RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1878
(98 letters)
>gnl|CDD|177874 PLN02229, PLN02229, alpha-galactosidase.
Length = 427
Score = 52.2 bits (125), Expect = 2e-09
Identities = 23/46 (50%), Positives = 29/46 (63%), Gaps = 4/46 (8%)
Query: 45 NLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMVK 90
N WR DDI D+W S+ +I D NN+ AGPG WNDPDM++
Sbjct: 231 NSWRTTDDINDTWASMTTIADL--NNK--WAAYAGPGGWNDPDMLE 272
>gnl|CDD|166449 PLN02808, PLN02808, alpha-galactosidase.
Length = 386
Score = 48.0 bits (114), Expect = 6e-08
Identities = 21/46 (45%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 45 NLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMVK 90
N WR DIQD+W S+ S D D A PG WNDPDM++
Sbjct: 201 NSWRTTGDIQDNWDSMTSRAD----QNDRWASYARPGGWNDPDMLE 242
>gnl|CDD|178295 PLN02692, PLN02692, alpha-galactosidase.
Length = 412
Score = 44.6 bits (105), Expect = 1e-06
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 45 NLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMVK 90
N WR +DI D+W S+ S D + A PG WNDPDM++
Sbjct: 225 NSWRTTNDISDTWDSMISRADM----NEVYAELARPGGWNDPDMLE 266
>gnl|CDD|221436 pfam12138, Spherulin4, Spherulation-specific family 4. This
protein is found in bacteria, archaea and eukaryotes.
Proteins in this family are typically between 250 and
398 amino acids in length. There is a conserved NPG
sequence motif and there are two completely conserved G
residues that may be functionally important. Starvation
will often induce spherulation - the production of
spores - and this process may involve DNA-methylation.
Changes in the methylation of spherulin4 are associated
with the formation of spherules, but these changes are
probably transient. Methylation of the gene accompanies
its transcriptional activation, and spherulin4 mRNA is
only detectable in late spherulating cultures and
mature spherules. It is a spherulation-specific
protein.
Length = 243
Score = 31.2 bits (71), Expect = 0.052
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 55 DSWQSLESIIDYYGNNQDTIV--PNAGPGHWNDPD 87
W L I Y + T++ PN GPG PD
Sbjct: 16 TEWDPLYDAIAAYPDVPFTVIINPNNGPGATGSPD 50
>gnl|CDD|166018 PLN02377, PLN02377, 3-ketoacyl-CoA synthase.
Length = 502
Score = 30.8 bits (69), Expect = 0.087
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 9/62 (14%)
Query: 22 VDLIGYTCQAYLIPN-----FTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVP 76
V L+ Y+C Y P+ F +EH L +FDD +Q I++ G +DT VP
Sbjct: 98 VYLVDYSC--YRAPDHLKAPFARFMEHSRLTGDFDDSSLEFQ--RKILERSGLGEDTYVP 153
Query: 77 NA 78
A
Sbjct: 154 EA 155
>gnl|CDD|225942 COG3408, GDB1, Glycogen debranching enzyme [Carbohydrate transport
and metabolism].
Length = 641
Score = 28.2 bits (63), Expect = 0.63
Identities = 7/55 (12%), Positives = 19/55 (34%), Gaps = 8/55 (14%)
Query: 39 SIIEHCNLWRNFDDIQDSWQSLESIIDYY--------GNNQDTIVPNAGPGHWND 85
+ + + + I++ W S+ + +D+ D ++ W D
Sbjct: 347 LLGAYLKYTGDTEFIRELWPSVGAALDWILKGFDFGFDTYGDGLLEGGSNQTWMD 401
>gnl|CDD|147555 pfam05428, CRF-BP, Corticotropin-releasing factor binding protein
(CRF-BP). This family consists of several eukaryotic
corticotropin-releasing factor binding proteins (CRF-BP
or CRH-BP). Corticotropin-releasing hormone (CRH) plays
multiple roles in vertebrate species. In mammals, it is
the major hypothalamic releasing factor for pituitary
adrenocorticotropin secretion, and is a
neurotransmitter or neuromodulator at other sites in
the central nervous system. In non-mammalian
vertebrates, CRH not only acts as a neurotransmitter
and hypophysiotropin, it also acts as a potent
thyrotropin-releasing factor, allowing CRH to regulate
both the adrenal and thyroid axes, especially in
development. CRH-BP is thought to play an inhibitory
role in which it binds CRH and other CRH-like ligands
and prevents the activation of CRH receptors. There is
however evidence that CRH-BP may also exhibit diverse
extra and intracellular roles in a cell specific
fashion and at specific times in development.
Length = 311
Score = 26.7 bits (59), Expect = 1.9
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 16 GQLTYQVDLIGYTCQAYLIPNFTSIIE 42
GQ T+Q D C ++I +IE
Sbjct: 68 GQFTFQADRPQLVCALFVIGEPDEVIE 94
>gnl|CDD|227527 COG5200, LUC7, U1 snRNP component, mediates U1 snRNP association
with cap-binding complex [RNA processing and
modification].
Length = 258
Score = 26.1 bits (57), Expect = 2.8
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 68 GNNQDTIVPNAGPGHWNDPDMVKSYL 93
G + T P P H+ D + S L
Sbjct: 14 GPERSTFDPC-RPTHFTDKKVCISML 38
>gnl|CDD|181644 PRK09088, PRK09088, acyl-CoA synthetase; Validated.
Length = 488
Score = 26.3 bits (58), Expect = 3.2
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 76 PNAGPGHWNDPDMVKSYLDYD 96
PN PG+W P D
Sbjct: 340 PNLSPGYWRRPQATARAFTGD 360
>gnl|CDD|129775 TIGR00692, tdh, L-threonine 3-dehydrogenase. This protein is a
tetrameric, zinc-binding, NAD-dependent enzyme of
threonine catabolism. Closely related proteins include
sorbitol dehydrogenase, xylitol dehydrogenase, and
benzyl alcohol dehydrogenase. Eukaryotic examples of
this enzyme have been demonstrated experimentally but do
not appear in database search results.E. coli His-90
modulates substrate specificity and is believed part of
the active site [Energy metabolism, Amino acids and
amines].
Length = 340
Score = 25.6 bits (56), Expect = 4.4
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 45 NLWRNFDDIQDSWQSLESIIDYYGNNQDTIV 75
N+W+N I +I + GN T++
Sbjct: 129 NIWKNPKSIPP---EYATIQEPLGNAVHTVL 156
>gnl|CDD|233227 TIGR00996, Mtu_fam_mce, virulence factor Mce family protein.
Members of this paralogous family are found as six
tandem homologous proteins in the same orientation per
cassette, in four separate cassettes in Mycobacterium
tuberculosis. The six members of each cassette represent
six subfamilies. One subfamily includes the protein mce
(mycobacterial cell entry), a virulence protein required
for invasion of non-phagocytic cells [Cellular
processes, Pathogenesis].
Length = 291
Score = 25.3 bits (56), Expect = 5.7
Identities = 5/28 (17%), Positives = 10/28 (35%)
Query: 48 RNFDDIQDSWQSLESIIDYYGNNQDTIV 75
DI +L ++D + D +
Sbjct: 185 ARDGDIGALIDNLNRVLDVLADRSDQLD 212
>gnl|CDD|237991 cd00024, CHROMO, Chromatin organization modifier (chromo) domain
is a conserved region of around 50 amino acids found in
a variety of chromosomal proteins, which appear to play
a role in the functional organization of the eukaryotic
nucleus. Experimental evidence implicates the chromo
domain in the binding activity of these proteins to
methylated histone tails and maybe RNA. May occur as
single instance, in a tandem arrangement or followd by
a related "chromo shadow" domain.
Length = 55
Score = 23.8 bits (52), Expect = 8.0
Identities = 5/21 (23%), Positives = 12/21 (57%)
Query: 47 WRNFDDIQDSWQSLESIIDYY 67
W+ + +D+W+ E++ D
Sbjct: 26 WKGYSYSEDTWEPEENLEDCK 46
>gnl|CDD|130583 TIGR01520, FruBisAldo_II_A, fructose-bisphosphate aldolase, class
II, yeast/E. coli subtype. Members of this family are
class II examples of the glycolytic enzyme
fructose-bisphosphate aldolase (FBA). This model
represents one of two deeply split, architecturally
distinct clades of the family that includes class II
fructose-bisphosphate aldolases, tagatose-bisphosphate
aldolases, and related uncharacterized proteins. This
family is well-conserved and includes characterized FBA
from Saccharomyces cerevisiae, Escherichia coli, and
Corynebacterium glutamicum. Proteins outside the scope
of this model may also be designated as class II
fructose-bisphosphate aldolases, but are well separated
in an alignment-based phylogenetic tree [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 357
Score = 24.8 bits (54), Expect = 8.8
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 49 NFD-DIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDM-VKSYLD 94
N D D Q W E I++YY NN+D + G PD K + D
Sbjct: 285 NIDTDTQ--WAYWEGILNYYKNNEDYLQGQLGNP--KGPDKPNKKFYD 328
>gnl|CDD|236697 PRK10459, PRK10459, colanic acid exporter; Provisional.
Length = 492
Score = 25.0 bits (55), Expect = 9.3
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 57 WQSLESIIDYYGNNQDTIV 75
WQ+ E II+Y N DTI+
Sbjct: 215 WQTAERIINYLNTNIDTIL 233
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
0.322 0.140 0.460
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,119,426
Number of extensions: 412164
Number of successful extensions: 397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 392
Number of HSP's successfully gapped: 22
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.1 bits)