/125 (13%)
Query: 873 RIATRYSPDLVDAMNMLTLLLPGTAVTFAGDELGMESPILRYEDQRDPE---GYIFG-KD 928
R++ SP + LTLL P + F G+E G +P + D DPE G K
Sbjct: 385 RLSQLLSPGSLKLAAALTLLSPYIPLLFMGEEYGATTPFQFFTDHPDPELAEAVREGRKK 444
Query: 929 NYLKVCRDGSRVPFQWNDQENAGFSKAKSWLPVHPNYWTLNAQAEKKTKPSHYSVYKDLT 988
+ + D VP + Q+ F ++K W E + Y+DL
Sbjct: 445 EFARFGWDPEDVP---DPQDPETFLRSKLD-------WAEAESGEHA---RWLAFYRDLL 491
Query: 989 TLRAT 993
LR
Sbjct: 492 ALRRE 496
>gnl|CDD|236518 PRK09441, PRK09441, cytoplasmic alpha-amylase; Reviewed.
Length = 479
Score = 38.7 bits (91), Expect = 0.015
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 11/69 (15%)
Query: 601 EKIDYLKELGVETLWLTPFYSGPNG--DIGYDISNHTEVGK---------DFGTMEDFDE 649
E+ L E G+ +WL P Y G +G D+GY + + ++G+ +GT E+
Sbjct: 26 ERAPELAEAGITAVWLPPAYKGTSGGYDVGYGVYDLFDLGEFDQKGTVRTKYGTKEELLN 85
Query: 650 LVKLVHSKG 658
+ +H G
Sbjct: 86 AIDALHENG 94
>gnl|CDD|200465 cd11326, AmyAc_Glg_debranch, Alpha amylase catalytic domain found
in glycogen debranching enzymes. Debranching enzymes
facilitate the breakdown of glycogen through
glucosyltransferase and glucosidase activity. These
activities are performed by a single enzyme in mammals,
yeast, and some bacteria, but by two distinct enzymes in
Escherichia coli and other bacteria. Debranching enzymes
perform two activities: 4-alpha-D-glucanotransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33).
4-alpha-D-glucanotransferase catalyzes the
endohydrolysis of 1,6-alpha-D-glucoside linkages at
points of branching in chains of 1,4-linked
alpha-D-glucose residues. Amylo-alpha-1,6-glucosidase
catalyzes the endohydrolysis of 1,6-alpha-D-glucoside
linkages at points of branching in chains of 1,4-linked
alpha-D-glucose residues. In Escherichia coli, GlgX is
the debranching enzyme and malQ is the
4-alpha-glucanotransferase. TreX, an archaeal
glycogen-debranching enzyme has dual activities like
mammals and yeast, but is structurally similar to GlgX.
TreX exists in two oligomeric states, a dimer and
tetramer. Isoamylase (EC 3.2.1.68) is one of the
starch-debranching enzymes that catalyzes the hydrolysis
of alpha-1,6-glucosidic linkages specific in
alpha-glucans such as amylopectin or glycogen and their
beta-limit dextrins. 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 = 36.7 bits (86), Expect = 0.057
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 13/64 (20%)
Query: 557 WKNTVIYQILVPSF-KDSNNDGIG-DLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETL 614
W++TVIY++ V F K + + +LRG Y GL KI YLKELGV +
Sbjct: 13 WEDTVIYEMHVRGFTK--LHPDVPEELRGT-----YA----GLAEPAKIPYLKELGVTAV 61
Query: 615 WLTP 618
L P
Sbjct: 62 ELLP 65
>gnl|CDD|224440 COG1523, PulA, Type II secretory pathway, pullulanase PulA and
related glycosidases [Carbohydrate transport and
metabolism].
Length = 697
Score = 36.6 bits (85), Expect = 0.077
Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 13/67 (19%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEK--IDYLKELGVETL 614
W++TVIY+ V F + +LRG YL G+ E IDYLK+LGV +
Sbjct: 169 WEDTVIYEAHVRDFTQLHPGVPEELRGT-----YL------GLAEPVIIDYLKDLGVTAV 217
Query: 615 WLTPFYS 621
L P +
Sbjct: 218 ELLPVFD 224
>gnl|CDD|237739 PRK14510, PRK14510, putative bifunctional
4-alpha-glucanotransferase/glycogen debranching enzyme;
Provisional.
Length = 1221
Score = 36.4 bits (84), Expect = 0.10
Identities = 27/115 (23%), Positives = 43/115 (37%), Gaps = 23/115 (20%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIG-DLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLW 615
W ++ +Y++ V F +D +LRG L E I YLK+LGV +
Sbjct: 156 WDDSPLYEMNVRGFT-LRHDFFPGNLRG--TFA-------KLAAPEAISYLKKLGVSIVE 205
Query: 616 LTPFYS----------GPNGDIGYDISNHTEVGKDFGT--MEDFDELVKLVHSKG 658
L P ++ G + GY+ E+F + +K S G
Sbjct: 206 LNPIFASVDEHHLPQLGLSNYWGYNTVAFLAPDPRLAPGGEEEFAQAIKEAQSAG 260
>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 = 36.1 bits (84), Expect = 0.12
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 598 GIIEKIDYLKELGVETLWL--TPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDELVKLVH 655
G+++ +DYL+ +G++ +++ TPF + P G GY + T + FGT+ D+ + +H
Sbjct: 98 GLVDSLDYLQGMGIKGIYIAGTPFINMPWGADGYSPLDFTLLDHHFGTIADWRAAIDEIH 157
Query: 656 SKG 658
+G
Sbjct: 158 RRG 160
>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 = 35.7 bits (83), Expect = 0.14
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 720 HRAGMKILVEFVPNHSSNKHDWFIKSAQKIDPYTN 754
H AG+K++++FVPNH + ++ S K + +
Sbjct: 117 HAAGLKVIIDFVPNHVARQYH----SDAKPEGVKD 147
Score = 31.1 bits (71), Expect = 3.8
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 344 ILEFWLKRGVDGFGMD 359
IL FW +GVDGF D
Sbjct: 243 ILLFWAAKGVDGFRCD 258
>gnl|CDD|131155 TIGR02100, glgX_debranch, glycogen debranching enzyme GlgX. This
family consists of the GlgX protein from the E. coli
glycogen operon and probable equivalogs from other
prokaryotic species. GlgX is not required for glycogen
biosynthesis, but instead acts as a debranching enzyme
for glycogen catabolism. This model distinguishes GlgX
from pullanases and other related proteins that also
operate on alpha-1,6-glycosidic linkages. In the wide
band between the trusted and noise cutoffs are
functionally similar enzymes, mostly from plants, that
act similarly but usually are termed isoamylase [Energy
metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 688
Score = 35.8 bits (83), Expect = 0.14
Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 9/62 (14%)
Query: 557 WKNTVIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKELGVETLWL 616
W++T+IY+ V F + D +LRG GL IDYLK+LGV + L
Sbjct: 153 WEDTIIYEAHVKGFTQLHPDIPEELRGT---------YAGLAHPAMIDYLKKLGVTAVEL 203
Query: 617 TP 618
P
Sbjct: 204 LP 205
>gnl|CDD|200480 cd11341, AmyAc_Pullulanase_LD-like, Alpha amylase catalytic domain
found in Pullulanase (also called dextrinase;
alpha-dextrin endo-1,6-alpha glucosidase), limit
dextrinase, and related proteins. Pullulanase is an
enzyme with action similar to that of isoamylase; it
cleaves 1,6-alpha-glucosidic linkages in pullulan,
amylopectin, and glycogen, and in alpha-and beta-amylase
limit-dextrins of amylopectin and glycogen. Pullulanases
are very similar to limit dextrinases, although they
differ in their action on glycogen and the rate of
hydrolysis of limit dextrins. 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 = 34.4 bits (80), Expect = 0.32
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 561 VIYQILVPSFKDSNNDGIGDLRGKNVRKRYLELT-----LGLGIIEKIDYLKELGVETLW 615
+IY++ V F N G+ + RGK +L T G+ +DYLKELGV +
Sbjct: 4 IIYELHVRDFSIDPNSGVKNKRGK-----FLGFTEEGTTTPTGVSTGLDYLKELGVTHVQ 58
Query: 616 LTPFYS 621
L P +
Sbjct: 59 LLPVFD 64
>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 = 34.0 bits (79), Expect = 0.39
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 601 EKIDYLKELGVETLWLTPFYSGPNG--DIGYDI 631
E L ELG+ +WL P Y G +G D+GYD+
Sbjct: 24 EDAPELAELGITAVWLPPAYKGASGTEDVGYDV 56
>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 = 34.1 bits (79), Expect = 0.45
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 605 YLKEL--GVETLWLTPFYSGPNGDIGYDISNHTEVGKDFGTMEDFDEL 650
Y K + GV L PF+ + D G+D ++TEV FGT +D + L
Sbjct: 27 YFKGVFGGVHIL---PFFP-SSDDRGFDPIDYTEVDPRFGTWDDIEAL 70
>gnl|CDD|220361 pfam09721, Exosortase_EpsH, Transmembrane exosortase
(Exosortase_EpsH). Members of this family are
designated exosortase, analogous to sortase in cell wall
sorting mediated by LPXTG domains in Gram-positive
bacteria. The phylogenetic distribution of the proteins
in this entry is nearly perfectly correlated with the
distribution of the proteins having the PEP-CTERM anchor
motif, IPR013424. Members of this entry are integral
membrane proteins with eight predicted transmembrane
helices in common. Some members of this family have long
trailing sequences past the region described by this
model. This model does not include the region of the
first predicted transmembrane region. The best
characterized member is EpsH of Methylobacillus sp. 12S,
where it is part of a locus associated with biosynthesis
of the exopolysaccharide methanol-an.
Length = 254
Score = 33.4 bits (77), Expect = 0.48
Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 15/83 (18%)
Query: 494 LSTIASR-TMAAMSL-GFIVMVTPWTIQ------EVVAACTGSKMNWVALLVLLSTASSV 545
L + + A + L G V I EV AC+G + + L+ L+ +
Sbjct: 124 LQLLTADLAAALLQLLGIPVYREGNVITLPGGTVEVAEACSGLRS--LIALLALALLYAY 181
Query: 546 LSSVRCNQKEWWKNTVIYQILVP 568
L ++ + ++ + VP
Sbjct: 182 L-----YRRSLRRRLLLLLLAVP 199
>gnl|CDD|200485 cd11347, AmyAc_1, 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 = 391
Score = 33.4 bits (77), Expect = 0.62
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 720 HRAGMKILVEFVPNHSSNKHDW 741
G+K++++FVPNH + H W
Sbjct: 112 AARGLKLMLDFVPNHVALDHPW 133
>gnl|CDD|226997 COG4650, RtcR, Sigma54-dependent transcription regulator containing
an AAA-type ATPase domain and a DNA-binding domain
[Transcription / Signal transduction mechanisms].
Length = 531
Score = 33.8 bits (77), Expect = 0.63
Identities = 20/89 (22%), Positives = 31/89 (34%), Gaps = 18/89 (20%)
Query: 441 YAGSGNQNWRA-----GNQNRAESMEHRADLLHQVVSHFIYCGIVDDTSALMVMNERRLS 495
YAG G+Q W + + R +LLH S ++ + D +++ E
Sbjct: 16 YAGRGSQRWSKWRPSLCLCQQESLVIDRLELLHDARSRSLFETLKRDIASVSPETEVVSV 75
Query: 496 TIASRTMAAMSLGFIVMVTPWTIQEVVAA 524
I R PW +EV A
Sbjct: 76 EIELR-------------NPWDFEEVYAC 91
>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 = 33.3 bits (76), Expect = 0.73
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 603 IDYLKELGVETLWLTPFYSGP-NGDIGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
I Y+KELG + L P P +G GY ++ + FGT +DF V H G
Sbjct: 168 IPYVKELGFTHIELLPVAEHPFDGSWGYQVTGYYAPTSRFGTPDDFMYFVDACHQAG 224
>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 = 33.3 bits (77), Expect = 0.75
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 725 KILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYV 757
+++ + V NH S+ WF + PY +Y++
Sbjct: 81 RLMFDLVINHVSSSSPWFQQFLAGEPPYKDYFI 113
>gnl|CDD|197891 smart00818, Amelogenin, Amelogenins, cell adhesion proteins, play a
role in the biomineralisation of teeth. They seem to
regulate formation of crystallites during the secretory
stage of tooth enamel development and are thought to
play a major role in the structural organisation and
mineralisation of developing enamel. The extracellular
matrix of the developing enamel comprises two major
classes of protein: the hydrophobic amelogenins and the
acidic enamelins. Circular dichroism studies of porcine
amelogenin have shown that the protein consists of 3
discrete folding units: the N-terminal region appears to
contain beta-strand structures, while the C-terminal
region displays characteristics of a random coil
conformation. Subsequent studies on the bovine protein
have indicated the amelogenin structure to contain a
repetitive beta-turn segment and a "beta-spiral" between
Gln112 and Leu138, which sequester a (Pro, Leu, Gln)
rich region. The beta-spiral offers a probable site for
interactions with Ca2+ ions. Muatations in the human
amelogenin gene (AMGX) cause X-linked hypoplastic
amelogenesis imperfecta, a disease characterised by
defective enamel. A 9bp deletion in exon 2 of AMGX
results in the loss of codons for Ile5, Leu6, Phe7 and
Ala8, and replacement by a new threonine codon,
disrupting the 16-residue (Met1-Ala16) amelogenin signal
peptide.
Length = 165
Score = 31.7 bits (72), Expect = 1.0
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 266 PPHHSMTLPHQYSMSMPPRHSMTLPSPPDYPRVHQPHCAVPNPKVLMVP 314
P + +P Q M +P +HSMT P+ P + QP P+ L P
Sbjct: 62 PAQQPV-VPQQPLMPVPGQHSMT-PTQHHQPNLPQPAQQPFQPQPLQPP 108
>gnl|CDD|215419 PLN02784, PLN02784, alpha-amylase.
Length = 894
Score = 32.7 bits (74), Expect = 1.5
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 11/71 (15%)
Query: 590 YLELTLGLGIIEKIDYLKELGVETLWLTPFYSG--PNGDIGYDISNHTEVGKDFGTMEDF 647
Y+EL EK L LG +WL P P G + D+ N + +GT+++
Sbjct: 520 YMELG------EKAAELSSLGFTVVWLPPPTESVSPEGYMPKDLYN---LNSRYGTIDEL 570
Query: 648 DELVKLVHSKG 658
+LVK H G
Sbjct: 571 KDLVKSFHEVG 581
>gnl|CDD|217298 pfam02948, Amelogenin, Amelogenin. Amelogenins play a role in
biomineralisation. They seem to regulate the formation
of crystallites during the secretory stage of tooth
enamel development. thought to play a major role in the
structural organisation and mineralisation of developing
enamel. They are found in the extracellular matrix.
Mutations in X-chromosomal amelogenin can cause
Amelogenesis imperfecta.
Length = 174
Score = 31.0 bits (70), Expect = 2.2
Identities = 14/59 (23%), Positives = 18/59 (30%), Gaps = 2/59 (3%)
Query: 265 PPPHHSMTLPHQY-SMSMPPRHSMTLPSPPDYPRVHQPHCAVPNPKVLMVPNADIAWNP 322
P H + LP Q M +P H M P P + P P P +
Sbjct: 69 TPHHQLLILPPQQPMMPVPGHHPMV-PMTGQQPHLQPPAQHPLQPTYGQNPQPQQPTHT 126
>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 = 31.3 bits (72), Expect = 3.2
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 725 KILVEFVPNHSSNKHDWFIKSAQKIDPYTNYYV 757
++ + V NH S++ WF DP +Y++
Sbjct: 79 DLMFDLVINHISSQSPWFQDFLAGGDPSKDYFI 111
>gnl|CDD|222449 pfam13908, Shisa, Wnt and FGF inhibitory regulator. Shisa is a
transcription factor-type molecule that physically
interacts with immature forms of the Wnt receptor
Frizzled and the FGF receptor within the endoplasmic
reticulum to inhibit their post-translational maturation
and trafficking to the cell surface.
Length = 177
Score = 30.2 bits (68), Expect = 3.3
Identities = 19/94 (20%), Positives = 26/94 (27%), Gaps = 21/94 (22%)
Query: 219 VCCPSGLPSTSRPDIEGEGPSSEKYWGDILERTVSSNSLQALQRVYPPPHHSMTLPH--- 275
CC L RP +R V + + + P P T P
Sbjct: 97 TCCCCCLEKACRP-----------------QRPVMTRATSTTVQTTPLPQPPSTAPSYPG 139
Query: 276 -QYSMSMPPRHSMTLPSPPDYPRVHQPHCAVPNP 308
QY P +P+PP + P P
Sbjct: 140 PQYQGYHPMPPQPGMPAPPYSLQYPPPGLLQPQG 173
>gnl|CDD|213969 TIGR04356, grasp_GAK, ATP-grasp enzyme, GAK system. Members of
this family are ATP-grasp family enzymes related to a
number of characterized glutamate ligases, including the
ribosomal protein S6 modification enzyme RimK. This
group belongs to a conserved gene neighborhood that also
features an HPr kinase-related protein (see TIGR04355).
We assign this system the initial designation GAK, for
Grasp (this ATP-grasp family enzyme), Amphipathic (for
the member of family TIGR04354, designated Amphi-Trp),
and Kinase, for the HPr-kinase homolog TIGR04355.
Length = 287
Score = 30.8 bits (70), Expect = 3.8
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 871 ITRIATRYSPDLVDAMNMLTLL 892
I +I YSPDL+D + ML L
Sbjct: 59 IKKIGAVYSPDLLDRLEMLRFL 80
>gnl|CDD|215519 PLN02960, PLN02960, alpha-amylase.
Length = 897
Score = 31.0 bits (70), Expect = 4.4
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 627 IGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
+GY ++N V FGT +DF LV H G
Sbjct: 448 VGYKVTNFFAVSSRFGTPDDFKRLVDEAHGLG 479
>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional.
Length = 333
Score = 30.4 bits (69), Expect = 4.7
Identities = 19/99 (19%), Positives = 27/99 (27%), Gaps = 23/99 (23%)
Query: 204 ELRKHPPHSTPHLPHVCCPSGLPSTSRPDIEG-EGPSSEKYWGDILERTVSSNSLQALQR 262
E+R H + P +RP + P S Q Q
Sbjct: 65 EVRVHRVNHAPANAQE------HEAARPSPQHQYQPPYA--------------SAQPRQP 104
Query: 263 VYPPPHHSMTLPHQYSMSMPPRHSMTLPSPPDYPRVHQP 301
V PP + H + P + P P+ QP
Sbjct: 105 VQQPPEAQVPPQHAPRPAQPAPQ--PVQQPAYQPQPEQP 141
>gnl|CDD|221509 pfam12287, Caprin-1_C, Cytoplasmic
activation/proliferation-associated protein-1 C term.
This family of proteins is found in eukaryotes. Proteins
in this family are typically between 343 and 708 amino
acids in length. This family is the C terminal region of
caprin-1. Caprin-1 is a protein involved in regulating
cellular proliferation. In mutated phenotypes, the G1
phase of the cell cycle is greatly lengthened, impairing
normal proliferation. The C terminal region of caprin-1
contains RGG motifs which are characteristic of RNA
binding domains. It is possible that caprin-1 functions
through an RNA binding mechanism.
Length = 319
Score = 30.3 bits (68), Expect = 5.1
Identities = 28/104 (26%), Positives = 34/104 (32%), Gaps = 14/104 (13%)
Query: 209 PPHSTPHLPHVCCPSGLPSTSRP-DIEGEGPSSEKYWGDILERTVSSNSLQALQRVYPPP 267
P HS L PS +P P + P+SE Y T S Q P P
Sbjct: 44 PVHSESRLSQ---PSAVPVQPEPTQVPMVSPTSEGY-------TSSPPLYQPSHTAEPRP 93
Query: 268 HHSMTLPHQYSMSMPPRHSMTLPSPPDYPRVHQPHCAVPNPKVL 311
P Q SMS+ + P+ P QP K L
Sbjct: 94 QTDPIDPIQASMSLNSEQT---PTSSSLPAASQPQVFQTGSKPL 134
>gnl|CDD|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421). This
family represents a conserved region approximately 350
residues long within a number of plant proteins of
unknown function.
Length = 357
Score = 30.3 bits (68), Expect = 5.4
Identities = 19/91 (20%), Positives = 29/91 (31%), Gaps = 5/91 (5%)
Query: 208 HPPHSTPHLPHVCCPSGLPSTSRPDIEGEGPSSEKYWGDILERTVSSNSLQ-ALQR--VY 264
LP P + + + P S +Y + + V S Q Q+ Y
Sbjct: 65 PLQQVNAALPPAPAPQSPQPDQQQ--QSQAPPSHQYPSQLPPQQVQSVPQQPTPQQEPYY 122
Query: 265 PPPHHSMTLPHQYSMSMPPRHSMTLPSPPDY 295
PPP P Q + P+ +P Y
Sbjct: 123 PPPSQPQPPPAQQPQAQQPQPPPQVPQQQQY 153
>gnl|CDD|198319 cd03210, GST_C_Pi, C-terminal, alpha helical domain of Class Pi
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Pi subfamily; GSTs
are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Class Pi GST is a homodimeric
eukaryotic protein. The human GSTP1 is mainly found in
erythrocytes, kidney, placenta and fetal liver. It is
involved in stress responses and in cellular
proliferation pathways as an inhibitor of JNK (c-Jun
N-terminal kinase). Following oxidative stress,
monomeric GSTP1 dissociates from JNK and dimerizes,
losing its ability to bind JNK and causing an increase
in JNK activity, thereby promoting apoptosis. GSTP1 is
expressed in various tumors and is the predominant GST
in a wide range of cancer cells. It has been implicated
in the development of multidrug-resistant tumors.
Length = 126
Score = 29.2 bits (66), Expect = 5.5
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 569 SFKDSNNDGIGDLRGKNVRKRYLELTLGLGIIEKIDYLKEL 609
+ D NDG+ DLR K VR Y G K DY+K+L
Sbjct: 5 ALIDMVNDGVEDLRLKYVRMIYQNYEAG-----KDDYIKDL 40
>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 = 30.3 bits (69), Expect = 6.1
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 601 EKIDYLKELGVETLWLTPFYSGPNGD-IGYDISNHTEVGKDFGTMEDFDELVKLVHSKG 658
K L G +WL P +G +GYD + ++ +G+ + L+ +H+KG
Sbjct: 22 SKAPELAAAGFTAIWLPPPSKSVSGSSMGYDPGDLYDLNSRYGSEAELRSLIAALHAKG 80
>gnl|CDD|237794 PRK14705, PRK14705, glycogen branching enzyme; Provisional.
Length = 1224
Score = 30.4 bits (68), Expect = 7.6
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 595 LGLG----IIEKIDYLKELGVETLWLTPFYSGP-NGDIGYDISNHTEVGKDFGTMEDFDE 649
LGLG E +DY+K LG + P P G GY ++++ FG ++F
Sbjct: 760 LGLGYRELAKELVDYVKWLGFTHVEFMPVAEHPFGGSWGYQVTSYFAPTSRFGHPDEFRF 819
Query: 650 LVKLVHSKG 658
LV +H G
Sbjct: 820 LVDSLHQAG 828
>gnl|CDD|225852 COG3315, COG3315, O-Methyltransferase involved in polyketide
biosynthesis [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 297
Score = 29.6 bits (67), Expect = 8.5
Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 392 HIYTIDQPETYEMLYKWRTLVEKFGNQSADRQPSCAD 428
++ +D PE + +K + L E+ A R+ D
Sbjct: 117 RVFEVDLPEV--IEFKKKLLAERGATPPAHRRLVAVD 151
>gnl|CDD|218146 pfam04554, Extensin_2, Extensin-like region.
Length = 57
Score = 26.7 bits (59), Expect = 9.7
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 265 PPPHHSMTLPHQYSMSMPP--RHSMTLPSPP 293
PPP + P Y PP S SPP
Sbjct: 7 PPPVKQYSPPPPYYYKSPPPPVKSPVYKSPP 37
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.133 0.414
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 53,576,951
Number of extensions: 5185760
Number of successful extensions: 4528
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4419
Number of HSP's successfully gapped: 161
Length of query: 1065
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 958
Effective length of database: 6,191,724
Effective search space: 5931671592
Effective search space used: 5931671592
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 64 (28.6 bits)