RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8569
(85 letters)
>gnl|CDD|176040 cd08394, C2A_Munc13, C2 domain first repeat in Munc13 (mammalian
uncoordinated) proteins. C2-like domains are thought
to be involved in phospholipid binding in a Ca2+
independent manner in both Unc13 and Munc13.
Caenorabditis elegans Unc13 has a central domain with
sequence similarity to PKC, which includes C1 and
C2-related domains. Unc13 binds phorbol esters and DAG
with high affinity in a phospholipid manner. Mutations
in Unc13 results in abnormal neuronal connections and
impairment in cholinergic neurotransmission in the
nematode. Munc13 is the mammalian homolog which are
expressed in the brain. There are 3 isoforms
(Munc13-1, -2, -3) and are thought to play a role in
neurotransmitter release and are hypothesized to be
high-affinity receptors for phorbol esters. Unc13 and
Munc13 contain both C1 and C2 domains. There are two
C2 related domains present, one central and one at the
carboxyl end. Munc13-1 contains a third C2-like
domain. Munc13 interacts with syntaxin, synaptobrevin,
and synaptotagmin suggesting a role for these as
scaffolding proteins. 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.
This cd contains the first C2 repeat, C2A, and has a
type-II topology.
Length = 127
Score = 56.3 bits (136), Expect = 7e-12
Identities = 19/42 (45%), Positives = 29/42 (69%)
Query: 28 ETNDVNQGLLIEVWDKGIIWDRAIGYHYLPLPQVAFSNEVGS 69
E N ++ GL+IE+W+KG+IWD +G ++PL + SNE G
Sbjct: 52 EINRLDLGLVIELWNKGLIWDTLVGTVWIPLSTIRQSNEEGP 93
>gnl|CDD|175973 cd00030, C2, C2 domain. 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 = 102
Score = 27.4 bits (61), Expect = 0.47
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 23 FEVPSETNDVNQGLLIEVWDKGIIW-DRAIGYHYLPLPQVAFSNEVGSRK 71
F V +D L +EVWDK D +G +PL ++ S + G
Sbjct: 53 FPVLDPESDT---LTVEVWDKDRFSKDDFLGEVEIPLSELLDSGKEGELW 99
>gnl|CDD|175992 cd04026, C2_PKC_alpha_gamma, C2 domain in Protein Kinase C (PKC)
alpha and gamma. A single C2 domain is found in PKC
alpha and gamma. 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-I topology.
Length = 131
Score = 27.2 bits (61), Expect = 0.61
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 30 NDVNQGLLIEVWDKGIIWDRA 50
D ++ L IEVWD WDR
Sbjct: 76 ADKDRRLSIEVWD----WDRT 92
>gnl|CDD|220056 pfam08883, DOPA_dioxygen, Dopa 4,5-dioxygenase family. This
family of proteins are related to a DOPA
4,5-dioxygenase that is involved in synthesis of
betalain. DOPA-dioxygenase is the key enzyme involved
in betalain biosynthesis. It converts
3,4-dihydroxyphenylalanine to betalamic acid, a yellow
chromophore.
Length = 104
Score = 24.8 bits (55), Expect = 4.1
Identities = 7/24 (29%), Positives = 15/24 (62%)
Query: 44 GIIWDRAIGYHYLPLPQVAFSNEV 67
G + ++ +G H + Q+AF+ E+
Sbjct: 33 GRVHEKPVGPHPVWSFQLAFTPEL 56
>gnl|CDD|237545 PRK13888, PRK13888, conjugal transfer protein TrbN; Provisional.
Length = 206
Score = 24.8 bits (54), Expect = 5.7
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 42 DKGIIWDRAIGYH 54
DKG +W +A YH
Sbjct: 101 DKGDLWTKAANYH 113
>gnl|CDD|143425 cd07107, ALDH_PhdK-like, Nocardioides 2-carboxybenzaldehyde
dehydrogenase, PhdK-like. Nocardioides sp. strain
KP72-carboxybenzaldehyde dehydrogenase (PhdK), an enzyme
involved in phenanthrene degradation, and other similar
sequences, are present in this CD.
Length = 456
Score = 24.6 bits (54), Expect = 7.3
Identities = 13/59 (22%), Positives = 21/59 (35%), Gaps = 14/59 (23%)
Query: 15 SVFSVKTRFEVPSETNDVNQGLLIEVW--------------DKGIIWDRAIGYHYLPLP 59
SV + E+ ++ N V GL +W + G +W H+L P
Sbjct: 367 SVLRWRDEAEMVAQANGVEYGLTAAIWTNDISQAHRTARRVEAGYVWINGSSRHFLGAP 425
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
0.319 0.137 0.424
Gapped
Lambda K H
0.267 0.0790 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,266,767
Number of extensions: 334460
Number of successful extensions: 231
Number of sequences better than 10.0: 1
Number of HSP's gapped: 231
Number of HSP's successfully gapped: 8
Length of query: 85
Length of database: 10,937,602
Length adjustment: 53
Effective length of query: 32
Effective length of database: 8,586,840
Effective search space: 274778880
Effective search space used: 274778880
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 (21.8 bits)
S2: 53 (24.1 bits)