RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9010
(131 letters)
>gnl|CDD|215246 PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme.
Length = 758
Score = 73.6 bits (181), Expect = 2e-16
Identities = 26/55 (47%), Positives = 36/55 (65%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRT 74
RVG ++ GKYK+VLDSD FGGF R+D + T ++NR +S +Y P+RT
Sbjct: 670 RVGCDKPGKYKIVLDSDAWEFGGFGRVDHDADHFTPEGNFDNRPHSFMVYAPSRT 724
>gnl|CDD|235445 PRK05402, PRK05402, glycogen branching enzyme; Provisional.
Length = 726
Score = 54.0 bits (131), Expect = 1e-09
Identities = 22/52 (42%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLP 71
R+GV QAG+++ VL++D H+GG N + G V PW+ R +S+ L LP
Sbjct: 664 RLGVPQAGRWREVLNTDAEHYGGSNVGNGGGV-HAEEVPWHGRPHSLSLTLP 714
>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
transport and metabolism].
Length = 628
Score = 45.4 bits (108), Expect = 1e-06
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLP 71
RVGV AG+++ VL++D + +GG + G W+ R S+ L LP
Sbjct: 568 RVGVPVAGRWREVLNTDLAEYGGSGAGNLGLPVSGEDILWHGREWSLSLTLP 619
>gnl|CDD|237052 PRK12313, PRK12313, glycogen branching enzyme; Provisional.
Length = 633
Score = 45.3 bits (108), Expect = 1e-06
Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLP 71
R+GV AG Y+ +L++D FGG + + GTV + PW+ R S+ L LP
Sbjct: 568 RIGVPVAGIYEEILNTDSEEFGGSGKGNNGTV-KAQEGPWHGRPQSLTLTLP 618
>gnl|CDD|217237 pfam02806, Alpha-amylase_C, Alpha amylase, C-terminal all-beta
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 = 92
Score = 43.1 bits (102), Expect = 2e-06
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRT 74
R G+ AG YK VL+SD +GG PW+ R + L LP +
Sbjct: 40 RTGLPVAGTYKDVLNSDAELYGGSGG--------CVTVPWDGR---LTLTLPPLS 83
>gnl|CDD|178782 PLN03244, PLN03244, alpha-amylase; Provisional.
Length = 872
Score = 40.8 bits (95), Expect = 7e-05
Identities = 21/66 (31%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 21 VGVEQAGKYKVVLDSDCSHFGGFNRLDPGT-VYETYPEPWNNRRNSIKLYLPTRTGNENK 79
VGVE+AG+Y+++L+SD + +GG ++ + + + + RN ++++LP+RT K
Sbjct: 806 VGVEEAGEYQIILNSDETKYGGQGIIEEDHYLQRSINKRIDGLRNCLEVFLPSRTAQVYK 865
Query: 80 LQSMKR 85
L + R
Sbjct: 866 LSRILR 871
>gnl|CDD|237795 PRK14706, PRK14706, glycogen branching enzyme; Provisional.
Length = 639
Score = 40.4 bits (94), Expect = 9e-05
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLP 71
R+GV Q G+Y+V+L +D +GGF P + E W+ + +S+ L LP
Sbjct: 563 RIGVPQGGEYRVLLSTDDGEYGGFGTQQPDLMASQ--EGWHGQPHSLSLNLP 612
>gnl|CDD|215519 PLN02960, PLN02960, alpha-amylase.
Length = 897
Score = 40.2 bits (94), Expect = 1e-04
Identities = 22/61 (36%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 21 VGVEQAGKYKVVLDSDCSHFGGFNRLDPGT-VYETYPEPWNNRRNSIKLYLPTRTGNENK 79
VGVE+AG+Y+++L++D +GG RL + T + + RN ++L LP+R+ K
Sbjct: 831 VGVEEAGEYELILNTDEVKYGGQGRLTEDQYLQRTKSKRIDGLRNCLELTLPSRSAQVYK 890
Query: 80 L 80
L
Sbjct: 891 L 891
>gnl|CDD|139075 PRK12568, PRK12568, glycogen branching enzyme; Provisional.
Length = 730
Score = 39.9 bits (93), Expect = 1e-04
Identities = 19/52 (36%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLP 71
RVGV +AG ++ +L++D +H+GG N + G + T P + S++L LP
Sbjct: 669 RVGVPRAGGWREILNTDSAHYGGSNLGNSGRLA-TEPTGMHGHAQSLRLTLP 719
>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 = 39.0 bits (91), Expect = 3e-04
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 20 RVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPW--NNRRNSIKLYLP 71
RVGV Q G+Y+ VL+SD +GG + + G + E + R S+ + LP
Sbjct: 560 RVGVPQPGQYREVLNSDSETYGGSGQGNKGPL---SAEEGALHGRPCSLTMTLP 610
>gnl|CDD|237794 PRK14705, PRK14705, glycogen branching enzyme; Provisional.
Length = 1224
Score = 31.1 bits (70), Expect = 0.17
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 21 VGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYP 56
+GV AG + VL++D +GG L+PG++ T
Sbjct: 1164 LGVPAAGAWTEVLNTDHETYGGSGVLNPGSLKATTE 1199
>gnl|CDD|234548 TIGR04331, o_ant_LIC12162, putative transferase, LIC12162 family.
This protein family shows C-terminal sequence similarity
to various surface carbohydrate biosynthesis enzymes:
spore coat polysaccharide biosynthesis protein SpsB,
UDP-N-acetyl-D-glucosamine 2-epimerase, lipid A
disaccharide synthetase LpxB, etc. It may occur in
O-antigen biosythesis regions.
Length = 585
Score = 29.7 bits (67), Expect = 0.37
Identities = 25/104 (24%), Positives = 36/104 (34%), Gaps = 26/104 (25%)
Query: 3 HNVKERQYLHQHSILFPRVGVEQAGKYKVVLDS------------DCSHFGGFNRLDPGT 50
K R+ + ILF VG +Y L S F F+ L P T
Sbjct: 383 KGKKIRRKDNNGEILF--VGTA-MPRYSYRLASGPTGDQMLAYLKWQIDF--FSALSPET 437
Query: 51 ----VYETYPE--PWNNRRNSIKLYLPT---RTGNENKLQSMKR 85
+Y YP WN + ++ + P GN + + M R
Sbjct: 438 RSNLIYRPYPSDSGWNQTQRWLEDFFPRLRLDDGNRSFEELMAR 481
>gnl|CDD|129778 TIGR00695, uxuA, mannonate dehydratase. This Fe2+-requiring enzyme
plays a role in D-glucuronate catabolism in Escherichia
coli. Mannonate dehydratase converts D-mannonate to
2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is
found in a glucuronate utilization operon in Bacillus
stearothermophilus T-6 [Energy metabolism, Sugars].
Length = 394
Score = 29.2 bits (65), Expect = 0.58
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 65 SIKLYLPTRTGNENKLQSMKRYIQTESNMNGFGIQTL 101
S+ ++ +TG N + ++ Y QT N+ GI+T+
Sbjct: 64 SVPVHEAIKTGTGNYGRWIENYKQTLRNLAQCGIKTV 100
>gnl|CDD|227518 COG5191, COG5191, Uncharacterized conserved protein, contains HAT
(Half-A-TPR) repeat [General function prediction only].
Length = 435
Score = 26.8 bits (59), Expect = 3.6
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 7/39 (17%)
Query: 63 RNSIKLYLPTRTGNENKLQSMK-------RYIQTESNMN 94
+ ++ + TR E +LQ + RYI+ E N+
Sbjct: 27 PDELRRIVKTRRKFELRLQRREKKLNDFMRYIKYECNLE 65
>gnl|CDD|151212 pfam10726, DUF2518, Protein of function (DUF2518). This family
is conserved in Cyanobacteria. Several members are
annotated as the protein Ycf51. The function is not
known.
Length = 145
Score = 26.5 bits (59), Expect = 3.8
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 17 LFPRVGVEQAGKYKVVLD 34
PRV VE A KY VV D
Sbjct: 60 YTPRVVVEGAVKYPVVYD 77
>gnl|CDD|226240 COG3717, KduI, 5-keto 4-deoxyuronate isomerase [Carbohydrate
transport and metabolism].
Length = 278
Score = 26.2 bits (58), Expect = 6.4
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 42 GFNRLDPGTVYETYPEPWNNRRNSIKLYL 70
G L PG+V+ T P ++RR + LY
Sbjct: 180 GLTMLAPGSVWNTMPCHVHDRRMEVYLYF 208
>gnl|CDD|100056 cd04651, LbH_G1P_AT_C, Glucose-1-phosphate adenylyltransferase,
C-terminal Left-handed parallel beta helix (LbH)
domain: Glucose-1-phosphate adenylyltransferase is also
known as ADP-glucose synthase or ADP-glucose
pyrophosphorylase. It catalyzes the first committed and
rate-limiting step in starch biosynthesis in plants and
glycogen biosynthesis in bacteria. It is the enzymatic
site for regulation of storage polysaccharide
accumulation in plants and bacteria. The enzyme is a
homotetramer, with each subunit containing an
N-terminal catalytic domain that resembles a
dinucleotide-binding Rossmann fold and a C-terminal LbH
fold domain with at 5 turns, each containing three
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). The LbH domain is involved
in cooperative allosteric regulation and
oligomerization.
Length = 104
Score = 25.1 bits (56), Expect = 8.8
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 3/22 (13%)
Query: 14 HSILFPRVGVEQAGKYKVVLDS 35
+S+LF V V G VV DS
Sbjct: 28 NSVLFRGVRV---GSGSVVEDS 46
>gnl|CDD|148445 pfam06838, Alum_res, Aluminium resistance protein. This family
represents the aluminium resistance protein, which
confers resistance to aluminium in bacteria. Structural
characterisation has shown proteins in this family bind
a pyridoxal-5'-phosphate cofactor, and that they belongs
to the PLP dependent aminotransferase superfamily.
Crystal packing analysis suggests that in solution, a
tetramer may be the stable oligomeric form. This is in
contrast to most other aminotransferases which form
dimers (information from TOPSAN).
Length = 405
Score = 25.7 bits (57), Expect = 9.8
Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 52 YETYPEPWNNRRNSIKLYLPTRTGNENKLQSMKRYIQTESNMNGFGIQTLPTQSPLY 108
+ P+ R + I+ + G++ KL + + IQ S ++ + P P Y
Sbjct: 299 FPVLPKYNEKRTDLIQ---AVKFGDKEKLIAFCQAIQAASPIDSH-VDPEPADMPGY 351
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
0.317 0.135 0.408
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,505,577
Number of extensions: 536462
Number of successful extensions: 396
Number of sequences better than 10.0: 1
Number of HSP's gapped: 392
Number of HSP's successfully gapped: 21
Length of query: 131
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 45
Effective length of database: 7,123,158
Effective search space: 320542110
Effective search space used: 320542110
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 (21.6 bits)
S2: 53 (24.2 bits)