RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16330
(101 letters)
>gnl|CDD|175988 cd04021, C2_E3_ubiquitin_ligase, C2 domain present in E3
ubiquitin ligase. E3 ubiquitin ligase is part of the
ubiquitylation mechanism responsible for controlling
surface expression of membrane proteins. The
sequential action of several enzymes are involved:
ubiquitin-activating enzyme E1, ubiquitin-conjugating
enzyme E2, and ubiquitin-protein ligase E3 which is
responsible for substrate recognition and promoting the
transfer of ubiquitin to the target protein. E3
ubiquitin ligase is composed of an N-terminal C2
domain, 4 WW domains, and a HECTc domain. 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 = 125
Score = 109 bits (274), Expect = 2e-32
Identities = 38/86 (44%), Positives = 50/86 (58%), Gaps = 3/86 (3%)
Query: 13 QLLQLVECAHLRRGGQGGGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSP 72
QL VE A L+ KP+PY+E+ VD + PK T V K T PKWNE FTVLV+P
Sbjct: 3 QLQITVESAKLKSNS---KSFKPDPYVEVTVDGQPPKKTEVSKKTSNPKWNEHFTVLVTP 59
Query: 73 YSIILFRLLDHRTFRRDCTIGEKRLN 98
S + F++ H T + D +GE L+
Sbjct: 60 QSTLEFKVWSHHTLKADVLLGEASLD 85
>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 = 65.6 bits (160), Expect = 2e-15
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 5/89 (5%)
Query: 15 LQLVECAHLRRGGQGGGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSPY- 73
+ ++E +L G K +PY+++ + K T+VVKNT P WNE F V
Sbjct: 3 VTVIEARNLPAKDLNG---KSDPYVKVSLGGKQKFKTKVVKNTLNPVWNETFEFPVLDPE 59
Query: 74 -SIILFRLLDHRTFRRDCTIGEKRLNTST 101
+ + D F +D +GE + S
Sbjct: 60 SDTLTVEVWDKDRFSKDDFLGEVEIPLSE 88
>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 = 59.8 bits (145), Expect = 3e-13
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 17 LVECAHLRRGGQGGGLLKPNPYIELYVDYKNPKT--TRVVKNTYQPKWNEEFTVLVSP-- 72
++ +L +GG K +PY+++ +D + T+VVKNT P WNE F V P
Sbjct: 6 IISARNLPPKDKGG---KSDPYVKVSLDGDPKEKKKTKVVKNTLNPVWNETFEFEVPPPE 62
Query: 73 YSIILFRLLDHRTFRRDCTIGE 94
+ + + D F RD IG+
Sbjct: 63 LAELEIEVYDKDRFGRDDFIGQ 84
>gnl|CDD|215765 pfam00168, C2, C2 domain.
Length = 85
Score = 58.4 bits (142), Expect = 7e-13
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 7/82 (8%)
Query: 17 LVECAHLRRGGQGGGLLKPNPYIELYVDY--KNPKTTRVVKNTYQPKWNEEFTVLVSPYS 74
++ +L G K +PY+++ + K+ K T+VVKNT P WNE FT V+
Sbjct: 5 VISAKNLPPKDLNG---KSDPYVKVSLGGQKKDTKKTKVVKNTLNPVWNETFTFEVTLPE 61
Query: 75 I--ILFRLLDHRTFRRDCTIGE 94
+ + + D+ F +D IGE
Sbjct: 62 LAELRIEVYDYDRFGKDDFIGE 83
>gnl|CDD|176028 cd08382, C2_Smurf-like, C2 domain present in Smad
ubiquitination-related factor (Smurf)-like proteins. A
single C2 domain is found in Smurf proteins,
C2-WW-HECT-domain E3s, which play an important role in
the downregulation of the TGF-beta signaling pathway.
Smurf proteins also regulate cell shape, motility, and
polarity by degrading small guanosine triphosphatases
(GTPases). 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 type-II topology.
Length = 123
Score = 58.5 bits (142), Expect = 2e-12
Identities = 21/54 (38%), Positives = 31/54 (57%)
Query: 35 PNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSIILFRLLDHRTFRR 88
P+P+ + VD +T V K T PKWNE F + V P SII ++ D + F++
Sbjct: 21 PDPFAVITVDGGQTHSTDVAKKTLDPKWNEHFDLTVGPSSIITIQVFDQKKFKK 74
>gnl|CDD|176009 cd04044, C2A_Tricalbin-like, C2 domain first repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2 domain
are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane trafficking
and sorting. 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 = 124
Score = 46.4 bits (111), Expect = 6e-08
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 6/85 (7%)
Query: 20 CAHLRRGGQGGGLLKPNPYIELYVDYKNPKT--TRVVKNTYQPKWNEEFTVLVSPYSIIL 77
L+ GG +PY+ + + T+V K+T P WNE +LV+ + L
Sbjct: 11 ARGLKGSDIIGG--TVDPYVTFSIS-NRRELARTKVKKDTSNPVWNETKYILVNSLTEPL 67
Query: 78 -FRLLDHRTFRRDCTIGEKRLNTST 101
+ D R+D IG + S+
Sbjct: 68 NLTVYDFNDKRKDKLIGTAEFDLSS 92
>gnl|CDD|176017 cd04052, C2B_Tricalbin-like, C2 domain second repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2
domain are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane
trafficking and sorting. 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 second C2 repeat, C2B, and has a
type-II topology.
Length = 111
Score = 43.7 bits (104), Expect = 6e-07
Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 34 KPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVS--PYSIILFRLLDHRTFRRDCT 91
+PY ELY++ K TTRV K T P WN LV+ S + + D R R D
Sbjct: 12 LLSPYAELYLNGKLVYTTRVKKKTNNPSWNASTEFLVTDRRKSRVTVVVKDDR-DRHDPV 70
Query: 92 IGE 94
+G
Sbjct: 71 LGS 73
>gnl|CDD|176003 cd04038, C2_ArfGAP, C2 domain present in Arf GTPase Activating
Proteins (GAP). ArfGAP is a GTPase activating protein
which regulates the ADP ribosylation factor Arf, a
member of the Ras superfamily of GTP-binding proteins.
The GTP-bound form of Arf is involved in Golgi
morphology and is involved in recruiting coat proteins.
ArfGAP is responsible for the GDP-bound form of Arf
which is necessary for uncoating the membrane and
allowing the Golgi to fuse with an acceptor
compartment. These proteins contain an N-terminal
ArfGAP domain containing the characteristic zinc finger
motif (Cys-x2-Cys-x(16,17)-x2-Cys) and C-terminal C2
domain. C2 domains were first identified in Protein
Kinase C (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 = 145
Score = 41.5 bits (98), Expect = 6e-06
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 37 PYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLV-SPYSIILFRLLDHRTFRRDCTIGE 94
PY+ L + + KT RV+K P WNEE T+ V +P + + + D TF +D ++GE
Sbjct: 24 PYVVLTLGNQKVKT-RVIKKNLNPVWNEELTLSVPNPMAPLKLEVFDKDTFSKDDSMGE 81
>gnl|CDD|176015 cd04050, C2B_Synaptotagmin-like, C2 domain second repeat present in
Synaptotagmin-like proteins. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Previously all synaptotagmins
were thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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 second C2
repeat, C2B, and has a type-I topology.
Length = 105
Score = 39.5 bits (93), Expect = 2e-05
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 31 GLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSP--YSIILFRLLDHRTFRR 88
+P+PY+EL V K + ++V + T P W E FT LV + + D +T
Sbjct: 17 STKEPSPYVELTVG-KTTQKSKVKERTNNPVWEEGFTFLVRNPENQELEIEVKDDKT--- 72
Query: 89 DCTIGEKRLNTST 101
++G L S
Sbjct: 73 GKSLGSLTLPLSE 85
>gnl|CDD|175975 cd00276, C2B_Synaptotagmin, C2 domain second repeat present in
Synaptotagmin. Synaptotagmin is a membrane-trafficking
protein characterized by a N-terminal transmembrane
region, a linker, and 2 C-terminal C2 domains. There are
several classes of Synaptotagmins. Previously all
synaptotagmins were thought to be calcium sensors in the
regulation of neurotransmitter release and hormone
secretion, but it has been shown that not all of them
bind calcium. Of the 17 identified synaptotagmins only
8 bind calcium (1-3, 5-7, 9, 10). The function of the
two C2 domains that bind calcium are: regulating the
fusion step of synaptic vesicle exocytosis (C2A) and
binding to phosphatidyl-inositol-3,4,5-triphosphate
(PIP3) in the absence of calcium ions and to
phosphatidylinositol bisphosphate (PIP2) in their
presence (C2B). C2B also regulates also the recycling
step of synaptic vesicles. 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 second C2
repeat, C2B, and has a type-I topology.
Length = 134
Score = 39.5 bits (93), Expect = 3e-05
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 8/71 (11%)
Query: 31 GLLKPNPY--IELYVDYK--NPKTTRVVKNTYQPKWNEEFTVLVSPYSI----ILFRLLD 82
G +PY + L K K T V K T P +NE F+ V + ++ ++D
Sbjct: 31 GKGLSDPYVKVSLLQGGKKLKKKKTSVKKGTLNPVFNEAFSFDVPAEQLEEVSLVITVVD 90
Query: 83 HRTFRRDCTIG 93
+ R+ IG
Sbjct: 91 KDSVGRNEVIG 101
>gnl|CDD|176016 cd04051, C2_SRC2_like, C2 domain present in Soybean genes
Regulated by Cold 2 (SRC2)-like proteins. SRC2
production is a response to pathogen infiltration. The
initial response of increased Ca2+ concentrations are
coupled to downstream signal transduction pathways via
calcium binding proteins. SRC2 contains a single C2
domain which localizes to the plasma membrane and is
involved in Ca2+ dependent protein binding. 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 = 125
Score = 38.4 bits (90), Expect = 7e-05
Identities = 16/75 (21%), Positives = 29/75 (38%), Gaps = 9/75 (12%)
Query: 31 GLLKPNPYIELYVDYKNPKTTRVVKN--TYQPKWNEEFTVLVSPYSI------ILFRLLD 82
K Y +++D + ++T V ++ T P WNE + + + +
Sbjct: 17 LFGKMKVYAVVWIDPSHKQSTPVDRDGGTN-PTWNETLRFPLDERLLQQGRLALTIEVYC 75
Query: 83 HRTFRRDCTIGEKRL 97
R D IGE R+
Sbjct: 76 ERPSLGDKLIGEVRV 90
>gnl|CDD|175985 cd04018, C2C_Ferlin, C2 domain third repeat in Ferlin. Ferlins
are involved in vesicle fusion events. Ferlins and
other proteins, such as Synaptotagmins, are implicated
in facilitating the fusion process when cell membranes
fuse together. There are six known human Ferlins:
Dysferlin (Fer1L1), Otoferlin (Fer1L2), Myoferlin
(Fer1L3), Fer1L4, Fer1L5, and Fer1L6. Defects in these
genes can lead to a wide range of diseases including
muscular dystrophy (dysferlin), deafness (otoferlin),
and infertility (fer-1, fertilization factor-1).
Structurally they have 6 tandem C2 domains, designated
as (C2A-C2F) and a single C-terminal transmembrane
domain, though there is a new study that disputes this
and claims that there are actually 7 tandem C2 domains
with another C2 domain inserted between C2D and C2E.
In a subset of them (Dysferlin, Myoferlin, and Fer1)
there is an additional conserved domain called DysF. 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 third C2 repeat,
C2C, and has a type-II topology.
Length = 151
Score = 38.4 bits (90), Expect = 1e-04
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 35 PNPYIELYVDYKNPK-TTRVVKNTYQPKWNEE--FTVLVSP-YSIILFRLLDHRTFRRDC 90
+PY+E V + K T V KN+Y P+WNE+ F + P I ++ D D
Sbjct: 35 VDPYVE--VSFAGQKVKTSVKKNSYNPEWNEQIVFPEMFPPLCERIKIQIRDWDRVGNDD 92
Query: 91 TIG 93
IG
Sbjct: 93 VIG 95
>gnl|CDD|178585 PLN03008, PLN03008, Phospholipase D delta.
Length = 868
Score = 39.3 bits (91), Expect = 1e-04
Identities = 16/56 (28%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 32 LLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVS-PYSIILFRLLDHRTF 86
++ +PY+ + V TRV+KN+ +P W+E+F + ++ P++ + F++ D F
Sbjct: 74 VITSDPYVTVVVPQATLARTRVLKNSQEPLWDEKFNISIAHPFAYLEFQVKDDDVF 129
>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 = 37.9 bits (88), Expect = 1e-04
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 29 GGGLLKP-NPYIELYVD----YKNPKTTRVVKNTYQPKWNEEFTV 68
G + N Y L VD + TRV ++T +P WNEEF +
Sbjct: 8 AQGFKQSANLYCTLEVDSFGYFVKKAKTRVCRDTTEPNWNEEFEI 52
>gnl|CDD|227371 COG5038, COG5038, Ca2+-dependent lipid-binding protein, contains C2
domain [General function prediction only].
Length = 1227
Score = 39.0 bits (91), Expect = 1e-04
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 34 KPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLV----SPYSIILFRLLDHRTFRRD 89
+PYI + + TRV KNT P WNE F +L+ P ++ L+ D +F+ D
Sbjct: 458 TVDPYITVTFSDRVIGKTRVKKNTLNPVWNETFYILLNSFTDPLNLSLY---DFNSFKSD 514
Query: 90 CTIGEKRLN 98
+G +L+
Sbjct: 515 KVVGSTQLD 523
Score = 38.2 bits (89), Expect = 3e-04
Identities = 16/35 (45%), Positives = 25/35 (71%)
Query: 37 PYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVS 71
P+++L+++ K+ T+VVK T P WNEEFT+ V
Sbjct: 1063 PFVKLFLNEKSVYKTKVVKKTLNPVWNEEFTIEVL 1097
Score = 36.7 bits (85), Expect = 9e-04
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 33 LKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLV 70
K N ELY + K +T +K T P WN ++ VLV
Sbjct: 597 KKDNKSAELYTNAKEVYSTGKLKFTNHPSWNLQYNVLV 634
>gnl|CDD|175978 cd04011, C2B_Ferlin, C2 domain second repeat in Ferlin. Ferlins
are involved in vesicle fusion events. Ferlins and
other proteins, such as Synaptotagmins, are implicated
in facilitating the fusion process when cell membranes
fuse together. There are six known human Ferlins:
Dysferlin (Fer1L1), Otoferlin (Fer1L2), Myoferlin
(Fer1L3), Fer1L4, Fer1L5, and Fer1L6. Defects in these
genes can lead to a wide range of diseases including
muscular dystrophy (dysferlin), deafness (otoferlin),
and infertility (fer-1, fertilization factor-1).
Structurally they have 6 tandem C2 domains, designated
as (C2A-C2F) and a single C-terminal transmembrane
domain, though there is a new study that disputes this
and claims that there are actually 7 tandem C2 domains
with another C2 domain inserted between C2D and C2E.
In a subset of them (Dysferlin, Myoferlin, and Fer1)
there is an additional conserved domain called DysF. 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 second C2
repeat, C2B, and has a type-II topology.
Length = 111
Score = 37.6 bits (88), Expect = 1e-04
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 6/59 (10%)
Query: 49 KTTRVVKNTYQPKWNEE--FTVLVSPY----SIILFRLLDHRTFRRDCTIGEKRLNTST 101
K T V K T P +NE F SP II + D R+ R D IG +L+ T
Sbjct: 34 KYTSVKKGTNCPFYNEYFFFNFHESPDELFDKIIKISVYDSRSLRSDTLIGSFKLDVGT 92
>gnl|CDD|176008 cd04043, C2_Munc13_fungal, C2 domain in Munc13 (mammalian
uncoordinated) proteins; fungal group. 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 second C2 repeat, C2B, and has a
type-II topology.
Length = 126
Score = 38.0 bits (89), Expect = 1e-04
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 6/65 (9%)
Query: 34 KPNPYIELYVDYKNPK---TTRVVKNTYQPKWNEEFTVLVSPYS--IILFRLLDHRTFRR 88
+PY+ L VD + TR + +T P+W+EEF + V I + D +
Sbjct: 21 LSDPYVTL-VDTNGKRRIAKTRTIYDTLNPRWDEEFELEVPAGEPLWISATVWDRSFVGK 79
Query: 89 DCTIG 93
G
Sbjct: 80 HDLCG 84
>gnl|CDD|175976 cd04009, C2B_Munc13-like, C2 domain second repeat in Munc13
(mammalian uncoordinated)-like 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 third C2
repeat, C2C, and has a type-II topology.
Length = 133
Score = 38.0 bits (89), Expect = 1e-04
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 48 PKTTRVVKNTYQPKWNEEFTVLVSPY------SIILFRLLDHRTFRRDCTIGE 94
T+V K T P ++E F V P +++LF + D+ + GE
Sbjct: 56 TPKTQVKKKTLFPLFDESFEFNVPPEQCSVEGALLLFTVKDYDLLGSNDFEGE 108
>gnl|CDD|176037 cd08391, C2A_C2C_Synaptotagmin_like, C2 domain first and third
repeat in Synaptotagmin-like proteins. Synaptotagmin
is a membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Previously all synaptotagmins
were thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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 either the first or
third repeat in Synaptotagmin-like proteins with a
type-I topology.
Length = 121
Score = 36.9 bits (86), Expect = 2e-04
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 30 GGLLKP--NPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSP 72
GGL+K +PY+ + V + K+ +V+K PKWNE + +V
Sbjct: 21 GGLVKGKSDPYVIVRVGAQTFKS-KVIKENLNPKWNEVYEAVVDE 64
>gnl|CDD|175999 cd04033, C2_NEDD4_NEDD4L, C2 domain present in the Human neural
precursor cell-expressed, developmentally
down-regulated 4 (NEDD4) and NEDD4-like
(NEDD4L/NEDD42). Nedd4 and Nedd4-2 are two of the nine
members of the Human Nedd4 family. All vertebrates
appear to have both Nedd4 and Nedd4-2 genes. They are
thought to participate in the regulation of epithelial
Na+ channel (ENaC) activity. They also have identical
specificity for ubiquitin conjugating enzymes (E2).
Nedd4 and Nedd4-2 are composed of a C2 domain, 2-4 WW
domains, and a ubiquitin ligase Hect domain. Their WW
domains can bind PPxY (PY) or LPSY motifs, and in vitro
studies suggest that WW3 and WW4 of both proteins bind
PY motifs in the key substrates, with WW3 generally
exhibiting higher affinity. Most Nedd4 family members,
especially Nedd4-2, also have multiple splice variants,
which might play different roles in regulating their
substrates. 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 = 133
Score = 36.9 bits (86), Expect = 3e-04
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 32 LLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSI-ILFRLLDHRTFRRDC 90
L P+ E+ + T+ +K T PKWNEEF V+P +LF + D RD
Sbjct: 29 LYDPDGNGEI-----DSVQTKTIKKTLNPKWNEEFFFRVNPREHRLLFEVFDENRLTRDD 83
Query: 91 TIGE 94
+G+
Sbjct: 84 FLGQ 87
>gnl|CDD|176001 cd04036, C2_cPLA2, C2 domain present in cytosolic PhosphoLipase
A2 (cPLA2). A single copy of the C2 domain is present
in cPLA2 which releases arachidonic acid from membranes
initiating the biosynthesis of potent inflammatory
mediators such as prostaglandins, leukotrienes, and
platelet-activating factor. 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 of this cd have a type-II topology.
Length = 119
Score = 36.1 bits (84), Expect = 5e-04
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 28 QGGGLL-KPNPYIELYVDYKNPKT--TRVVKNTYQPKWNEEFTVLVSP 72
G LL P+ Y+EL++ + + T+ +KN+ P WNE F +
Sbjct: 13 TKGDLLSTPDCYVELWLPTASDEKKRTKTIKNSINPVWNETFEFRIQS 60
>gnl|CDD|176032 cd08386, C2A_Synaptotagmin-7, C2A domain first repeat present in
Synaptotagmin 7. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 7, a member of
class 2 synaptotagmins, is located in presynaptic plasma
membranes in neurons, dense-core vesicles in endocrine
cells, and lysosomes in fibroblasts. It has been shown
to play a role in regulation of Ca2+-dependent lysosomal
exocytosis in fibroblasts and may also function as a
vesicular Ca2+-sensor. It is distinguished from the
other synaptotagmins by having over 12 splice forms.
Previously all synaptotagmins were thought to be calcium
sensors in the regulation of neurotransmitter release
and hormone secretion, but it has been shown that not
all of them bind calcium. Of the 17 identified
synaptotagmins only 8 bind calcium (1-3, 5-7, 9, 10).
The function of the two C2 domains that bind calcium
are: regulating the fusion step of synaptic vesicle
exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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-I topology.
Length = 125
Score = 36.2 bits (84), Expect = 6e-04
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 7/66 (10%)
Query: 36 NPYIELYV--DYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSIILFRLL-----DHRTFRR 88
+P++++Y+ D K+ T+V + P WNE F PY + R+L D+ F R
Sbjct: 38 DPFVKIYLLPDKKHKLETKVKRKNLNPHWNETFLFEGFPYEKLQQRVLYLQVLDYDRFSR 97
Query: 89 DCTIGE 94
+ IGE
Sbjct: 98 NDPIGE 103
>gnl|CDD|176005 cd04040, C2D_Tricalbin-like, C2 domain fourth repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2
domain are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane
trafficking and sorting. 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 fifth C2 repeat, C2E, and has a
type-II topology.
Length = 115
Score = 35.6 bits (83), Expect = 7e-04
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 19/77 (24%)
Query: 15 LQLVECAHLR---RGGQGGGLLKPNPYIELYVD----YKNPKTTRVVKNTYQPKWNEEFT 67
+ ++ +L R G K +P+++ Y++ +K T+ +K T P WNE F
Sbjct: 3 VDVISAENLPSADRNG------KSDPFVKFYLNGEKVFK----TKTIKKTLNPVWNESFE 52
Query: 68 VLVSP--YSIILFRLLD 82
V V +++ + D
Sbjct: 53 VPVPSRVRAVLKVEVYD 69
>gnl|CDD|176014 cd04049, C2_putative_Elicitor-responsive_gene, C2 domain present
in the putative elicitor-responsive gene. In plants
elicitor-responsive proteins are triggered in response
to specific elicitor molecules such as glycolproteins,
peptides, carbohydrates and lipids. A host of defensive
responses are also triggered resulting in localized
cell death. Antimicrobial secondary metabolites, such
as phytoalexins, or defense-related proteins, including
pathogenesis-related (PR) proteins are also produced.
There is a single C2 domain present here. 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 have a type-II topology.
Length = 124
Score = 35.8 bits (83), Expect = 7e-04
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 11/71 (15%)
Query: 32 LLKPNPYIELYVDYKNP-KTTRVVKNTYQ-PKWNEEFTVLVSPYSI------ILFRLLDH 83
L K +PY+ + + + ++V K + P+WNE+F V Y ++ R++D
Sbjct: 19 LGKIDPYVII--QCRTQERKSKVAKGDGRNPEWNEKFKFTV-EYPGWGGDTKLILRIMDK 75
Query: 84 RTFRRDCTIGE 94
F D IGE
Sbjct: 76 DNFSDDDFIGE 86
>gnl|CDD|175990 cd04024, C2A_Synaptotagmin-like, C2 domain first repeat present
in Synaptotagmin-like proteins. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Previously all synaptotagmins
were thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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-I topology.
Length = 128
Score = 35.5 bits (82), Expect = 0.001
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 5/68 (7%)
Query: 30 GGLLKPNPYIELYV-DYKNPKTTRVVKNTYQPKWNE--EFTVLVSPYSIILFRLLDHRTF 86
G K +PY L V + T+ + NT PKWN EF + + ++ L D F
Sbjct: 19 SGKGKSDPYAILSVGAQR--FKTQTIPNTLNPKWNYWCEFPIFSAQNQLLKLILWDKDRF 76
Query: 87 RRDCTIGE 94
+GE
Sbjct: 77 AGKDYLGE 84
>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 = 35.3 bits (82), Expect = 0.001
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 37 PYIELYVD-YKNPKTTRVVKNTYQPKWNEEFTVLVS 71
PY+ + VD KT+ K T P WNEEFT V
Sbjct: 37 PYVSIDVDDTHIGKTSTKPK-TNSPVWNEEFTTEVH 71
>gnl|CDD|175974 cd00275, C2_PLC_like, C2 domain present in
Phosphoinositide-specific phospholipases C (PLC). PLCs
are involved in the hydrolysis of
phosphatidylinositol-4,5-bisphosphate (PIP2) to
d-myo-inositol-1,4,5-trisphosphate (1,4,5-IP3) and
sn-1,2-diacylglycerol (DAG). 1,4,5-IP3 and DAG are
second messengers in eukaryotic signal transduction
cascades. PLC is composed of a N-terminal PH domain
followed by a series of EF hands, a catalytic TIM
barrel and a C-terminal C2 domain. 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 = 128
Score = 35.2 bits (82), Expect = 0.001
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 34 KPNPYIELYV-----DYKNPKTTRVVK-NTYQPKWNE--EFTVLVSPYSIILFRLLDHRT 85
+PY+E+ + D T+VVK N + P WNE EF V V + + F + D +
Sbjct: 24 IVDPYVEVEIHGLPADDSAKFKTKVVKNNGFNPVWNETFEFDVTVPELAFLRFVVYDEDS 83
Query: 86 FRRD 89
D
Sbjct: 84 GDDD 87
>gnl|CDD|176018 cd04054, C2A_Rasal1_RasA4, C2 domain first repeat present in
RasA1 and RasA4. Rasal1 and RasA4 are both members of
GAP1 (GTPase activating protein 1). Rasal1 responds to
repetitive Ca2+ signals by associating with the plasma
membrane and deactivating Ras. RasA4 suppresses Ras
function by enhancing the GTPase activity of Ras
proteins resulting in the inactive GDP-bound form of
Ras. In this way it can control cellular proliferation
and differentiation. Both of these proteins contains
two C2 domains, a Ras-GAP domain, a plextrin homology
(PH)-like domain, and a Bruton's Tyrosine Kinase (BTK)
zinc binding domain. 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-I topology.
Length = 121
Score = 34.8 bits (80), Expect = 0.002
Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 36 NPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSPY-SIILFRLLDHRTFRRDCTIGE 94
+PY + VD + T V T P W EE+TV + P + F +LD T RD IG+
Sbjct: 22 DPYCIVKVDNEVIIRTATVWKTLNPFWGEEYTVHLPPGFHTVSFYVLDEDTLSRDDVIGK 81
>gnl|CDD|176006 cd04041, C2A_fungal, C2 domain first repeat; fungal group. C2
domains were first identified in Protein Kinase C
(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 = 111
Score = 33.4 bits (77), Expect = 0.004
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 28 QGGGLLKPNPYIEL-YVDYKNPK-TTRVVKNTYQPKWNEEFTVLVSP 72
G +PY+ + + P +TR+++ P W E + VLV+P
Sbjct: 16 ADFGTGSSDPYVTASFAKFGKPLYSTRIIRKDLNPVWEETWFVLVTP 62
>gnl|CDD|176034 cd08388, C2A_Synaptotagmin-4-11, C2A domain first repeat present in
Synaptotagmins 4 and 11. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmins 4 and 11, class 4
synaptotagmins, are located in the brain. Their
functions are unknown. They are distinguished from the
other synaptotagmins by having and Asp to Ser
substitution in their C2A domains. Previously all
synaptotagmins were thought to be calcium sensors in the
regulation of neurotransmitter release and hormone
secretion, but it has been shown that not all of them
bind calcium. Of the 17 identified synaptotagmins only
8 bind calcium (1-3, 5-7, 9, 10). The function of the
two C2 domains that bind calcium are: regulating the
fusion step of synaptic vesicle exocytosis (C2A) and
binding to phosphatidyl-inositol-3,4,5-triphosphate
(PIP3) in the absence of calcium ions and to
phosphatidylinositol bisphosphate (PIP2) in their
presence (C2B). C2B also regulates also the recycling
step of synaptic vesicles. 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-I topology.
Length = 128
Score = 33.5 bits (77), Expect = 0.006
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 11/89 (12%)
Query: 14 LLQLVECAHL-RRGGQGGGLLKPNPYIELYV--DYKNPKTTRVVKNTYQPKWNEEFTVLV 70
L+ ++EC L Q G +PY++L + + ++ TRV++ T P ++E FT
Sbjct: 19 LVNIIECRDLPAMDEQSGTS---DPYVKLQLLPEKEHKVKTRVLRKTRNPVYDETFTFYG 75
Query: 71 SPYS-----IILFRLLDHRTFRRDCTIGE 94
PY+ + F +L + RD IGE
Sbjct: 76 IPYNQLQDLSLHFAVLSFDRYSRDDVIGE 104
>gnl|CDD|176033 cd08387, C2A_Synaptotagmin-8, C2A domain first repeat present in
Synaptotagmin 8. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Previously all synaptotagmins
were thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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-I topology.
Length = 124
Score = 33.1 bits (76), Expect = 0.008
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 36 NPY--IELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSI----ILFRLLDHRTFRRD 89
+PY + L D N K +++ K T P+++E F V P + + L D F RD
Sbjct: 38 DPYCKVRLLPDRSNTKQSKIHKKTLNPEFDESFVFEVPPQELPKRTLEVLLYDFDQFSRD 97
Query: 90 CTIGEKRLNTST 101
IG L +
Sbjct: 98 ECIGVVELPLAE 109
>gnl|CDD|176070 cd08688, C2_KIAA0528-like, C2 domain found in the Human KIAA0528
cDNA clone. The members of this CD are named after the
Human KIAA0528 cDNA clone. All members here contain a
single C2 repeat. No other information on this protein
is currently known. 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 = 110
Score = 32.7 bits (75), Expect = 0.009
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 46 KNPKTTRVVKNTYQPKWN-EEFTVLVSPYSI----ILFRLLDHRTFRRDCTIG 93
T VVK + P WN E F V + + R++DH T+ + IG
Sbjct: 31 STTYKTDVVKKSLNPVWNSEWFRFEVDDEELQDEPLQIRVMDHDTYSANDAIG 83
>gnl|CDD|215629 PLN03200, PLN03200, cellulose synthase-interactive protein;
Provisional.
Length = 2102
Score = 33.5 bits (77), Expect = 0.009
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 35 PNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFT 67
N + +L + P+ T+VV ++ P+W E FT
Sbjct: 1999 TNAFCKLTLGNGPPRQTKVVSHSSSPEWKEGFT 2031
>gnl|CDD|176031 cd08385, C2A_Synaptotagmin-1-5-6-9-10, C2A domain first repeat
present in Synaptotagmins 1, 5, 6, 9, and 10.
Synaptotagmin is a membrane-trafficking protein
characterized by a N-terminal transmembrane region, a
linker, and 2 C-terminal C2 domains. Synaptotagmin 1, a
member of class 1 synaptotagmins, is located in the
brain and endocranium and localized to the synaptic
vesicles and secretory granules. It functions as a Ca2+
sensor for fast exocytosis as do synaptotagmins 5, 6,
and 10. It is distinguished from the other
synaptotagmins by having an N-glycosylated N-terminus.
Synaptotagmins 5, 6, and 10, members of class 3
synaptotagmins, are located primarily in the brain and
localized to the active zone and plasma membrane. They
is distinguished from the other synaptotagmins by having
disulfide bonds at its N-terminus. Synaptotagmin 6 also
regulates the acrosome reaction, a unique Ca2+-regulated
exocytosis, in sperm. Synaptotagmin 9, a class 5
synaptotagmins, is located in the brain and localized to
the synaptic vesicles. It is thought to be a
Ca2+-sensor for dense-core vesicle exocytosis.
Previously all synaptotagmins were thought to be calcium
sensors in the regulation of neurotransmitter release
and hormone secretion, but it has been shown that not
all of them bind calcium. Of the 17 identified
synaptotagmins only 8 bind calcium (1-3, 5-7, 9, 10).
The function of the two C2 domains that bind calcium
are: regulating the fusion step of synaptic vesicle
exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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-I topology.
Length = 124
Score = 32.6 bits (75), Expect = 0.010
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 8/72 (11%)
Query: 37 PYIELYV--DYKNPKTTRVVKNTYQPKWNEEFTVLVSPYS-----IILFRLLDHRTFRRD 89
PY+++Y+ D K T+V + T P +NE FT V PYS ++F + D F +
Sbjct: 39 PYVKVYLLPDKKKKFETKVHRKTLNPVFNETFTFKV-PYSELGNKTLVFSVYDFDRFSKH 97
Query: 90 CTIGEKRLNTST 101
IGE R+ T
Sbjct: 98 DLIGEVRVPLLT 109
>gnl|CDD|175982 cd04015, C2_plant_PLD, C2 domain present in plant phospholipase D
(PLD). PLD hydrolyzes terminal phosphodiester bonds in
diester glycerophospholipids resulting in the
degradation of phospholipids. In vitro PLD transfers
phosphatidic acid to primary alcohols. In plants PLD
plays a role in germination, seedling growth,
phosphatidylinositol metabolism, and changes in
phospholipid composition. There is a single
Ca(2+)/phospholipid-binding C2 domain in PLD. 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 = 158
Score = 32.3 bits (74), Expect = 0.020
Identities = 13/56 (23%), Positives = 19/56 (33%), Gaps = 4/56 (7%)
Query: 17 LVECAHLRRGGQGGGLLKPNPYIELYVDYKNPKT----TRVVKNTYQPKWNEEFTV 68
LV C+ + Y TRV++N+ P WNE F +
Sbjct: 36 LVGCSEPTLKRPSSHRHVGKITSDPYATVDLAGARVARTRVIENSENPVWNESFHI 91
>gnl|CDD|176036 cd08390, C2A_Synaptotagmin-15-17, C2A domain first repeat present
in Synaptotagmins 15 and 17. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. It is thought to be involved in
the trafficking and exocytosis of secretory vesicles in
non-neuronal tissues and is Ca2+ independent. Human
synaptotagmin 15 has 2 alternatively spliced forms that
encode proteins with different C-termini. The larger,
SYT15a, contains a N-terminal TM region, a putative
fatty-acylation site, and 2 tandem C terminal C2
domains. The smaller, SYT15b, lacks the C-terminal
portion of the second C2 domain. Unlike most other
synaptotagmins it is nearly absent in the brain and
rather is found in the heart, lungs, skeletal muscle,
and testis. Synaptotagmin 17 is located in the brain,
kidney, and prostate and is thought to be a peripheral
membrane protein. Previously all synaptotagmins were
thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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-I topology.
Length = 123
Score = 31.8 bits (73), Expect = 0.022
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 35 PNPYIELYV--DYKNPKTTRVVKNTYQPKWNEEFTVLVS----PYSIILFRLLDHRTFRR 88
+P++++ + D + ++V + T P ++E F VS + + D F R
Sbjct: 36 CDPFVKVCLLPDERRSLQSKVKRKTQNPNFDETFVFQVSFKELQRRTLRLSVYDVDRFSR 95
Query: 89 DCTIGE 94
C IG
Sbjct: 96 HCIIGH 101
>gnl|CDD|176060 cd08678, C2_C21orf25-like, C2 domain found in the Human
chromosome 21 open reading frame 25 (C21orf25) protein.
The members in this cd are named after the Human
C21orf25 which contains a single C2 domain. Several
other members contain a C1 domain downstream of the C2
domain. No other information on this protein is
currently known. 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 = 126
Score = 32.0 bits (73), Expect = 0.023
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 36 NPYIELYVDYKNPK-TTRVVKNTYQPKWNEEFTVLVSPYS-IILFRLLDH 83
NPY L +D K + KNT P W+E F +SP S +LF + D+
Sbjct: 19 NPYCVLEMDEPPQKYQSSTQKNTSNPFWDEHFLFELSPNSKELLFEVYDN 68
>gnl|CDD|176050 cd08405, C2B_Synaptotagmin-7, C2 domain second repeat present in
Synaptotagmin 7. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 7, a member of
class 2 synaptotagmins, is located in presynaptic plasma
membranes in neurons, dense-core vesicles in endocrine
cells, and lysosomes in fibroblasts. It has been shown
to play a role in regulation of Ca2+-dependent lysosomal
exocytosis in fibroblasts and may also function as a
vesicular Ca2+-sensor. It is distinguished from the
other synaptotagmins by having over 12 splice forms.
Previously all synaptotagmins were thought to be calcium
sensors in the regulation of neurotransmitter release
and hormone secretion, but it has been shown that not
all of them bind calcium. Of the 17 identified
synaptotagmins only 8 bind calcium (1-3, 5-7, 9, 10).
The function of the two C2 domains that bind calcium
are: regulating the fusion step of synaptic vesicle
exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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 second C2
repeat, C2B, and has a type-I topology.
Length = 136
Score = 31.6 bits (72), Expect = 0.026
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 34 KPNPYIELYVDYKN----PKTTRVVKNTYQPKWNEEFTVLVSPYSI----ILFRLLDHRT 85
+PY+++++ YK+ K T + K T P +NE F + + ++ ++D
Sbjct: 35 TSDPYVKVWLMYKDKRVEKKKTVIKKRTLNPVFNESFIFNIPLERLRETTLIITVMDKDR 94
Query: 86 FRRDCTIG 93
R+ IG
Sbjct: 95 LSRNDLIG 102
>gnl|CDD|176030 cd08384, C2B_Rabphilin_Doc2, C2 domain second repeat present in
Rabphilin and Double C2 domain. Rabphilin is found
neurons and in neuroendrocrine cells, while Doc2 is
found not only in the brain but in tissues, including
mast cells, chromaffin cells, and osteoblasts.
Rabphilin and Doc2s share highly homologous tandem C2
domains, although their N-terminal structures are
completely different: rabphilin contains an N-terminal
Rab-binding domain (RBD),7 whereas Doc2 contains an
N-terminal Munc13-1-interacting domain (MID). 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 second C2
repeat, C2B, and has a type-I topology.
Length = 133
Score = 31.5 bits (72), Expect = 0.026
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 17 LVECAHLRRGGQGGGLLKPNPYIELYVD---YKNPK-TTRVVKNTYQPKWNEEFT 67
++ C +L G +P+++LY+ K K T+V K T P++NEEF
Sbjct: 19 IIRCVNLAAMDANGY---SDPFVKLYLKPDAGKKSKHKTQVKKKTLNPEFNEEFF 70
>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 = 31.5 bits (72), Expect = 0.031
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 37 PYIELYV--DYKNP--KTTRVVKNTYQPKWNEEFTVLVSP 72
PY++L + D KN + T+ +K T P WNE FT + P
Sbjct: 36 PYVKLKLIPDPKNETKQKTKTIKKTLNPVWNETFTFDLKP 75
>gnl|CDD|176010 cd04045, C2C_Tricalbin-like, C2 domain third repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2 domain
are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane trafficking
and sorting. 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 third C2
repeat, C2C, and has a type-II topology.
Length = 120
Score = 30.6 bits (70), Expect = 0.048
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 29 GGGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTV-LVSPYSIILFRLLDHRTFR 87
G G K +PY+ + V+ T + NT P W+E V + SP I ++D+
Sbjct: 18 GVG--KIDPYVRVLVNGIVKGRTVTISNTLNPVWDEVLYVPVTSPNQKITLEVMDYEKVG 75
Query: 88 RDCTIGEKRLNTS 100
+D ++G +N S
Sbjct: 76 KDRSLGSVEINVS 88
>gnl|CDD|175996 cd04030, C2C_KIAA1228, C2 domain third repeat present in
uncharacterized human KIAA1228-like proteins. KIAA
proteins are uncharacterized human proteins. They were
compiled by the Kazusa mammalian cDNA project which
identified more than 2000 human genes. They are
identified by 4 digit codes that precede the KIAA
designation. Many KIAA genes are still functionally
uncharacterized including KIAA1228. 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 third C2 repeat,
C2C, and has a type-II topology.
Length = 127
Score = 30.7 bits (70), Expect = 0.062
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 9/71 (12%)
Query: 7 YFSSVLQLLQLV--ECAHLRRGGQGGGLLKPNPYIELYV----DYKNPKTTRVVKNTYQP 60
+SS Q L + +C +L P+PY+ LY+ + T V K+ P
Sbjct: 10 RYSSQRQKLIVTVHKCRNLPPCDSSDI---PDPYVRLYLLPDKSKSTRRKTSVKKDNLNP 66
Query: 61 KWNEEFTVLVS 71
++E F VS
Sbjct: 67 VFDETFEFPVS 77
>gnl|CDD|165867 PLN02223, PLN02223, phosphoinositide phospholipase C.
Length = 537
Score = 31.1 bits (70), Expect = 0.067
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 30 GGLLKPNPYIELYV-----DYKNPKTTRVVKNTYQPKWNEEFTV-LVSP-YSIILFRLLD 82
G L KP+ Y+ + + D K KTT V N ++P W EEFT L P ++I F + D
Sbjct: 430 GRLSKPDLYVRISIAGVPHDEKIMKTT-VKNNEWKPTWGEEFTFPLTYPDLALISFEVYD 488
Query: 83 HRTFRRDCTIGEKRLNTS 100
+ D G+ L S
Sbjct: 489 YEVSTADAFCGQTCLPVS 506
>gnl|CDD|176047 cd08402, C2B_Synaptotagmin-1, C2 domain second repeat present in
Synaptotagmin 1. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 1, a member of
the class 1 synaptotagmins, is located in the brain and
endocranium and localized to the synaptic vesicles and
secretory granules. It functions as a Ca2+ sensor for
fast exocytosis. It, like synaptotagmin-2, has an
N-glycosylated N-terminus. Synaptotagmin 4, a member of
class 4 synaptotagmins, is located in the brain. It
functions are unknown. It, like synaptotagmin-11, has
an Asp to Ser substitution in its C2A domain.
Previously all synaptotagmins were thought to be
calcium sensors in the regulation of neurotransmitter
release and hormone secretion, but it has been shown
that not all of them bind calcium. Of the 17
identified synaptotagmins only 8 bind calcium (1-3,
5-7, 9, 10). The function of the two C2 domains that
bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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 second C2
repeat, C2B, and has a type-I topology.
Length = 136
Score = 30.4 bits (69), Expect = 0.081
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 30 GGLLKPNPYIELYVDYK--NPKTTRVVKNTYQPKWNEEFTVLVSPYSI 75
GGL P I L + K K T + K T P +NE F+ V I
Sbjct: 33 GGLSDPYVKIHLMQNGKRLKKKKTTIKKRTLNPYYNESFSFEVPFEQI 80
>gnl|CDD|176027 cd08381, C2B_PI3K_class_II, C2 domain second repeat present in
class II phosphatidylinositol 3-kinases (PI3Ks). There
are 3 classes of PI3Ks based on structure, regulation,
and specificity. All classes contain a N-terminal C2
domain, a PIK domain, and a kinase catalytic domain.
Unlike class I and class III, class II PI3Ks have
additionally a PX domain and a C-terminal C2 domain
containing a nuclear localization signal both of which
bind phospholipids though in a slightly different
fashion. PI3Ks (AKA phosphatidylinositol (PtdIns)
3-kinases) regulate cell processes such as cell growth,
differentiation, proliferation, and motility. PI3Ks work
on phosphorylation of phosphatidylinositol,
phosphatidylinositide (4)P (PtdIns (4)P),2 or
PtdIns(4,5)P2. Specifically they phosphorylate the D3
hydroxyl group of phosphoinositol lipids on the inositol
ring. 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 second C2 repeat, C2B, and
has a type-I topology.
Length = 122
Score = 29.6 bits (67), Expect = 0.12
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 9/69 (13%)
Query: 35 PNPYIELYV----DYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSIILFRLL-----DHRT 85
P+PY++ Y+ + T+VV+ T P +NE P + R+L H +
Sbjct: 33 PDPYVKTYLLPDPQKTTKRKTKVVRKTRNPTFNEMLVYDGLPVEDLQQRVLQVSVWSHDS 92
Query: 86 FRRDCTIGE 94
+ +G
Sbjct: 93 LVENEFLGG 101
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 30.5 bits (69), Expect = 0.13
Identities = 13/54 (24%), Positives = 17/54 (31%), Gaps = 1/54 (1%)
Query: 30 GGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEF-TVLVSPYSIILFRLLD 82
L +P L VD T + P NE V S I ++ D
Sbjct: 77 DCLRSLDPLSVLSVDGLQTSETSFRSSALNPYVNEFLCENDVRLSSSITIQVSD 130
>gnl|CDD|175997 cd04031, C2A_RIM1alpha, C2 domain first repeat contained in
Rab3-interacting molecule (RIM) proteins. RIMs are
believed to organize specialized sites of the plasma
membrane called active zones. They also play a role in
controlling neurotransmitter release, plasticity
processes, as well as memory and learning. RIM
contains an N-terminal zinc finger domain, a PDZ
domain, and two C-terminal C2 domains (C2A, C2B). 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
and do not bind Ca2+.
Length = 125
Score = 29.5 bits (67), Expect = 0.13
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 35 PNPYIELYV----DYKNPKTTRVVKNTYQPKWNEEFT 67
NPY+++Y+ K+ + T+ VK T P+WN+ F
Sbjct: 37 RNPYVKVYLLPDRSEKSKRRTKTVKKTLNPEWNQTFE 73
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 29.5 bits (67), Expect = 0.19
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 6/29 (20%)
Query: 65 EFTVLVS--PYSI---ILFRLLDHRTFRR 88
EF +VS PY I I F+LL H F
Sbjct: 91 EFNKVVSNLPYQISSPITFKLLKHG-FEP 118
>gnl|CDD|176019 cd08373, C2A_Ferlin, C2 domain first repeat in Ferlin. Ferlins
are involved in vesicle fusion events. Ferlins and
other proteins, such as Synaptotagmins, are implicated
in facilitating the fusion process when cell membranes
fuse together. There are six known human Ferlins:
Dysferlin (Fer1L1), Otoferlin (Fer1L2), Myoferlin
(Fer1L3), Fer1L4, Fer1L5, and Fer1L6. Defects in these
genes can lead to a wide range of diseases including
muscular dystrophy (dysferlin), deafness (otoferlin),
and infertility (fer-1, fertilization factor-1).
Structurally they have 6 tandem C2 domains, designated
as (C2A-C2F) and a single C-terminal transmembrane
domain, though there is a new study that disputes this
and claims that there are actually 7 tandem C2 domains
with another C2 domain inserted between C2D and C2E.
In a subset of them (Dysferlin, Myoferlin, and Fer1)
there is an additional conserved domain called DysF. 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 = 29.1 bits (66), Expect = 0.20
Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 13/87 (14%)
Query: 17 LVECAHLRRGGQGGGLLKPNPYIELYVDYKN-PKTTRVVKNTYQPKWNEEF-----TVLV 70
LV G +G K + + V ++ K TRV++N P WNE F
Sbjct: 1 LVVSLKNLPGLKG----KGDRIAK--VTFRGVKKKTRVLENELNPVWNETFEWPLAGSPD 54
Query: 71 SPYSIILFRLLDHRTFRRDCTIGEKRL 97
S+ + + D+ R+ IG +
Sbjct: 55 PDESLEI-VVKDYEKVGRNRLIGSATV 80
>gnl|CDD|175989 cd04022, C2A_MCTP_PRT_plant, C2 domain first repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2
domain proteins that contain two functional TMRs. MCTPs
are unique in that they bind Ca2+ but not
phospholipids. 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 = 28.8 bits (65), Expect = 0.25
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 23 LRRGGQGGGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVS 71
+ + GQG + Y+EL D + +T K+ P WNE+ VS
Sbjct: 13 MPKDGQGSS----SAYVELDFDGQKKRTRTKPKDL-NPVWNEKLVFNVS 56
>gnl|CDD|178538 PLN02952, PLN02952, phosphoinositide phospholipase C.
Length = 599
Score = 29.2 bits (65), Expect = 0.29
Identities = 10/32 (31%), Positives = 21/32 (65%)
Query: 49 KTTRVVKNTYQPKWNEEFTVLVSPYSIILFRL 80
K T+++++ + P WNEEF+ ++ + L R+
Sbjct: 515 KKTKIIEDNWYPAWNEEFSFPLTVPELALLRI 546
>gnl|CDD|176056 cd08521, C2A_SLP, C2 domain first repeat present in
Synaptotagmin-like proteins. All Slp members basically
share an N-terminal Slp homology domain (SHD) and
C-terminal tandem C2 domains (named the C2A domain and
the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A
domains are both Ca2+ independent, unlike the case in
Slp3 and Slp4/granuphilin in which their C2A domains
are Ca2+ dependent. It is thought that SHD (except for
the Slp4-SHD) functions as a specific Rab27A/B-binding
domain. In addition to Slps, rabphilin, Noc2, and
Munc13-4 also function as Rab27-binding proteins. It
has been demonstrated that Slp3 and Slp4/granuphilin
promote dense-core vesicle exocytosis. Slp5 mRNA has
been shown to be restricted to human placenta and liver
suggesting a role in Rab27A-dependent membrane
trafficking in specific tissues. 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-I topology.
Length = 123
Score = 28.4 bits (64), Expect = 0.32
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 34 KPNPYIELYV----DYKNPKTTRVVKNTYQPKWNEEFTVLVS 71
+ NPY+++Y+ ++ + T V KNT P +NE +S
Sbjct: 35 RSNPYVKVYLLPDKSKQSKRKTSVKKNTTNPVFNETLKYHIS 76
>gnl|CDD|176000 cd04035, C2A_Rabphilin_Doc2, C2 domain first repeat present in
Rabphilin and Double C2 domain. Rabphilin is found
neurons and in neuroendrocrine cells, while Doc2 is
found not only in the brain but in tissues, including
mast cells, chromaffin cells, and osteoblasts.
Rabphilin and Doc2s share highly homologous tandem C2
domains, although their N-terminal structures are
completely different: rabphilin contains an N-terminal
Rab-binding domain (RBD),7 whereas Doc2 contains an
N-terminal Munc13-1-interacting domain (MID). 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-I topology.
Length = 123
Score = 28.4 bits (64), Expect = 0.36
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 35 PNPYIELYV----DYKNPKTTRVVKNTYQPKWNEEFT 67
+PY++L + T+ V T P++NE T
Sbjct: 36 SDPYVKLNLLPGASKATKLRTKTVHKTRNPEFNETLT 72
>gnl|CDD|176038 cd08392, C2A_SLP-3, C2 domain first repeat present in
Synaptotagmin-like protein 3. All Slp members basically
share an N-terminal Slp homology domain (SHD) and
C-terminal tandem C2 domains (named the C2A domain and
the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length. SHD of
Slp (except for the Slp4-SHD) function as a specific
Rab27A/B-binding domain. In addition to Slp, rabphilin,
Noc2, and Munc13-4 also function as Rab27-binding
proteins. Little is known about the expression or
localization of Slp3. The C2A domain of Slp3 is Ca2+
dependent. It has been demonstrated that Slp3 promotes
dense-core vesicle exocytosis. 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-I topology.
Length = 128
Score = 28.3 bits (63), Expect = 0.39
Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 34 KPNPYIELYV----DYKNPKTTRVVKNTYQPKWNEEFTVLVSPYSIILFRL----LDHRT 85
K +PY+++ + + + + T V K T P +NE +V + +L RT
Sbjct: 36 KCHPYVKVCLLPDKSHNSKRKTAVKKGTVNPVFNETLKYVVEADLLSSRQLQVSVWHSRT 95
Query: 86 FRRDCTIGE 94
+R +GE
Sbjct: 96 LKRRVFLGE 104
>gnl|CDD|175993 cd04027, C2B_Munc13, C2 domain second 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 second C2 repeat, C2B, and has a
type-II topology.
Length = 127
Score = 28.3 bits (63), Expect = 0.49
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 36 NPYIELYVDYKNPKTTRVVKNTYQPKWNEEF 66
+PY+ + V K K T+ + P WNE+F
Sbjct: 23 DPYVTVQVG-KTKKRTKTIPQNLNPVWNEKF 52
>gnl|CDD|176041 cd08395, C2C_Munc13, C2 domain third 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 third C2 repeat, C2C, and has a
type-II topology.
Length = 120
Score = 28.1 bits (63), Expect = 0.51
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 37 PYIELYV------DYKNPKTTRVVKNTYQPKWNEEFTVLVS 71
P++E+ + D K T+ N + PK+NE F ++
Sbjct: 22 PFVEVNLIGPHLSDKKRKFATKSKNNNWSPKYNETFQFILG 62
>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 = 27.8 bits (62), Expect = 0.60
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 34 KPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFT 67
K N Y+ L V TT V+ + P W ++F
Sbjct: 19 KFNTYVTLKVQ-NVKSTTIAVRGSQ-PCWEQDFM 50
>gnl|CDD|175986 cd04019, C2C_MCTP_PRT_plant, C2 domain third repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2
domain proteins that contain two functional TMRs. MCTPs
are unique in that they bind Ca2+ but not
phospholipids. 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 third C2 repeat, C2C, and has a
type-II topology.
Length = 150
Score = 27.6 bits (62), Expect = 0.71
Identities = 12/63 (19%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 34 KPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLVS-PYSIIL-FRLLDHRTFRRDCT 91
P +++ + + +T P WNEE + + P+ L + D +D
Sbjct: 20 VPEVFVKAQLGNQVLRTRPSQTRNGNPSWNEELMFVAAEPFEDHLILSVEDRVGPNKDEP 79
Query: 92 IGE 94
+G
Sbjct: 80 LGR 82
>gnl|CDD|176058 cd08676, C2A_Munc13-like, C2 domain first repeat in Munc13
(mammalian uncoordinated)-like 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 second C2
repeat, C2B, and has a type-II topology.
Length = 153
Score = 27.3 bits (61), Expect = 0.90
Identities = 9/18 (50%), Positives = 9/18 (50%)
Query: 49 KTTRVVKNTYQPKWNEEF 66
K T V T P WNE F
Sbjct: 91 KVTEVKPQTLNPVWNETF 108
>gnl|CDD|176055 cd08410, C2B_Synaptotagmin-17, C2 domain second repeat present in
Synaptotagmin 17. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 17 is located in
the brain, kidney, and prostate and is thought to be a
peripheral membrane protein. Previously all
synaptotagmins were thought to be calcium sensors in the
regulation of neurotransmitter release and hormone
secretion, but it has been shown that not all of them
bind calcium. Of the 17 identified synaptotagmins only
8 bind calcium (1-3, 5-7, 9, 10). The function of the
two C2 domains that bind calcium are: regulating the
fusion step of synaptic vesicle exocytosis (C2A) and
binding to phosphatidyl-inositol-3,4,5-triphosphate
(PIP3) in the absence of calcium ions and to
phosphatidylinositol bisphosphate (PIP2) in their
presence (C2B). C2B also regulates also the recycling
step of synaptic vesicles. 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 second C2
repeat, C2B, and has a type-I topology.
Length = 135
Score = 27.2 bits (60), Expect = 1.2
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 49 KTTRVVKNTYQPKWNEEFTVLVSPYSI----ILFRLLDHRTFRRDCTIGE 94
K T ++ T P +NE F+ V + ++F + H + IG
Sbjct: 53 KKTSCMRGTIDPFYNESFSFKVPQEELENVSLVFTVYGHNVKSSNDFIGR 102
>gnl|CDD|176025 cd08379, C2D_MCTP_PRT_plant, C2 domain fourth repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2 domain
proteins that contain two functional TMRs. MCTPs are
unique in that they bind Ca2+ but not phospholipids. 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 fourth C2
repeat, C2D, and has a type-II topology.
Length = 126
Score = 26.6 bits (59), Expect = 1.6
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 7/58 (12%)
Query: 51 TRVVKNTYQPKWNEEFTVLV-SPYSIILFRLLDHR------TFRRDCTIGEKRLNTST 101
TR V+++ P+WNE++T V P +++ + D+ + D IG+ R+ ST
Sbjct: 39 TRTVEDSSNPRWNEQYTWPVYDPCTVLTVGVFDNSQSHWKEAVQPDVLIGKVRIRLST 96
>gnl|CDD|175987 cd04020, C2B_SLP_1-2-3-4, C2 domain second repeat present in
Synaptotagmin-like proteins 1-4. All Slp members
basically share an N-terminal Slp homology domain (SHD)
and C-terminal tandem C2 domains (named the C2A domain
and the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A
domains are both Ca2+ independent, unlike the case in
Slp3 and Slp4/granuphilin in which their C2A domains
are Ca2+ dependent. It is thought that SHD (except for
the Slp4-SHD) functions as a specific Rab27A/B-binding
domain. In addition to Slps, rabphilin, Noc2, and
Munc13-4 also function as Rab27-binding proteins. It
has been demonstrated that Slp3 and Slp4/granuphilin
promote dense-core vesicle exocytosis. 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 second C2
repeat, C2B, and has a type-I topology.
Length = 162
Score = 26.9 bits (60), Expect = 1.7
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 19 ECAHLRRGGQGGGLLKPNPYIELYVDY-KNPKT---TRVVKNTYQPKWNEEF 66
E +L GG + +++ Y+ K+ K+ T VVK + P WN F
Sbjct: 35 EAKNLPALKSGGTS---DSFVKCYLLPDKSKKSKQKTPVVKKSVNPVWNHTF 83
>gnl|CDD|176021 cd08375, C2_Intersectin, C2 domain present in Intersectin. A
single instance of the C2 domain is located C
terminally in the intersectin protein. Intersectin
functions as a scaffolding protein, providing a link
between the actin cytoskeleton and the components of
endocytosis and plays a role in signal transduction.
In addition to C2, intersectin contains several
additional domains including: Eps15 homology domains,
SH3 domains, a RhoGEF domain, and a PH domain. 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. The members here have topology I.
Length = 136
Score = 26.6 bits (59), Expect = 1.7
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 14 LLQLVECAHLRRGGQGGGLLKPNPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLV 70
++ +VE L+ G K +PY E+ + + T+VV +T PKWN V
Sbjct: 18 MVVIVEGRDLKPCNSNG---KSDPYCEVSMGSQE-HKTKVVSDTLNPKWNSSMQFFV 70
>gnl|CDD|176007 cd04042, C2A_MCTP_PRT, C2 domain first repeat found in Multiple
C2 domain and Transmembrane region Proteins (MCTP).
MCTPs are involved in Ca2+ signaling at the membrane.
MCTP is composed of a variable N-terminal sequence,
three C2 domains, two transmembrane regions (TMRs), and
a short C-terminal sequence. It is one of four protein
classes that are anchored to membranes via a
transmembrane region; the others being synaptotagmins,
extended synaptotagmins, and ferlins. MCTPs are the
only membrane-bound C2 domain proteins that contain two
functional TMRs. MCTPs are unique in that they bind
Ca2+ but not phospholipids. 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 = 121
Score = 26.5 bits (59), Expect = 1.8
Identities = 8/35 (22%), Positives = 18/35 (51%)
Query: 36 NPYIELYVDYKNPKTTRVVKNTYQPKWNEEFTVLV 70
+PY++ K ++ + P W+E+FT+ +
Sbjct: 22 DPYVKFKYGGKTVYKSKTIYKNLNPVWDEKFTLPI 56
>gnl|CDD|176013 cd04048, C2A_Copine, C2 domain first repeat in Copine. There are
2 copies of the C2 domain present in copine, a protein
involved in membrane trafficking, protein-protein
interactions, and perhaps even cell division and
growth. 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-I topology.
Length = 120
Score = 26.0 bits (58), Expect = 2.4
Identities = 20/83 (24%), Positives = 31/83 (37%), Gaps = 25/83 (30%)
Query: 34 KPNPYIELYVDYKNPKT------TRVVKNTYQPKWNEEFTVLVSPYSI-----ILFRLLD 82
K +P++ +YV T V+KN P + FTV Y + F + D
Sbjct: 20 KSDPFVVVYVKTGGSGQWVEIGRTEVIKNNLNPDFVTTFTV---DYYFEEVQKLRFEVYD 76
Query: 83 HRTFRRD-----------CTIGE 94
+ +D CT+GE
Sbjct: 77 VDSKSKDLSDHDFLGEAECTLGE 99
>gnl|CDD|181265 PRK08170, PRK08170, acetyl-CoA acetyltransferase; Provisional.
Length = 426
Score = 26.5 bits (59), Expect = 2.4
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 8/31 (25%)
Query: 11 VLQLLQLVECAHLRR--------GGQGGGLL 33
VL LL ++ +R GGQGG +L
Sbjct: 392 VLHLLHALKRRGTKRGIAAICIGGGQGGAML 422
>gnl|CDD|176011 cd04046, C2_Calpain, C2 domain present in Calpain proteins. A
single C2 domain is found in calpains (EC 3.4.22.52, EC
3.4.22.53), calcium-dependent, non-lysosomal cysteine
proteases. Caplains are classified as belonging to Clan
CA by MEROPS and include six families: C1, C2, C10, C12,
C28, and C47. 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 = 126
Score = 26.1 bits (58), Expect = 2.5
Identities = 9/51 (17%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 51 TRVVKNTYQPKWNEEFTVLVS-PYSIILFRLLDHRTFRRDCTIGEKRLNTS 100
+ V K+T P+++ + P S I ++ + + +G+ L+
Sbjct: 39 SPVQKDTLSPEFDTQAIFYRKKPRSPIKIQVWNSNLLCDE-FLGQATLSAD 88
>gnl|CDD|176012 cd04047, C2B_Copine, C2 domain second repeat in Copine. There
are 2 copies of the C2 domain present in copine, a
protein involved in membrane trafficking,
protein-protein interactions, and perhaps even cell
division and growth. 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 second C2 repeat, C2B, and has a
type-I topology.
Length = 110
Score = 25.6 bits (57), Expect = 3.0
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 31 GLLKPNPYIELYVDYKNPKT-----TRVVKNTYQPKWNEEFTV 68
K +P++E+ ++ T V+KNT P W FT+
Sbjct: 17 FFGKSDPFLEISRQSEDGTWVLVYRTEVIKNTLNPVWK-PFTI 58
>gnl|CDD|176072 cd08690, C2_Freud-1, C2 domain found in 5' repressor element
under dual repression binding protein-1 (Freud-1).
Freud-1 is a novel calcium-regulated repressor that
negatively regulates basal 5-HT1A receptor expression
in neurons. It may also play a role in the altered
regulation of 5-HT1A receptors associated with anxiety
or major depression. Freud-1 contains two DM-14 basic
repeats, a helix-loop-helix DNA binding domain, and a
C2 domain. The Freud-1 C2 domain is thought to be
calcium insensitive and it lacks several acidic
residues that mediate calcium binding of the PKC C2
domain. In addition, it contains a poly-basic insert
that is not present in calcium-dependent C2 domains and
may function as a nuclear localization signal. 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 = 155
Score = 26.1 bits (58), Expect = 3.0
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 51 TRVVKNTYQPKWNEEFTV 68
T +K+T P++NE F +
Sbjct: 45 TSTIKDTNSPEYNESFKL 62
>gnl|CDD|182615 PRK10646, PRK10646, ADP-binding protein; Provisional.
Length = 153
Score = 25.9 bits (57), Expect = 3.7
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 8/43 (18%)
Query: 4 LQDYFSSVLQLLQLVECAHLRRGGQGGGLLKPNPYIELYVDYK 46
++DYF++ + LVE QG G+L P+P +E+++DY+
Sbjct: 95 IRDYFAN--DAICLVEWPQ-----QGAGVL-PDPDVEIHLDYQ 129
>gnl|CDD|226991 COG4644, COG4644, Transposase and inactivated derivatives, TnpA
family [DNA replication, recombination, and repair].
Length = 323
Score = 25.9 bits (57), Expect = 3.8
Identities = 7/23 (30%), Positives = 8/23 (34%)
Query: 74 SIILFRLLDHRTFRRDCTIGEKR 96
+I L L FRR G
Sbjct: 233 TIFLCNYLSDEDFRRRILEGLNV 255
>gnl|CDD|176004 cd04039, C2_PSD, C2 domain present in Phosphatidylserine
decarboxylase (PSD). PSD is involved in the
biosynthesis of aminophospholipid by converting
phosphatidylserine (PtdSer) to phosphatidylethanolamine
(PtdEtn). There is a single C2 domain present and it is
thought to confer PtdSer binding motif that is common
to PKC and synaptotagmin. 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 = 108
Score = 25.3 bits (56), Expect = 4.3
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 51 TRVVKNTYQPKWNEEFTVLVSP----YSIILFRLLDHRTF 86
T ++T P +NE V P + I F++LD F
Sbjct: 41 TSWRRHTLNPVFNERLAFEVYPHEKNFDIQ-FKVLDKDKF 79
>gnl|CDD|216266 pfam01051, Rep_3, Initiator Replication protein. This protein is
an initiator of plasmid replication. RepB possesses
nicking-closing (topoisomerase I) like activity. It is
also able to perform a strand transfer reaction on ssDNA
that contains its target. This family also includes RepA
which is an E.coli protein involved in plasmid
replication. The RepA protein binds to DNA repeats that
flank the repA gene.
Length = 218
Score = 25.7 bits (57), Expect = 4.6
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 64 EEFTVLVSPYSIILFRLL 81
+EF+ L S YSI L+ LL
Sbjct: 130 KEFSKLKSKYSIRLYELL 147
>gnl|CDD|180892 PRK07220, PRK07220, DNA topoisomerase I; Validated.
Length = 740
Score = 25.9 bits (57), Expect = 4.7
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 35 PNPYIELYVDYKNPKTTRVVKNTYQPKWNEE 65
P PY E+Y +N T V +++ + W +E
Sbjct: 217 PTPYWEIYATLENNGETFVAQHSTRRFWEKE 247
>gnl|CDD|176049 cd08404, C2B_Synaptotagmin-4, C2 domain second repeat present in
Synaptotagmin 4. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 4, a member of
class 4 synaptotagmins, is located in the brain. It
functions are unknown. It, like synaptotagmin-11, has
an Asp to Ser substitution in its C2A domain.
Previously all synaptotagmins were thought to be
calcium sensors in the regulation of neurotransmitter
release and hormone secretion, but it has been shown
that not all of them bind calcium. Of the 17
identified synaptotagmins only 8 bind calcium (1-3,
5-7, 9, 10). The function of the two C2 domains that
bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
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 second C2
repeat, C2B, and has a type-I topology.
Length = 136
Score = 25.5 bits (56), Expect = 4.9
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 36 NPYIELYVDYKN----PKTTRVVKNTYQPKWNEEF 66
+PY+++ + Y K T V K T P +NE F
Sbjct: 37 DPYVKVNLYYGKKRISKKKTHVKKCTLNPVFNESF 71
>gnl|CDD|175984 cd04017, C2D_Ferlin, C2 domain fourth repeat in Ferlin. Ferlins
are involved in vesicle fusion events. Ferlins and
other proteins, such as Synaptotagmins, are implicated
in facilitating the fusion process when cell membranes
fuse together. There are six known human Ferlins:
Dysferlin (Fer1L1), Otoferlin (Fer1L2), Myoferlin
(Fer1L3), Fer1L4, Fer1L5, and Fer1L6. Defects in these
genes can lead to a wide range of diseases including
muscular dystrophy (dysferlin), deafness (otoferlin),
and infertility (fer-1, fertilization factor-1).
Structurally they have 6 tandem C2 domains, designated
as (C2A-C2F) and a single C-terminal transmembrane
domain, though there is a new study that disputes this
and claims that there are actually 7 tandem C2 domains
with another C2 domain inserted between C2D and C2E.
In a subset of them (Dysferlin, Myoferlin, and Fer1)
there is an additional conserved domain called DysF. 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 fourth C2
repeat, C2D, and has a type-II topology.
Length = 135
Score = 24.8 bits (55), Expect = 8.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 49 KTTRVVKNTYQPKWNE 64
+ T V+K T P W++
Sbjct: 35 QETEVIKETLSPTWDQ 50
>gnl|CDD|215108 PLN00222, PLN00222, tubulin gamma chain; Provisional.
Length = 454
Score = 25.2 bits (55), Expect = 8.5
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 57 TYQ--PKWNEEFTVLVSPYSIILFRLLDHRTFRRDCTI 92
TY P E V+V PY+ +L L T DC +
Sbjct: 168 TYSVFPNQMETSDVVVQPYNSLL--TLKRLTLNADCVV 203
>gnl|CDD|239002 cd02047, HCII, Heparin cofactor II (HCII) inhibits thrombin, the
final protease of the coagulation cascade. HCII is
allosterically activated by binding to cell surface
glycosaminoglycans (GAGs). The specificity of HCII for
thrombin is conferred by a highly acidic hirudin-like
N-terminal tail, which becomes available after GAG
binding for interaction with the anion-binding exosite I
of thrombin. This subgroup corresponds to clade D of the
serpin superfamily.
Length = 436
Score = 25.2 bits (55), Expect = 8.8
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 64 EEFTVLVSPYSII----LFRLLDHRTFRRD 89
++F S Y I LFR L HR FRR+
Sbjct: 123 KDFVNASSKYEITTVHNLFRKLTHRLFRRN 152
>gnl|CDD|187565 cd05255, SQD1_like_SDR_e, UDP_sulfoquinovose_synthase (Arabidopsis
thaliana SQD1 and related proteins), extended (e) SDRs.
Arabidopsis thaliana UDP-sulfoquinovose-synthase (
SQD1), an extended SDR, catalyzes the transfer of
SO(3)(-) to UDP-glucose in the biosynthesis of plant
sulfolipids. Members of this subgroup share the
conserved SDR catalytic residues, and a partial match to
the characteristic extended-SDR NAD-binding motif.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 382
Score = 25.0 bits (55), Expect = 9.2
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 35 PNPYIELYVDYKNPKTTRVVKNTYQPKWNEE 65
PNP +E Y N K T+++ +P + E
Sbjct: 323 PNPRVEAEEHYYNAKNTKLLDLGLEPHYLSE 353
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
0.324 0.141 0.431
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: 5,188,676
Number of extensions: 427641
Number of successful extensions: 406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 391
Number of HSP's successfully gapped: 92
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
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: 41 (22.0 bits)
S2: 53 (24.4 bits)