RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4890
(364 letters)
>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 = 150 bits (380), Expect = 8e-45
Identities = 48/100 (48%), Positives = 71/100 (71%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFP 280
+RVY+VRA L PKD +GK DPY+ +K G +INDR+NY+ N +NP FG+ FE++ + P
Sbjct: 1 LVRVYVVRARNLQPKDPNGKSDPYLKIKLGKKKINDRDNYIPNTLNPVFGKMFELEATLP 60
Query: 281 TDAKLTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSC 320
++ L + + D+D + DD IG T +DLE RF+S+HR +C
Sbjct: 61 GNSILKISVMDYDLLGSDDLIGETVIDLEDRFFSKHRATC 100
>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 = 75.6 bits (186), Expect = 5e-17
Identities = 32/89 (35%), Positives = 46/89 (51%), Gaps = 1/89 (1%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPT 281
+RV ++ A L KD +GK DPY+ + G + + V N +NP + FE P
Sbjct: 1 LRVTVIEARNLPAKDLNGKSDPYVKVSLGGKQKF-KTKVVKNTLNPVWNETFEFPVLDPE 59
Query: 282 DAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
LTVE+ D D SKDD++G E+ L
Sbjct: 60 SDTLTVEVWDKDRFSKDDFLGEVEIPLSE 88
>gnl|CDD|215765 pfam00168, C2, C2 domain.
Length = 85
Score = 73.5 bits (181), Expect = 2e-16
Identities = 29/85 (34%), Positives = 48/85 (56%), Gaps = 1/85 (1%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRE-NYVTNQINPYFGRHFEIQGSFP 280
+RV ++ A L PKD +GK DPY+ + G + + ++ V N +NP + F + + P
Sbjct: 1 LRVTVISAKNLPPKDLNGKSDPYVKVSLGGQKKDTKKTKVVKNTLNPVWNETFTFEVTLP 60
Query: 281 TDAKLTVEIKDHDSVSKDDYIGMTE 305
A+L +E+ D+D KDD+IG
Sbjct: 61 ELAELRIEVYDYDRFGKDDFIGEVT 85
>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 = 67.9 bits (166), Expect = 2e-14
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 1/91 (1%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRE-NYVTNQINPYFGRHFEIQGSF 279
T+ V I+ A L PKDK GK DPY+ + ++ V N +NP + FE +
Sbjct: 1 TLTVKIISARNLPPKDKGGKSDPYVKVSLDGDPKEKKKTKVVKNTLNPVWNETFEFEVPP 60
Query: 280 PTDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
P A+L +E+ D D +DD+IG + L
Sbjct: 61 PELAELEIEVYDKDRFGRDDFIGQVTIPLSD 91
>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 = 62.1 bits (151), Expect = 5e-12
Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 222 IRVYIVRAYGLHPKD--KDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSF 279
+RV++V A L KD GK DPY +L G+ + + N +NP + E
Sbjct: 3 LRVHVVEAKDLAAKDRSGKGKSDPYAILSVGAQRF--KTQTIPNTLNPKWNYWCEFPIFS 60
Query: 280 PTDAKLTVEIKDHDSVSKDDYIGMTEMDLESRF 312
+ L + + D D + DY+G ++ LE F
Sbjct: 61 AQNQLLKLILWDKDRFAGKDYLGEFDIALEEVF 93
>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 = 52.2 bits (126), Expect = 1e-08
Identities = 27/93 (29%), Positives = 42/93 (45%), Gaps = 9/93 (9%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQI----NPYFGRHFEIQG 277
+ V ++ A L D++GK DP++ +N + + T I NP + FE+
Sbjct: 1 LTVDVISAENLPSADRNGKSDPFVK-----FYLNGEKVFKTKTIKKTLNPVWNESFEVPV 55
Query: 278 SFPTDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
A L VE+ D D KDD +G +DL
Sbjct: 56 PSRVRAVLKVEVYDWDRGGKDDLLGSAYIDLSD 88
>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 = 48.8 bits (117), Expect = 2e-07
Identities = 25/96 (26%), Positives = 41/96 (42%), Gaps = 5/96 (5%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVL--KTGSVEINDRENYVTNQINPYFGRHFEIQGS 278
TIR IVRA L +G DPY+ L G I + + + +NP + FE++
Sbjct: 4 TIR--IVRAENLKADSSNGLSDPYVTLVDTNGKRRIA-KTRTIYDTLNPRWDEEFELEVP 60
Query: 279 FPTDAKLTVEIKDHDSVSKDDYIGMTEMDLESRFYS 314
++ + D V K D G + L+ + +
Sbjct: 61 AGEPLWISATVWDRSFVGKHDLCGRASLKLDPKRFG 96
>gnl|CDD|227371 COG5038, COG5038, Ca2+-dependent lipid-binding protein, contains C2
domain [General function prediction only].
Length = 1227
Score = 51.3 bits (123), Expect = 5e-07
Identities = 26/105 (24%), Positives = 47/105 (44%), Gaps = 12/105 (11%)
Query: 211 ESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQI----N 266
E ++N + + + + L D++G DP++ L +N++ Y T + N
Sbjct: 1034 EMVEN---SGYLTIMLRSGENLPSSDENGYSDPFVKLF-----LNEKSVYKTKVVKKTLN 1085
Query: 267 PYFGRHFEIQGSFPTDAKLTVEIKDHDSVSKDDYIGMTEMDLESR 311
P + F I+ LT+ + D DS K+D +G E+DL
Sbjct: 1086 PVWNEEFTIEVLNRVKDVLTINVNDWDSGEKNDLLGTAEIDLSKL 1130
Score = 37.4 bits (87), Expect = 0.012
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 4/89 (4%)
Query: 222 IRVYIVRAYGLHPKDK--DGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSF 279
+ V I A GL D +G DPYI + I + N +NP + F I
Sbjct: 438 VEVKIKSAEGLKKSDSTINGTVDPYITVTFSDRVIG-KTRVKKNTLNPVWNETFYIL-LN 495
Query: 280 PTDAKLTVEIKDHDSVSKDDYIGMTEMDL 308
L + + D +S D +G T++DL
Sbjct: 496 SFTDPLNLSLYDFNSFKSDKVVGSTQLDL 524
>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 = 46.5 bits (111), Expect = 2e-06
Identities = 24/95 (25%), Positives = 37/95 (38%), Gaps = 19/95 (20%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENY----------VTNQINPYFGR 271
+RV I+ A L P D +G DP++ VE+ R + + P F
Sbjct: 18 LRVEILNARNLLPLDSNGSSDPFVK-----VELLPRHLFPDVPTPKTQVKKKTLFPLFDE 72
Query: 272 HFEIQGSFPT----DAKLTVEIKDHDSVSKDDYIG 302
FE A L +KD+D + +D+ G
Sbjct: 73 SFEFNVPPEQCSVEGALLLFTVKDYDLLGSNDFEG 107
>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 = 44.7 bits (106), Expect = 6e-06
Identities = 32/110 (29%), Positives = 52/110 (47%), Gaps = 11/110 (10%)
Query: 207 GALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQI- 265
G L S++ +K + V +++A L P+D G DPY ++ + DR N ++I
Sbjct: 3 GELHFSLEYDKDMGILNVKLIQARNLQPRDFSGTADPYCKVRL----LPDRSNTKQSKIH 58
Query: 266 ----NPYFGRHFEIQGSFPTDAKLTVEIK--DHDSVSKDDYIGMTEMDLE 309
NP F F + K T+E+ D D S+D+ IG+ E+ L
Sbjct: 59 KKTLNPEFDESFVFEVPPQELPKRTLEVLLYDFDQFSRDECIGVVELPLA 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 = 43.8 bits (104), Expect = 1e-05
Identities = 25/103 (24%), Positives = 48/103 (46%), Gaps = 15/103 (14%)
Query: 222 IRVYIVRAYGLHPKD------KDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEI 275
+R++++ A L KD GK DPY++++ G+ + + +NP + +E
Sbjct: 3 LRIHVIEAQDLVAKDKFVGGLVKGKSDPYVIVRVGAQTF--KSKVIKENLNPKWNEVYE- 59
Query: 276 QGSFPTDA---KLTVEIKDHDSVSKDDYIGMTEMDLESRFYSR 315
+ + +L +E+ D D KDD++G +DL S
Sbjct: 60 --AVVDEVPGQELEIELFDED-PDKDDFLGRLSIDLGSVEKKG 99
>gnl|CDD|175991 cd04025, C2B_RasA1_RasA4, C2 domain second repeat present in RasA1
and RasA4. RasA1 and RasA4 are GAP1s (GTPase activating
protein 1s ), Ras-specific GAP members, which 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 proteins contain 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 second C2
repeat, C2B, and has a type-I topology.
Length = 123
Score = 43.6 bits (103), Expect = 1e-05
Identities = 25/90 (27%), Positives = 45/90 (50%), Gaps = 4/90 (4%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQIN-PYFGRHFEIQGSF 279
+R +++ A L PKD++G DP++ + E V + P + FE +
Sbjct: 1 RLRCHVLEARDLAPKDRNGTSDPFVRVFYNG---QTLETSVVKKSCYPRWNEVFEFELME 57
Query: 280 PTDAKLTVEIKDHDSVSKDDYIGMTEMDLE 309
D+ L+VE+ D D VSK+D++G ++
Sbjct: 58 GADSPLSVEVWDWDLVSKNDFLGKVVFSIQ 87
>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 = 43.1 bits (102), Expect = 2e-05
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 8/94 (8%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQI--NPYFGRHFEIQGS 278
T+ V ++ A GL D GK DPY++++ + E R++ V NP + F+
Sbjct: 2 TLEVLLISAKGLQDTDFLGKIDPYVIIQCRTQE---RKSKVAKGDGRNPEWNEKFKFTVE 58
Query: 279 FP---TDAKLTVEIKDHDSVSKDDYIGMTEMDLE 309
+P D KL + I D D+ S DD+IG + L+
Sbjct: 59 YPGWGGDTKLILRIMDKDNFSDDDFIGEATIHLK 92
>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 = 42.7 bits (101), Expect = 5e-05
Identities = 40/141 (28%), Positives = 61/141 (43%), Gaps = 21/141 (14%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPT 281
++V +VR L +D DPY+VL G+ ++ R + +NP + E+ S P
Sbjct: 4 LKVRVVRGTNLAVRDFTSS-DPYVVLTLGNQKVKTR--VIKKNLNPVWNE--ELTLSVPN 58
Query: 282 DAK-LTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTSDLEVSGSSPGEVLPG 340
L +E+ D D+ SKDD +G E+DLE + R T +VLP
Sbjct: 59 PMAPLKLEVFDKDTFSKDDSMGEAEIDLEP-LVEAAKLDHLRDTPGGTQI----KKVLPS 113
Query: 341 ----------ITLQSGEINSD 351
IT + G+I D
Sbjct: 114 VENCLASESHITWKDGKIVQD 134
>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 = 42.1 bits (99), Expect = 5e-05
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 14/119 (11%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQ--GS 278
++ + IV L KD G DPY ++K + E+ R V +NP++G + +
Sbjct: 1 SLYIRIVEGKNLPAKDITGSSDPYCIVKVDN-EVIIRTATVWKTLNPFWGEEYTVHLPPG 59
Query: 279 FPTDAKLTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTS------DLEVSG 331
F T ++ + D D++S+DD IG ++ L S H W + D EV G
Sbjct: 60 FHT---VSFYVLDEDTLSRDDVIG--KVSLTREVISAHPRGIDGWMNLTEVDPDEEVQG 113
>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 = 41.2 bits (97), Expect = 1e-04
Identities = 33/123 (26%), Positives = 54/123 (43%), Gaps = 3/123 (2%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPT 281
+ V IV L P + +GK DPY + GS E + V++ +NP + +
Sbjct: 17 LMVVIVEGRDLKPCNSNGKSDPYCEVSMGSQE--HKTKVVSDTLNPKWNSSMQFFVKDLE 74
Query: 282 DAKLTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTSDLEVSGSSPGEVLPGI 341
L + + D D S DD++G TE+ + + + S T L + GEV+ +
Sbjct: 75 QDVLCITVFDRDFFSPDDFLGRTEIRV-ADILKETKESKGPITKRLLLHEVPTGEVVVKL 133
Query: 342 TLQ 344
LQ
Sbjct: 134 DLQ 136
>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 = 41.0 bits (97), Expect = 1e-04
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 9/92 (9%)
Query: 226 IVRAYGLHPKDKDGKCDPYIVLKTGSVEIN-----DRENYVTNQINPYFGRHFEIQGSFP 280
+ L KD K DP++V+ + R + N +NP F F + F
Sbjct: 6 SISCRNLLDKDVLSKSDPFVVVYVKTGGSGQWVEIGRTEVIKNNLNPDFVTTFTVDYYFE 65
Query: 281 TDAKLTVEIKDHDS----VSKDDYIGMTEMDL 308
KL E+ D DS +S D++G E L
Sbjct: 66 EVQKLRFEVYDVDSKSKDLSDHDFLGEAECTL 97
>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 = 40.2 bits (94), Expect = 3e-04
Identities = 33/113 (29%), Positives = 49/113 (43%), Gaps = 25/113 (22%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPT 281
I + +V A GL KDK G DPY+ ++ G + R + +NP + F + +
Sbjct: 3 ISITVVCAQGLIAKDKTGTSDPYVTVQVGKTK--KRTKTIPQNLNPVWNEKFHFECHNSS 60
Query: 282 D-AKLTVEIKDHDSVSK---------DDYIGMT---------EMD----LESR 311
D K+ V +D D S+ DD++G T EMD LE R
Sbjct: 61 DRIKVRVWDEDDDIKSRLKQKFTRESDDFLGQTIIEVRTLSGEMDVWYNLEKR 113
>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 = 39.1 bits (92), Expect = 5e-04
Identities = 27/88 (30%), Positives = 49/88 (55%), Gaps = 4/88 (4%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYI-VLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFP 280
+R++I +A L + GK DPY+ VL G V+ R ++N +NP + + + P
Sbjct: 3 LRLHIRKANDLKNLEGVGKIDPYVRVLVNGIVK--GRTVTISNTLNPVWDEVLYVPVTSP 60
Query: 281 TDAKLTVEIKDHDSVSKDDYIGMTEMDL 308
K+T+E+ D++ V KD +G E+++
Sbjct: 61 NQ-KITLEVMDYEKVGKDRSLGSVEINV 87
>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 = 38.5 bits (90), Expect = 0.001
Identities = 30/119 (25%), Positives = 46/119 (38%), Gaps = 11/119 (9%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPY--IVLKTGSVEINDRENYVT-NQINPYFGRHFEIQG 277
+ V I+ A L D G DPY I L + ++ + +NPY+ F +
Sbjct: 16 KLTVVILEAKNLKKMDVGGLSDPYVKIHLMQNGKRLKKKKTTIKKRTLNPYYNESFSFEV 75
Query: 278 SFPT--DAKLTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTSDLEVSGSSP 334
F L V + D+D + K+D IG + G+ R SD+ S P
Sbjct: 76 PFEQIQKVHLIVTVLDYDRIGKNDPIG------KVVLGCNATGAELRHWSDMLASPRRP 128
>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 = 38.2 bits (89), Expect = 0.001
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 9/89 (10%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPY--IVLKTGSVEINDRENYV-TNQINPYFGRHFEIQG 277
I V I++A L D +G DPY + L + ++ + +NP F F
Sbjct: 16 RITVNIIKARNLKAMDINGTSDPYVKVWLMYKDKRVEKKKTVIKKRTLNPVFNESFIFN- 74
Query: 278 SFPT----DAKLTVEIKDHDSVSKDDYIG 302
P + L + + D D +S++D IG
Sbjct: 75 -IPLERLRETTLIITVMDKDRLSRNDLIG 102
>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 = 38.1 bits (89), Expect = 0.001
Identities = 29/114 (25%), Positives = 54/114 (47%), Gaps = 18/114 (15%)
Query: 207 GALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPY--IVLKTGSVEINDRENYVTNQ 264
G +Q S+ + T+ + I++A L KD G DP+ I L + D+++ + +
Sbjct: 3 GRIQFSVSYDFQESTLTLKILKAVELPAKDFSGTSDPFVKIYL------LPDKKHKLETK 56
Query: 265 I-----NPYFGRHFEIQGSFP----TDAKLTVEIKDHDSVSKDDYIGMTEMDLE 309
+ NP++ F +G FP L +++ D+D S++D IG + L
Sbjct: 57 VKRKNLNPHWNETFLFEG-FPYEKLQQRVLYLQVLDYDRFSRNDPIGEVSLPLN 109
>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 = 37.2 bits (87), Expect = 0.002
Identities = 21/95 (22%), Positives = 37/95 (38%), Gaps = 5/95 (5%)
Query: 221 TIRVYIVRAYGLHPKDKD-GKCDPYIVLK-TGSVEINDRENYVTNQINPYFGRHFEIQGS 278
+ V I RA L D G DPY+ + + +NP + + + +
Sbjct: 2 VLVVTIHRATDLPKADFGTGSSDPYVTASFAKFGKPLYSTRIIRKDLNPVWEETWFVLVT 61
Query: 279 ---FPTDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
+L+ + D D + DD +G E+DL+
Sbjct: 62 PDEVKAGERLSCRLWDSDRFTADDRLGRVEIDLKE 96
>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 = 0.002
Identities = 26/97 (26%), Positives = 44/97 (45%), Gaps = 14/97 (14%)
Query: 218 VNVTIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENY----VTNQINPYFGRHF 273
V + + V L P D +G DPY+ + G+ E Y + +NP + F
Sbjct: 2 VTIVL----VEGKNLPPMDDNGLSDPYVKFRLGN------EKYKSKVCSKTLNPQWLEQF 51
Query: 274 EIQGSFPTDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
++ L +E+ D D+ KD++IG E+DL +
Sbjct: 52 DLHLFDDQSQILEIEVWDKDTGKKDEFIGRCEIDLSA 88
>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 = 37.1 bits (87), Expect = 0.003
Identities = 27/97 (27%), Positives = 39/97 (40%), Gaps = 18/97 (18%)
Query: 220 VTIRVYIVRAYGLHP--KDKDGKCDPYIVLKTGSVEI-----NDRENYVT-----NQINP 267
+T+ + I+ L DK DPY+ VEI +D + T N NP
Sbjct: 2 LTLTIKIISGQQLPKPKGDKGSIVDPYV-----EVEIHGLPADDSAKFKTKVVKNNGFNP 56
Query: 268 YFGRHFEIQGSFPTDAKLTVEIKDHDSVSKDDYIGMT 304
+ FE + P A L + D DS DD++G
Sbjct: 57 VWNETFEFDVTVPELAFLRFVVYDEDS-GDDDFLGQA 92
>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 = 36.8 bits (86), Expect = 0.004
Identities = 25/90 (27%), Positives = 35/90 (38%), Gaps = 2/90 (2%)
Query: 222 IRVYIVRAYGLHPKDK-DGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFP 280
+ V I A GL D G DPY+ + R + NP + I +
Sbjct: 4 LAVTIKSARGLKGSDIIGGTVDPYVTFSISNRRELARTKVKKDTSNPVWNETKYILVNSL 63
Query: 281 TDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
T+ L + + D + KD IG E DL S
Sbjct: 64 TE-PLNLTVYDFNDKRKDKLIGTAEFDLSS 92
>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 = 35.3 bits (82), Expect = 0.011
Identities = 21/97 (21%), Positives = 41/97 (42%), Gaps = 16/97 (16%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQI----NPYFGRHFEIQ 276
+ +++ L +D+ G DPY+ K + Y + I NP + F
Sbjct: 1 QLDIHLKEGRNLAARDRGGTSDPYVKFK-----YGGKTVYKSKTIYKNLNPVWDEKF--- 52
Query: 277 GSFPTD---AKLTVEIKDHDSVSKDDYIGMTEMDLES 310
+ P + L +++ D+D DD++G +DL +
Sbjct: 53 -TLPIEDVTQPLYIKVFDYDRGLTDDFMGSAFVDLST 88
>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 = 35.0 bits (81), Expect = 0.012
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 6/91 (6%)
Query: 222 IRVYIVRAYGLHPKDK-DGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRH---FEIQG 277
++V +V A L D+ D ++ +K GS + + V +NP + FE+
Sbjct: 1 LKVRVVAARDLPVMDRSSDLTDAFVEVKFGSTT--YKTDVVKKSLNPVWNSEWFRFEVDD 58
Query: 278 SFPTDAKLTVEIKDHDSVSKDDYIGMTEMDL 308
D L + + DHD+ S +D IG +DL
Sbjct: 59 EELQDEPLQIRVMDHDTYSANDAIGKVYIDL 89
>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 = 35.0 bits (81), Expect = 0.013
Identities = 29/108 (26%), Positives = 44/108 (40%), Gaps = 7/108 (6%)
Query: 207 GALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVLK---TGSVEINDRENYVTN 263
G L+ ++ + N + I+RA GL D +G DPY+ L S R V
Sbjct: 2 GTLEFTLLYDPANSALHCTIIRAKGLKAMDANGLSDPYVKLNLLPGASKATKLRTKTVHK 61
Query: 264 QINPYFGRHFEIQGSFPTDAK---LTVEIKDHDSVSKDDYIGMTEMDL 308
NP F G D + L + + D D +D++G T + L
Sbjct: 62 TRNPEFNETLTYYGITEEDIQRKTLRLLVLDEDRFG-NDFLGETRIPL 108
>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 = 35.4 bits (82), Expect = 0.013
Identities = 26/93 (27%), Positives = 43/93 (46%), Gaps = 5/93 (5%)
Query: 224 VYIVRAYGLHPKDKDGKCDPY--IVLKTGSVEINDRENYVTNQ-INPYFGRHFEIQGSFP 280
V I+R L D +G DP+ + LK + + + + V + +NP F F
Sbjct: 17 VGIIRCVNLAAMDANGYSDPFVKLYLKPDAGKKSKHKTQVKKKTLNPEFNEEFFYDIKHS 76
Query: 281 TDAKLTVEIK--DHDSVSKDDYIGMTEMDLESR 311
AK T+EI D D +DYIG ++ + ++
Sbjct: 77 DLAKKTLEITVWDKDIGKSNDYIGGLQLGINAK 109
>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 = 34.8 bits (81), Expect = 0.014
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 15/90 (16%)
Query: 227 VRAYGLHPKDKDGKCDPYIVLKTGSVEIND-------RENYVTNQINPYFGRHFEIQ--- 276
L KD GK DP++ + S + D R + N +NP + + F I
Sbjct: 7 FSGKKLDKKDFFGKSDPFLEI---SRQSEDGTWVLVYRTEVIKNTLNPVW-KPFTIPLQK 62
Query: 277 -GSFPTDAKLTVEIKDHDSVSKDDYIGMTE 305
+ D + +E+ D+DS K D IG E
Sbjct: 63 LCNGDYDRPIKIEVYDYDSSGKHDLIGEFE 92
>gnl|CDD|176020 cd08374, C2F_Ferlin, C2 domain sixth 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 sixth C2
repeat, C2E, and has a type-II topology.
Length = 133
Score = 35.3 bits (82), Expect = 0.015
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 282 DAKLTVEIKDHDSVSKDDYIGMTEMDL 308
KLT+++ D+D S DD++G E+DL
Sbjct: 92 PPKLTLQVWDNDKFSPDDFLGSLELDL 118
>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 = 34.9 bits (81), Expect = 0.016
Identities = 26/98 (26%), Positives = 46/98 (46%), Gaps = 8/98 (8%)
Query: 209 LQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVLK---TGSVEINDRENYVTNQI 265
L+ S+ + K+ V +R A L P D +G DPY+ LK E + + +
Sbjct: 6 LKISVKDNKLTVEVR----EAKNLIPMDPNGLSDPYVKLKLIPDPKNETKQKTKTIKKTL 61
Query: 266 NPYFGRHFEIQ-GSFPTDAKLTVEIKDHDSVSKDDYIG 302
NP + F D +L++E+ D D +++D++G
Sbjct: 62 NPVWNETFTFDLKPADKDRRLSIEVWDWDRTTRNDFMG 99
>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 = 34.9 bits (81), Expect = 0.016
Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 23/93 (24%)
Query: 224 VYIVRAYGLHPKDKDGKCDPYIVL------------KTGSVEINDRENYVTNQINPYFGR 271
V +++A L P D G DPY+ + KT +NP F
Sbjct: 18 VVVLKARNLPPSDGKGLSDPYVKVSLLQGGKKLKKKKTSV---------KKGTLNPVFNE 68
Query: 272 H--FEIQGSFPTDAKLTVEIKDHDSVSKDDYIG 302
F++ + L + + D DSV +++ IG
Sbjct: 69 AFSFDVPAEQLEEVSLVITVVDKDSVGRNEVIG 101
>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 = 35.0 bits (81), Expect = 0.018
Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 6/92 (6%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYV-TNQI----NPYFGRHFEIQ 276
+RV ++ L KD G DPY+ + + N + V T I NP + F +
Sbjct: 2 LRVKVLAGIDLAKKDIFGASDPYVKISLYDPDGNGEIDSVQTKTIKKTLNPKWNEEFFFR 61
Query: 277 GSFPTDAKLTVEIKDHDSVSKDDYIGMTEMDL 308
+ P + +L E+ D + +++DD++G E+ L
Sbjct: 62 VN-PREHRLLFEVFDENRLTRDDFLGQVEVPL 92
>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 = 34.0 bits (78), Expect = 0.038
Identities = 24/113 (21%), Positives = 45/113 (39%), Gaps = 20/113 (17%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSF-- 279
++V +++A GL K K G D Y++++ G +E Y T+ ++ + SF
Sbjct: 1 VQVTVLQARGLLCKGKSGTNDAYVIIQLG------KEKYSTSVKEKTTSPVWKEECSFEL 54
Query: 280 -------PTDAKLTVEIKDHDSVSKDDYIGMTEMDLES--RFYSRHRGSCARW 323
A L + + + + D ++G + L R R RW
Sbjct: 55 PGLLSGNGNRATLQLTVMHRNLLGLDKFLGQVSIPLNDLDEDKGRRR---TRW 104
>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 = 33.8 bits (78), Expect = 0.040
Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 11/103 (10%)
Query: 207 GALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDR-ENYVT--- 262
G LQ S+D + + + V I++A L D G DPY+ + + D+ + + T
Sbjct: 3 GKLQFSLDYDFQSNQLTVGIIQAADLPAMDMGGTSDPYVKVYL----LPDKKKKFETKVH 58
Query: 263 -NQINPYFGRHFEIQGSFP--TDAKLTVEIKDHDSVSKDDYIG 302
+NP F F + + + L + D D SK D IG
Sbjct: 59 RKTLNPVFNETFTFKVPYSELGNKTLVFSVYDFDRFSKHDLIG 101
>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 = 34.3 bits (79), Expect = 0.043
Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 31/130 (23%)
Query: 208 ALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYIVL-------------------- 247
L+ + E ++V ++ A GL KD +G DPY +L
Sbjct: 16 LLERVREAEPPIFVLKVTVIEAKGLLAKDVNGFSDPYCMLGIVPASRERNSEKSKKRKSH 75
Query: 248 KTGSVE---INDRENYVTNQI----NPYFGRHFEIQGSFPTDAKLTVEIKDHDSVSKDDY 300
+ +V + + VT NP + F + ++ +L ++I DHD DD+
Sbjct: 76 RKKAVLKDTVPAKSIKVTEVKPQTLNPVWNETFRFEVEDVSNDQLHLDIWDHD----DDF 131
Query: 301 IGMTEMDLES 310
+G + L+
Sbjct: 132 LGCVNIPLKD 141
>gnl|CDD|176023 cd08377, C2C_MCTP_PRT, C2 domain third repeat found in Multiple C2
domain and Transmembrane region Proteins (MCTP). MCTPs
are involved in Ca2+ signaling at the membrane. The cds
in this family contain multiple C2 domains as well as a
C-terminal PRT domain. 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 = 119
Score = 32.7 bits (75), Expect = 0.075
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 9/82 (10%)
Query: 224 VYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPTD- 282
V ++RA GL D GK DP+ VL+ + + Y T +NP + + F FP
Sbjct: 5 VKVIRASGLAAADIGGKSDPFCVLELVNARLQTHTIYKT--LNPEWNKIFT----FPIKD 58
Query: 283 --AKLTVEIKDHDSVSKDDYIG 302
L V + D D K +++G
Sbjct: 59 IHDVLEVTVYDEDKDKKPEFLG 80
>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 = 32.9 bits (76), Expect = 0.094
Identities = 32/108 (29%), Positives = 48/108 (44%), Gaps = 23/108 (21%)
Query: 223 RVYIVRAYGLHPKDKDGKCDPYI-VLKTGSVEINDRENYVTNQ-INPY------FGRHFE 274
R YI +A L DK G DP+ V + E V + ++P F E
Sbjct: 4 RAYIYQARDLLAADKSGLSDPFARVSFLNQSQ----ETEVIKETLSPTWDQTLIF-DEVE 58
Query: 275 IQGSFPTDAK----LTVEIKDHDSVSKDDYIG------MTEMDLESRF 312
+ GS A+ + VE+ D DSV KD+++G + ++DLE F
Sbjct: 59 LYGSPEEIAQNPPLVVVELFDQDSVGKDEFLGRSVAKPLVKLDLEEDF 106
>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 = 32.6 bits (75), Expect = 0.10
Identities = 18/86 (20%), Positives = 41/86 (47%), Gaps = 10/86 (11%)
Query: 220 VTIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSF 279
V +V++ A GL +D G DPY+++K + R + ++P F+ Q F
Sbjct: 3 VVTQVHVHSAEGLSKQDSGGGADPYVIIKCEGESV--RSPVQKDTLSPE----FDTQAIF 56
Query: 280 ---PTDAKLTVEIKDHDSVSKDDYIG 302
+ + +++ + + + D+++G
Sbjct: 57 YRKKPRSPIKIQVWNSNLL-CDEFLG 81
>gnl|CDD|176057 cd08675, C2B_RasGAP, C2 domain second repeat of Ras GTPase
activating proteins (GAPs). RasGAPs suppress 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. The proteins here all contain two
tandem C2 domains, a Ras-GAP domain, and a pleckstrin
homology (PH)-like 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-I
topology.
Length = 137
Score = 32.7 bits (75), Expect = 0.11
Identities = 22/106 (20%), Positives = 39/106 (36%), Gaps = 18/106 (16%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEIND--RENYVTNQINPYF---------- 269
+ V ++ L K +G CDP+ + D R NP F
Sbjct: 1 LSVRVLECRDLALK-SNGTCDPFARVTLNYSSKTDTKRTKVKKKTNNPRFDEAFYFELTI 59
Query: 270 -----GRHFEIQGSFPTDAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
+ F+++ ++L VE+ VS DD++G + L+
Sbjct: 60 GFSYEKKSFKVEEEDLEKSELRVELWHASMVSGDDFLGEVRIPLQG 105
>gnl|CDD|176063 cd08681, C2_fungal_Inn1p-like, C2 domain found in fungal Ingression
1 (Inn1) proteins. Saccharomyces cerevisiae Inn1
associates with the contractile actomyosin ring at the
end of mitosis and is needed for cytokinesis. The C2
domain of Inn1, located at the N-terminus, is required
for ingression of the plasma membrane. The C-terminus is
relatively unstructured and contains eight PXXP motifs
that are thought to mediate interaction of Inn1 with
other proteins with SH3 domains in the cytokinesis
proteins Hof1 (an F-BAR protein) and Cyk3 (whose
overexpression can restore primary septum formation in
Inn1Delta cells) as well as recruiting Inn1 to the
bud-neck by binding to Cyk3. Inn1 and Cyk3 appear to
cooperate in activating chitin synthase Chs2 for primary
septum formation, which allows coordination of
actomyosin ring contraction with ingression of the
cleavage furrow. It is thought that the C2 domain of
Inn1 helps to preserve the link between the actomyosin
ring and the plasma membrane, contributing both to
membrane ingression, as well as to stability of the
contracting ring. Additionally, Inn1 might induce
curvature of the plasma membrane adjacent to the
contracting ring, thereby promoting ingression of the
membrane. It has been shown that the C2 domain of human
synaptotagmin induces curvature in target membranes and
thereby contributes to fusion of these membranes with
synaptic vesicles. 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 synaptotagmin1. 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 = 32.2 bits (74), Expect = 0.13
Identities = 40/122 (32%), Positives = 54/122 (44%), Gaps = 14/122 (11%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGR--HFEIQGS 278
T+ V +++A L K K K DPY VL+ G V + ++ Q +P + FEI
Sbjct: 2 TLVVVVLKARNLPNKRKLDKQDPYCVLRIGGVTKKTKTDFRGGQ-HPEWDEELRFEI--- 57
Query: 279 FPTDAK--LTVEIKDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTSDLEVSGSSPGE 336
D K L V + D D K D IG TE+DL G W +L + G GE
Sbjct: 58 -TEDKKPILKVAVFDDDK-RKPDLIGDTEVDLSPALK---EGEFDDWY-ELTLKGRYAGE 111
Query: 337 VL 338
V
Sbjct: 112 VY 113
>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 = 31.8 bits (73), Expect = 0.17
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 6/110 (5%)
Query: 207 GALQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYI---VLKTGSVEINDRENYVTN 263
G +Q + +KV + V +++A L P+D +PY+ +L S + R V
Sbjct: 3 GRIQIQLWYDKVTSQLIVTVLQARDLPPRDDGSLRNPYVKVYLLPDRSEKSKRRTKTVKK 62
Query: 264 QINPYFGRHFEIQGSFPTDAK---LTVEIKDHDSVSKDDYIGMTEMDLES 310
+NP + + FE K L V + D+D ++D++G +DL
Sbjct: 63 TLNPEWNQTFEYSNVRRETLKERTLEVTVWDYDRDGENDFLGEVVIDLAD 112
>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 = 31.8 bits (72), Expect = 0.25
Identities = 22/119 (18%), Positives = 47/119 (39%), Gaps = 15/119 (12%)
Query: 222 IRVYIVRAYGLHPKDKDGKCDPYIVLKTGS---VEINDRENYVTNQINPYFGR--HFEIQ 276
+ V I+RA L D DP++ ++ + + + + I+P++ F++
Sbjct: 16 LNVDIIRAKQLLQTDMSQGSDPFVKIQLVHGLKLIKTKKTSCMRGTIDPFYNESFSFKVP 75
Query: 277 GSFPTDAKLTVEIKDHDSVSKDDYIGM----------TEMDLESRFYSRHRGSCARWTS 325
+ L + H+ S +D+IG +E + R + R + +W S
Sbjct: 76 QEELENVSLVFTVYGHNVKSSNDFIGRIVIGQYSSGPSETNHWRRMLNSQRTAVEQWHS 134
>gnl|CDD|176029 cd08383, C2A_RasGAP, C2 domain (first repeat) of Ras GTPase
activating proteins (GAPs). RasGAPs suppress 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. The proteins here all contain
either a single C2 domain or two tandem C2 domains, a
Ras-GAP domain, and a pleckstrin homology (PH)-like
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-I topology.
Length = 117
Score = 29.9 bits (68), Expect = 0.74
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGR--HFEIQGS 278
++R+ I+ A L K G DPY + VE+ R V NP++G F+
Sbjct: 1 SLRLRILEAKNLPSK---GTRDPYCTVSLDQVEVA-RTKTVEKL-NPFWGEEFVFDDPPP 55
Query: 279 FPTDAKLTVEIKDHDSVSKDDYIG 302
T L+ KD S +D IG
Sbjct: 56 DVTFFTLSFYNKDKRSKDRDIVIG 79
>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 = 29.9 bits (68), Expect = 0.77
Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 13/108 (12%)
Query: 209 LQESIDNEKVNVTIRVYIVRAYGLHPKDKDGKCDPYI---VLKTGSVEINDRENYVTNQI 265
++ S +K+ VT+ + L P D DPY+ +L S + + + +
Sbjct: 9 IRYSSQRQKLIVTVH----KCRNLPPCDSSDIPDPYVRLYLLPDKSKSTRRKTSVKKDNL 64
Query: 266 NPYFGRHFEIQGSFPTDAK---LTVEIKDHDS--VSKDDYIGMTEMDL 308
NP F FE S + K L V +K+ S + +G +DL
Sbjct: 65 NPVFDETFEFPVS-LEELKRRTLDVAVKNSKSFLSREKKLLGQVLIDL 111
>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 = 30.1 bits (68), Expect = 0.77
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPY--IVLKTGSVEINDRENYVTN-QINPYFGRHF--EI 275
+ V +++A L D G DPY + L G I+ ++ +V +NP F F +I
Sbjct: 16 RLTVVVLKARHLPKMDVSGLADPYVKVNLYYGKKRISKKKTHVKKCTLNPVFNESFVFDI 75
Query: 276 QGSFPTDAKLTVEIKDHDSVSKDDYIG 302
D + + D D V+K++ IG
Sbjct: 76 PSEELEDISVEFLVLDSDRVTKNEVIG 102
>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 = 30.0 bits (68), Expect = 0.92
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 224 VYIVRAYGLHPKDKDGKCDPYIVLK 248
V +V A L PKD G Y+ L
Sbjct: 4 VEVVDAQDLMPKDGQGSSSAYVELD 28
>gnl|CDD|176048 cd08403, C2B_Synaptotagmin-3-5-6-9-10, C2 domain second repeat
present in Synaptotagmins 3, 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 3, a
member of class 3 synaptotagmins, is located in the
brain and localized to the active zone and plasma
membrane. It functions as a Ca2+ sensor for fast
exocytosis. It, along with synaptotagmins 5,6, and 10,
has disulfide bonds at its N-terminus. 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 second C2
repeat, C2B, and has a type-I topology.
Length = 134
Score = 29.4 bits (66), Expect = 1.4
Identities = 20/88 (22%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 224 VYIVRAYGLHPKDKDGKCDPYI--VLKTGSVEINDRENYVT-NQINPYFGRH--FEIQGS 278
+ I++A L D G DPY+ L + ++ V N +NP + F++
Sbjct: 18 LTIIKARNLKAMDITGFSDPYVKVSLMCEGRRLKKKKTSVKKNTLNPTYNEALVFDVPPE 77
Query: 279 FPTDAKLTVEIKDHDSVSKDDYIGMTEM 306
+ L + + D+D V ++ IG+ +
Sbjct: 78 NVDNVSLIIAVVDYDRVGHNELIGVCRV 105
>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 = 28.8 bits (65), Expect = 2.8
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 3/78 (3%)
Query: 242 DPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFPTDAK-LTVEIKDHDSVSKDDY 300
DPY+ + ++ N NP + FP + + ++I+D D V DD
Sbjct: 36 DPYVEVSFAGQKVKTSVKK--NSYNPEWNEQIVFPEMFPPLCERIKIQIRDWDRVGNDDV 93
Query: 301 IGMTEMDLESRFYSRHRG 318
IG +DL S G
Sbjct: 94 IGTHFIDLSKISNSGDEG 111
>gnl|CDD|198380 cd00719, GIY-YIG_SF, GIY-YIG nuclease domain superfamily. The
GIY-YIG nuclease domain superfamily includes a large and
diverse group of proteins involved in many cellular
processes, such as class I homing GIY-YIG family
endonucleases, prokaryotic nucleotide excision repair
proteins UvrC and Cho, type II restriction enzymes, the
endonuclease/reverse transcriptase of eukaryotic
retrotransposable elements, and a family of eukaryotic
enzymes that repair stalled replication forks. All of
these members contain a conserved GIY-YIG nuclease
domain that may serve as a scaffold for the coordination
of a divalent metal ion required for catalysis of the
phosphodiester bond cleavage. By combining with
different specificity, targeting, or other domains, the
GIY-YIG nucleases may perform different functions.
Length = 69
Score = 27.3 bits (61), Expect = 2.9
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 300 YIGMTEMDLESRFYSRHRGSCARWTSDLEVS 330
Y+G T+ +L +R R + WT L+
Sbjct: 14 YVGQTK-NLRNRIKEHLRKQRSDWTKGLKPF 43
>gnl|CDD|173667 cd05576, STKc_RPK118_like, Catalytic domain of the Protein
Serine/Threonine Kinases, RPK118 and similar proteins.
Serine/Threonine Kinases (STKs), RPK118-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The RPK118-like
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Members of this subfamily show similarity to
human RPK118, which contains an N-terminal Phox homology
(PX) domain, a Microtubule Interacting and Trafficking
(MIT) domain, and a kinase domain containing a long
insert. Also included in the family is human RPK60 (or
ribosomal protein S6 kinase-like 1), which also contains
MIT and kinase domains but lacks a PX domain. RPK118
binds sphingosine kinase, a key enzyme in the synthesis
of sphingosine 1-phosphate (SPP), a lipid messenger
involved in many cellular events. RPK118 may be involved
in transmitting SPP-mediated signaling. RPK118 also
binds the antioxidant peroxiredoxin-3 (PRDX3). RPK118
may be involved in the transport of PRDX3 from the
cytoplasm to its site of function in the mitochondria.
Length = 237
Score = 29.0 bits (65), Expect = 3.2
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 60 IRARYY-KLIELEEKPSGSNVYDTFTIPEVD--TDEEEKPDWWSL 101
I+ Y+ + E+E+ G V + + PEV ++E E DWWSL
Sbjct: 124 IQLTYFSRWSEVEDSCDGEAVENMYCAPEVGGISEETEACDWWSL 168
>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 = 27.9 bits (63), Expect = 3.2
Identities = 19/94 (20%), Positives = 37/94 (39%), Gaps = 10/94 (10%)
Query: 221 TIRVYIVRAYGLHPKDKDGKCDPYIVLKTGSVEINDRENYVTNQINPYFGRHFEIQGSFP 280
+RV ++ A L G DP + ++ G + TN P++ +F
Sbjct: 5 QVRVRVIEARQL----VGGNIDPVVKVEVGGQKKYTSVKKGTN--CPFYNEYFFFNFHES 58
Query: 281 T----DAKLTVEIKDHDSVSKDDYIGMTEMDLES 310
D + + + D S+ D IG ++D+ +
Sbjct: 59 PDELFDKIIKISVYDSRSLRSDTLIGSFKLDVGT 92
>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
protein ModF; Provisional.
Length = 490
Score = 29.2 bits (66), Expect = 4.2
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 243 PYIVLKTGSVEINDRE--NYVTNQINPYFGRHFEIQG 277
P IVL G V NDR + ++ Q+NP G H++I G
Sbjct: 259 PRIVLNNGVVSYNDRPILHNLSWQVNP--GEHWQIVG 293
>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 = 28.0 bits (63), Expect = 4.5
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 18/85 (21%)
Query: 233 HPKDKDGKCDPYIVL-------KTGSVEINDRENYVTNQINPYFGRHFE--IQGSFPTDA 283
+ GK D + KT +E N++NP + FE + GS D
Sbjct: 7 NLPGLKGKGDRIAKVTFRGVKKKTRVLE---------NELNPVWNETFEWPLAGSPDPDE 57
Query: 284 KLTVEIKDHDSVSKDDYIGMTEMDL 308
L + +KD++ V ++ IG + L
Sbjct: 58 SLEIVVKDYEKVGRNRLIGSATVSL 82
>gnl|CDD|224181 COG1261, FlgA, Flagellar basal body P-ring biosynthesis protein
[Cell motility and secretion / Posttranslational
modification, protein turnover, chaperones].
Length = 220
Score = 28.1 bits (63), Expect = 5.9
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 197 VTFSGKPLSNGALQESI 213
+T GK L NGA+ E I
Sbjct: 179 ITAEGKALENGAVGEVI 195
>gnl|CDD|217011 pfam02388, FemAB, FemAB family. The femAB operon codes for two
nearly identical approximately 50-kDa proteins involved
in the formation of the Staphylococcal pentaglycine
interpeptide bridge in peptidoglycan. These proteins are
also considered as a factor influencing the level of
methicillin resistance.
Length = 408
Score = 28.4 bits (64), Expect = 6.0
Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 240 KCDPYIVLKTGSVEINDRENYVTNQINPYFGRH-FEIQGSFPTDAKLTVEIKDHDSVSKD 298
K DPYI + ++ E+ + + ++ QG F T T++ + +
Sbjct: 101 KIDPYIPYQLRDLDGEPIESAENDALIDKLESLGYKHQG-FTTGFDDTIQPRWT---AVL 156
Query: 299 DYIGMTEMDLESRFYSRHR 317
D G TE DL F + R
Sbjct: 157 DLEGKTEEDLLKSFSKKTR 175
>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures [Protein
fate, Protein folding and stabilization, Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 428
Score = 28.3 bits (64), Expect = 7.2
Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 9/78 (11%)
Query: 284 KLTVEI---KDHDSVSKDDYIGMTEMDLESRFYSRHRGSCARWTSDLEVSGSSPGEVLPG 340
+TV + + + S + ++G+T +L R + V+ G
Sbjct: 320 TITVTLGASPEEQASSSNPFLGLTVANLSP--EIRKELRLKGDVKGVVVTKVVSGSPAAR 377
Query: 341 ITLQSGEI----NSDPVR 354
LQ G++ N PV
Sbjct: 378 AGLQPGDVILSVNQQPVS 395
>gnl|CDD|177875 PLN02230, PLN02230, phosphoinositide phospholipase C 4.
Length = 598
Score = 28.5 bits (63), Expect = 7.3
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 253 EINDRENYVTNQINPYFGRHFEIQGSFPTDAKLTVEIKDHDSVSKDDYIGMT 304
E+ ++ + P + + F + P A L VE+ +HD KDD+ G T
Sbjct: 511 EVMEKTKIEYDTWTPIWNKEFIFPLAVPELALLRVEVHEHDINEKDDFGGQT 562
>gnl|CDD|147720 pfam05718, Pox_int_trans, Poxvirus intermediate transcription
factor. This family consists of several highly related
Poxvirus sequences which are thought to be intermediate
transcription factors.
Length = 383
Score = 28.0 bits (63), Expect = 8.5
Identities = 11/44 (25%), Positives = 16/44 (36%)
Query: 262 TNQINPYFGRHFEIQGSFPTDAKLTVEIKDHDSVSKDDYIGMTE 305
N + + F+I + T EI + D S YI T
Sbjct: 86 DNVNSNKCSQFFDINSDNDAISLRTAEIFERDKSSLVSYIKTTN 129
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.137 0.418
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: 18,865,309
Number of extensions: 1810902
Number of successful extensions: 1504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1470
Number of HSP's successfully gapped: 69
Length of query: 364
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 266
Effective length of database: 6,590,910
Effective search space: 1753182060
Effective search space used: 1753182060
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.1 bits)