RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14279
(73 letters)
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac.
Domain in Broad-Complex, Tramtrack and Bric a brac.
Also known as POZ (poxvirus and zinc finger) domain.
Known to be a protein-protein interaction motif found
at the N-termini of several C2H2-type transcription
factors as well as Shaw-type potassium channels. Known
structure reveals a tightly intertwined dimer formed
via interactions between N-terminal strand and helix
structures. However in a subset of BTB/POZ domains,
these two secondary structures appear to be missing. Be
aware SMART predicts BTB/POZ domains without the beta1-
and alpha1-secondary structures.
Length = 97
Score = 43.1 bits (102), Expect = 3e-07
Identities = 13/48 (27%), Positives = 27/48 (56%)
Query: 17 YVIMDKTFKHLTDILEFMYAGEVNVSQDQLPSFLKTADRLKIKGLAEA 64
+ D + + +L F+Y G++++ ++ + L+ AD L+I GL E
Sbjct: 41 IYLDDVSPEDFRALLNFLYTGKLDLPEENVEELLELADYLQIPGLVEL 88
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab)
or POZ (for Pox virus and Zinc finger) domain is
present near the N-terminus of a fraction of zinc
finger (pfam00096) proteins and in proteins that
contain the pfam01344 motif such as Kelch and a family
of pox virus proteins. The BTB/POZ domain mediates
homomeric dimerisation and in some instances
heteromeric dimerisation. The structure of the
dimerised PLZF BTB/POZ domain has been solved and
consists of a tightly intertwined homodimer. The
central scaffolding of the protein is made up of a
cluster of alpha-helices flanked by short beta-sheets
at both the top and bottom of the molecule. POZ domains
from several zinc finger proteins have been shown to
mediate transcriptional repression and to interact with
components of histone deacetylase co-repressor
complexes including N-CoR and SMRT. The POZ or BTB
domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 39.1 bits (92), Expect = 1e-05
Identities = 11/38 (28%), Positives = 23/38 (60%)
Query: 27 LTDILEFMYAGEVNVSQDQLPSFLKTADRLKIKGLAEA 64
+LEF+Y G++ ++++ + L AD+L+I L +
Sbjct: 58 FEALLEFIYTGKLEITEENVDDLLALADKLQIPALIDK 95
>gnl|CDD|239311 cd03013, PRX5_like, Peroxiredoxin (PRX) family, PRX5-like
subfamily; members are similar to the human protein,
PRX5, a homodimeric TRX peroxidase, widely expressed in
tissues and found cellularly in mitochondria,
peroxisomes and the cytosol. The cellular location of
PRX5 suggests that it may have an important antioxidant
role in organelles that are major sources of reactive
oxygen species (ROS), as well as a role in the control
of signal transduction. PRX5 has been shown to reduce
hydrogen peroxide, alkyl hydroperoxides and
peroxynitrite. As with all other PRXs, the N-terminal
peroxidatic cysteine of PRX5 is oxidized into a
sulfenic acid intermediate upon reaction with
peroxides. Human PRX5 is able to resolve this
intermediate by forming an intramolecular disulfide
bond with its C-terminal cysteine (the resolving
cysteine), which can then be reduced by TRX, just like
an atypical 2-cys PRX. This resolving cysteine,
however, is not conserved in other members of the
subfamily. In such cases, it is assumed that the
oxidized cysteine is directly resolved by an external
small-molecule or protein reductant, typical of a 1-cys
PRX. In the case of the H. influenza PRX5 hybrid, the
resolving glutaredoxin domain is on the same protein
chain as PRX. PRX5 homodimers show an A-type interface,
similar to atypical 2-cys PRXs.
Length = 155
Score = 26.0 bits (58), Expect = 1.5
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 42 SQDQLPSFLKTADRLKIKG 60
S LP +++ AD LK KG
Sbjct: 46 SAQHLPGYVENADELKAKG 64
>gnl|CDD|218770 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest light
for photosynthesis, and dissipate excess light energy
absorbed by the antenna pigments. The cyclisation of
lycopene (psi, psi-carotene) is a key branch point in
the pathway of carotenoid biosynthesis. Two types of
cyclic end groups are found in higher plant carotenoids:
the beta and epsilon rings. Carotenoids with two beta
rings are ubiquitous, and those with one beta and one
epsilon ring are common; however, carotenoids with two
epsilon rings are rare.
Length = 374
Score = 25.7 bits (57), Expect = 2.2
Identities = 6/19 (31%), Positives = 7/19 (36%)
Query: 18 VIMDKTFKHLTDILEFMYA 36
VIMD F+Y
Sbjct: 171 VIMDARVPQPAKGYRFLYV 189
>gnl|CDD|203609 pfam07308, DUF1456, Protein of unknown function (DUF1456). This
family consists of several hypothetical bacterial
proteins of around 150 residues in length. The function
of this family is unknown.
Length = 68
Score = 24.7 bits (55), Expect = 2.7
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 28 TDILEFMYAGEVNVSQDQLPSFLK 51
D++E VS+ +L + L+
Sbjct: 17 DDMIEIFALAGFEVSKSELSALLR 40
>gnl|CDD|211415 cd11574, GH99, Glycoside hydrolase family 99, an
endo-alpha-1,2-mannosidase. This family of glycoside
hydrolases 99 (following the CAZY nomenclature) includes
endo-alpha-1,2-mannosidase (EC 3.2.1.130), which is an
important membrane-associated eukaryotic enzyme involved
in the maturation of N-linked glycans. Specifically, it
cleaves mannoside linkages internal to N-linked glycan
chains by hydrolyzing an alpha-1,2-mannosidic bond
between a glucose-substituted mannose and the remainder
of the chain. The biological function and significance
of the soluble bacterial orthologs, which may have
obtained the genes via horizontal transfer, is not
clear.
Length = 338
Score = 25.4 bits (56), Expect = 3.4
Identities = 6/27 (22%), Positives = 8/27 (29%)
Query: 33 FMYAGEVNVSQDQLPSFLKTADRLKIK 59
S D +P L A +K
Sbjct: 88 GSSDDNGKPSDDTIPLLLDIAHEYGLK 114
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 25.1 bits (55), Expect = 4.2
Identities = 7/33 (21%), Positives = 20/33 (60%)
Query: 27 LTDILEFMYAGEVNVSQDQLPSFLKTADRLKIK 59
++++++Y G++N++ + + L A+ L I
Sbjct: 59 FNEVIKYIYTGKINITSNNVKDILSIANYLIID 91
>gnl|CDD|100070 cd02641, R3H_Smubp-2_like, R3H domain of Smubp-2_like proteins.
Smubp-2_like proteins also contain a helicase_like and
an AN1-like Zinc finger domain and have been shown to
bind single-stranded DNA. The name of the R3H domain
comes from the characteristic spacing of the most
conserved arginine and histidine residues. The function
of the domain is predicted to bind ssDNA or ssRNA.
Length = 60
Score = 23.5 bits (51), Expect = 7.2
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 30 ILEFMYAGEVNVSQDQLPSFLKTADRLKIKGLAE 63
+ FM ++ + P L + DRL + LAE
Sbjct: 8 VKAFMKDP--KATELEFPPTLSSHDRLLVHELAE 39
>gnl|CDD|221769 pfam12784, PDDEXK_2, PD-(D/E)XK nuclease family transposase.
Members of this family belong to the PD-(D/E)XK nuclease
superfamily. These proteins are transposase proteins.
Length = 229
Score = 24.1 bits (53), Expect = 8.5
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 11/58 (18%)
Query: 17 YVIMDK-TFKHLTDILEFMY----------AGEVNVSQDQLPSFLKTADRLKIKGLAE 63
Y + +K T K LTD LE + + D+ FLK A+ LK L E
Sbjct: 130 YKLKEKETNKILTDDLEIHFIELPKFNKNEEELETDTLDKWLYFLKNAESLKDIPLLE 187
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 0.135 0.377
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,484,623
Number of extensions: 257119
Number of successful extensions: 227
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 14
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
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 (24.3 bits)