RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16587
(130 letters)
>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 = 75.4 bits (186), Expect = 9e-19
Identities = 35/60 (58%), Positives = 45/60 (75%), Gaps = 1/60 (1%)
Query: 10 VELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLEDPNKPEENLGDIYLSATLYP 69
+ ++VFDYD GL DDFMGSA +DL+TLEL + T++ L LEDPN +E+LG I L TL P
Sbjct: 63 LYIKVFDYDRGLTDDFMGSAFVDLSTLELNKPTEVKLKLEDPNS-DEDLGYISLVVTLTP 121
>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 = 39.5 bits (93), Expect = 5e-05
Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 2/56 (3%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLEDPNKPEENLGDIYLS 64
V++++V+D+D G +DD +GSA IDL+ LE T+L L L+ LG ++L
Sbjct: 62 VLKVEVYDWDRGGKDDLLGSAYIDLSDLEPEETTELTLPLDGQGG--GKLGAVFLP 115
>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 = 38.0 bits (89), Expect = 2e-04
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 5 TSGLVVELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLED 50
G +E+++FD D +DDF+G SIDL ++E D L LED
Sbjct: 65 VPGQELEIELFDEDPD-KDDFLGRLSIDLGSVEKKGFIDEWLPLED 109
>gnl|CDD|176022 cd08376, C2B_MCTP_PRT, C2 domain second 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 second C2
repeat, C2B, and has a type-II topology.
Length = 116
Score = 37.2 bits (87), Expect = 4e-04
Identities = 17/43 (39%), Positives = 27/43 (62%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLEDP 51
++E++V+D D G +D+F+G IDL+ L + L L LED
Sbjct: 62 ILEIEVWDKDTGKKDEFIGRCEIDLSALPREQTHSLELELEDG 104
>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 = 36.7 bits (85), Expect = 5e-04
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLE 37
+ ++V+D D +DDF+G I L+ L
Sbjct: 62 TLTVEVWDKDRFSKDDFLGEVEIPLSELL 90
>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 = 35.9 bits (83), Expect = 0.001
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELG 39
+E++V+D D +DDF+G +I L+ L LG
Sbjct: 65 ELEIEVYDKDRFGRDDFIGQVTIPLSDLLLG 95
>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 = 35.4 bits (82), Expect = 0.003
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 8 LVVELQVFDYDWGLQDDFMGSASIDLTTL 36
++L+VFD D +DD MG A IDL L
Sbjct: 61 APLKLEVFDKDTFSKDDSMGEAEIDLEPL 89
>gnl|CDD|227371 COG5038, COG5038, Ca2+-dependent lipid-binding protein, contains C2
domain [General function prediction only].
Length = 1227
Score = 32.8 bits (75), Expect = 0.035
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLEDPNKPEENLGDIYLSATLY 68
V+ + V D+D G ++D +G+A IDL+ LE G T+ N P + I L TL+
Sbjct: 1103 VLTINVNDWDSGEKNDLLGTAEIDLSKLEPGGTTNS-------NIPLDGKTFIVLDGTLH 1155
Query: 69 P 69
P
Sbjct: 1156 P 1156
Score = 25.9 bits (57), Expect = 8.1
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 12 LQVFDYDWGLQDDFMGSASIDLTTLE 37
L ++D++ D +GS +DL L
Sbjct: 503 LSLYDFNSFKSDKVVGSTQLDLALLH 528
>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 = 30.0 bits (68), Expect = 0.20
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELG 39
V+ LQV DYD ++D +G S+ L ++L
Sbjct: 84 VLYLQVLDYDRFSRNDPIGEVSLPLNKVDLT 114
>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 = 29.7 bits (67), Expect = 0.21
Identities = 13/66 (19%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 7 GLVVELQVFDYDWGLQDDFMGSASIDLT---TLELGRCTDLILTLEDPNKPEENL--GDI 61
+++L ++D D D++G I L +D +TL+ + ++ G+I
Sbjct: 63 NQLLKLILWDKDRFAGKDYLGEFDIALEEVFADGKTGQSDKWITLKSTRPGKTSVVSGEI 122
Query: 62 YLSATL 67
+L +
Sbjct: 123 HLQFSW 128
>gnl|CDD|215765 pfam00168, C2, C2 domain.
Length = 85
Score = 29.2 bits (66), Expect = 0.22
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 9 VVELQVFDYDWGLQDDFMGSAS 30
+ ++V+DYD +DDF+G +
Sbjct: 64 ELRIEVYDYDRFGKDDFIGEVT 85
>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 = 0.39
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLELGRCTDLILTLEDPNK 53
+E+ V DY+ ++ +GSA++ L L ++ L D N
Sbjct: 58 SLEIVVKDYEKVGRNRLIGSATVSLQDLVSEGLLEVTEPLLDSNG 102
>gnl|CDD|176002 cd04037, C2E_Ferlin, C2 domain fifth 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 fifth C2 repeat,
C2E, and has a type-II topology.
Length = 124
Score = 28.7 bits (65), Expect = 0.44
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 10 VELQVFDYDWGLQDDFMGSASIDL 33
+++ V DYD DD +G IDL
Sbjct: 65 LKISVMDYDLLGSDDLIGETVIDL 88
>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 = 28.1 bits (63), Expect = 0.89
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 12 LQVFDYDWGLQDDFMGSASIDLTTL-ELGR 40
L++ D D DDF+G A+I L L E G
Sbjct: 70 LRIMDKDNFSDDDFIGEATIHLKGLFEEGV 99
>gnl|CDD|185171 PRK15263, PRK15263, putative fimbrial protein StaE; Provisional.
Length = 196
Score = 27.8 bits (62), Expect = 1.4
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 27 GSASIDLT---TLELGRCTDLILTLEDPNKPEENLGDIYLS 64
G+ S+ LT T+E+G CT ++ D GD+Y+S
Sbjct: 23 GTDSLGLTVNTTVEMGTCTAQLVDDSDTPISTIAFGDVYIS 63
>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 = 27.3 bits (61), Expect = 1.5
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 7/30 (23%)
Query: 11 ELQVFDYDWGLQDDFMGSASIDLTTLELGR 40
E+ V+D D G +D++G L+LG
Sbjct: 84 EITVWDKDIGKSNDYIGG-------LQLGI 106
>gnl|CDD|176064 cd08682, C2_Rab11-FIP_classI, C2 domain found in Rab11-family
interacting proteins (FIP) class I. Rab GTPases
recruit various effector proteins to organelles and
vesicles. Rab11-family interacting proteins (FIPs) are
involved in mediating the role of Rab11. FIPs can be
divided into three classes: class I FIPs (Rip11a,
Rip11b, RCP, and FIP2) which contain a C2 domain after
N-terminus of the protein, class II FIPs (FIP3 and
FIP4) which contain two EF-hands and a proline rich
region, and class III FIPs (FIP1) which exhibits no
homology to known protein domains. All FIP proteins
contain a highly conserved, 20-amino acid motif at the
C-terminus of the protein, known as Rab11/25 binding
domain (RBD). Class I FIPs are thought to bind to
endocytic membranes via their C2 domain, which
interacts directly with phospholipids. Class II FIPs do
not have any membrane binding domains leaving much to
speculate about the mechanism involving FIP3 and FIP4
interactions with endocytic membranes. The members in
this CD are class I FIPs. The exact function of the
Rab11 and FIP interaction is unknown, but there is
speculation that it involves the role of forming a
targeting complex that recruits a group of proteins
involved in membrane transport to organelles. 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 = 27.0 bits (60), Expect = 2.3
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTTLE 37
++L V + D F+G SI L L+
Sbjct: 66 TLQLTVMHRNLLGLDKFLGQVSIPLNDLD 94
>gnl|CDD|116179 pfam07560, DUF1539, Domain of Unknown Function (DUF1539).
Length = 126
Score = 26.6 bits (59), Expect = 2.7
Identities = 14/36 (38%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 70 RSQEDRDQEASGTSESYSQKCTDLILTLEDPNKPEE 105
S ED E S K LIL L+DP P E
Sbjct: 52 TSPEDESHEDQALFRSTMHK---LILALKDPTIPTE 84
>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 = 26.0 bits (58), Expect = 4.2
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 12 LQVFDYDWGLQDDFMGSASIDLTTLE 37
L V+D++ +D +G+A DL++L
Sbjct: 69 LTVYDFNDKRKDKLIGTAEFDLSSLL 94
>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 = 26.1 bits (58), Expect = 4.8
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 9 VVELQVFDYDWGLQDDFMGSASIDLTT 35
+E+ V+DYD ++DF+G IDL
Sbjct: 86 TLEVTVWDYDRDGENDFLGEVVIDLAD 112
>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 = 25.7 bits (57), Expect = 6.2
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 8 LVVELQVFDYDWGLQDDFMGSASIDLTTLE 37
L +E V+D+D ++DFMGS S ++ L
Sbjct: 82 LSIE--VWDWDRTTRNDFMGSLSFGVSELI 109
>gnl|CDD|180908 PRK07252, PRK07252, hypothetical protein; Provisional.
Length = 120
Score = 25.4 bits (56), Expect = 7.6
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 5/28 (17%)
Query: 10 VELQVFDYDWGLQDDFMGSASIDLTTLE 37
V +QV D+D ++ G AS+ L TLE
Sbjct: 54 VLVQVVDFD-----EYTGKASLSLRTLE 76
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
0.310 0.132 0.376
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: 6,332,960
Number of extensions: 527118
Number of successful extensions: 274
Number of sequences better than 10.0: 1
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 31
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.4 bits)