RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7408
(66 letters)
>gnl|CDD|218589 pfam05431, Toxin_10, Insecticidal Crystal Toxin, P42. Family of
Bacillus insecticidal crystal toxins. Strains of
Bacillus that have this insecticidal activity use a
binary toxin comprised of two proteins, P51 and P42
(this family). Members of this family are highly
conserved between strains of different serotypes and
phage groups.
Length = 199
Score = 30.1 bits (68), Expect = 0.045
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 8/47 (17%)
Query: 24 QSYVRALKGSTAI--------LLDKNQPIKPVAEHPSKHMQDWHKAW 62
Q RAL GST I ++ N IK + K Q WH+AW
Sbjct: 26 QQAPRALMGSTLIPCIMVNDPVISLNTRIKTTPYYILKKYQYWHRAW 72
>gnl|CDD|187849 cd09718, Cas1_I-F, CRISPR/Cas system-associated protein Cas1.
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;
Cas1 is the most universal CRISPR system protein thought
to be involved in spacer integration; Cas1 is
metal-dependent deoxyribonuclease, also binds RNA; Shown
to possess a unique fold consisting of a N-terminal
beta-strand domain and a C-terminal alpha-helical
domain.
Length = 306
Score = 27.1 bits (60), Expect = 0.65
Identities = 6/15 (40%), Positives = 12/15 (80%)
Query: 51 PSKHMQDWHKAWFEE 65
P++++Q W K WF++
Sbjct: 101 PTEYLQAWMKFWFDD 115
>gnl|CDD|132676 TIGR03637, cas1_YPEST, CRISPR-associated endonuclease Cas1, subtype
I-F/YPEST. The CRISPR-associated protein Cas1 is
virtually universal to CRISPR systems. CRISPR, an
acronym for Clustered Regularly Interspaced Short
Palindromic Repeats, is prokaryotic immunity system for
foreign DNA, mostly from phage. CRISPR systems belong to
different subtypes, distinguished by both nature of the
repeats, the makeup of the cohort of associated Cas
proteins, and by molecular phylogeny within the more
universal Cas proteins such as this one. This model is
of type EXCEPTION and provides more specific information
than the EQUIVALOG model TIGR00287. It describes the
Cas1 protein particular to the YPEST subtype of
CRISPR/Cas system.
Length = 307
Score = 27.1 bits (60), Expect = 0.65
Identities = 6/15 (40%), Positives = 12/15 (80%)
Query: 51 PSKHMQDWHKAWFEE 65
P++++Q W K WF++
Sbjct: 101 PTEYLQAWMKFWFDD 115
>gnl|CDD|233445 TIGR01511, ATPase-IB1_Cu, copper-(or silver)-translocating P-type
ATPase. This model describes the P-type ATPase
primarily responsible for translocating copper ions
accross biological membranes. These transporters are
found in prokaryotes and eukaryotes. This model
encompasses those species which pump copper ions out of
cells or organelles (efflux pumps such as CopA of
Escherichia coli ) as well as those which pump the ion
into cells or organelles either for the purpose of
supporting life in extremely low-copper environments
(for example CopA of Enterococcus hirae ) or for the
specific delivery of copper to a biological complex for
which it is a necessary component (for example FixI of
Bradyrhizobium japonicum, or CtaA and PacS of
Synechocystis). The substrate specificity of these
transporters may, to a varying degree, include silver
ions (for example, CopA from Archaeoglobus fulgidus).
Copper transporters from this family are well known as
the genes which are mutated in two human disorders of
copper metabolism, Wilson's and Menkes' diseases. The
sequences contributing to the seed of this model are all
experimentally characterized. The copper P-type ATPases
have been characterized as Type IB based on a
phylogenetic analysis which combines the
copper-translocating ATPases with the
cadmium-translocating species. This model and that
describing the cadmium-ATPases (TIGR01512) are well
separated, and thus we further type the copper-ATPases
as IB1 (and the cadmium-ATPases as IB2). Several
sequences which have not been characterized
experimentally fall just below the cutoffs for both of
these models. A sequence from Enterococcus faecalis
scores very high against this model, but yet is
annotated as an "H+/K+ exchanging ATPase". BLAST of this
sequence does not hit anything else annotated in this
way. This error may come from the characterization paper
published in 1987. Accession GP|7415611 from
Saccharomyces cerevisiae appears to be mis-annotated as
a cadmium resistance protein. Accession
OMNI|NTL01HS00542 from Halobacterium which scores above
trusted for this model is annotated as
"molybdenum-binding protein" although no evidence can be
found for this classification [Cellular processes,
Detoxification, Transport and binding proteins, Cations
and iron carrying compounds].
Length = 572
Score = 25.3 bits (56), Expect = 2.2
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 1 MMLKQHLDMIGRNEPITRKAKFWQSYVRALKGSTAILLDKNQPIK--PVAE 49
++L + L+M+ + A S + L+ STA LL + I+ PV
Sbjct: 64 ILLGRWLEMLAKGR--ASDA---LSKLAKLQPSTATLLTDDGEIEEVPVEL 109
>gnl|CDD|214359 CHL00085, ycf24, putative ABC transporter.
Length = 485
Score = 25.0 bits (55), Expect = 3.5
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 25 SYVRALKGSTAILLDKNQ 42
SYV L+G TA D NQ
Sbjct: 235 SYVSYLEGCTAPQYDTNQ 252
>gnl|CDD|237418 PRK13534, PRK13534, 7-cyano-7-deazaguanine tRNA-ribosyltransferase;
Provisional.
Length = 639
Score = 24.6 bits (54), Expect = 4.4
Identities = 5/22 (22%), Positives = 15/22 (68%)
Query: 1 MMLKQHLDMIGRNEPITRKAKF 22
L +++D + + +P+++K+ F
Sbjct: 340 RRLLEYMDYLEKYDPVSKKSAF 361
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
0.321 0.133 0.431
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,374,888
Number of extensions: 232621
Number of successful extensions: 165
Number of sequences better than 10.0: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 6
Length of query: 66
Length of database: 10,937,602
Length adjustment: 37
Effective length of query: 29
Effective length of database: 9,296,504
Effective search space: 269598616
Effective search space used: 269598616
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 (24.4 bits)