RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9005
(99 letters)
>gnl|CDD|215519 PLN02960, PLN02960, alpha-amylase.
Length = 897
Score = 71.0 bits (174), Expect = 6e-16
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 10 RLSPWATYVTEPPVVGHAYEQRIWNPKPQDKHKWTSSKPKKPDNLKIYESHVGICTQEQK 69
R+ WATYV P G + W P P++ +KW +PK P +L+IYE HVGI E K
Sbjct: 353 RVPAWATYV-LPDPDGKQWYAIHWEPPPEEAYKWKFERPKVPKSLRIYECHVGISGSEPK 411
Query: 70 CASYEDFV 77
+S+++F
Sbjct: 412 ISSFKEFT 419
>gnl|CDD|178782 PLN03244, PLN03244, alpha-amylase; Provisional.
Length = 872
Score = 68.1 bits (166), Expect = 7e-15
Identities = 31/69 (44%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 10 RLSPWATYVTEPPVVGHAYEQRIWNPKPQDKHKWTSSKPKKPDNLKIYESHVGICTQEQK 69
R+ WATYV P G W P P+ HKW + KPK P++L+IYE HVGI E K
Sbjct: 358 RIPAWATYV-LPDDDGKQAFAIHWEPPPEAAHKWKNMKPKVPESLRIYECHVGISGSEPK 416
Query: 70 CASYEDFVR 78
+S+E+F
Sbjct: 417 ISSFEEFTE 425
>gnl|CDD|215246 PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme.
Length = 758
Score = 63.5 bits (155), Expect = 2e-13
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 10 RLSPWATYVT-EPPVVGHAYEQRIWNPKPQDKHKWTSSKPKKPDNLKIYESHVGICTQEQ 68
R+ W Y P +G Y W+P ++K+ + +P +P L+IYE+HVG+ ++E
Sbjct: 185 RIPAWIKYAVQAPGEIGAPYNGVYWDPPEEEKYVFKHPRPPRPAALRIYEAHVGMSSEEP 244
Query: 69 KCASYEDF 76
K SY +F
Sbjct: 245 KVNSYREF 252
>gnl|CDD|200460 cd11321, AmyAc_bac_euk_BE, Alpha amylase catalytic domain found
in bacterial and eukaryotic branching enzymes.
Branching enzymes (BEs) catalyze the formation of
alpha-1,6 branch points in either glycogen or starch by
cleavage of the alpha-1,4 glucosidic linkage yielding a
non-reducing end oligosaccharide chain, and subsequent
attachment to the alpha-1,6 position. By increasing the
number of non-reducing ends, glycogen is more reactive
to synthesis and digestion as well as being more
soluble. This group includes bacterial and eukaryotic
proteins. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains:
A, B, C. A is a (beta/alpha) 8-barrel; B is a loop
between the beta 3 strand and alpha 3 helix of A; C is
the C-terminal extension characterized by a Greek key.
The majority of the enzymes have an active site cleft
found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc,
or only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 406
Score = 62.6 bits (153), Expect = 5e-13
Identities = 17/40 (42%), Positives = 29/40 (72%)
Query: 37 PQDKHKWTSSKPKKPDNLKIYESHVGICTQEQKCASYEDF 76
P++ +++ +P KP L+IYE+HVG+ ++E K ASY +F
Sbjct: 1 PEEPYQFKHPRPPKPRALRIYEAHVGMSSEEPKVASYREF 40
>gnl|CDD|227513 COG5186, PAP1, Poly(A) polymerase [RNA processing and
modification].
Length = 552
Score = 33.0 bits (75), Expect = 0.012
Identities = 26/98 (26%), Positives = 35/98 (35%), Gaps = 14/98 (14%)
Query: 4 KIYSILRLSPWATYVTEPPVVGHAYEQRIWNPK--PQDK-HKWTSSKPKKPD---NLKIY 57
K + IL W V P+ + R+WNPK P DK H+ P P I
Sbjct: 258 KFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNIT 317
Query: 58 ESHVGICTQEQKCASYEDFVRVHEERNLAATVTSSWKR 95
S + E FVR H+ + W+R
Sbjct: 318 NSTQHVILME--------FVRAHKILSDIERNALDWRR 347
>gnl|CDD|199884 cd02854, E_set_GBE_euk_N, N-terminal Early set domain associated
with the catalytic domain of eukaryotic glycogen
branching enzyme (also called 1,4 alpha glucan
branching enzyme). This subfamily is composed of
predominantly eukaryotic 1,4 alpha glucan branching
enzymes, also called glycogen branching enzymes or
starch binding enzymes in plants. E or "early" set
domains are associated with the catalytic domain of the
1,4 alpha glucan branching enzymes at the N-terminal
end. These enzymes catalyze the formation of alpha-1,6
branch points in either glycogen or starch by cleavage
of the alpha-1,4 glucosidic linkage, yielding a
non-reducing end oligosaccharide chain, as well as the
subsequent attachment of short glucosyl chains to the
alpha-1,6 position. Starch is composed of two types of
glucan polymer: amylose and amylopectin. Amylose is
mainly composed of linear chains of alpha-1,4 linked
glucose residues and amylopectin consists of shorter
alpha-1,4 linked chains connected by alpha-1,6
linkages. Amylopectin is synthesized from linear chains
by starch branching enzyme. The N-terminal domains of
the branching enzyme proteins may be related to the
immunoglobulin and/or fibronectin type III
superfamilies. These domains are associated with
different types of catalytic domains at either the
N-terminal or C-terminal end and may be involved in
homodimeric/tetrameric/dodecameric interactions.
Members of this family include members of the alpha
amylase family, sialidase, galactose oxidase,
cellulase, cellulose, hyaluronate lyase, chitobiase,
and chitinase, among others.
Length = 95
Score = 29.8 bits (68), Expect = 0.087
Identities = 6/24 (25%), Positives = 10/24 (41%), Gaps = 1/24 (4%)
Query: 10 RLSPWATYVTEPPVVGHAYEQRIW 33
R+ WA V + P ++ W
Sbjct: 73 RIPAWAKRVVQDP-ETKIFDGVFW 95
>gnl|CDD|165129 PHA02764, PHA02764, hypothetical protein; Provisional.
Length = 399
Score = 29.9 bits (67), Expect = 0.16
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 2 TEKIYSILRLSPWATYVTEPPVVG 25
+ K Y+I +S W TYV P++G
Sbjct: 88 SSKFYTIFGISLWLTYVLSQPILG 111
>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
transport and metabolism].
Length = 628
Score = 30.0 bits (68), Expect = 0.18
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 7/54 (12%)
Query: 13 PWATYVTEPPVVGHAYEQRIWNPKPQ--DKHKWTSSKPKKPDN-LKIYESHVGI 63
P+A E + + + +W + + + IYE HVG
Sbjct: 105 PYARR-QEVGPHTASQ---VVDLPDYEWQDERWDRAWRGRFWEPIVIYELHVGS 154
>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 = 27.1 bits (61), Expect = 1.4
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 13 PWATYVTEPPVVGHAYEQRIWNPKPQDKHKWTSSKPKKPD--NLKIYESHVGICTQE 67
P + + E V G + + +P WT + + P L IYE HVG T E
Sbjct: 2 PASRFQPEG-VHGPS---VVVDP---SAFWWTDAGWRGPPLEELVIYELHVGTFTPE 51
>gnl|CDD|217033 pfam02438, Adeno_100, Late 100kD protein. The late 100kD protein
is a non-structural viral protein involved in the
transport of hexon from the cytoplasm to the nucleus.
Length = 583
Score = 26.1 bits (58), Expect = 3.1
Identities = 5/19 (26%), Positives = 11/19 (57%)
Query: 24 VGHAYEQRIWNPKPQDKHK 42
+ A E+ ++NPK + +
Sbjct: 31 LSRALERFLFNPKVPPERQ 49
>gnl|CDD|131396 TIGR02343, chap_CCT_epsi, T-complex protein 1, epsilon subunit.
Members of this family, all eukaryotic, are part of the
group II chaperonin complex called CCT (chaperonin
containing TCP-1) or TRiC. The archaeal equivalent group
II chaperonin is often called the thermosome. Both are
somewhat related to the group I chaperonin of bacterial,
GroEL/GroES. This family consists exclusively of the CCT
epsilon chain (part of a paralogous family) from
animals, plants, fungi, and other eukaryotes.
Length = 532
Score = 25.9 bits (57), Expect = 4.0
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 35 PKPQDKHKWTSSKPKKPDNLKIYE 58
PKP+ KHK S ++ L+ YE
Sbjct: 253 PKPKTKHKLDISSVEEYKKLQKYE 276
>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 = 25.8 bits (57), Expect = 4.5
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 56 IYESHVGICTQE 67
IYE HVG T E
Sbjct: 96 IYELHVGTFTPE 107
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
0.314 0.128 0.406
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,886,650
Number of extensions: 365162
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 18
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.2 bits)