RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9008
(89 letters)
>gnl|CDD|215246 PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme.
Length = 758
Score = 37.7 bits (88), Expect = 2e-04
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 6 GIEKFTTSYNKYGIHVQADNSVRCFEWAPSAQQLYLT---VYWNEVSKNGERQE 56
G+E F+ Y K+G + +++ + EWAP A+ L WN + + E
Sbjct: 96 GLEAFSRGYEKFGFN-RSEGGITYREWAPGAKAAALIGDFNNWNPNAHWMTKNE 148
>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 = 32.9 bits (76), Expect = 0.005
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 24 DNSVRCFEWAPSAQQLYLT 42
D EWAP+A+ +YL
Sbjct: 1 DGGWVYREWAPNAKAVYLI 19
>gnl|CDD|237052 PRK12313, PRK12313, glycogen branching enzyme; Provisional.
Length = 633
Score = 30.3 bits (69), Expect = 0.098
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 9 KFTTSYNKYGIHVQADNSVR--CFE-WAPSAQQLYLTVYWNEVSKNGER 54
+ Y G H++ + + F WAP+AQ + + +N+ N
Sbjct: 19 EHFRLYEYLGAHLEEVDGEKGTYFRVWAPNAQAVSVVGDFNDWRGNAHP 67
>gnl|CDD|217288 pfam02922, CBM_48, Carbohydrate-binding module 48 (Isoamylase
N-terminal domain). This domain is found in a range of
enzymes that act on branched substrates - isoamylase,
pullulanase and branching enzyme. This family also
contains the beta subunit of 5' AMP activated kinase.
Length = 83
Score = 28.9 bits (65), Expect = 0.12
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 16 KYGIHVQA-DNSVRCFEWAPSAQQLYLTVYWNE 47
G H V WAP+A+++ L + +N
Sbjct: 1 PLGAHPDEGVGGVNFRVWAPNAERVSLVLDFNN 33
>gnl|CDD|181036 PRK07568, PRK07568, aspartate aminotransferase; Provisional.
Length = 397
Score = 29.4 bits (67), Expect = 0.16
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 4 PSGIEKFTTSYNKYGIHVQADN 25
P E F Y K+GI V+ D
Sbjct: 69 PELREAFAKYYKKWGIDVEPDE 90
>gnl|CDD|233729 TIGR02103, pullul_strch, alpha-1,6-glucosidases, pullulanase-type.
Members of this protein family include secreted (or
membrane-anchored) pullulanases of Gram-negative
bacteria and pullulanase-type starch debranching enzymes
of plants. Both enzymes hydrolyze alpha-1,6 glycosidic
linkages. Pullulan is an unusual, industrially important
polysaccharide in which short alpha-1,4 chains
(maltotriose) are connected in alpha-1,6 linkages.
Enzymes that cleave alpha-1,6 linkages in pullulan and
release maltotriose are called pullulanases although
pullulan itself may not be the natural substrate. This
family is closely homologous to, but architecturally
different from, the Gram-positive pullulanases of
Gram-positive bacteria (TIGR02102) [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 898
Score = 27.5 bits (61), Expect = 0.84
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 15 NKYGIHVQADNSVRCFEWAPSAQQLYLTVYWNE 47
G + D+ V WAP+AQQ+ L +Y
Sbjct: 126 LSLGATLT-DSGVTFRLWAPTAQQVKLHIYSAS 157
>gnl|CDD|219309 pfam07147, PDCD9, Mitochondrial 28S ribosomal protein S30 (PDCD9).
This family consists of several eukaryotic mitochondrial
28S ribosomal protein S30 (or programmed cell death
protein 9 PDCD9) sequences. The exact function of this
family is unknown although it is known to be a component
of the mitochondrial ribosome and a component in
cellular apoptotic signaling pathways.
Length = 423
Score = 27.1 bits (60), Expect = 1.1
Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 3/55 (5%)
Query: 15 NKYGIHVQAD--NSVRCFEWAPSAQQLYLTVYWNEV-SKNGERQELESTFLCNAK 66
N +HV AD N + W + LY V +V N + FL N
Sbjct: 369 NTLALHVDADGDNPRKNLCWGTDSMPLYERVEDGKVKGFNDDVLRQLVNFLLNKP 423
>gnl|CDD|199885 cd02855, E_set_GBE_prok_N, N-terminal Early set domain associated
with the catalytic domain of prokaryotic glycogen
branching enzyme. This subfamily is composed of
predominantly prokaryotic 1,4 alpha glucan branching
enzymes, also called glycogen branching enzymes. E or
"early" set domains are associated with the catalytic
domain of glycogen branching enzymes at the N-terminal
end. Glycogen branching enzyme catalyzes 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. By increasing the
number of non-reducing ends, glycogen is more reactive
to synthesis and digestion as well as being more
soluble. The N-terminal domain of the 1,4 alpha glucan
branching enzyme 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 = 105
Score = 25.1 bits (56), Expect = 3.2
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 13 SYNKYGIHVQADNSVRCFE---WAPSAQQLYLT 42
+Y K G H + V WAP+A+++ +
Sbjct: 4 AYEKLGAHPVEVDGVGGVRFRVWAPNAKRVSVV 36
>gnl|CDD|227263 COG4926, PblB, Phage-related protein [Function unknown].
Length = 698
Score = 25.2 bits (55), Expect = 5.2
Identities = 11/68 (16%), Positives = 21/68 (30%), Gaps = 3/68 (4%)
Query: 25 NSVRCFEWAPSAQQLY---LTVYWNEVSKNGERQELESTFLCNAKCFLKDNHIGNGKGNK 81
V F+ + Y L + ++ + +E L + K L NG+
Sbjct: 302 EQVYLFDTNTVFHERYNIDLYMDVSQTLDDQLFNRIEEVELGDIKPTLYPKFGTNGQITT 361
Query: 82 MLVEEVGN 89
+ E
Sbjct: 362 DVEEVTDQ 369
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 0.130 0.400
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,174,752
Number of extensions: 304188
Number of successful extensions: 124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 11
Length of query: 89
Length of database: 10,937,602
Length adjustment: 57
Effective length of query: 32
Effective length of database: 8,409,424
Effective search space: 269101568
Effective search space used: 269101568
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: 42 (22.0 bits)
S2: 53 (24.2 bits)