RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16648
(56 letters)
>gnl|CDD|217421 pfam03200, Glyco_hydro_63, Mannosyl oligosaccharide glucosidase.
This is a family of eukaryotic enzymes belonging to
glycosyl hydrolase family 63. They catalyze the
specific cleavage of the non-reducing terminal glucose
residue from Glc(3)Man(9)GlcNAc(2). Mannosyl
oligosaccharide glucosidase EC:3.2.1.106 is the first
enzyme in the N-linked oligosaccharide processing
pathway.
Length = 775
Score = 69.3 bits (170), Expect = 4e-16
Identities = 24/53 (45%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 1 MVIKSGLAVRDRYWGSYRPGTYFGMKTREPYSPVVGLMWFFPNKLINGEGFIR 53
SG + YWG+YRP YFGM+TR P S V GLMW+ + +G IR
Sbjct: 37 PSQFSGASNPSLYWGTYRPHLYFGMRTRSPLSLVTGLMWYNQD-SYDGTPSIR 88
>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 = 28.5 bits (64), Expect = 0.10
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 18 RPGTYFGMKTREPYSPVVGLMWFFPNKLI 46
+PG +G + PY P G F PNKL+
Sbjct: 62 QPGQLYGYRVHGPYDPENGH-RFNPNKLL 89
>gnl|CDD|233604 TIGR01863, cas_Csd1, CRISPR-associated protein Cas8c/Csd1, subtype
I-C/DVULG. CRISPR loci appear to be mobile elements
with a wide host range. This model represents a protein
that tends to be found near CRISPR repeats of the DVULG
subtype of CRISPR/Cas locus. We designate this family
Csd1 (CRISPR/Cas Subtype DVULG protein 1). The species
range for this subtype, so far, is exclusively bacterial
and mesophilic, although CRISPR loci in general are
particularly common among archaea and thermophilic
bacteria. In a few species (Xanthomonas axonopodis pv.
citri str. 306 and Streptococcus mutans UA159), homology
to this protein family is split across two tandem genes;
the trusted cutoff to this family is set low enough to
capture at least the longer of the two [Mobile and
extrachromosomal element functions, Other].
Length = 584
Score = 27.4 bits (61), Expect = 0.29
Identities = 7/19 (36%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 9 VRDRYWGSY--RPGTYFGM 25
+RDRY+G+ P F
Sbjct: 497 IRDRYYGAASSTPAAVFPT 515
>gnl|CDD|187773 cd09642, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Large proteins, some contain Zn-finger domain; signature
gene for I-C subtype; also known as Csd1 family.
Length = 574
Score = 27.0 bits (60), Expect = 0.47
Identities = 6/19 (31%), Positives = 9/19 (47%), Gaps = 2/19 (10%)
Query: 9 VRDRYWGSY--RPGTYFGM 25
+ DRY+G+ P F
Sbjct: 490 IADRYYGAASSTPAAVFPT 508
>gnl|CDD|224399 COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport
and metabolism].
Length = 312
Score = 25.7 bits (57), Expect = 0.97
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 8/48 (16%)
Query: 8 AVRDRYWGSYRPGTYFGMKTREPYSPVVGLMWFF-----PNKLINGEG 50
+++ WG FG P P +G +W P+ + NG G
Sbjct: 9 VLQEYIWGGTALADLFGYD--PPSEP-IGELWAGAHPNGPSTVANGPG 53
>gnl|CDD|234013 TIGR02785, addA_Gpos, helicase-exonuclease AddAB, AddA subunit,
Firmicutes type. AddAB, also called RexAB, substitutes
for RecBCD in several bacterial lineages. These DNA
recombination proteins act before synapse and are
particularly important for DNA repair of double-stranded
breaks by homologous recombination. The term AddAB is
used broadly, with AddA homologous between the
Firmicutes (as modeled here) and the
alphaproteobacteria, while the partner AddB proteins
show no strong homology across the two groups of species
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 1230
Score = 25.8 bits (57), Expect = 1.2
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 2 VIKSGLAVRDRYWGSYRPGTY 22
+IK G V D+ G+YRP TY
Sbjct: 556 LIKEGFKVYDKKTGTYRPVTY 576
>gnl|CDD|227508 COG5181, HSH155, U2 snRNP spliceosome subunit [RNA processing and
modification].
Length = 975
Score = 24.9 bits (54), Expect = 2.3
Identities = 10/27 (37%), Positives = 10/27 (37%)
Query: 9 VRDRYWGSYRPGTYFGMKTREPYSPVV 35
VR RYW Y F P PV
Sbjct: 934 VRKRYWTVYNIMYVFDSDAMVPCYPVE 960
>gnl|CDD|220356 pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1). CRISPR
loci appear to be mobile elements with a wide host
range. This entry represents proteins that tend to be
found near CRISPR repeats. The species range, so far, is
exclusively bacterial and mesophilic, although CRISPR
loci are particularly common among the archaea and
thermophilic bacteria. Clusters of short DNA repeats
with nonhomologous spacers, which are found at regular
intervals in the genomes of phylogenetically distinct
prokaryotic species, comprise a family with recognisable
features. This family is known as CRISPR (short for
Clustered, Regularly Interspaced Short Palindromic
Repeats). A number of protein families appear only in
association with these repeats and are designated Cas
(CRISPR-Associated) proteins.
Length = 572
Score = 24.5 bits (54), Expect = 2.8
Identities = 6/18 (33%), Positives = 9/18 (50%), Gaps = 2/18 (11%)
Query: 10 RDRYWGSY--RPGTYFGM 25
DRY+G+ P + F
Sbjct: 491 ADRYYGAASATPASVFPT 508
>gnl|CDD|187887 cd09757, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Zn-finger domain containing protein, distant homologs of
Cas8 proteins; signature gene for I-C subtype; also
known as Csd1 family.
Length = 569
Score = 24.5 bits (54), Expect = 2.8
Identities = 6/18 (33%), Positives = 9/18 (50%), Gaps = 2/18 (11%)
Query: 10 RDRYWGSY--RPGTYFGM 25
DRY+G+ P + F
Sbjct: 490 ADRYYGAASATPASVFPT 507
>gnl|CDD|183090 PRK11339, abgT, putative aminobenzoyl-glutamate transporter;
Provisional.
Length = 508
Score = 24.0 bits (52), Expect = 5.3
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 34 VVGLMWFFPNKLINGEGF 51
V GL WF PN + N GF
Sbjct: 71 VEGLHWFLPNVIKNFSGF 88
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
0.325 0.145 0.482
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,997,838
Number of extensions: 200724
Number of successful extensions: 238
Number of sequences better than 10.0: 1
Number of HSP's gapped: 238
Number of HSP's successfully gapped: 13
Length of query: 56
Length of database: 10,937,602
Length adjustment: 28
Effective length of query: 28
Effective length of database: 9,695,690
Effective search space: 271479320
Effective search space used: 271479320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)