RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3348
(147 letters)
>gnl|CDD|176069 cd08687, C2_PKN-like, C2 domain in Protein kinase C-like (PKN)
proteins. PKN is a lipid-activated serine/threonine
kinase. It is a member of the protein kinase C (PKC)
superfamily, but lacks a C1 domain. There are at least
3 different isoforms of PKN (PRK1/PKNalpha/PAK1;
PKNbeta, and PRK2/PAK2/PKNgamma). The C-terminal region
contains the Ser/Thr type protein kinase domain, while
the N-terminal region of PKN contains three
antiparallel coiled-coil (ACC) finger domains which are
relatively rich in charged residues and contain a
leucine zipper-like sequence. These domains binds to
the small GTPase RhoA. Following these domains is a
C2-like domain. Its C-terminal part functions as an
auto-inhibitory region. PKNs are not activated by
classical PKC activators such as diacylglycerol,
phorbol ester or Ca2+, but instead are activated by
phospholipids and unsaturated fatty acids. The C2
domain was first identified in PKC. C2 domains fold
into an 8-standed beta-sandwich that can adopt 2
structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a
single C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin
which only have a single C2 domain. C2 domains with a
calcium binding region have negatively charged
residues, primarily aspartates, that serve as ligands
for calcium ions.
Length = 98
Score = 99.0 bits (246), Expect = 6e-28
Identities = 34/61 (55%), Positives = 44/61 (72%)
Query: 4 GNQAWDQRFSIDLDKSRELEIGVYWRDWRSLCGVKFLRLEEFIDDIRHGMALQLEPQGLL 63
NQAWDQ F+++L++SRELEI VYWRDWRSLC VKFL+LE+ +++ M QL L
Sbjct: 31 SNQAWDQSFTLELERSRELEIAVYWRDWRSLCAVKFLKLEDERHEVQLDMEPQLCLVAEL 90
Query: 64 F 64
Sbjct: 91 T 91
>gnl|CDD|176071 cd08689, C2_fungal_Pkc1p, C2 domain found in protein kinase C
(Pkc1p) in Saccharomyces cerevisiae. This family is
named after the protein kinase C in Saccharomyces
cerevisiae, Pkc1p. Protein kinase C is a member of a
family of Ser/Thr phosphotransferases that are involved
in many cellular signaling pathways. PKC has two
antiparallel coiled-coiled regions (ACC finger domain)
(AKA PKC homology region 1 (HR1)/ Rho binding domain)
upstream of the C2 domain and two C1 domains
downstream. The C2 domain was first identified in PKC.
C2 domains fold into an 8-standed beta-sandwich that
can adopt 2 structural arrangements: Type I and Type
II, distinguished by a circular permutation involving
their N- and C-terminal beta strands. Many C2 domains,
like those of PKC, are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
Length = 109
Score = 34.7 bits (80), Expect = 0.003
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 3 SGNQAWDQRFSIDLDKSRELEIGVYWRDWRSL--CGVKFLRLEEFIDDIR 50
S N W++ F I ++K+ E E+ VY + G+ +LRL + ++IR
Sbjct: 42 SRNDRWNEDFEIPVEKNNEEEVIVYDKGGDQPVPVGLLWLRLSDIAEEIR 91
>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease
inhibitor (RI)-like subfamily. LRRs are 20-29 residue
sequence motifs present in many proteins that
participate in protein-protein interactions and have
different functions and cellular locations. LRRs
correspond to structural units consisting of a beta
strand (LxxLxLxxN/CxL conserved pattern) and an alpha
helix. This alignment contains 12 strands corresponding
to 11 full repeats, consistent with the extent observed
in the subfamily acting as Ran GTPase Activating
Proteins (RanGAP1).
Length = 319
Score = 29.2 bits (66), Expect = 0.61
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 32 RSLCG--VKFLRLEEFIDDIRHGMALQLEPQGLLFAEIKFLNPMISRKPKLQR 82
SL G +K R E + + L+LE L K L + +P L+
Sbjct: 3 LSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKE 55
>gnl|CDD|214577 smart00239, C2, Protein kinase C conserved region 2 (CalB).
Ca2+-binding motif present in phospholipases, protein
kinases C, and synaptotagmins (among others). Some do
not appear to contain Ca2+-binding sites. Particular C2s
appear to bind phospholipids, inositol polyphosphates,
and intracellular proteins. Unusual occurrence in
perforin. Synaptotagmin and PLC C2s are permuted in
sequence with respect to N- and C-terminal beta strands.
SMART detects C2 domains using one or both of two
profiles.
Length = 101
Score = 28.2 bits (63), Expect = 0.69
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 3 SGNQAWDQRFSIDLD--KSRELEIGVYWRDWRS---LCGVKFLRLEEFIDDIRHGM 53
+ N W++ F ++ + ELEI VY +D G + L + + RH
Sbjct: 45 TLNPVWNETFEFEVPPPELAELEIEVYDKDRFGRDDFIGQVTIPLSDLLLGGRHEK 100
>gnl|CDD|133421 cd01336, MDH_cytoplasmic_cytosolic, Cytoplasmic and cytosolic
Malate dehydrogenases. MDH is one of the key enzymes in
the citric acid cycle, facilitating both the conversion
of malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate.
Members of this subfamily are eukaryotic MDHs localized
to the cytoplasm and cytosol. MDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 325
Score = 28.0 bits (63), Expect = 2.0
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 15/54 (27%)
Query: 76 RKPKLQRQRKIFKQQGKNFPR-----------ANQMNINVATWGRLLKRSAPSI 118
RK L+ KIFK+QG+ + N N N L + APSI
Sbjct: 96 RKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPANTNALI----LLKYAPSI 145
>gnl|CDD|176068 cd08686, C2_ABR, C2 domain in the Active BCR (Breakpoint cluster
region) Related protein. The ABR protein is similar to
the breakpoint cluster region protein. It has homology
to guanine nucleotide exchange proteins and
GTPase-activating proteins (GAPs). ABR is expressed
primarily in the brain, but also includes non-neuronal
tissues such as the heart. It has been associated with
human diseases such as Miller-Dieker syndrome in which
mental retardation and malformations of the heart are
present. ABR contains a RhoGEF domain and a PH-like
domain upstream of its C2 domain and a RhoGAP domain
downstream of this domain. A few members also contain
a Bcr-Abl oncoprotein oligomerization domain at the
very N-terminal end. Splice variants of ABR have been
identified. ABR is found in a wide variety of organisms
including chimpanzee, dog, mouse, rat, fruit fly, and
mosquito. The C2 domain was first identified in PKC. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a
single C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin
which only have a single C2 domain. C2 domains with a
calcium binding region have negatively charged
residues, primarily aspartates, that serve as ligands
for calcium ions.
Length = 118
Score = 27.1 bits (60), Expect = 2.0
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 8 WDQRFSIDLDKSRELEIGVYWRDWRSLCGVKFLRLEEFIDDIRHGMALQLEPQGL 62
W++ F I+L+ S+ L I Y + C K E D I +QL+PQ L
Sbjct: 46 WNEEFEIELEGSQTLRILCYEK-----CYSKVKLDGEGTDAIMGKGQIQLDPQSL 95
>gnl|CDD|175981 cd04014, C2_PKC_epsilon, C2 domain in Protein Kinase C (PKC)
epsilon. A single C2 domain is found in PKC epsilon.
The PKC family of serine/threonine kinases regulates
apoptosis, proliferation, migration, motility,
chemo-resistance, and differentiation. There are 3
groups: group 1 (alpha, betaI, beta II, gamma) which
require phospholipids and calcium, group 2 (delta,
epsilon, theta, eta) which do not require calcium for
activation, and group 3 (xi, iota/lambda) which are
atypical and can be activated in the absence of
diacylglycerol and calcium. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members here have a type-II
topology.
Length = 132
Score = 25.7 bits (57), Expect = 6.3
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 7 AWDQRFSIDLDKSRELEIGVYWR------DWRSLCGVKFLRLEEFIDDIRHG--MALQLE 58
W++ F+ ++ R LE+ V+ D+ + C + F E+ I + + LE
Sbjct: 61 VWNEEFTTEVHNGRNLELTVFHDAAIGPDDFVANCTISF---EDLIQRGSGSFDLWVDLE 117
Query: 59 PQGLLFAEIK 68
PQG L +I+
Sbjct: 118 PQGKLHVKIE 127
>gnl|CDD|235835 PRK06589, PRK06589, putative monovalent cation/H+ antiporter
subunit D; Reviewed.
Length = 489
Score = 26.3 bits (58), Expect = 8.4
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 44 EFIDDIRHGMALQLEPQGLLF 64
E +D + + L LEP GL+F
Sbjct: 68 ELMDFGNYSIGLHLEPLGLIF 88
>gnl|CDD|211419 cd11578, GH99_GH71_like_1, Uncharacterized glycoside hydrolase
family 99-like domain. This family of putative
glycoside hydrolases resembles glycosyl hydrolase
families 71 and 99 (following the CAZY nomenclature) and
may share a similar catalytic site and mechanism.
Length = 313
Score = 25.8 bits (57), Expect = 9.3
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 69 FLNPMISRKPKLQRQRKIFKQQGKNFPRANQMNIN 103
F + + R P +K+ +N N + I
Sbjct: 247 FQSYKLERNPS--SFKKMCNVALRNDGACNIVLIT 279
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 0.137 0.429
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,720,932
Number of extensions: 691884
Number of successful extensions: 542
Number of sequences better than 10.0: 1
Number of HSP's gapped: 542
Number of HSP's successfully gapped: 18
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
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: 54 (24.8 bits)