RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7848
(754 letters)
>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 = 202 bits (517), Expect = 1e-61
Identities = 80/133 (60%), Positives = 104/133 (78%), Gaps = 1/133 (0%)
Query: 616 KIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKR-KYKTGVKWKT 674
KI ++L ++T++R LIV +I+C NL MD+NG+SDPF+KLYLKPD K+ K+KT VK KT
Sbjct: 1 KILVSLMYNTQRRGLIVGIIRCVNLAAMDANGYSDPFVKLYLKPDAGKKSKHKTQVKKKT 60
Query: 675 LNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHWVDMM 734
LNP FNEEF + K ++L+K+TL ITVWDKD GKSNDY+G L+L N+KG+RLRHW+D +
Sbjct: 61 LNPEFNEEFFYDIKHSDLAKKTLEITVWDKDIGKSNDYIGGLQLGINAKGERLRHWLDCL 120
Query: 735 KYPDHKHEGIHNL 747
K PD K E H L
Sbjct: 121 KNPDKKIEAWHTL 133
Score = 83.2 bits (206), Expect = 6e-19
Identities = 36/100 (36%), Positives = 57/100 (57%), Gaps = 2/100 (2%)
Query: 474 IELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTI 533
I +++ Y++ L V + R L AMD +G SDPF KL L P + +T+ +T+
Sbjct: 2 ILVSLMYNTQRRGLIVGIIRCVNLAAMDANGYSDPFVKLYLKPDAGKKSKHKTQVKKKTL 61
Query: 534 NPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGH-DFLG 572
NPEF+E+ FY + +DL+ ++L I V D D D++G
Sbjct: 62 NPEFNEEF-FYDIKHSDLAKKTLEITVWDKDIGKSNDYIG 100
>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 = 167 bits (425), Expect = 7e-49
Identities = 59/118 (50%), Positives = 88/118 (74%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
LG++E T+ YD +LH T+ RAKGL+AMD +G SDP+ KLNL+P + +LRTKT
Sbjct: 1 LGTLEFTLLYDPANSALHCTIIRAKGLKAMDANGLSDPYVKLNLLPGASKATKLRTKTVH 60
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHDFLGEARFPLNRLRPHISRD 588
+T NPEF+E LT+Y ++E D+ ++L +LVLD+D++G+DFLGE R PL +L+P+ ++
Sbjct: 61 KTRNPEFNETLTYYGITEEDIQRKTLRLLVLDEDRFGNDFLGETRIPLKKLKPNQTKQ 118
Score = 83.5 bits (207), Expect = 3e-19
Identities = 41/104 (39%), Positives = 56/104 (53%), Gaps = 7/104 (6%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWK 673
G + TL + AL +I+ L MD+NG SDP++KL L P K K +T K
Sbjct: 2 GTLEFTLLYDPANSALHCTIIRAKGLKAMDANGLSDPYVKLNLLPGASKATKLRTKTVHK 61
Query: 674 TLNPIFNEEFAIETKITE--LSKQTLVITVWDKD-YGKSNDYLG 714
T NP FNE ITE + ++TL + V D+D +G ND+LG
Sbjct: 62 TRNPEFNETLTYY-GITEEDIQRKTLRLLVLDEDRFG--NDFLG 102
>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 = 104 bits (261), Expect = 3e-26
Identities = 47/122 (38%), Positives = 71/122 (58%), Gaps = 5/122 (4%)
Query: 621 LCFSTKKR----ALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWKTL 675
+CFS + L V +++ NL MD G SDP++K++L + + +K KT +K +TL
Sbjct: 4 ICFSLRYVPTAGKLTVVILEAKNLKKMDVGGLSDPYVKIHLMQNGKRLKKKKTTIKKRTL 63
Query: 676 NPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHWVDMMK 735
NP +NE F+ E ++ K L++TV D D ND +G + L CN+ G LRHW DM+
Sbjct: 64 NPYYNESFSFEVPFEQIQKVHLIVTVLDYDRIGKNDPIGKVVLGCNATGAELRHWSDMLA 123
Query: 736 YP 737
P
Sbjct: 124 SP 125
Score = 59.7 bits (145), Expect = 1e-10
Identities = 35/104 (33%), Positives = 56/104 (53%), Gaps = 2/104 (1%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
LG I ++ Y T L V + AK L+ MD+ G SDP+ K++L+ K + +T
Sbjct: 1 LGDICFSLRYVPTAGKLTVVILEAKNLKKMDVGGLSDPYVKIHLMQNGKRLKKKKTTIKK 60
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGE 573
RT+NP ++E +F V + L + VLD D+ G +D +G+
Sbjct: 61 RTLNPYYNESFSF-EVPFEQIQKVHLIVTVLDYDRIGKNDPIGK 103
>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 = 102 bits (256), Expect = 1e-25
Identities = 53/127 (41%), Positives = 76/127 (59%), Gaps = 7/127 (5%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK----RKYKTGV 670
G++ L+LC++ + VN+IK NL MD NG SDP++K++L ++K K KT +
Sbjct: 2 GELLLSLCYNPTANRITVNIIKARNLKAMDINGTSDPYVKVWL---MYKDKRVEKKKTVI 58
Query: 671 KWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHW 730
K +TLNP+FNE F + L + TL+ITV DKD ND +G + L S G L+HW
Sbjct: 59 KKRTLNPVFNESFIFNIPLERLRETTLIITVMDKDRLSRNDLIGKIYLGWKSGGLELKHW 118
Query: 731 VDMMKYP 737
DM+ P
Sbjct: 119 KDMLSKP 125
Score = 62.1 bits (151), Expect = 2e-11
Identities = 35/105 (33%), Positives = 60/105 (57%), Gaps = 2/105 (1%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
G + L++ Y+ T + V + +A+ L+AMDI+GTSDP+ K+ L+ K + +T
Sbjct: 1 RGELLLSLCYNPTANRITVNIIKARNLKAMDINGTSDPYVKVWLMYKDKRVEKKKTVIKK 60
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEA 574
RT+NP F+E F ++ L +L I V+D D+ +D +G+
Sbjct: 61 RTLNPVFNESFIF-NIPLERLRETTLIITVMDKDRLSRNDLIGKI 104
>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 = 102 bits (256), Expect = 1e-25
Identities = 49/124 (39%), Positives = 72/124 (58%), Gaps = 1/124 (0%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWK 673
G++ L+L + L V ++K NL P D G SDP++K+ L K +K KT VK
Sbjct: 1 GELLLSLSYLPTAERLTVVVLKARNLPPSDGKGLSDPYVKVSLLQGGKKLKKKKTSVKKG 60
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHWVDM 733
TLNP+FNE F+ + +L + +LVITV DKD N+ +G + L +S G+ L HW +M
Sbjct: 61 TLNPVFNEAFSFDVPAEQLEEVSLVITVVDKDSVGRNEVIGQVVLGPDSGGEELEHWNEM 120
Query: 734 MKYP 737
+ P
Sbjct: 121 LASP 124
Score = 65.3 bits (160), Expect = 1e-12
Identities = 33/112 (29%), Positives = 56/112 (50%), Gaps = 8/112 (7%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRL---RTKT 528
G + L+++Y T L V + +A+ L D G SDP+ K++L+ + +L +T
Sbjct: 1 GELLLSLSYLPTAERLTVVVLKARNLPPSDGKGLSDPYVKVSLL---QGGKKLKKKKTSV 57
Query: 529 CLRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLN 579
T+NP F+E +F V L SL I V+D D G ++ +G+ +
Sbjct: 58 KKGTLNPVFNEAFSF-DVPAEQLEEVSLVITVVDKDSVGRNEVIGQVVLGPD 108
>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 = 96.8 bits (241), Expect = 4e-24
Identities = 36/89 (40%), Positives = 52/89 (58%), Gaps = 5/89 (5%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V +I+ NL D NG SDP++K+ L K+K+KT V TLNP++NE F +
Sbjct: 1 LRVTVIEARNLPAKDLNGKSDPYVKVSLGG---KQKFKTKVVKNTLNPVWNETFEFP--V 55
Query: 690 TELSKQTLVITVWDKDYGKSNDYLGCLEL 718
+ TL + VWDKD +D+LG +E+
Sbjct: 56 LDPESDTLTVEVWDKDRFSKDDFLGEVEI 84
Score = 85.6 bits (212), Expect = 5e-20
Identities = 36/109 (33%), Positives = 54/109 (49%), Gaps = 9/109 (8%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L VT+ A+ L A D++G SDP+ K++L + +TK T+NP ++E F
Sbjct: 1 LRVTVIEARNLPAKDLNGKSDPYVKVSLGG----KQKFKTKVVKNTLNPVWNETFEF--- 53
Query: 547 SETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLR-PHISRDLCLNL 593
D +L + V D D++ DFLGE PL+ L +L L L
Sbjct: 54 PVLDPESDTLTVEVWDKDRFSKDDFLGEVEIPLSELLDSGKEGELWLPL 102
>gnl|CDD|215765 pfam00168, C2, C2 domain.
Length = 85
Score = 95.4 bits (238), Expect = 7e-24
Identities = 34/88 (38%), Positives = 46/88 (52%), Gaps = 3/88 (3%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V +I NL P D NG SDP++K+ L K KT V TLNP++NE F E +
Sbjct: 1 LRVTVISAKNLPPKDLNGKSDPYVKVSLGGQ-KKDTKKTKVVKNTLNPVWNETFTFE--V 57
Query: 690 TELSKQTLVITVWDKDYGKSNDYLGCLE 717
T L I V+D D +D++G +
Sbjct: 58 TLPELAELRIEVYDYDRFGKDDFIGEVT 85
Score = 87.3 bits (217), Expect = 5e-21
Identities = 32/90 (35%), Positives = 46/90 (51%), Gaps = 6/90 (6%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L VT+ AK L D++G SDP+ K++L + +TK T+NP ++E TF
Sbjct: 1 LRVTVISAKNLPPKDLNGKSDPYVKVSLGG--QKKDTKKTKVVKNTLNPVWNETFTFEVT 58
Query: 547 SETDLSLQSLHILVLDDDKYG-HDFLGEAR 575
L L I V D D++G DF+GE
Sbjct: 59 LP---ELAELRIEVYDYDRFGKDDFIGEVT 85
>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 = 96.9 bits (242), Expect = 9e-24
Identities = 45/103 (43%), Positives = 61/103 (59%), Gaps = 4/103 (3%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDL-HKRKYKTGVKWK 673
G+I+L S K L V + + NLIPMD NG SDP++KL L PD ++ K KT K
Sbjct: 2 GRIYLK--ISVKDNKLTVEVREAKNLIPMDPNGLSDPYVKLKLIPDPKNETKQKTKTIKK 59
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCL 716
TLNP++NE F + K + ++ L I VWD D ND++G L
Sbjct: 60 TLNPVWNETFTFDLKPADKDRR-LSIEVWDWDRTTRNDFMGSL 101
Score = 73.8 bits (182), Expect = 1e-15
Identities = 39/111 (35%), Positives = 58/111 (52%), Gaps = 5/111 (4%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G I L ++ L V + AK L MD +G SDP+ KL L+P K + +TKT +
Sbjct: 2 GRIYLKISVKDN--KLTVEVREAKNLIPMDPNGLSDPYVKLKLIPDPKNETKQKTKTIKK 59
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRL 581
T+NP ++E TF + D + L I V D D+ +DF+G F ++ L
Sbjct: 60 TLNPVWNETFTFD-LKPADKD-RRLSIEVWDWDRTTRNDFMGSLSFGVSEL 108
>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 = 92.2 bits (229), Expect = 2e-22
Identities = 38/103 (36%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V +I NL P D G SDP++K+ L D K K KT V TLNP++NE F E +
Sbjct: 2 LTVKIISARNLPPKDKGGKSDPYVKVSLDGD-PKEKKKTKVVKNTLNPVWNETFEFE--V 58
Query: 690 TELSKQTLVITVWDKDYGKSNDYLG--CLELCCNSKGDRLRHW 730
L I V+DKD +D++G + L G R
Sbjct: 59 PPPELAELEIEVYDKDRFGRDDFIGQVTIPLSDLLLGGRHEKL 101
Score = 83.7 bits (207), Expect = 2e-19
Identities = 32/106 (30%), Positives = 48/106 (45%), Gaps = 6/106 (5%)
Query: 486 SLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYS 545
+L V + A+ L D G SDP+ K++L K +TK T+NP ++E F
Sbjct: 1 TLTVKIISARNLPPKDKGGKSDPYVKVSLDGDPKEKK--KTKVVKNTLNPVWNETFEFE- 57
Query: 546 VSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLRPHISRDLC 590
L L I V D D++G DF+G+ PL+ L +
Sbjct: 58 --VPPPELAELEIEVYDKDRFGRDDFIGQVTIPLSDLLLGGRHEKL 101
>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 = 91.9 bits (229), Expect = 4e-22
Identities = 39/91 (42%), Positives = 58/91 (63%), Gaps = 1/91 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKT 674
GK+ +L + + L V +I+ +L MD G SDP++K+YL PD K+K++T V KT
Sbjct: 3 GKLQFSLDYDFQSNQLTVGIIQAADLPAMDMGGTSDPYVKVYLLPD-KKKKFETKVHRKT 61
Query: 675 LNPIFNEEFAIETKITELSKQTLVITVWDKD 705
LNP+FNE F + +EL +TLV +V+D D
Sbjct: 62 LNPVFNETFTFKVPYSELGNKTLVFSVYDFD 92
Score = 77.7 bits (192), Expect = 4e-17
Identities = 42/111 (37%), Positives = 64/111 (57%), Gaps = 4/111 (3%)
Query: 470 NLGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTC 529
LG ++ ++ YD + L V + +A L AMD+ GTSDP+ K+ L+P K + TK
Sbjct: 1 KLGKLQFSLDYDFQSNQLTVGIIQAADLPAMDMGGTSDPYVKVYLLPDKK--KKFETKVH 58
Query: 530 LRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLN 579
+T+NP F+E TF V ++L ++L V D D++ HD +GE R PL
Sbjct: 59 RKTLNPVFNETFTF-KVPYSELGNKTLVFSVYDFDRFSKHDLIGEVRVPLL 108
>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 = 90.0 bits (224), Expect = 3e-21
Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 5/106 (4%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPD---LHKRKYKTGVK 671
G + + + +++L V ++ NL+P+DSNG SDPF+K+ L P KT VK
Sbjct: 3 GVLTVKAYYRASEQSLRVEILNARNLLPLDSNGSSDPFVKVELLPRHLFPDVPTPKTQVK 62
Query: 672 WKTLNPIFNE--EFAIETKITELSKQTLVITVWDKDYGKSNDYLGC 715
KTL P+F+E EF + + + L+ TV D D SND+ G
Sbjct: 63 KKTLFPLFDESFEFNVPPEQCSVEGALLLFTVKDYDLLGSNDFEGE 108
Score = 66.1 bits (162), Expect = 6e-13
Identities = 40/113 (35%), Positives = 58/113 (51%), Gaps = 8/113 (7%)
Query: 476 LTVT--YDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVP--LTKTSHRLRTKTCLR 531
LTV Y ++ SL V + A+ L +D +G+SDPF K+ L+P L +T+ +
Sbjct: 5 LTVKAYYRASEQSLRVEILNARNLLPLDSNGSSDPFVKVELLPRHLFPDVPTPKTQVKKK 64
Query: 532 TINPEFHEKLTFYSVSETDLSLQS--LHILVLDDDKYG-HDFLGEARFPLNRL 581
T+ P F E F +V S++ L V D D G +DF GEA PLN +
Sbjct: 65 TLFPLFDESFEF-NVPPEQCSVEGALLLFTVKDYDLLGSNDFEGEAFLPLNDI 116
>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 = 85.6 bits (212), Expect = 9e-20
Identities = 41/124 (33%), Positives = 64/124 (51%), Gaps = 1/124 (0%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWK 673
G++ +LC+ L + +IK NL MD GFSDP++K+ L + + +K KT VK
Sbjct: 1 GELMFSLCYLPTAGRLTLTIIKARNLKAMDITGFSDPYVKVSLMCEGRRLKKKKTSVKKN 60
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHWVDM 733
TLNP +NE + + +L+I V D D N+ +G + N+ G HW +M
Sbjct: 61 TLNPTYNEALVFDVPPENVDNVSLIIAVVDYDRVGHNELIGVCRVGPNADGQGREHWNEM 120
Query: 734 MKYP 737
+ P
Sbjct: 121 LANP 124
Score = 61.4 bits (149), Expect = 3e-11
Identities = 33/98 (33%), Positives = 56/98 (57%), Gaps = 1/98 (1%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G + ++ Y T L +T+ +A+ L+AMDI G SDP+ K++L+ + + +T
Sbjct: 1 GELMFSLCYLPTAGRLTLTIIKARNLKAMDITGFSDPYVKVSLMCEGRRLKKKKTSVKKN 60
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD 569
T+NP ++E L F V ++ SL I V+D D+ GH+
Sbjct: 61 TLNPTYNEALVF-DVPPENVDNVSLIIAVVDYDRVGHN 97
>gnl|CDD|176034 cd08388, C2A_Synaptotagmin-4-11, C2A domain first repeat present in
Synaptotagmins 4 and 11. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmins 4 and 11, class 4
synaptotagmins, are located in the brain. Their
functions are unknown. They are distinguished from the
other synaptotagmins by having and Asp to Ser
substitution in their C2A domains. Previously all
synaptotagmins were thought to be calcium sensors in the
regulation of neurotransmitter release and hormone
secretion, but it has been shown that not all of them
bind calcium. Of the 17 identified synaptotagmins only
8 bind calcium (1-3, 5-7, 9, 10). The function of the
two C2 domains that bind calcium are: regulating the
fusion step of synaptic vesicle exocytosis (C2A) and
binding to phosphatidyl-inositol-3,4,5-triphosphate
(PIP3) in the absence of calcium ions and to
phosphatidylinositol bisphosphate (PIP2) in their
presence (C2B). C2B also regulates also the recycling
step of synaptic vesicles. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-I topology.
Length = 128
Score = 84.7 bits (210), Expect = 1e-19
Identities = 42/127 (33%), Positives = 65/127 (51%), Gaps = 4/127 (3%)
Query: 470 NLGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIH-GTSDPFCKLNLVPLTKTSHRLRTKT 528
LG++ ++ Y+S +L V + + L AMD GTSDP+ KL L+P + H+++T+
Sbjct: 1 KLGTLFFSLRYNSEKKALLVNIIECRDLPAMDEQSGTSDPYVKLQLLPEKE--HKVKTRV 58
Query: 529 CLRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRLRPHISR 587
+T NP + E TFY + L SLH VL D+Y D +GE PL
Sbjct: 59 LRKTRNPVYDETFTFYGIPYNQLQDLSLHFAVLSFDRYSRDDVIGEVVCPLAGADLLNEG 118
Query: 588 DLCLNLC 594
+L ++
Sbjct: 119 ELLVSRE 125
Score = 65.4 bits (160), Expect = 1e-12
Identities = 31/71 (43%), Positives = 50/71 (70%), Gaps = 2/71 (2%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMD-SNGFSDPFIKLYLKPDLHKRKYKTGVKWK 673
G +F +L ++++K+AL+VN+I+C +L MD +G SDP++KL L P+ + K KT V K
Sbjct: 3 GTLFFSLRYNSEKKALLVNIIECRDLPAMDEQSGTSDPYVKLQLLPE-KEHKVKTRVLRK 61
Query: 674 TLNPIFNEEFA 684
T NP+++E F
Sbjct: 62 TRNPVYDETFT 72
>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 = 83.9 bits (208), Expect = 3e-19
Identities = 42/111 (37%), Positives = 63/111 (56%), Gaps = 3/111 (2%)
Query: 470 NLGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTC 529
NLG I+ +V+YD +L + + +A L A D GTSDPF K+ L+P K H+L TK
Sbjct: 1 NLGRIQFSVSYDFQESTLTLKILKAVELPAKDFSGTSDPFVKIYLLPDKK--HKLETKVK 58
Query: 530 LRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLN 579
+ +NP ++E F L + L++ VLD D++ +D +GE PLN
Sbjct: 59 RKNLNPHWNETFLFEGFPYEKLQQRVLYLQVLDYDRFSRNDPIGEVSLPLN 109
Score = 73.5 bits (181), Expect = 1e-15
Identities = 38/105 (36%), Positives = 58/105 (55%), Gaps = 2/105 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKT 674
G+I ++ + ++ L + ++K L D +G SDPF+K+YL PD K K +T VK K
Sbjct: 3 GRIQFSVSYDFQESTLTLKILKAVELPAKDFSGTSDPFVKIYLLPD-KKHKLETKVKRKN 61
Query: 675 LNPIFNEEFAIET-KITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
LNP +NE F E +L ++ L + V D D ND +G + L
Sbjct: 62 LNPHWNETFLFEGFPYEKLQQRVLYLQVLDYDRFSRNDPIGEVSL 106
>gnl|CDD|145459 pfam02318, RPH3A_effect_N, Rabphilin-3A effector domain N-terminal.
This is a the N-terminus of a family of proteins
involved in protein transport in synaptic vesicles.
Rabphilin-3A has been shown to contact Rab3A, a small G
protein important in neurotransmitter release, in two
distinct areas. Most member proteins carry an FVHE-PHD
type zinc-finger domain at the C-terminus.
Length = 92
Score = 82.1 bits (203), Expect = 5e-19
Identities = 33/64 (51%), Positives = 46/64 (71%)
Query: 67 RLQTGWSVKAGQLRRWKKPEPLDPTEQEKIEEVIKRAEALDYIEQERVGRLVERVDNMKR 126
+LQ GWSV GQ + +K E L EQE I VI RAE ++ +EQ+R+GRLV+R++NM++
Sbjct: 25 KLQAGWSVHTGQQEKQRKTESLTDAEQEIINRVIARAEKMESMEQQRIGRLVDRLENMRK 84
Query: 127 NVTG 130
NV G
Sbjct: 85 NVMG 88
>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 = 83.0 bits (206), Expect = 5e-19
Identities = 33/85 (38%), Positives = 47/85 (55%), Gaps = 5/85 (5%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V++I NL D NG SDPF+K YL ++ +KT KTLNP++NE F + +
Sbjct: 1 LTVDVISAENLPSADRNGKSDPFVKFYLN---GEKVFKTKTIKKTLNPVWNESFEVP--V 55
Query: 690 TELSKQTLVITVWDKDYGKSNDYLG 714
+ L + V+D D G +D LG
Sbjct: 56 PSRVRAVLKVEVYDWDRGGKDDLLG 80
Score = 54.9 bits (133), Expect = 3e-09
Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 8/108 (7%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V + A+ L + D +G SDPF K L +TKT +T+NP ++E
Sbjct: 1 LTVDVISAENLPSADRNGKSDPFVKFYL----NGEKVFKTKTIKKTLNPVWNESFEVPVP 56
Query: 547 SETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLRPHISRDLCLNL 593
S L + V D D+ G D LG A L+ L P + +L L L
Sbjct: 57 SRVR---AVLKVEVYDWDRGGKDDLLGSAYIDLSDLEPEETTELTLPL 101
>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 = 82.7 bits (205), Expect = 7e-19
Identities = 38/88 (43%), Positives = 57/88 (64%), Gaps = 1/88 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKR-KYKTGVKWK 673
G+I LT+ +S++++ LIV + KC NL P DS+ DP+++LYL PD K + KT VK
Sbjct: 3 GRIQLTIRYSSQRQKLIVTVHKCRNLPPCDSSDIPDPYVRLYLLPDKSKSTRRKTSVKKD 62
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITV 701
LNP+F+E F + EL ++TL + V
Sbjct: 63 NLNPVFDETFEFPVSLEELKRRTLDVAV 90
Score = 72.7 bits (179), Expect = 2e-15
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 1/90 (1%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
LG I+LT+ Y S L VT+H+ + L D DP+ +L L+P S R +T
Sbjct: 2 LGRIQLTIRYSSQRQKLIVTVHKCRNLPPCDSSDIPDPYVRLYLLPDKSKSTRRKTSVKK 61
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILV 560
+NP F E F VS +L ++L + V
Sbjct: 62 DNLNPVFDETFEF-PVSLEELKRRTLDVAV 90
>gnl|CDD|176039 cd08393, C2A_SLP-1_2, C2 domain first repeat present in
Synaptotagmin-like proteins 1 and 2. All Slp members
basically share an N-terminal Slp homology domain (SHD)
and C-terminal tandem C2 domains (named the C2A domain
and the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A domains
are both Ca2+ independent, unlike Slp3 and
Slp4/granuphilin which are Ca2+ dependent. It is
thought that SHD (except for the Slp4-SHD) functions as
a specific Rab27A/B-binding domain. In addition to
Slps, rabphilin, Noc2, and Munc13-4 also function as
Rab27-binding proteins. 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 = 79.0 bits (195), Expect = 1e-17
Identities = 44/118 (37%), Positives = 62/118 (52%), Gaps = 9/118 (7%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSN-GFSDPFIKLYLKPDLHKR-KYKTGVKW 672
G + L + K R L V++I+C +L D SDP++K YL PD R K KT VK
Sbjct: 2 GSVQFALDYDPKLRELHVHVIQCQDLAAADPKKQRSDPYVKTYLLPDKSNRGKRKTSVKK 61
Query: 673 KTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHW 730
KTLNP+FNE + + EL + L ++VW +D N +LG +E+ L W
Sbjct: 62 KTLNPVFNETLRYKVEREELPTRVLNLSVWHRDSLGRNSFLGEVEV-------DLGSW 112
Score = 54.7 bits (132), Expect = 5e-09
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 3/109 (2%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDI-HGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
GS++ + YD LHV + + + L A D SDP+ K L+P + +T
Sbjct: 2 GSVQFALDYDPKLRELHVHVIQCQDLAAADPKKQRSDPYVKTYLLPDKSNRGKRKTSVKK 61
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPL 578
+T+NP F+E L Y V +L + L++ V D G + FLGE L
Sbjct: 62 KTLNPVFNETLR-YKVEREELPTRVLNLSVWHRDSLGRNSFLGEVEVDL 109
>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 = 77.5 bits (191), Expect = 7e-17
Identities = 43/138 (31%), Positives = 67/138 (48%), Gaps = 7/138 (5%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKR----KYKTGV 670
G++ L+LC+ L V ++K +L MD +G +DP++K+ L + + K KT V
Sbjct: 2 GELLLSLCYQPTTNRLTVVVLKARHLPKMDVSGLADPYVKVNL---YYGKKRISKKKTHV 58
Query: 671 KWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHW 730
K TLNP+FNE F + EL ++ V D D N+ +G L L + G HW
Sbjct: 59 KKCTLNPVFNESFVFDIPSEELEDISVEFLVLDSDRVTKNEVIGRLVLGPKASGSGGHHW 118
Query: 731 VDMMKYPDHKHEGIHNLS 748
++ P + H L
Sbjct: 119 KEVCNPPRRQIAEWHMLC 136
Score = 54.0 bits (130), Expect = 1e-08
Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 1/94 (1%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G + L++ Y TT L V + +A+ L MD+ G +DP+ K+NL K + +T
Sbjct: 2 GELLLSLCYQPTTNRLTVVVLKARHLPKMDVSGLADPYVKVNLYYGKKRISKKKTHVKKC 61
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDK 565
T+NP F+E F + +L S+ LVLD D+
Sbjct: 62 TLNPVFNESFVF-DIPSEELEDISVEFLVLDSDR 94
>gnl|CDD|176056 cd08521, C2A_SLP, C2 domain first repeat present in
Synaptotagmin-like proteins. All Slp members basically
share an N-terminal Slp homology domain (SHD) and
C-terminal tandem C2 domains (named the C2A domain and
the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A domains
are both Ca2+ independent, unlike the case in Slp3 and
Slp4/granuphilin in which their C2A domains are Ca2+
dependent. It is thought that SHD (except for the
Slp4-SHD) functions as a specific Rab27A/B-binding
domain. In addition to Slps, rabphilin, Noc2, and
Munc13-4 also function as Rab27-binding proteins. It has
been demonstrated that Slp3 and Slp4/granuphilin promote
dense-core vesicle exocytosis. Slp5 mRNA has been shown
to be restricted to human placenta and liver suggesting
a role in Rab27A-dependent membrane trafficking in
specific tissues. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first
C2 repeat, C2A, and has a type-I topology.
Length = 123
Score = 76.9 bits (190), Expect = 8e-17
Identities = 39/106 (36%), Positives = 61/106 (57%), Gaps = 2/106 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDS-NGFSDPFIKLYLKPDLHKR-KYKTGVKW 672
G+I +L ++ K +L V++ +C NL D S+P++K+YL PD K+ K KT VK
Sbjct: 1 GEIEFSLSYNYKTGSLEVHIKECRNLAYADEKKKRSNPYVKVYLLPDKSKQSKRKTSVKK 60
Query: 673 KTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
T NP+FNE ++L +TL ++VW D N +LG +E+
Sbjct: 61 NTTNPVFNETLKYHISKSQLETRTLQLSVWHHDRFGRNTFLGEVEI 106
Score = 71.5 bits (176), Expect = 6e-15
Identities = 36/124 (29%), Positives = 59/124 (47%), Gaps = 3/124 (2%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDI-HGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
G IE +++Y+ T SL V + + L D S+P+ K+ L+P + +T
Sbjct: 1 GEIEFSLSYNYKTGSLEVHIKECRNLAYADEKKKRSNPYVKVYLLPDKSKQSKRKTSVKK 60
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLRPHISRDL 589
T NP F+E L Y +S++ L ++L + V D++G FLGE PL+ +
Sbjct: 61 NTTNPVFNETLK-YHISKSQLETRTLQLSVWHHDRFGRNTFLGEVEIPLDSWDLDSQQSE 119
Query: 590 CLNL 593
L
Sbjct: 120 WYPL 123
>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 = 73.6 bits (181), Expect = 1e-15
Identities = 34/109 (31%), Positives = 59/109 (54%), Gaps = 4/109 (3%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
G + ++ YD L+V L +A+ L+ D GT+DP+CK+ L+P + ++K
Sbjct: 2 RGELHFSLEYDKDMGILNVKLIQARNLQPRDFSGTADPYCKVRLLPDRSNT--KQSKIHK 59
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPL 578
+T+NPEF E F V +L ++L +L+ D D++ + +G PL
Sbjct: 60 KTLNPEFDESFVF-EVPPQELPKRTLEVLLYDFDQFSRDECIGVVELPL 107
Score = 63.6 bits (155), Expect = 4e-12
Identities = 37/104 (35%), Positives = 58/104 (55%), Gaps = 1/104 (0%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKT 674
G++ +L + L V LI+ NL P D +G +DP+ K+ L PD K ++ + KT
Sbjct: 3 GELHFSLEYDKDMGILNVKLIQARNLQPRDFSGTADPYCKVRLLPDRSNTK-QSKIHKKT 61
Query: 675 LNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
LNP F+E F E EL K+TL + ++D D ++ +G +EL
Sbjct: 62 LNPEFDESFVFEVPPQELPKRTLEVLLYDFDQFSRDECIGVVEL 105
>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 = 73.1 bits (180), Expect = 2e-15
Identities = 40/106 (37%), Positives = 60/106 (56%), Gaps = 8/106 (7%)
Query: 614 HGKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDL---HKRKYKTGV 670
G+I + L + LIV +++ +L P D +P++K+YL PD KR+ KT V
Sbjct: 2 TGRIQIQLWYDKVTSQLIVTVLQARDLPPRDDGSLRNPYVKVYLLPDRSEKSKRRTKT-V 60
Query: 671 KWKTLNPIFNEEFAIETKIT--ELSKQTLVITVWDKDYGKSNDYLG 714
K KTLNP +N+ F + + L ++TL +TVWD D ND+LG
Sbjct: 61 K-KTLNPEWNQTF-EYSNVRRETLKERTLEVTVWDYDRDGENDFLG 104
Score = 72.7 bits (179), Expect = 3e-15
Identities = 35/103 (33%), Positives = 58/103 (56%), Gaps = 1/103 (0%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G I++ + YD T L VT+ +A+ L D +P+ K+ L+P + RTKT +
Sbjct: 3 GRIQIQLWYDKVTSQLIVTVLQARDLPPRDDGSLRNPYVKVYLLPDRSEKSKRRTKTVKK 62
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGE 573
T+NPE+++ + +V L ++L + V D D+ G +DFLGE
Sbjct: 63 TLNPEWNQTFEYSNVRRETLKERTLEVTVWDYDRDGENDFLGE 105
>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 = 72.7 bits (179), Expect = 2e-15
Identities = 39/98 (39%), Positives = 54/98 (55%), Gaps = 10/98 (10%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V + RA GL A DI G SDPFC L LV + RL+T T +T+NPE+++ TF
Sbjct: 3 LQVKVIRASGLAAADIGGKSDPFCVLELV-----NARLQTHTIYKTLNPEWNKIFTFPIK 57
Query: 547 SETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLRP 583
D+ L + V D+DK +FLG+ PL ++
Sbjct: 58 DIHDV----LEVTVYDEDKDKKPEFLGKVAIPLLSIKN 91
Score = 49.2 bits (118), Expect = 3e-07
Identities = 30/89 (33%), Positives = 45/89 (50%), Gaps = 9/89 (10%)
Query: 629 ALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETK 688
L V +I+ + L D G SDPF L +L + +T +KTLNP +N+ F K
Sbjct: 2 FLQVKVIRASGLAAADIGGKSDPFCVL----ELVNARLQTHTIYKTLNPEWNKIFTFPIK 57
Query: 689 -ITELSKQTLVITVWDKDYGKSNDYLGCL 716
I L +TV+D+D K ++LG +
Sbjct: 58 DIH----DVLEVTVYDEDKDKKPEFLGKV 82
>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 = 72.3 bits (178), Expect = 2e-15
Identities = 36/86 (41%), Positives = 51/86 (59%), Gaps = 8/86 (9%)
Query: 631 IVN--LIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETK 688
+V L++ NL PMD NG SDP++K L KYK+ V KTLNP + E+F +
Sbjct: 1 VVTIVLVEGKNLPPMDDNGLSDPYVKFRLG----NEKYKSKVCSKTLNPQWLEQF--DLH 54
Query: 689 ITELSKQTLVITVWDKDYGKSNDYLG 714
+ + Q L I VWDKD GK ++++G
Sbjct: 55 LFDDQSQILEIEVWDKDTGKKDEFIG 80
Score = 50.3 bits (121), Expect = 1e-07
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 489 VTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSVSE 548
+ L K L MD +G SDP+ K L + + ++K C +T+NP++ E+ + +
Sbjct: 4 IVLVEGKNLPPMDDNGLSDPYVKFRL-----GNEKYKSKVCSKTLNPQWLEQFDLHLFDD 58
Query: 549 TDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRL 581
Q L I V D D D F+G L+ L
Sbjct: 59 QS---QILEIEVWDKDTGKKDEFIGRCEIDLSAL 89
>gnl|CDD|175987 cd04020, C2B_SLP_1-2-3-4, C2 domain second repeat present in
Synaptotagmin-like proteins 1-4. All Slp members
basically share an N-terminal Slp homology domain (SHD)
and C-terminal tandem C2 domains (named the C2A domain
and the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A domains
are both Ca2+ independent, unlike the case in Slp3 and
Slp4/granuphilin in which their C2A domains are Ca2+
dependent. It is thought that SHD (except for the
Slp4-SHD) functions as a specific Rab27A/B-binding
domain. In addition to Slps, rabphilin, Noc2, and
Munc13-4 also function as Rab27-binding proteins. It has
been demonstrated that Slp3 and Slp4/granuphilin promote
dense-core vesicle exocytosis. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second
C2 repeat, C2B, and has a type-I topology.
Length = 162
Score = 70.4 bits (173), Expect = 4e-14
Identities = 41/117 (35%), Positives = 59/117 (50%), Gaps = 15/117 (12%)
Query: 637 CTNLIPMDSNGFSDPFIKLYLKPDLHKR-KYKTGVKWKTLNPIFNEEFAIE-TKITELSK 694
NL + S G SD F+K YL PD K+ K KT V K++NP++N F + +LS+
Sbjct: 36 AKNLPALKSGGTSDSFVKCYLLPDKSKKSKQKTPVVKKSVNPVWNHTFVYDGVSPEDLSQ 95
Query: 695 QTLVITVWDKDYGKSNDYLGCLELCC-------------NSKGDRLRHWVDMMKYPD 738
L +TVWD D SND+LG + L +S G+ + W M+ P+
Sbjct: 96 ACLELTVWDHDKLSSNDFLGGVRLGLGTGKSYGQAVDWMDSTGEEILLWQKMLDNPN 152
Score = 67.0 bits (164), Expect = 6e-13
Identities = 34/96 (35%), Positives = 48/96 (50%), Gaps = 1/96 (1%)
Query: 482 STTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKL 541
+T LHV + AK L A+ GTSD F K L+P + +T +++NP ++
Sbjct: 24 PSTGELHVWVKEAKNLPALKSGGTSDSFVKCYLLPDKSKKSKQKTPVVKKSVNPVWNHTF 83
Query: 542 TFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARF 576
+ VS DLS L + V D DK +DFLG R
Sbjct: 84 VYDGVSPEDLSQACLELTVWDHDKLSSNDFLGGVRL 119
>gnl|CDD|176036 cd08390, C2A_Synaptotagmin-15-17, C2A domain first repeat present
in Synaptotagmins 15 and 17. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. It is thought to be involved in
the trafficking and exocytosis of secretory vesicles in
non-neuronal tissues and is Ca2+ independent. Human
synaptotagmin 15 has 2 alternatively spliced forms that
encode proteins with different C-termini. The larger,
SYT15a, contains a N-terminal TM region, a putative
fatty-acylation site, and 2 tandem C terminal C2
domains. The smaller, SYT15b, lacks the C-terminal
portion of the second C2 domain. Unlike most other
synaptotagmins it is nearly absent in the brain and
rather is found in the heart, lungs, skeletal muscle,
and testis. Synaptotagmin 17 is located in the brain,
kidney, and prostate and is thought to be a peripheral
membrane protein. Previously all synaptotagmins were
thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
C2 domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-I topology.
Length = 123
Score = 68.1 bits (167), Expect = 8e-14
Identities = 35/91 (38%), Positives = 49/91 (53%), Gaps = 6/91 (6%)
Query: 620 TLCFSTKKRA----LIVNLIKCTNLIP-MDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKT 674
L FS + L V+LIK NL P DPF+K+ L PD +R ++ VK KT
Sbjct: 2 RLWFSVQYDLEEEQLTVSLIKARNLPPRTKDVAHCDPFVKVCLLPD-ERRSLQSKVKRKT 60
Query: 675 LNPIFNEEFAIETKITELSKQTLVITVWDKD 705
NP F+E F + EL ++TL ++V+D D
Sbjct: 61 QNPNFDETFVFQVSFKELQRRTLRLSVYDVD 91
Score = 57.3 bits (139), Expect = 5e-10
Identities = 41/125 (32%), Positives = 61/125 (48%), Gaps = 11/125 (8%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGL--RAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTC 529
G + +V YD L V+L +A+ L R D+ DPF K+ L+P + L++K
Sbjct: 1 GRLWFSVQYDLEEEQLTVSLIKARNLPPRTKDVA-HCDPFVKVCLLPDER--RSLQSKVK 57
Query: 530 LRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLRP----H 584
+T NP F E F VS +L ++L + V D D++ H +G FPL L
Sbjct: 58 RKTQNPNFDETFVF-QVSFKELQRRTLRLSVYDVDRFSRHCIIGHVLFPLKDLDLVKGGV 116
Query: 585 ISRDL 589
+ RDL
Sbjct: 117 VWRDL 121
>gnl|CDD|176027 cd08381, C2B_PI3K_class_II, C2 domain second repeat present in
class II phosphatidylinositol 3-kinases (PI3Ks). There
are 3 classes of PI3Ks based on structure, regulation,
and specificity. All classes contain a N-terminal C2
domain, a PIK domain, and a kinase catalytic domain.
Unlike class I and class III, class II PI3Ks have
additionally a PX domain and a C-terminal C2 domain
containing a nuclear localization signal both of which
bind phospholipids though in a slightly different
fashion. PI3Ks (AKA phosphatidylinositol (PtdIns)
3-kinases) regulate cell processes such as cell growth,
differentiation, proliferation, and motility. PI3Ks work
on phosphorylation of phosphatidylinositol,
phosphatidylinositide (4)P (PtdIns (4)P),2 or
PtdIns(4,5)P2. Specifically they phosphorylate the D3
hydroxyl group of phosphoinositol lipids on the inositol
ring. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions. This cd contains the second C2 repeat, C2B, and
has a type-I topology.
Length = 122
Score = 67.3 bits (165), Expect = 2e-13
Identities = 40/122 (32%), Positives = 61/122 (50%), Gaps = 10/122 (8%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWK 673
G++ L++ S K L V ++ NL +D + DP++K YL PD K K KT V K
Sbjct: 2 GQVKLSI--SYKNGTLFVMVMHAKNLPLLDGSD-PDPYVKTYLLPDPQKTTKRKTKVVRK 58
Query: 674 TLNPIFNEEFAIE-TKITELSKQTLVITVWDKDYGKSNDYLG--CLELCCNSKGDRLRHW 730
T NP FNE + + +L ++ L ++VW D N++LG C+ L K D +
Sbjct: 59 TRNPTFNEMLVYDGLPVEDLQQRVLQVSVWSHDSLVENEFLGGVCIPL---KKLDLSQET 115
Query: 731 VD 732
Sbjct: 116 EK 117
Score = 57.7 bits (140), Expect = 4e-10
Identities = 40/129 (31%), Positives = 64/129 (49%), Gaps = 12/129 (9%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTS-DPFCKLNLVPLTKTSHRLRTKTCL 530
G ++L+++Y + T L V + AK L +D G+ DP+ K L+P + + + +TK
Sbjct: 2 GQVKLSISYKNGT--LFVMVMHAKNLPLLD--GSDPDPYVKTYLLPDPQKTTKRKTKVVR 57
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLRPHISRDL 589
+T NP F+E L + + DL + L + V D ++FLG PL +L DL
Sbjct: 58 KTRNPTFNEMLVYDGLPVEDLQQRVLQVSVWSHDSLVENEFLGGVCIPLKKL------DL 111
Query: 590 CLNLCKHYP 598
K YP
Sbjct: 112 SQETEKWYP 120
>gnl|CDD|176051 cd08406, C2B_Synaptotagmin-12, C2 domain second repeat present in
Synaptotagmin 12. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 12, a member of
class 6 synaptotagmins, is located in the brain. It
functions are unknown. It, like synaptotagmins 8 and 13,
do not have any consensus Ca2+ binding sites. 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 = 66.7 bits (163), Expect = 4e-13
Identities = 38/121 (31%), Positives = 56/121 (46%), Gaps = 1/121 (0%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK-RKYKTGVKWK 673
G+I L+L + L V ++K NL+ + +DPF+K+YL D K K KT VK
Sbjct: 2 GEILLSLSYLPTAERLTVVVVKARNLVWDNGKTTADPFVKVYLLQDGRKISKKKTSVKRD 61
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHWVDM 733
NPIFNE L +L +TV + +G + + + G L HW M
Sbjct: 62 DTNPIFNEAMIFSVPAIVLQDLSLRVTVAESTEDGKTPNVGHVIIGPAASGMGLSHWNQM 121
Query: 734 M 734
+
Sbjct: 122 L 122
Score = 38.6 bits (90), Expect = 0.003
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 1/89 (1%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G I L+++Y T L V + +A+ L + T+DPF K+ L+ + + +T
Sbjct: 2 GEILLSLSYLPTAERLTVVVVKARNLVWDNGKTTADPFVKVYLLQDGRKISKKKTSVKRD 61
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILV 560
NP F+E + F SV L SL + V
Sbjct: 62 DTNPIFNEAMIF-SVPAIVLQDLSLRVTV 89
>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 = 64.5 bits (157), Expect = 2e-12
Identities = 38/122 (31%), Positives = 62/122 (50%), Gaps = 2/122 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYK-TGVKWK 673
G++ L+L + L V++I+ L+ D + SDPF+K+ L L K K T
Sbjct: 1 GELLLSLNYLPSAGRLNVDIIRAKQLLQTDMSQGSDPFVKIQLVHGLKLIKTKKTSCMRG 60
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKG-DRLRHWVD 732
T++P +NE F+ + EL +LV TV+ + SND++G + + S G HW
Sbjct: 61 TIDPFYNESFSFKVPQEELENVSLVFTVYGHNVKSSNDFIGRIVIGQYSSGPSETNHWRR 120
Query: 733 MM 734
M+
Sbjct: 121 ML 122
Score = 51.4 bits (123), Expect = 9e-08
Identities = 33/103 (32%), Positives = 51/103 (49%), Gaps = 2/103 (1%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G + L++ Y + L+V + RAK L D+ SDPF K+ LV K +T
Sbjct: 1 GELLLSLNYLPSAGRLNVDIIRAKQLLQTDMSQGSDPFVKIQLVHGLKLIKTKKTSCMRG 60
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDD-KYGHDFLGE 573
TI+P ++E +F V + +L SL V + K +DF+G
Sbjct: 61 TIDPFYNESFSFK-VPQEELENVSLVFTVYGHNVKSSNDFIGR 102
>gnl|CDD|175995 cd04029, C2A_SLP-4_5, C2 domain first repeat present in
Synaptotagmin-like proteins 4 and 5. All Slp members
basically share an N-terminal Slp homology domain (SHD)
and C-terminal tandem C2 domains (named the C2A domain
and the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length. SHD of
Slp (except for the Slp4-SHD) function as a specific
Rab27A/B-binding domain. In addition to Slp, rabphilin,
Noc2, and Munc13-4 also function as Rab27-binding
proteins. It has been demonstrated that Slp4/granuphilin
promotes dense-core vesicle exocytosis. The C2A domain
of Slp4 is Ca2+ dependent. Slp5 mRNA has been shown to
be restricted to human placenta and liver suggesting a
role in Rab27A-dependent membrane trafficking in
specific tissues. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-I topology.
Length = 125
Score = 62.8 bits (153), Expect = 7e-12
Identities = 37/110 (33%), Positives = 63/110 (57%), Gaps = 2/110 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMD-SNGFSDPFIKLYLKPDLHKR-KYKTGVKW 672
G+I +L + K ++L V++ +C NL D + S+P++K YL PD ++ K KT +K
Sbjct: 2 GEILFSLSYDYKTQSLNVHVKECRNLAYGDEAKKRSNPYVKTYLLPDKSRQSKRKTSIKR 61
Query: 673 KTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNS 722
T NP++NE ++L +TL ++VW D N +LG +E+ +S
Sbjct: 62 NTTNPVYNETLKYSISHSQLETRTLQLSVWHYDRFGRNTFLGEVEIPLDS 111
Score = 58.2 bits (141), Expect = 3e-10
Identities = 35/110 (31%), Positives = 57/110 (51%), Gaps = 3/110 (2%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMD-IHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
G I +++YD T SL+V + + L D S+P+ K L+P + +T
Sbjct: 2 GEILFSLSYDYKTQSLNVHVKECRNLAYGDEAKKRSNPYVKTYLLPDKSRQSKRKTSIKR 61
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLN 579
T NP ++E L YS+S + L ++L + V D++G + FLGE PL+
Sbjct: 62 NTTNPVYNETLK-YSISHSQLETRTLQLSVWHYDRFGRNTFLGEVEIPLD 110
>gnl|CDD|227371 COG5038, COG5038, Ca2+-dependent lipid-binding protein, contains C2
domain [General function prediction only].
Length = 1227
Score = 68.2 bits (167), Expect = 1e-11
Identities = 42/93 (45%), Positives = 52/93 (55%), Gaps = 5/93 (5%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L + L NL D NG+SDPF+KL+L K YKT V KTLNP++NEEF IE +
Sbjct: 1042 LTIMLRSGENLPSSDENGYSDPFVKLFLN---EKSVYKTKVVKKTLNPVWNEEFTIE--V 1096
Query: 690 TELSKQTLVITVWDKDYGKSNDYLGCLELCCNS 722
K L I V D D G+ ND LG E+ +
Sbjct: 1097 LNRVKDVLTINVNDWDSGEKNDLLGTAEIDLSK 1129
Score = 41.7 bits (98), Expect = 0.002
Identities = 29/98 (29%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 486 SLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYS 545
L + L + L + D +G SDPF KL L + S +TK +T+NP ++E+ T
Sbjct: 1041 YLTIMLRSGENLPSSDENGYSDPFVKLF---LNEKSVY-KTKVVKKTLNPVWNEEFTI-E 1095
Query: 546 VSETDLSLQSLHILVLDDDKYGHDFLGEARFPLNRLRP 583
V + ++++ D + +D LG A L++L P
Sbjct: 1096 VLNRVKDVLTINVNDWDSGE-KNDLLGTAEIDLSKLEP 1132
Score = 35.9 bits (83), Expect = 0.097
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 646 NGFSDPFIKLYLKPDLHKR-KYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDK 704
NG DP+I + R KT VK TLNP++NE F I + L ++++D
Sbjct: 456 NGTVDPYITV----TFSDRVIGKTRVKKNTLNPVWNETFYI---LLNSFTDPLNLSLYDF 508
Query: 705 DYGKSNDYLGCLEL 718
+ KS+ +G +L
Sbjct: 509 NSFKSDKVVGSTQL 522
Score = 30.1 bits (68), Expect = 5.9
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 14/92 (15%)
Query: 623 FSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKR-KYKTGVKWKTLNPIFNE 681
+ T A+ V++ K +L G SDP Y ++ KY+T TLNPI+NE
Sbjct: 706 YDTPIGAIRVSVRKANDLRNEIPGGKSDP----YATVLVNNLVKYRTIYGSSTLNPIWNE 761
Query: 682 EF--AIETKITELSKQTLVITVWDKDYGKSND 711
+ +K +T+ DY +S D
Sbjct: 762 ILYVPVTSKNQ-------RLTLECMDYEESGD 786
>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 = 61.6 bits (150), Expect = 4e-11
Identities = 35/118 (29%), Positives = 53/118 (44%), Gaps = 31/118 (26%)
Query: 626 KKRALIVNLIKCTNLIPMDSNGFSDPFIKL-------------YLKPDLHKRK------- 665
L V +I+ L+ D NGFSDP+ L K H++K
Sbjct: 26 PIFVLKVTVIEAKGLLAKDVNGFSDPYCMLGIVPASRERNSEKSKKRKSHRKKAVLKDTV 85
Query: 666 -----YKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
T VK +TLNP++NE F E + ++S L + +WD D +D+LGC+ +
Sbjct: 86 PAKSIKVTEVKPQTLNPVWNETFRFE--VEDVSNDQLHLDIWDHD----DDFLGCVNI 137
Score = 55.8 bits (135), Expect = 3e-09
Identities = 39/124 (31%), Positives = 52/124 (41%), Gaps = 30/124 (24%)
Query: 484 TCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPL--------TKTSHRLRTKTCLR---- 531
L VT+ AKGL A D++G SDP+C L +VP +K R K L+
Sbjct: 27 IFVLKVTVIEAKGLLAKDVNGFSDPYCMLGIVPASRERNSEKSKKRKSHRKKAVLKDTVP 86
Query: 532 ------------TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHDFLGEARFPLN 579
T+NP ++E F D+S LH+ + D D DFLG PL
Sbjct: 87 AKSIKVTEVKPQTLNPVWNETFRFEV---EDVSNDQLHLDIWDHDD---DFLGCVNIPLK 140
Query: 580 RLRP 583
L
Sbjct: 141 DLPS 144
>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 = 59.2 bits (144), Expect = 1e-10
Identities = 29/85 (34%), Positives = 46/85 (54%), Gaps = 6/85 (7%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L ++L + NL D G SDP++K K YK+ +K LNP+++E+F +
Sbjct: 2 LDIHLKEGRNLAARDRGGTSDPYVKFKYG---GKTVYKSKTIYKNLNPVWDEKFTL---P 55
Query: 690 TELSKQTLVITVWDKDYGKSNDYLG 714
E Q L I V+D D G ++D++G
Sbjct: 56 IEDVTQPLYIKVFDYDRGLTDDFMG 80
Score = 48.8 bits (117), Expect = 5e-07
Identities = 31/100 (31%), Positives = 45/100 (45%), Gaps = 13/100 (13%)
Query: 486 SLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRL--RTKTCLRTINPEFHEKLTF 543
L + L + L A D GTSDP+ K K + ++KT + +NP + EK T
Sbjct: 1 QLDIHLKEGRNLAARDRGGTSDPYVKF------KYGGKTVYKSKTIYKNLNPVWDEKFTL 54
Query: 544 YSVSETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLR 582
+ Q L+I V D D+ DF+G A L+ L
Sbjct: 55 ----PIEDVTQPLYIKVFDYDRGLTDDFMGSAFVDLSTLE 90
>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 = 57.3 bits (139), Expect = 6e-10
Identities = 26/93 (27%), Positives = 49/93 (52%), Gaps = 13/93 (13%)
Query: 632 VNLIKCTNLIPMDSN------GFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAI 685
+++I+ +L+ D G SDP++ + + + +K+ V + LNP +NE +
Sbjct: 5 IHVIEAQDLVAKDKFVGGLVKGKSDPYVIVRVGA----QTFKSKVIKENLNPKWNEVY-- 58
Query: 686 ETKITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
E + E+ Q L I ++D+D K D+LG L +
Sbjct: 59 EAVVDEVPGQELEIELFDEDPDKD-DFLGRLSI 90
Score = 43.4 bits (103), Expect = 3e-05
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 14/98 (14%)
Query: 487 LHVTLHRAKGLRAMDI------HGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEK 540
L + + A+ L A D G SDP+ + + T ++K +NP+++E
Sbjct: 3 LRIHVIEAQDLVAKDKFVGGLVKGKSDPYVIVRVGAQT-----FKSKVIKENLNPKWNE- 56
Query: 541 LTFYSVSETDLSLQSLHILVLDDDKYGHDFLGEARFPL 578
Y ++ Q L I + D+D DFLG L
Sbjct: 57 --VYEAVVDEVPGQELEIELFDEDPDKDDFLGRLSIDL 92
>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 = 56.8 bits (138), Expect = 1e-09
Identities = 31/83 (37%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 635 IKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKY---KTGVKWKTLNPIFNEEFAIETKITE 691
++ NL P D NG SDP YLK L K+K + TLNP+F + F +E +
Sbjct: 7 VRARNLQPKDPNGKSDP----YLKIKLGKKKINDRDNYIP-NTLNPVFGKMFELEATLPG 61
Query: 692 LSKQTLVITVWDKDYGKSNDYLG 714
S L I+V D D S+D +G
Sbjct: 62 NS--ILKISVMDYDLLGSDDLIG 82
Score = 43.7 bits (104), Expect = 3e-05
Identities = 28/83 (33%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 493 RAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSVSETDLS 552
RA+ L+ D +G SDP+ K+ L K R T+NP F + E L
Sbjct: 8 RARNLQPKDPNGKSDPYLKIK---LGKKKINDRDNYIPNTLNPVFGKMFEL----EATLP 60
Query: 553 LQS-LHILVLDDDKYGHD-FLGE 573
S L I V+D D G D +GE
Sbjct: 61 GNSILKISVMDYDLLGSDDLIGE 83
>gnl|CDD|176053 cd08408, C2B_Synaptotagmin-14_16, C2 domain second repeat present
in Synaptotagmins 14 and 16. Synaptotagmin 14 and 16
are membrane-trafficking proteins in specific tissues
outside the brain. Both of these contain C-terminal
tandem C2 repeats, but only Synaptotagmin 14 has an
N-terminal transmembrane domain and a putative
fatty-acylation site. 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 and
this is indeed the case here. 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 = 138
Score = 56.6 bits (137), Expect = 1e-09
Identities = 34/126 (26%), Positives = 59/126 (46%), Gaps = 3/126 (2%)
Query: 617 IFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHK--RKYKTGVKWKT 674
+ L L ++ L V +IK +N + N D ++KL L + K KT ++
Sbjct: 4 LLLGLEYNALTGRLSVEVIKGSNFKNLAMNKAPDTYVKLTLLNSDGQEISKSKTSIRRGQ 63
Query: 675 LNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKG-DRLRHWVDM 733
+P F E F + + +LS+ TL+ +V++K K + +G L NS G + HW +M
Sbjct: 64 PDPEFKETFVFQVALFQLSEVTLMFSVYNKRKMKRKEMIGWFSLGLNSSGEEEEEHWNEM 123
Query: 734 MKYPDH 739
+
Sbjct: 124 KESKGQ 129
>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 = 54.1 bits (131), Expect = 7e-09
Identities = 28/90 (31%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 635 IKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTG---VKWKTLNPIFNEEFAIETKITE 691
I C NL+ D SDPF+ +Y+K + + G V LNP F F ++ E
Sbjct: 7 ISCRNLLDKDVLSKSDPFVVVYVKTGGSGQWVEIGRTEVIKNNLNPDFVTTFTVDYYFEE 66
Query: 692 LSKQTLVITVWDKD----YGKSNDYLGCLE 717
Q L V+D D +D+LG E
Sbjct: 67 --VQKLRFEVYDVDSKSKDLSDHDFLGEAE 94
Score = 46.8 bits (112), Expect = 3e-06
Identities = 29/105 (27%), Positives = 40/105 (38%), Gaps = 17/105 (16%)
Query: 483 TTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRL----RTKTCLRTINPEFH 538
L ++ + L D+ SDPF + + T S + RT+ +NP+F
Sbjct: 1 PKVELSIS---CRNLLDKDVLSKSDPFVVVYVK--TGGSGQWVEIGRTEVIKNNLNPDFV 55
Query: 539 EKLTFYSVSETDLSLQSLHILVLDDDK-----YGHDFLGEARFPL 578
T E +Q L V D D HDFLGEA L
Sbjct: 56 TTFTVDYYFEE---VQKLRFEVYDVDSKSKDLSDHDFLGEAECTL 97
>gnl|CDD|176054 cd08409, C2B_Synaptotagmin-15, C2 domain second repeat present in
Synaptotagmin 15. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. It is thought to be involved in
the trafficking and exocytosis of secretory vesicles in
non-neuronal tissues and is Ca2+ independent. Human
synaptotagmin 15 has 2 alternatively spliced forms that
encode proteins with different C-termini. The larger,
SYT15a, contains a N-terminal TM region, a putative
fatty-acylation site, and 2 tandem C terminal C2
domains. The smaller, SYT15b, lacks the C-terminal
portion of the second C2 domain. Unlike most other
synaptotagmins it is nearly absent in the brain and
rather is found in the heart, lungs, skeletal muscle,
and testis. 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 = 137
Score = 51.6 bits (124), Expect = 8e-08
Identities = 28/91 (30%), Positives = 49/91 (53%), Gaps = 2/91 (2%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCL 530
LG I++++TY+ T L V + RA+GLR +D H + + K++L+ K +T+
Sbjct: 1 LGDIQISLTYNPTLNRLTVVVLRARGLRQLD-HAHTSVYVKVSLMIHNKVVKTKKTEVVD 59
Query: 531 RTINPEFHEKLTFYSVSETDLSLQSLHILVL 561
+P F+E +F V+ L SL + V+
Sbjct: 60 GAASPSFNESFSF-KVTSRQLDTASLSLSVM 89
Score = 46.6 bits (111), Expect = 5e-06
Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 6/127 (4%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLK--PDLHKRKYKTGVKW 672
G I ++L ++ L V +++ L +D + ++K+ L + K K KT V
Sbjct: 2 GDIQISLTYNPTLNRLTVVVLRARGLRQLDHAH-TSVYVKVSLMIHNKVVKTK-KTEVVD 59
Query: 673 KTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLEL--CCNSKGDRLRHW 730
+P FNE F+ + +L +L ++V + + LG + L ++G L HW
Sbjct: 60 GAASPSFNESFSFKVTSRQLDTASLSLSVMQSGGVRKSKLLGRVVLGPFMYARGKELEHW 119
Query: 731 VDMMKYP 737
DM+ P
Sbjct: 120 NDMLSKP 126
>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 = 50.6 bits (122), Expect = 1e-07
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 5/82 (6%)
Query: 504 GTSDPFCKLNLVPL-TKTSHRLRTKTCLR-TINPEFHEKLTFYSVSETDLSLQSLHILVL 561
DP+ ++ + L S + +TK NP ++E F V+ +L+ L +V
Sbjct: 23 SIVDPYVEVEIHGLPADDSAKFKTKVVKNNGFNPVWNETFEF-DVTVPELAF--LRFVVY 79
Query: 562 DDDKYGHDFLGEARFPLNRLRP 583
D+D DFLG+A PL+ LR
Sbjct: 80 DEDSGDDDFLGQACLPLDSLRQ 101
Score = 47.5 bits (114), Expect = 2e-06
Identities = 30/101 (29%), Positives = 48/101 (47%), Gaps = 10/101 (9%)
Query: 627 KRALIVNLIKCTNLIPMDSNGFS--DPFIKLYLK--PDLHKRKYKTG-VKWKTLNPIFNE 681
L + +I L + S DP++++ + P K+KT VK NP++NE
Sbjct: 1 PLTLTIKIISGQQLPKPKGDKGSIVDPYVEVEIHGLPADDSAKFKTKVVKNNGFNPVWNE 60
Query: 682 EFAIETKITELSKQTLVITVWDKDYGKSNDYLG--CLELCC 720
F + + EL+ L V+D+D G +D+LG CL L
Sbjct: 61 TFEFDVTVPELA--FLRFVVYDEDSGD-DDFLGQACLPLDS 98
>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 = 50.8 bits (122), Expect = 1e-07
Identities = 36/111 (32%), Positives = 45/111 (40%), Gaps = 19/111 (17%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPF--CKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTF- 543
L V + + L A+ +GT DPF LN T T RTK +T NP F E F
Sbjct: 1 LSVRVLECRDL-ALKSNGTCDPFARVTLNYSSKTDTK---RTKVKKKTNNPRFDEAFYFE 56
Query: 544 -----------YSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRLR 582
+ V E DL L + + D FLGE R PL L+
Sbjct: 57 LTIGFSYEKKSFKVEEEDLEKSELRVELWHASMVSGDDFLGEVRIPLQGLQ 107
Score = 50.8 bits (122), Expect = 1e-07
Identities = 30/98 (30%), Positives = 44/98 (44%), Gaps = 14/98 (14%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFA----- 684
L V +++C +L + SNG DPF ++ L +T VK KT NP F+E F
Sbjct: 1 LSVRVLECRDL-ALKSNGTCDPFARVTLNYSSKTDTKRTKVKKKTNNPRFDEAFYFELTI 59
Query: 685 ---IETKIT-----ELSKQTLVITVWDKDYGKSNDYLG 714
E K +L K L + +W +D+LG
Sbjct: 60 GFSYEKKSFKVEEEDLEKSELRVELWHASMVSGDDFLG 97
>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 = 50.2 bits (121), Expect = 2e-07
Identities = 20/83 (24%), Positives = 46/83 (55%), Gaps = 11/83 (13%)
Query: 639 NLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNE-----EFAIETKITELS 693
+L+ D +G SDPF ++ L++ + +T V +TL+P +++ E + E++
Sbjct: 12 DLLAADKSGLSDPFARVSF---LNQSQ-ETEVIKETLSPTWDQTLIFDEVELYGSPEEIA 67
Query: 694 KQ--TLVITVWDKDYGKSNDYLG 714
+ +V+ ++D+D +++LG
Sbjct: 68 QNPPLVVVELFDQDSVGKDEFLG 90
Score = 37.5 bits (88), Expect = 0.005
Identities = 31/130 (23%), Positives = 55/130 (42%), Gaps = 16/130 (12%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L +++A+ L A D G SDPF +++ + T+ T++P + + L F V
Sbjct: 3 LRAYIYQARDLLAADKSGLSDPFARVSF-----LNQSQETEVIKETLSPTWDQTLIFDEV 57
Query: 547 S---ETDLSLQ---SLHILVLDDDKYGHD-FLGEARF-PLNRLRPHISRDLCLNLCKHYP 598
+ Q + + + D D G D FLG + PL +L L + +P
Sbjct: 58 ELYGSPEEIAQNPPLVVVELFDQDSVGKDEFLGRSVAKPLVKLDLEEDFPPKL---QWFP 114
Query: 599 VPREEEVWGE 608
+ + + GE
Sbjct: 115 IYKGGQSAGE 124
>gnl|CDD|176001 cd04036, C2_cPLA2, C2 domain present in cytosolic PhosphoLipase A2
(cPLA2). A single copy of the C2 domain is present in
cPLA2 which releases arachidonic acid from membranes
initiating the biosynthesis of potent inflammatory
mediators such as prostaglandins, leukotrienes, and
platelet-activating factor. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members of this cd have a
type-II topology.
Length = 119
Score = 50.0 bits (120), Expect = 2e-07
Identities = 32/102 (31%), Positives = 50/102 (49%), Gaps = 15/102 (14%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V + RA + D+ T D + +L L P T + + RTKT +INP ++E TF
Sbjct: 2 LTVRVLRATNITKGDLLSTPDCYVELWL-P-TASDEKKRTKTIKNSINPVWNE--TFE-- 55
Query: 547 SETDLSLQS-----LHILVLDDDKYGHDFLGEARFPLNRLRP 583
+QS L + V+D+D D LG F +++L+
Sbjct: 56 ----FRIQSQVKNVLELTVMDEDYVMDDHLGTVLFDVSKLKL 93
>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 = 48.8 bits (117), Expect = 3e-07
Identities = 30/93 (32%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 632 VNLIKCTNLIPMD-SNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFN-EEFAIETKI 689
V ++ +L MD S+ +D F+++ YKT V K+LNP++N E F E
Sbjct: 3 VRVVAARDLPVMDRSSDLTDAFVEVKFG----STTYKTDVVKKSLNPVWNSEWFRFEVDD 58
Query: 690 TELSKQTLVITVWDKDYGKSNDYLGCLELCCNS 722
EL + L I V D D +ND +G + + N
Sbjct: 59 EELQDEPLQIRVMDHDTYSANDAIGKVYIDLNP 91
Score = 33.4 bits (77), Expect = 0.092
Identities = 25/97 (25%), Positives = 44/97 (45%), Gaps = 7/97 (7%)
Query: 487 LHVTLHRAKGLRAMD-IHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYS 545
L V + A+ L MD +D F ++ T T +++NP ++ + +
Sbjct: 1 LKVRVVAARDLPVMDRSSDLTDAFVEVKFGSTTYK-----TDVVKKSLNPVWNSEWFRFE 55
Query: 546 VSETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRL 581
V + +L + L I V+D D Y +D +G+ LN L
Sbjct: 56 VDDEELQDEPLQIRVMDHDTYSANDAIGKVYIDLNPL 92
>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 = 49.7 bits (119), Expect = 3e-07
Identities = 28/85 (32%), Positives = 53/85 (62%), Gaps = 6/85 (7%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L+V +++ +L P +SNG SDP+ ++ + +++KT V TLNP +N +++ +
Sbjct: 17 LMVVIVEGRDLKPCNSNGKSDPYCEV----SMGSQEHKTKVVSDTLNPKWN--SSMQFFV 70
Query: 690 TELSKQTLVITVWDKDYGKSNDYLG 714
+L + L ITV+D+D+ +D+LG
Sbjct: 71 KDLEQDVLCITVFDRDFFSPDDFLG 95
Score = 42.8 bits (101), Expect = 7e-05
Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 9/93 (9%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V + + L+ + +G SDP+C++++ S +TK T+NP+++ + F+
Sbjct: 17 LMVVIVEGRDLKPCNSNGKSDPYCEVSM-----GSQEHKTKVVSDTLNPKWNSSMQFFV- 70
Query: 547 SETDLSLQSLHILVLDDDKYG-HDFLGEARFPL 578
DL L I V D D + DFLG +
Sbjct: 71 --KDLEQDVLCITVFDRDFFSPDDFLGRTEIRV 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 = 49.7 bits (119), Expect = 4e-07
Identities = 30/98 (30%), Positives = 47/98 (47%), Gaps = 7/98 (7%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLV--PLTKTSHRLRTKTCLRTINPEFHEKLTFY 544
L V + L DI G SDP+ K++L ++TKT +T+NP+++E+ F
Sbjct: 2 LRVKVLAGIDLAKKDIFGASDPYVKISLYDPDGNGEIDSVQTKTIKKTLNPKWNEEFFF- 60
Query: 545 SVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRL 581
+ L V D+++ D FLG+ PLN L
Sbjct: 61 ---RVNPREHRLLFEVFDENRLTRDDFLGQVEVPLNNL 95
Score = 40.8 bits (96), Expect = 4e-04
Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 6/92 (6%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYL-KPDLHKR--KYKTGVKWKTLNPIFNEEFAIE 686
L V ++ +L D G SDP++K+ L PD + +T KTLNP +NEEF
Sbjct: 2 LRVKVLAGIDLAKKDIFGASDPYVKISLYDPDGNGEIDSVQTKTIKKTLNPKWNEEFFFR 61
Query: 687 TKITELSKQTLVITVWDKDYGKSNDYLGCLEL 718
+ L+ V+D++ +D+LG +E+
Sbjct: 62 VNP---REHRLLFEVFDENRLTRDDFLGQVEV 90
>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 = 48.4 bits (116), Expect = 8e-07
Identities = 27/76 (35%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 639 NLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLV 698
NL SNG SDP++ L + + +R KT + TLNP ++EEF +E E +
Sbjct: 12 NLKADSSNGLSDPYVTL-VDTNGKRRIAKTRTIYDTLNPRWDEEFELEVPAGE--PLWIS 68
Query: 699 ITVWDKDYGKSNDYLG 714
TVWD+ + +D G
Sbjct: 69 ATVWDRSFVGKHDLCG 84
Score = 32.6 bits (75), Expect = 0.25
Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 11/106 (10%)
Query: 493 RAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRL-RTKTCLRTINPEFHEKLTFYSVSETDL 551
RA+ L+A +G SDP+ L T R+ +T+T T+NP + E+ + +
Sbjct: 9 RAENLKADSSNGLSDPYVTLVD---TNGKRRIAKTRTIYDTLNPRWDEE---FELEVPAG 62
Query: 552 SLQSLHILVLDDDKYG-HDFLGEARFPLNRLR---PHISRDLCLNL 593
+ V D G HD G A L+ R + R++ L+L
Sbjct: 63 EPLWISATVWDRSFVGKHDLCGRASLKLDPKRFGDDGLPREIWLDL 108
>gnl|CDD|176004 cd04039, C2_PSD, C2 domain present in Phosphatidylserine
decarboxylase (PSD). PSD is involved in the
biosynthesis of aminophospholipid by converting
phosphatidylserine (PtdSer) to phosphatidylethanolamine
(PtdEtn). There is a single C2 domain present and it is
thought to confer PtdSer binding motif that is common to
PKC and synaptotagmin. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 108
Score = 47.2 bits (113), Expect = 1e-06
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 9/89 (10%)
Query: 630 LIVNLIKCTNLIP---MDSNGFS-DPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAI 685
+ + + T+L P M GF DPF+ + +R ++T + TLNP+FNE A
Sbjct: 3 VFMEIKSITDLPPLKNMTRTGFDMDPFVII----SFGRRVFRTSWRRHTLNPVFNERLAF 58
Query: 686 ETKITELSKQTLVITVWDKDYGKSNDYLG 714
E E + + V DKD NDY+
Sbjct: 59 EVYPHEKNFD-IQFKVLDKDKFSFNDYVA 86
Score = 42.2 bits (100), Expect = 7e-05
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 524 LRTKTCLRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKY-GHDFLGEARFPLNRL 581
RT T+NP F+E+L F V + + + VLD DK+ +D++ + L
Sbjct: 39 FRTSWRRHTLNPVFNERLAF-EVYPHEKNF-DIQFKVLDKDKFSFNDYVATGSLSVQEL 95
>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 = 47.8 bits (114), Expect = 1e-06
Identities = 29/95 (30%), Positives = 44/95 (46%), Gaps = 10/95 (10%)
Query: 629 ALIVNLIKCTNLIPMD--SNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIE 686
L V++++ +L D G SDP+ L + +++KT TLNP +N + E
Sbjct: 2 VLRVHVVEAKDLAAKDRSGKGKSDPYAILSVG----AQRFKTQTIPNTLNPKWN--YWCE 55
Query: 687 TKITELSKQTLVITVWDKDYGKSNDYLG--CLELC 719
I Q L + +WDKD DYLG + L
Sbjct: 56 FPIFSAQNQLLKLILWDKDRFAGKDYLGEFDIALE 90
Score = 44.7 bits (106), Expect = 1e-05
Identities = 30/95 (31%), Positives = 47/95 (49%), Gaps = 11/95 (11%)
Query: 487 LHVTLHRAKGLRAMDIH--GTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFY 544
L V + AK L A D G SDP+ L+ + R +T+T T+NP+++ F
Sbjct: 3 LRVHVVEAKDLAAKDRSGKGKSDPY-----AILSVGAQRFKTQTIPNTLNPKWNYWCEFP 57
Query: 545 SVSETDLSLQSLHILVLDDDKY-GHDFLGEARFPL 578
S + Q L +++ D D++ G D+LGE L
Sbjct: 58 IFSAQN---QLLKLILWDKDRFAGKDYLGEFDIAL 89
>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 = 47.3 bits (113), Expect = 2e-06
Identities = 32/128 (25%), Positives = 52/128 (40%), Gaps = 30/128 (23%)
Query: 494 AKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSVSET-DLS 552
A+ L D G+S + +L+ + RT+T + +NP ++EKL F +VS+ LS
Sbjct: 9 AQDLMPKDGQGSSSAYVELDF-----DGQKKRTRTKPKDLNPVWNEKLVF-NVSDPSRLS 62
Query: 553 LQSLHILVLDD--DKYGHDFLGEAR----------------FPLNR--LRPHISRDLCLN 592
L + V +D FLG R +PL + L + ++ L
Sbjct: 63 NLVLEVYVYNDRRSGRRRSFLGRVRISGTSFVPPSEAVVQRYPLEKRGLFSRVRGEIGL- 121
Query: 593 LCKHYPVP 600
K Y
Sbjct: 122 --KVYITD 127
Score = 44.2 bits (105), Expect = 2e-05
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 8/88 (9%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNE--EFAIET 687
L+V ++ +L+P D G S +++L D +K +T K K LNP++NE F + +
Sbjct: 2 LVVEVVDAQDLMPKDGQGSSSAYVEL----DFDGQKKRTRTKPKDLNPVWNEKLVFNV-S 56
Query: 688 KITELSKQTLVITVW-DKDYGKSNDYLG 714
+ LS L + V+ D+ G+ +LG
Sbjct: 57 DPSRLSNLVLEVYVYNDRRSGRRRSFLG 84
>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 = 46.9 bits (112), Expect = 2e-06
Identities = 25/100 (25%), Positives = 39/100 (39%), Gaps = 4/100 (4%)
Query: 487 LHVTLHRAKGLRAMDI-HGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYS 545
L VT+HRA L D G+SDP+ + K T+ + +NP + E
Sbjct: 3 LVVTIHRATDLPKADFGTGSSDPYVTASFAKFGKP--LYSTRIIRKDLNPVWEETWFVLV 60
Query: 546 VSETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLRPH 584
+ + + L + D D++ D LG L L
Sbjct: 61 TPDEVKAGERLSCRLWDSDRFTADDRLGRVEIDLKELIED 100
Score = 44.6 bits (106), Expect = 1e-05
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 3/91 (3%)
Query: 630 LIVNLIKCTNLIPMDSNGF-SDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETK 688
L+V + + T+L D SDP++ K Y T + K LNP++ E + +
Sbjct: 3 LVVTIHRATDLPKADFGTGSSDPYVTASFAKF-GKPLYSTRIIRKDLNPVWEETWFVLVT 61
Query: 689 ITEL-SKQTLVITVWDKDYGKSNDYLGCLEL 718
E+ + + L +WD D ++D LG +E+
Sbjct: 62 PDEVKAGERLSCRLWDSDRFTADDRLGRVEI 92
>gnl|CDD|176038 cd08392, C2A_SLP-3, C2 domain first repeat present in
Synaptotagmin-like protein 3. All Slp members basically
share an N-terminal Slp homology domain (SHD) and
C-terminal tandem C2 domains (named the C2A domain and
the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length. SHD of
Slp (except for the Slp4-SHD) function as a specific
Rab27A/B-binding domain. In addition to Slp, rabphilin,
Noc2, and Munc13-4 also function as Rab27-binding
proteins. Little is known about the expression or
localization of Slp3. The C2A domain of Slp3 is Ca2+
dependent. It has been demonstrated that Slp3 promotes
dense-core vesicle exocytosis. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-I topology.
Length = 128
Score = 47.1 bits (112), Expect = 2e-06
Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 2/102 (1%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFS-DPFIKLYLKPD-LHKRKYKTGVKW 672
G+I L ++ + L + + C NL D P++K+ L PD H K KT VK
Sbjct: 2 GEIEFALHYNFRTSCLEITIKACRNLAYGDEKKKKCHPYVKVCLLPDKSHNSKRKTAVKK 61
Query: 673 KTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLG 714
T+NP+FNE + LS + L ++VW K +LG
Sbjct: 62 GTVNPVFNETLKYVVEADLLSSRQLQVSVWHSRTLKRRVFLG 103
Score = 41.4 bits (97), Expect = 2e-04
Identities = 35/111 (31%), Positives = 50/111 (45%), Gaps = 7/111 (6%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTS-DPFCKLNLVPLTKTSHRLRTKTCL 530
G IE + Y+ T L +T+ + L D P+ K+ L+P SH + KT +
Sbjct: 2 GEIEFALHYNFRTSCLEITIKACRNLAYGDEKKKKCHPYVKVCLLP--DKSHNSKRKTAV 59
Query: 531 R--TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPL 578
+ T+NP F+E L Y V LS + L + V FLGE PL
Sbjct: 60 KKGTVNPVFNETLK-YVVEADLLSSRQLQVSVWHSRTLKRRVFLGEVLIPL 109
>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 = 46.4 bits (110), Expect = 3e-06
Identities = 37/127 (29%), Positives = 59/127 (46%), Gaps = 17/127 (13%)
Query: 486 SLHVTLHRAKGLRAMDIHGTSDPFC--KLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTF 543
SL++ + K L A DI G+SDP+C K++ + +RT T +T+NP + E+ T
Sbjct: 1 SLYIRIVEGKNLPAKDITGSSDPYCIVKVDNEVI------IRTATVWKTLNPFWGEEYTV 54
Query: 544 YSVSETDLSLQSLHILVLDDDKYGH-DFLGEARFPLNRLRPHISR-DLCLNLCKHYPVPR 601
+ ++ VLD+D D +G+ + H D +NL V
Sbjct: 55 H----LPPGFHTVSFYVLDEDTLSRDDVIGKVSLTREVISAHPRGIDGWMNLT---EVDP 107
Query: 602 EEEVWGE 608
+EEV GE
Sbjct: 108 DEEVQGE 114
Score = 35.6 bits (82), Expect = 0.018
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 629 ALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETK 688
+L + +++ NL D G SDP+ + + ++ R T WKTLNP + EE+ +
Sbjct: 1 SLYIRIVEGKNLPAKDITGSSDPYCIVKVDNEVIIR---TATVWKTLNPFWGEEYTVHLP 57
Query: 689 ITELSKQTLVITVWDKDYGKSNDYLG 714
T+ V D+D +D +G
Sbjct: 58 ---PGFHTVSFYVLDEDTLSRDDVIG 80
>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 = 45.6 bits (109), Expect = 7e-06
Identities = 32/100 (32%), Positives = 48/100 (48%), Gaps = 13/100 (13%)
Query: 487 LHVTLHRAKGLRAMD-IHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYS 545
L VT+ A+GL+ D I GT DP+ + ++ RTK T NP ++E T Y
Sbjct: 4 LAVTIKSARGLKGSDIIGGTVDPYVTFS---ISNRRELARTKVKKDTSNPVWNE--TKYI 58
Query: 546 V--SETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRLR 582
+ S T+ L++ V D + D +G A F L+ L
Sbjct: 59 LVNSLTE----PLNLTVYDFNDKRKDKLIGTAEFDLSSLL 94
Score = 27.9 bits (63), Expect = 8.8
Identities = 23/81 (28%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
Query: 629 ALIVNLIKCTNLIPMDS-NGFSDPFIKLYL-KPDLHKRKYKTGVKWKTLNPIFNEEFAIE 686
L V + L D G DP++ + R T VK T NP++N E
Sbjct: 3 VLAVTIKSARGLKGSDIIGGTVDPYVTFSISNRRELAR---TKVKKDTSNPVWN-----E 54
Query: 687 TK---ITELSKQTLVITVWDK 704
TK + L+ + L +TV+D
Sbjct: 55 TKYILVNSLT-EPLNLTVYDF 74
>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 = 45.8 bits (109), Expect = 8e-06
Identities = 27/93 (29%), Positives = 44/93 (47%), Gaps = 11/93 (11%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V + R L D +SDP+ V LT + +++T+ + +NP ++E+LT
Sbjct: 4 LKVRVVRGTNLAVRDFT-SSDPY-----VVLTLGNQKVKTRVIKKNLNPVWNEELTL--- 54
Query: 547 SETDLSLQSLHILVLDDDKY-GHDFLGEARFPL 578
S + L + V D D + D +GEA L
Sbjct: 55 SVPNPMAP-LKLEVFDKDTFSKDDSMGEAEIDL 86
Score = 44.2 bits (105), Expect = 3e-05
Identities = 29/85 (34%), Positives = 43/85 (50%), Gaps = 8/85 (9%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V +++ TNL D SDP++ L L +K KT V K LNP++NEE + +
Sbjct: 4 LKVRVVRGTNLAVRDFTS-SDPYVVLTLG----NQKVKTRVIKKNLNPVWNEELTL--SV 56
Query: 690 TELSKQTLVITVWDKDYGKSNDYLG 714
L + V+DKD +D +G
Sbjct: 57 PNPMAP-LKLEVFDKDTFSKDDSMG 80
>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 = 45.6 bits (108), Expect = 8e-06
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 6/76 (7%)
Query: 639 NLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLV 698
+L P D NG SDPF++++ + +T V K+ P +NE F E ++ E + L
Sbjct: 11 DLAPKDRNGTSDPFVRVFYN----GQTLETSVVKKSCYPRWNEVF--EFELMEGADSPLS 64
Query: 699 ITVWDKDYGKSNDYLG 714
+ VWD D ND+LG
Sbjct: 65 VEVWDWDLVSKNDFLG 80
Score = 40.5 bits (95), Expect = 4e-04
Identities = 26/97 (26%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L + A+ L D +GTSDPF V + L T ++ P ++E F
Sbjct: 2 LRCHVLEARDLAPKDRNGTSDPF-----VRVFYNGQTLETSVVKKSCYPRWNEVFEF--- 53
Query: 547 SETDLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLR 582
+ + L + V D D +DFLG+ F + L+
Sbjct: 54 ELMEGADSPLSVEVWDWDLVSKNDFLGKVVFSIQTLQ 90
>gnl|CDD|176062 cd08680, C2_Kibra, C2 domain found in Human protein Kibra. Kibra
is thought to be a regulator of the Salvador (Sav)/Warts
(Wts)/Hippo (Hpo) (SWH) signaling network, which limits
tissue growth by inhibiting cell proliferation and
promoting apoptosis. The core of the pathway consists of
a MST and LATS family kinase cascade that ultimately
phosphorylates and inactivates the YAP/Yorkie (Yki)
transcription coactivator. The FERM domain proteins
Merlin (Mer) and Expanded (Ex) are part of the upstream
regulation controlling pathway mechanism. Kibra
colocalizes and associates with Mer and Ex and is
thought to transduce an extracellular signal via the SWH
network. The apical scaffold machinery that contains
Hpo, Wts, and Ex recruits Yki to the apical membrane
facilitating its inhibitory phosphorlyation by Wts.
Since Kibra associates with Ex and is apically located
it is hypothesized that KIBRA is part of the scaffold,
helps in the Hpo/Wts complex, and helps recruit Yki for
inactivation that promotes SWH pathway activity. Kibra
contains two amino-terminal WW domains, an internal
C2-like domain, and a carboxy-terminal glutamic
acid-rich stretch. 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 = 124
Score = 45.3 bits (108), Expect = 8e-06
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 3/97 (3%)
Query: 480 YDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPL-TKTSHRLRTKTCLRTINPEFH 538
YDS SL +++ + + L A+ I S + ++ L+P + TS RTK P F+
Sbjct: 9 YDSGDSSLVISVEQLRNLSALSIPENSKVYVRVALLPCSSSTSCLFRTKALEDQDKPVFN 68
Query: 539 EKLTFYSVSETDLSLQSLHILVLDDDKYGH-DFLGEA 574
E +S T L ++L + V + LG A
Sbjct: 69 EVFRV-PISSTKLYQKTLQVDVCSVGPDQQEECLGGA 104
Score = 33.0 bits (76), Expect = 0.19
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%)
Query: 676 NPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGC----LELCCNSKGDRLRHW 730
P+FNE F + T+L ++TL + V + + LG L +S + W
Sbjct: 64 KPVFNEVFRVPISSTKLYQKTLQVDVCSVGPDQQEECLGGAQISLADFESS-EEMSTKW 121
>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 = 43.0 bits (102), Expect = 6e-05
Identities = 25/104 (24%), Positives = 42/104 (40%), Gaps = 9/104 (8%)
Query: 488 HVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSVS 547
V +H A+GL D G +DP+ + +R+ T++PEF + FY
Sbjct: 6 QVHVHSAEGLSKQDSGGGADPYVI-----IKCEGESVRSPVQKDTLSPEFDTQAIFYR-K 59
Query: 548 ETDLSLQSLHILVLDDDKYGHDFLGEARFPLNRLRPHISRDLCL 591
+ + I V + + +FLG+A + R L L
Sbjct: 60 KPR---SPIKIQVWNSNLLCDEFLGQATLSADPNDSQTLRTLPL 100
Score = 32.3 bits (74), Expect = 0.33
Identities = 16/79 (20%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 627 KRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIE 686
+ V++ L DS G +DP++ + + ++ V+ TL+P F+ +
Sbjct: 2 QVVTQVHVHSAEGLSKQDSGGGADPYVIIKCE----GESVRSPVQKDTLSPEFDTQAIFY 57
Query: 687 TKITELSKQTLVITVWDKD 705
K + + I VW+ +
Sbjct: 58 RK---KPRSPIKIQVWNSN 73
>gnl|CDD|176035 cd08389, C2A_Synaptotagmin-14_16, C2A domain first repeat present
in Synaptotagmins 14 and 16. Synaptotagmin 14 and 16
are membrane-trafficking proteins in specific tissues
outside the brain. Both of these contain C-terminal
tandem C2 repeats, but only Synaptotagmin 14 has an
N-terminal transmembrane domain and a putative
fatty-acylation site. 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 and
this is indeed the case here. 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 = 42.2 bits (100), Expect = 9e-05
Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 4/113 (3%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G +++ YD + L VT+ RA+ + D G S L L+P K R +TK R
Sbjct: 3 GDLDVAFEYDPSARKLTVTVIRAQDIPTKDRGGASSWQVHLVLLPSKK--QRAKTKV-QR 59
Query: 532 TINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRLRP 583
NP F+E TF V +L+ +L + ++ + +GE PL++L
Sbjct: 60 GPNPVFNETFTFSRVEPEELNNMALRFRLYGVERMRKERLIGEKVVPLSQLNL 112
Score = 35.7 bits (83), Expect = 0.021
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKT 674
G + + + R L V +I+ ++ D G S + L L P +R KT V+ +
Sbjct: 3 GDLDVAFEYDPSARKLTVTVIRAQDIPTKDRGGASSWQVHLVLLPSKKQR-AKTKVQ-RG 60
Query: 675 LNPIFNEEF 683
NP+FNE F
Sbjct: 61 PNPVFNETF 69
>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 = 42.3 bits (100), Expect = 1e-04
Identities = 32/118 (27%), Positives = 51/118 (43%), Gaps = 31/118 (26%)
Query: 628 RALIVNLIKCTNLIPMDSN----GFSDPFIKLYLKPDLHKRKYKTGVKWKTLN--PIFNE 681
R ++ N +++ D+N SD ++K +L L + K KT V +++L+ FN
Sbjct: 3 RVIVWN---TRDVLNDDTNITGEKMSDIYVKGWLDG-LEEDKQKTDVHYRSLDGEGNFNW 58
Query: 682 EF-------AIETKITELSKQT--------------LVITVWDKDYGKSNDYLGCLEL 718
F E KI + K+ L + VWD D +D+LG LEL
Sbjct: 59 RFVFPFDYLPAEKKIVVIKKEHFWSLDETEYKIPPKLTLQVWDNDKFSPDDFLGSLEL 116
>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 = 40.6 bits (96), Expect = 2e-04
Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 9/86 (10%)
Query: 635 IKCTNLIPMDSNGFSDPFIKLYLKPDLHKRK--YKTGVKWKTLNPIFNEEFAIETKITEL 692
L D G SDPF+++ + + Y+T V TLNP++ + +L
Sbjct: 7 FSGKKLDKKDFFGKSDPFLEISRQSEDGTWVLVYRTEVIKNTLNPVWKP---FTIPLQKL 63
Query: 693 SK----QTLVITVWDKDYGKSNDYLG 714
+ + I V+D D +D +G
Sbjct: 64 CNGDYDRPIKIEVYDYDSSGKHDLIG 89
Score = 32.2 bits (74), Expect = 0.27
Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 5/105 (4%)
Query: 492 HRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRL-RTKTCLRTINPEFHE-KLTFYSVSET 549
K L D G SDPF +++ T + RT+ T+NP + + +
Sbjct: 7 FSGKKLDKKDFFGKSDPFLEISRQSEDGTWVLVYRTEVIKNTLNPVWKPFTIPLQKLCNG 66
Query: 550 DLSLQSLHILVLDDDKYG-HDFLGEARFPLNRLRPHISRDL-CLN 592
D + + I V D D G HD +GE L+ L + +N
Sbjct: 67 DYD-RPIKIEVYDYDSSGKHDLIGEFETTLDELLKSSPLEFELIN 110
>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 = 41.0 bits (96), Expect = 3e-04
Identities = 31/102 (30%), Positives = 49/102 (48%), Gaps = 21/102 (20%)
Query: 485 CSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFY 544
+ +T+ A+GL A D GTSDP+ V + KT + RTKT + +NP ++EK F
Sbjct: 1 AKISITVVCAQGLIAKDKTGTSDPYVT---VQVGKT--KKRTKTIPQNLNPVWNEKFHFE 55
Query: 545 SVSETDLSLQSLHILVLDDD------------KYGHDFLGEA 574
+ +D + + V D+D + DFLG+
Sbjct: 56 CHNSSD----RIKVRVWDEDDDIKSRLKQKFTRESDDFLGQT 93
Score = 37.2 bits (86), Expect = 0.007
Identities = 27/96 (28%), Positives = 44/96 (45%), Gaps = 18/96 (18%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
+ + ++ LI D G SDP Y+ + K K +T + LNP++NE+F E
Sbjct: 3 ISITVVCAQGLIAKDKTGTSDP----YVTVQVGKTKKRTKTIPQNLNPVWNEKFHFE--- 55
Query: 690 TELSKQTLVITVWDKDYG-----------KSNDYLG 714
S + + VWD+D +S+D+LG
Sbjct: 56 CHNSSDRIKVRVWDEDDDIKSRLKQKFTRESDDFLG 91
>gnl|CDD|176052 cd08407, C2B_Synaptotagmin-13, C2 domain second repeat present in
Synaptotagmin 13. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 13, a member of
class 6 synaptotagmins, is located in the brain. It
functions are unknown. It, like synaptotagmins 8 and 12,
does not have any consensus Ca2+ binding sites.
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 = 138
Score = 40.0 bits (93), Expect = 7e-04
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 3/127 (2%)
Query: 614 HGKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGF--SDPFIKLYLKPDLHKRKYKTGVK 671
G++ L++ + L+V +IK NL D +K+ LK K K K +
Sbjct: 1 TGEVLLSISYLPAANRLLVVVIKAKNLHSDQLKLLLGIDVSVKVTLKHQNAKLKKKQTKR 60
Query: 672 WK-TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKGDRLRHW 730
K +NP++NE E L+ ++ + V ++D + LG L ++ G +HW
Sbjct: 61 AKHKINPVWNEMIMFELPSELLAASSVELEVLNQDSPGQSLPLGRCSLGLHTSGTERQHW 120
Query: 731 VDMMKYP 737
+M+ P
Sbjct: 121 EEMLDNP 127
>gnl|CDD|176015 cd04050, C2B_Synaptotagmin-like, C2 domain second repeat present in
Synaptotagmin-like proteins. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Previously all synaptotagmins
were thought to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
C2 domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-I topology.
Length = 105
Score = 38.7 bits (91), Expect = 0.001
Identities = 30/96 (31%), Positives = 39/96 (40%), Gaps = 12/96 (12%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V L AK L P+ +L + KT+ + +K RT NP + E TF V
Sbjct: 2 LFVYLDSAKNLPLAKSTKEPSPYVELTV---GKTTQK--SKVKERTNNPVWEEGFTFL-V 55
Query: 547 SETDLSLQSLHILVLDDDKYGHDF-LGEARFPLNRL 581
+ Q L I V DD LG PL+ L
Sbjct: 56 R--NPENQELEIEVKDDK---TGKSLGSLTLPLSEL 86
Score = 28.7 bits (65), Expect = 3.8
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 650 DPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKS 709
P+++L + K K+ VK +T NP++ E F + Q L I V D GKS
Sbjct: 22 SPYVELTVG----KTTQKSKVKERTNNPVWEEGFTF--LVRNPENQELEIEVKDDKTGKS 75
>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 = 38.5 bits (90), Expect = 0.002
Identities = 29/94 (30%), Positives = 42/94 (44%), Gaps = 7/94 (7%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L V L AKGL+ D G DP+ + +T R NPE++EK F +V
Sbjct: 3 LEVLLISAKGLQDTDFLGKIDPYVIIQC----RTQERKSKVAKGDGRNPEWNEKFKF-TV 57
Query: 547 SETDLSLQS-LHILVLDDDKY-GHDFLGEARFPL 578
+ L + ++D D + DF+GEA L
Sbjct: 58 EYPGWGGDTKLILRIMDKDNFSDDDFIGEATIHL 91
Score = 28.5 bits (64), Expect = 6.4
Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 7/57 (12%)
Query: 665 KYKTGVKWKTL------NPIFNEEFAIETKITELSKQT-LVITVWDKDYGKSNDYLG 714
+ +T + + NP +NE+F + T L++ + DKD +D++G
Sbjct: 29 QCRTQERKSKVAKGDGRNPEWNEKFKFTVEYPGWGGDTKLILRIMDKDNFSDDDFIG 85
>gnl|CDD|176067 cd08685, C2_RGS-like, C2 domain of the Regulator Of G-Protein
Signaling (RGS) family. This CD contains members of the
regulator of G-protein signaling (RGS) family. RGS is a
GTPase activating protein which inhibits G-protein
mediated signal transduction. The protein is largely
cytosolic, but G-protein activation leads to
translocation of this protein to the plasma membrane. A
nuclear form of this protein has also been described,
but its sequence has not been identified. There are
multiple alternatively spliced transcript variants in
this family with some members having additional domains
(ex. PDZ and RGS) downstream of the 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 = 119
Score = 37.8 bits (88), Expect = 0.003
Identities = 28/111 (25%), Positives = 53/111 (47%), Gaps = 9/111 (8%)
Query: 615 GKIFLTLCFSTKKRALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLH-KRKYKTGVKWK 673
G++ L++ R L +++++ L +S + ++K+ L PD + + KT
Sbjct: 1 GQLKLSIEGQN--RKLTLHVLEAKGLRSTNSGT-CNSYVKISLSPDKEVRFRQKTSTVPD 57
Query: 674 TLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLGCLELCCNSKG 724
+ NP+F+E F+ + + K+ LV TVW+ K + L C S G
Sbjct: 58 SANPLFHETFSFDVNERDYQKRLLV-TVWN----KLSKSRDSGLLGCMSFG 103
Score = 34.4 bits (79), Expect = 0.056
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 472 GSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLR 531
G ++L++ + +LHV AKGLR+ + GT + + K++L P + R +T T
Sbjct: 1 GQLKLSIEGQNRKLTLHVL--EAKGLRSTN-SGTCNSYVKISLSPDKEVRFRQKTSTVPD 57
Query: 532 TINPEFHEKLTFYSVSETD 550
+ NP FHE +F V+E D
Sbjct: 58 SANPLFHETFSF-DVNERD 75
>gnl|CDD|175977 cd04010, C2B_RasA3, C2 domain second repeat present in RAS p21
protein activator 3 (RasA3). RasA3 are members of
GTPase activating protein 1 (GAP1), a Ras-specific GAP,
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. RasA3
contains an N-terminal C2 domain, 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 = 148
Score = 37.8 bits (88), Expect = 0.006
Identities = 31/110 (28%), Positives = 43/110 (39%), Gaps = 17/110 (15%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLV-PLTKTSHRLRTKTCLRTINPEFHEKLTF-- 543
L V + L +GT DP+ + L+ K + RTK +T NP+F E F
Sbjct: 2 LSVRVIECSDLAL--KNGTCDPYASVTLIYSNKKQDTK-RTKVKKKTNNPQFDEAFYFDV 58
Query: 544 ----------YSVSETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRLR 582
+ + E D L + + G D FLGE R PL L
Sbjct: 59 TIDSSPEKKQFEMPEEDAEKLELRVDLWHASMGGGDVFLGEVRIPLRGLD 108
Score = 36.2 bits (84), Expect = 0.016
Identities = 29/99 (29%), Positives = 43/99 (43%), Gaps = 16/99 (16%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLK-PDLHKRKYKTGVKWKTLNPIFNEEFA---- 684
L V +I+C++L NG DP+ + L + + +T VK KT NP F+E F
Sbjct: 2 LSVRVIECSDLAL--KNGTCDPYASVTLIYSNKKQDTKRTKVKKKTNNPQFDEAFYFDVT 59
Query: 685 ----IETKITE-----LSKQTLVITVWDKDYGKSNDYLG 714
E K E K L + +W G + +LG
Sbjct: 60 IDSSPEKKQFEMPEEDAEKLELRVDLWHASMGGGDVFLG 98
>gnl|CDD|176024 cd08378, C2B_MCTP_PRT_plant, C2 domain second 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 second C2
repeat, C2B, and has a type-II topology.
Length = 121
Score = 36.9 bits (86), Expect = 0.006
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 12/93 (12%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L+V + +A+GL A ++DP V + +++ TK RT NPE+++ F
Sbjct: 2 LYVRVVKARGLPAN----SNDPV-----VEVKLGNYKGSTKAIERTSNPEWNQVFAF--- 49
Query: 547 SETDLSLQSLHILVLDDDKYGHDFLGEARFPLN 579
S+ L +L + V D DK DFLG F L+
Sbjct: 50 SKDRLQGSTLEVSVWDKDKAKDDFLGGVCFDLS 82
Score = 36.5 bits (85), Expect = 0.010
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 11/87 (12%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L V ++K L +DP +++ L K T +T NP +N+ FA
Sbjct: 2 LYVRVVKARGL----PANSNDPVVEVKLGN----YKGSTKAIERTSNPEWNQVFAFSK-- 51
Query: 690 TELSKQTLVITVWDKDYGKSNDYLGCL 716
L TL ++VWDKD K +D+LG +
Sbjct: 52 DRLQGSTLEVSVWDKDKAK-DDFLGGV 77
>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 = 35.7 bits (83), Expect = 0.018
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 9/77 (11%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRK-YKTGVKWKTLNPIFNEEFAIETK 688
L + +++ NL G DP+ + L + + +T K LNP + EEF +
Sbjct: 2 LRLRILEAKNLPS---KGTRDPYCTVSL----DQVEVARTKTVEK-LNPFWGEEFVFDDP 53
Query: 689 ITELSKQTLVITVWDKD 705
+++ TL DK
Sbjct: 54 PPDVTFFTLSFYNKDKR 70
>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
Length = 421
Score = 37.8 bits (87), Expect = 0.020
Identities = 30/130 (23%), Positives = 46/130 (35%), Gaps = 9/130 (6%)
Query: 326 EEEEEEEVETDAEKSPSLKSIDIFTAISEFTSIANVSDTEQPIVIPIRKIASGGSVKLEP 385
E E + D EK+ LK ID + + + T+ + P P
Sbjct: 273 EHENLDNRALDIEKATGLKQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPS------P 326
Query: 386 QSFPRP--TSPVDSEKFSSSATVRSSPLMSRHTLPLTVNENSISPVSPLSPICNGNFNTQ 443
P T + + S+ A + L S TLP TV + PV+ + TQ
Sbjct: 327 AVIPSSVTTQSATTTQASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQPMSTT-ETQ 385
Query: 444 QESSGTLKRG 453
Q S+G +
Sbjct: 386 QSSTGNITST 395
>gnl|CDD|178748 PLN03209, PLN03209, translocon at the inner envelope of chloroplast
subunit 62; Provisional.
Length = 576
Score = 37.2 bits (86), Expect = 0.036
Identities = 46/218 (21%), Positives = 79/218 (36%), Gaps = 25/218 (11%)
Query: 238 TEAGLPKYTIPK--KTQPEKLAFNRRPI------ENLKPPTWSLKIASANKSSEDNSSSD 289
T+ P+ P + P+ A RP+ E+LKPPT + + SS +S S
Sbjct: 344 TKPVTPEAPSPPIEEEPPQPKAVVPRPLSPYTAYEDLKPPTSPIPTPPS--SSPASSKSV 401
Query: 290 EEDARLARSKQV-VSDARATCPNREVVTT-ARSSYPCSEEEEEEEVETDAEKSPSLKSID 347
+ A+ A V + + P E A+ + P S E+++ SP+ +
Sbjct: 402 DAVAKPAEPDVVPSPGSASNVPEVEPAQVEAKKTRPLSPYARYEDLKPPTSPSPTAPTGV 461
Query: 348 IFTAISE-----------FTSIANVSDTEQPIVIPIRKIASGGSVKLEPQSFPRPTSPVD 396
+ S T+ + + + P+ A +K P + P P +PV
Sbjct: 462 SPSVSSTSSVPAVPDTAPATAATDAAAPPPANMRPLSPYAVYDDLK--PPTSPSPAAPVG 519
Query: 397 SEKFSSSATVRSSPLMSRHTLPLTVNENSISPVSPLSP 434
SS+ V + T ++ PLSP
Sbjct: 520 KVAPSSTNEVVKVGNSAPPTALADEQHHAQPKPRPLSP 557
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 36.7 bits (85), Expect = 0.043
Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 1 MKKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQESLTASVLRNR 48
M K KK KKKKKKKKK++ + D E EP E L +S +R
Sbjct: 272 MVKFKKPKKKKKKKKKRRKDLDED-------ELEPEAEGLGSSDSGSR 312
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 33.9 bits (78), Expect = 0.046
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQESL 40
KKKKKKKKKK K K+ V+ + + EK + L
Sbjct: 18 DVKKKKKKKKKKNKSKEEVVTEKE----EEEKSSAESDL 52
Score = 31.6 bits (72), Expect = 0.29
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K KK KKKKKKKKKK
Sbjct: 13 KGKKIDVKKKKKKKKKK 29
Score = 29.7 bits (67), Expect = 1.4
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK KKKKKKKKKK K
Sbjct: 15 KKIDVKKKKKKKKKKNK 31
Score = 29.3 bits (66), Expect = 1.7
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K KKKKKKKKKK K
Sbjct: 16 KIDVKKKKKKKKKKNKS 32
Score = 29.3 bits (66), Expect = 1.8
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK KKKKKKKKKK
Sbjct: 14 GKKIDVKKKKKKKKKKN 30
Score = 28.5 bits (64), Expect = 2.9
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K K KK KKKKKKKK
Sbjct: 11 KLKGKKIDVKKKKKKKK 27
>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 = 34.1 bits (79), Expect = 0.065
Identities = 13/54 (24%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 629 ALIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKR-KYKTGVKWKTLNPIFNE 681
L +++ K +L ++ G DP++++ + + K +T TLNP+++E
Sbjct: 2 VLRLHIRKANDLKNLEGVGKIDPYVRVLV----NGIVKGRTVTISNTLNPVWDE 51
Score = 32.6 bits (75), Expect = 0.19
Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 9/96 (9%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L + + +A L+ ++ G DP+ ++ L + RT T T+NP + E L
Sbjct: 3 LRLHIRKANDLKNLEGVGKIDPYVRV----LVNGIVKGRTVTISNTLNPVWDEVLYVPVT 58
Query: 547 SETDLSLQSLHILVLDDDKYGHD-FLGEARFPLNRL 581
S Q + + V+D +K G D LG ++ L
Sbjct: 59 SPN----QKITLEVMDYEKVGKDRSLGSVEINVSDL 90
>gnl|CDD|176060 cd08678, C2_C21orf25-like, C2 domain found in the Human chromosome
21 open reading frame 25 (C21orf25) protein. The
members in this cd are named after the Human C21orf25
which contains a single C2 domain. Several other
members contain a C1 domain downstream of the C2 domain.
No other information on this protein is currently
known. The C2 domain was first identified in PKC. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 126
Score = 33.9 bits (78), Expect = 0.084
Identities = 25/87 (28%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKI 689
L+V IK L ++ G S+P+ L + D +KY++ + T NP ++E F +
Sbjct: 1 LLVKNIKANGL--SEAAGSSNPYCVLEM--DEPPQKYQSSTQKNTSNPFWDEHF-----L 51
Query: 690 TELSKQT--LVITVWDKDYGKSNDYLG 714
ELS + L+ V+D + +LG
Sbjct: 52 FELSPNSKELLFEVYDNGKKSDSKFLG 78
>gnl|CDD|233062 TIGR00630, uvra, excinuclease ABC, A subunit. This family is a
member of the ABC transporter superfamily of proteins of
which all members for which functions are known except
the UvrA proteins are involved in the transport of
material through membranes. UvrA orthologs are involved
in the recognition of DNA damage as a step in nucleotide
excision repair. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 925
Score = 35.8 bits (83), Expect = 0.092
Identities = 30/142 (21%), Positives = 50/142 (35%), Gaps = 20/142 (14%)
Query: 40 LTASVLRNRLVSFITSLSDVSLFGFVHRLQTGWSVKAGQLRRWKKPEPLDPTEQEKIEEV 99
L A ++R R F L + GF G ++ + P L+ ++ I+ V
Sbjct: 148 LLAPIVRGRKGEFRKLLEKLRKQGFARVRVDG------EVYPLEDPPKLEKNKKHTIDVV 201
Query: 100 IKR-----------AEALDYIEQERVGRLVERVDNMKRNVTGG---AAAAHACALCGDKF 145
I R AE+++ + G L D+ + + AC CG
Sbjct: 202 IDRLTVKNENRSRLAESVETALRLGDGLLEVEFDDDEEVAESKEELFSEKFACPECGFSL 261
Query: 146 SPIFDRLGLFGAKCLVCHDCRG 167
+ RL F + C +C G
Sbjct: 262 PELEPRLFSFNSPYGACPECSG 283
>gnl|CDD|176068 cd08686, C2_ABR, C2 domain in the Active BCR (Breakpoint cluster
region) Related protein. The ABR protein is similar to
the breakpoint cluster region protein. It has homology
to guanine nucleotide exchange proteins and
GTPase-activating proteins (GAPs). ABR is expressed
primarily in the brain, but also includes non-neuronal
tissues such as the heart. It has been associated with
human diseases such as Miller-Dieker syndrome in which
mental retardation and malformations of the heart are
present. ABR contains a RhoGEF domain and a PH-like
domain upstream of its C2 domain and a RhoGAP domain
downstream of this domain. A few members also contain a
Bcr-Abl oncoprotein oligomerization domain at the very
N-terminal end. Splice variants of ABR have been
identified. ABR is found in a wide variety of organisms
including chimpanzee, dog, mouse, rat, fruit fly, and
mosquito. The C2 domain was first identified in PKC. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 118
Score = 33.6 bits (77), Expect = 0.093
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 10/73 (13%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L+V +H A+G + +++ +C L + + +T+ C T P ++E+
Sbjct: 1 LNVIVHSAQGFKQ-----SANLYCTLEVDSFGYFVKKAKTRVCRDTTEPNWNEEF----E 51
Query: 547 SETDLSLQSLHIL 559
E + S Q+L IL
Sbjct: 52 IELEGS-QTLRIL 63
Score = 30.9 bits (70), Expect = 0.89
Identities = 19/45 (42%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 665 KYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKS 709
K KT V T P +NEEF IE + QTL I ++K Y K
Sbjct: 32 KAKTRVCRDTTEPNWNEEFEIELE----GSQTLRILCYEKCYSKV 72
>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 = 34.1 bits (79), Expect = 0.11
Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 21/98 (21%)
Query: 486 SLHVTLHRAKGLRAMD-------IHGTSDPFCKLNLV-PLTKTS---HRLRTKTCLRTIN 534
++RA+ L MD K LV P + S +++T + N
Sbjct: 1 RFIFKIYRAEDLPQMDSGIMANVKKAFLGE--KKELVDPYVEVSFAGQKVKTSVKKNSYN 58
Query: 535 PEFHEKLTFYSVSETDL--SL-QSLHILVLDDDKYGHD 569
PE++E++ F ++ L + + I + D D+ G+D
Sbjct: 59 PEWNEQIVF-----PEMFPPLCERIKIQIRDWDRVGND 91
Score = 33.8 bits (78), Expect = 0.13
Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 644 DSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWD 703
+ DP++++ +K KT VK + NP +NE+ L + + I + D
Sbjct: 30 EKKELVDPYVEV----SFAGQKVKTSVKKNSYNPEWNEQIVFPEMFPPLC-ERIKIQIRD 84
Query: 704 KDYGKSNDYLG 714
D ++D +G
Sbjct: 85 WDRVGNDDVIG 95
>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 = 33.6 bits (77), Expect = 0.12
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 18/102 (17%)
Query: 488 HVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTF---- 543
VT+ +A+GL GT+D + + L + T +T +P + E+ +F
Sbjct: 2 QVTVLQARGLLCKGKSGTNDAYVIIQL-----GKEKYSTSVKEKTTSPVWKEECSFELPG 56
Query: 544 ---YSVSETDLSLQSLH-ILVLDDDKYGHDFLGEARFPLNRL 581
+ + L L +H L+ D FLG+ PLN L
Sbjct: 57 LLSGNGNRATLQLTVMHRNLLGLD-----KFLGQVSIPLNDL 93
Score = 32.8 bits (75), Expect = 0.18
Identities = 28/106 (26%), Positives = 51/106 (48%), Gaps = 11/106 (10%)
Query: 632 VNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEE--FAIETKI 689
V +++ L+ +G +D ++ + L K KY T VK KT +P++ EE F + +
Sbjct: 3 VTVLQARGLLCKGKSGTNDAYVII----QLGKEKYSTSVKEKTTSPVWKEECSFELPGLL 58
Query: 690 TELSKQ-TLVITVWDKDYGKSNDYLGCLELCCNS----KGDRLRHW 730
+ + TL +TV ++ + +LG + + N KG R W
Sbjct: 59 SGNGNRATLQLTVMHRNLLGLDKFLGQVSIPLNDLDEDKGRRRTRW 104
>gnl|CDD|176025 cd08379, C2D_MCTP_PRT_plant, C2 domain fourth repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2 domain
proteins that contain two functional TMRs. MCTPs are
unique in that they bind Ca2+ but not phospholipids. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the fourth C2
repeat, C2D, and has a type-II topology.
Length = 126
Score = 33.1 bits (76), Expect = 0.14
Identities = 24/103 (23%), Positives = 45/103 (43%), Gaps = 15/103 (14%)
Query: 487 LHVTLHRAKG---LRAMDIHGTSDPFCKLNLVPLTKTSHR-LRTKTCLRTINPEFHEKLT 542
L V + A+G LRA D G++D +C + K + +RT+T + NP ++E+ T
Sbjct: 2 LEVGILGAQGLDVLRAKDGRGSTDAYC------VAKYGPKWVRTRTVEDSSNPRWNEQYT 55
Query: 543 FYSVSE----TDLSLQSLHILVLDDDKYGHDFLGEARFPLNRL 581
+ V + + + + +G+ R L+ L
Sbjct: 56 -WPVYDPCTVLTVGVFDNSQSHWKEAVQPDVLIGKVRIRLSTL 97
>gnl|CDD|175994 cd04028, C2B_RIM1alpha, C2 domain second 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 = 146
Score = 33.1 bits (76), Expect = 0.18
Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 9/98 (9%)
Query: 471 LGSIELTVTYDSTTCSLHVTLHRAKGLRAM-DIHGTSDPFCKLNLVPLTKTSHRLRTKTC 529
+G I+L + L V + RA+GL P+ K+ L+ K + +TK
Sbjct: 17 MGDIQLGLYD--KKGQLEVEVIRARGLVQKPGSKVLPAPYVKVYLLEGKKCIAKKKTKIA 74
Query: 530 LRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYG 567
+T++P + ++L F VS T +LQ ++V D YG
Sbjct: 75 RKTLDPLYQQQLVFD-VSPTGKTLQ---VIVWGD--YG 106
>gnl|CDD|176028 cd08382, C2_Smurf-like, C2 domain present in Smad
ubiquitination-related factor (Smurf)-like proteins. A
single C2 domain is found in Smurf proteins,
C2-WW-HECT-domain E3s, which play an important role in
the downregulation of the TGF-beta signaling pathway.
Smurf proteins also regulate cell shape, motility, and
polarity by degrading small guanosine triphosphatases
(GTPases). C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members here have type-II
topology.
Length = 123
Score = 32.7 bits (75), Expect = 0.21
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 650 DPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWD-KDYGK 708
DPF + + + + T V KTL+P +NE F +T + I V+D K + K
Sbjct: 22 DPFAVITVDGG---QTHSTDVAKKTLDPKWNEHF----DLTVGPSSIITIQVFDQKKFKK 74
Query: 709 SND-YLGC 715
+ +LGC
Sbjct: 75 KDQGFLGC 82
>gnl|CDD|176017 cd04052, C2B_Tricalbin-like, C2 domain second repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2 domain
are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane trafficking
and sorting. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-II topology.
Length = 111
Score = 32.2 bits (74), Expect = 0.21
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 647 GFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDK 704
G P+ +LYL L Y T VK KT NP +N + E +T+ K + + V D
Sbjct: 11 GLLSPYAELYLNGKL---VYTTRVKKKTNNPSWNA--STEFLVTDRRKSRVTVVVKDD 63
>gnl|CDD|219449 pfam07523, Big_3, Bacterial Ig-like domain (group 3). This family
consists of bacterial domains with an Ig-like fold.
Members of this family are found in a variety of
bacterial surface proteins.
Length = 67
Score = 31.0 bits (71), Expect = 0.29
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 447 SGTLKRGVITEEKEYFVTSQADTN-LGSIELTVTYDSTTCSLHVT 490
S T K G + + V+ DT G+ E+T TYD + ++ VT
Sbjct: 22 SATDKDGKAVDFSDVTVSGTVDTTKAGTYEVTYTYDGVSKTITVT 66
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 33.8 bits (78), Expect = 0.30
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 1 MKKKKKKKKKKKKKKKKKI 19
K+K+K K KK+ + K I
Sbjct: 404 EKEKEKPKVKKRHRDTKNI 422
Score = 32.6 bits (75), Expect = 0.77
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK+K+K+K K KK+ +
Sbjct: 402 KKEKEKEKPKVKKRHRD 418
Score = 32.6 bits (75), Expect = 0.82
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+ +KK+K+K+K K KK
Sbjct: 398 KRAEKKEKEKEKPKVKK 414
Score = 32.2 bits (74), Expect = 0.95
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KK+K+K+K K KK+
Sbjct: 400 AEKKEKEKEKPKVKKRH 416
Score = 32.2 bits (74), Expect = 1.0
Identities = 8/17 (47%), Positives = 14/17 (82%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KK+K+K+K K KK+ +
Sbjct: 401 EKKEKEKEKPKVKKRHR 417
Score = 31.8 bits (73), Expect = 1.2
Identities = 8/17 (47%), Positives = 14/17 (82%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+ +KK+K+K+K K KK+
Sbjct: 399 RAEKKEKEKEKPKVKKR 415
Score = 31.8 bits (73), Expect = 1.4
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+K+K+K K KK+ +
Sbjct: 403 KEKEKEKPKVKKRHRDT 419
Score = 31.5 bits (72), Expect = 1.9
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 2 KKKKKKKKKKKKKKKKKI 19
K+ +KK+K+K+K K K
Sbjct: 397 AKRAEKKEKEKEKPKVKK 414
Score = 30.3 bits (69), Expect = 4.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDK 25
K+ +KK+K+K+K K D
Sbjct: 396 LAKRAEKKEKEKEKPKVKKRHRDT 419
Score = 30.3 bits (69), Expect = 4.7
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK K+ +KK+K+K+K
Sbjct: 393 KKVLAKRAEKKEKEKEK 409
Score = 29.5 bits (67), Expect = 6.4
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+K K KK+ + K K
Sbjct: 408 EKPKVKKRHRDTKNIGK 424
Score = 29.5 bits (67), Expect = 7.6
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+K K KK+ + K
Sbjct: 407 KEKPKVKKRHRDTKNIG 423
Score = 29.5 bits (67), Expect = 8.1
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 2 KKKKKKKKKKKKKKKKKIV 20
K K+ +KK+K+K+K V
Sbjct: 394 KVLAKRAEKKEKEKEKPKV 412
>gnl|CDD|175981 cd04014, C2_PKC_epsilon, C2 domain in Protein Kinase C (PKC)
epsilon. A single C2 domain is found in PKC epsilon.
The PKC family of serine/threonine kinases regulates
apoptosis, proliferation, migration, motility,
chemo-resistance, and differentiation. There are 3
groups: group 1 (alpha, betaI, beta II, gamma) which
require phospholipids and calcium, group 2 (delta,
epsilon, theta, eta) which do not require calcium for
activation, and group 3 (xi, iota/lambda) which are
atypical and can be activated in the absence of
diacylglycerol and calcium. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members here have a type-II
topology.
Length = 132
Score = 31.9 bits (73), Expect = 0.50
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 650 DPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEFAIE 686
DP++ + + KT K KT +P++NEEF E
Sbjct: 36 DPYVSIDVD---DTHIGKTSTKPKTNSPVWNEEFTTE 69
>gnl|CDD|188753 cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of Lhx1 (also known
as Lim1) and Lhx5. The first LIM domain of Lhx1 (also
known as Lim1) and Lhx5. Lhx1 and Lhx5 are closely
related members of LHX protein family, which features
two tandem N-terminal LIM domains and a C-terminal DNA
binding homeodomain. Members of LHX family are found in
the nucleus and act as transcription factors or
cofactors. LHX proteins are critical for the development
of specialized cells in multiple tissue types, including
the nervous system, skeletal muscle, the heart, the
kidneys, and endocrine organs, such as the pituitary
gland and the pancreas. Lhx1 is required for regulating
the vertebrate head organizer, the nervous system, and
female reproductive tract development. During
embryogenesis in the mouse, Lhx1 is expressed early in
mesodermal tissue, then later during urogenital, kidney,
liver, and nervous system development. In the adult,
expression is restricted to the kidney and brain. A
mouse embryos with Lhx1 gene knockout cannot grow normal
anterior head structures, kidneys, and gonads, but with
normally developed trunk and tail morphology. In the
developing nervous system, Lhx1 is required to direct
the trajectories of motor axons in the limb. Lhx1 null
female mice lack the oviducts and uterus. Lhx5 protein
may play complementary or overlapping roles with Lhx1.
The expression of Lhx5 in the anterior portion of the
mouse neural tube suggests a role in patterning of the
forebrain. All LIM domains are 50-60 amino acids in size
and share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 52
Score = 29.3 bits (66), Expect = 0.68
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 9/42 (21%)
Query: 138 CALCGDKFSPIFDRLGL------FGAKCLVCHDCRGGVCQKC 173
CA C D+ PI D+ L + AKC+ C DC+ + +KC
Sbjct: 1 CAGC-DR--PILDKFLLNVLDRAWHAKCVQCCDCKCPLTEKC 39
>gnl|CDD|175988 cd04021, C2_E3_ubiquitin_ligase, C2 domain present in E3 ubiquitin
ligase. E3 ubiquitin ligase is part of the
ubiquitylation mechanism responsible for controlling
surface expression of membrane proteins. The sequential
action of several enzymes are involved:
ubiquitin-activating enzyme E1, ubiquitin-conjugating
enzyme E2, and ubiquitin-protein ligase E3 which is
responsible for substrate recognition and promoting the
transfer of ubiquitin to the target protein. E3
ubiquitin ligase is composed of an N-terminal C2 domain,
4 WW domains, and a HECTc domain. C2 domains fold into
an 8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 125
Score = 31.1 bits (71), Expect = 0.70
Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 666 YKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLG 714
KT V KT NP +NE F + +T S TL VW K++ LG
Sbjct: 36 KKTEVSKKTSNPKWNEHFTV--LVTPQS--TLEFKVWSHHTLKADVLLG 80
>gnl|CDD|175986 cd04019, C2C_MCTP_PRT_plant, C2 domain third repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2 domain
proteins that contain two functional TMRs. MCTPs are
unique in that they bind Ca2+ but not phospholipids. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the third C2
repeat, C2C, and has a type-II topology.
Length = 150
Score = 31.5 bits (72), Expect = 0.71
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 632 VNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNEEF 683
V +I+ +L+P D N + F+K L + + + + NP +NEE
Sbjct: 4 VTVIEAQDLVPSDKNRVPEVFVKAQLGNQVLRTRPSQT---RNGNPSWNEEL 52
>gnl|CDD|176041 cd08395, C2C_Munc13, C2 domain third repeat in Munc13 (mammalian
uncoordinated) proteins. C2-like domains are thought to
be involved in phospholipid binding in a Ca2+
independent manner in both Unc13 and Munc13.
Caenorabditis elegans Unc13 has a central domain with
sequence similarity to PKC, which includes C1 and
C2-related domains. Unc13 binds phorbol esters and DAG
with high affinity in a phospholipid manner. Mutations
in Unc13 results in abnormal neuronal connections and
impairment in cholinergic neurotransmission in the
nematode. Munc13 is the mammalian homolog which are
expressed in the brain. There are 3 isoforms (Munc13-1,
-2, -3) and are thought to play a role in
neurotransmitter release and are hypothesized to be
high-affinity receptors for phorbol esters. Unc13 and
Munc13 contain both C1 and C2 domains. There are two C2
related domains present, one central and one at the
carboxyl end. Munc13-1 contains a third C2-like domain.
Munc13 interacts with syntaxin, synaptobrevin, and
synaptotagmin suggesting a role for these as scaffolding
proteins.C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions. This cd contains the third C2 repeat, C2C, and
has a type-II topology.
Length = 120
Score = 30.4 bits (69), Expect = 1.0
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 632 VNLIKCTNLIPMDSNGFSDPFIKLYL-KPDLH--KRKYKTGVKWKTLNPIFNEEF 683
V ++ +L + F PF+++ L P L KRK+ T K +P +NE F
Sbjct: 4 VKVVAANDLKWQTTGMFR-PFVEVNLIGPHLSDKKRKFATKSKNNNWSPKYNETF 57
Score = 29.7 bits (67), Expect = 2.0
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 3/76 (3%)
Query: 489 VTLHRAKGLRAMDIHGTSDPFCKLNLV-P-LTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
V + A L+ G PF ++NL+ P L+ + TK+ +P+++E F
Sbjct: 4 VKVVAANDLK-WQTTGMFRPFVEVNLIGPHLSDKKRKFATKSKNNNWSPKYNETFQFILG 62
Query: 547 SETDLSLQSLHILVLD 562
+E D LHI V D
Sbjct: 63 NEDDPESYELHICVKD 78
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet known
if PHD fingers have a common molecular function. Several
reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is a
ubiquitin ligase have been refuted as these domains were
RING fingers misidentified as PHD fingers.
Length = 47
Score = 28.7 bits (64), Expect = 1.1
Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 9/55 (16%)
Query: 138 CALCGDKFSPIFDRLGLFGAKCLVCHDCRGGVCQKCGIESVSASKKENIWLCKIC 192
C++CG G + L C C Q C + + + W C C
Sbjct: 2 CSVCGKPDD---------GGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 30.8 bits (70), Expect = 1.2
Identities = 14/18 (77%), Positives = 16/18 (88%)
Query: 2 KKKKKKKKKKKKKKKKKI 19
K+KK+KKKKKKKKKKK
Sbjct: 110 KQKKQKKKKKKKKKKKTS 127
Score = 30.0 bits (68), Expect = 1.9
Identities = 14/18 (77%), Positives = 15/18 (83%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
KK+KKKKKKKKKKK K
Sbjct: 111 QKKQKKKKKKKKKKKTSK 128
Score = 30.0 bits (68), Expect = 2.2
Identities = 14/17 (82%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+KKKKKKKKKKK KK
Sbjct: 113 KQKKKKKKKKKKKTSKK 129
Score = 30.0 bits (68), Expect = 2.2
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K K+KK+KKKKKKKKKK
Sbjct: 108 KAKQKKQKKKKKKKKKK 124
Score = 30.0 bits (68), Expect = 2.3
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+KK+KKKKKKKKKKK
Sbjct: 109 AKQKKQKKKKKKKKKKK 125
Score = 29.7 bits (67), Expect = 2.4
Identities = 13/18 (72%), Positives = 17/18 (94%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
+K+K K+KK+KKKKKKKK
Sbjct: 105 LKEKAKQKKQKKKKKKKK 122
Score = 29.7 bits (67), Expect = 2.8
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
KKKKKKKKK KK KK
Sbjct: 116 KKKKKKKKKKTSKKAAKK 133
Score = 29.3 bits (66), Expect = 3.8
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 2 KKKKKKKKKKKKKKKKKI 19
KKKKKKKKKKK KK
Sbjct: 115 KKKKKKKKKKKTSKKAAK 132
Score = 28.9 bits (65), Expect = 4.3
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+K K+KK+KKKKKKKKK
Sbjct: 107 EKAKQKKQKKKKKKKKK 123
Score = 28.9 bits (65), Expect = 4.3
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKKKKK KK KKK
Sbjct: 118 KKKKKKKKTSKKAAKKK 134
Score = 28.9 bits (65), Expect = 5.2
Identities = 13/17 (76%), Positives = 14/17 (82%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KKKKKKKKKKK KK
Sbjct: 114 QKKKKKKKKKKKTSKKA 130
Score = 28.9 bits (65), Expect = 5.5
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKKKK KK KKKK
Sbjct: 119 KKKKKKKTSKKAAKKKK 135
>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 = 30.2 bits (69), Expect = 1.2
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 664 RKYKTGVKWKTLNPIFNEEFAIETKIT--ELSKQTLVITVWDKDYGKSNDYLG 714
+K T VK T P +NE F + EL + + I+V+D +S+ +G
Sbjct: 32 QKKYTSVKKGTNCPFYNEYFFFNFHESPDELFDKIIKISVYDSRSLRSDTLIG 84
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 31.8 bits (73), Expect = 1.3
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 5/68 (7%)
Query: 158 KCLVCH--DCRGGVCQKCGIESVSASKKENIWLCKICAETREMWKKSNAWFFKVSGLPYE 215
C C D RG C+ CG + ++ N I T E+ K+ +FF++S +
Sbjct: 138 TCPYCGSEDARGDQCEVCGRP-LEPTELINP-RSAISGSTPEL-KEEEHYFFRLSKFQDK 194
Query: 216 CLDHYTTE 223
L+
Sbjct: 195 LLEWIKEN 202
>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 = 30.3 bits (69), Expect = 1.3
Identities = 26/91 (28%), Positives = 37/91 (40%), Gaps = 17/91 (18%)
Query: 630 LIVNLIKCTNLIPMDSNGFSDPFIKLYLKPDLHKRKYKTGVKWKTLNPIFNE--EFAIET 687
L+V+L L G D K+ + K KT V LNP++NE E+ +
Sbjct: 1 LVVSLKNLPGL-----KGKGDRIAKVTFRGV----KKKTRVLENELNPVWNETFEWPLAG 51
Query: 688 KITELSKQTLVITVWDKDYGK--SNDYLGCL 716
++L I V KDY K N +G
Sbjct: 52 SP--DPDESLEIVV--KDYEKVGRNRLIGSA 78
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 31.9 bits (73), Expect = 1.3
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KKKKK+KKK KK+KKK
Sbjct: 395 RKKKKKRKKKGKKRKKK 411
Score = 31.9 bits (73), Expect = 1.3
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+KKKKK+KKK KK+KK
Sbjct: 394 KRKKKKKRKKKGKKRKK 410
Score = 31.5 bits (72), Expect = 1.7
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKK+KKK KK+KKK +
Sbjct: 397 KKKKRKKKGKKRKKKGR 413
Score = 31.5 bits (72), Expect = 1.8
Identities = 13/17 (76%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKK+KKK KK+KKK
Sbjct: 396 KKKKKRKKKGKKRKKKG 412
Score = 31.5 bits (72), Expect = 1.8
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+K+KKKKK+KKK KK+K
Sbjct: 393 QKRKKKKKRKKKGKKRK 409
Score = 31.5 bits (72), Expect = 1.8
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKK+KKK KK+KKK +K
Sbjct: 398 KKKRKKKGKKRKKKGRK 414
Score = 31.1 bits (71), Expect = 2.2
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK +K+KKKKK+KKK K
Sbjct: 390 KKPQKRKKKKKRKKKGK 406
Score = 31.1 bits (71), Expect = 2.3
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K +K+KKKKK+KKK KK
Sbjct: 391 KPQKRKKKKKRKKKGKK 407
Score = 30.7 bits (70), Expect = 3.0
Identities = 11/17 (64%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKK+++KK +K+KKKKK
Sbjct: 384 KKKREEKKPQKRKKKKK 400
Score = 30.3 bits (69), Expect = 3.9
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+K+KKKKK+KKK KK+
Sbjct: 392 PQKRKKKKKRKKKGKKR 408
Score = 29.9 bits (68), Expect = 4.7
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KK +K+KKKKK+KKK
Sbjct: 389 EKKPQKRKKKKKRKKKG 405
Score = 29.9 bits (68), Expect = 5.5
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KK+++KK +K+KKKKK+
Sbjct: 385 KKREEKKPQKRKKKKKR 401
Score = 29.9 bits (68), Expect = 5.9
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K+++KK +K+KKKKK+K
Sbjct: 386 KREEKKPQKRKKKKKRK 402
Score = 29.9 bits (68), Expect = 6.0
Identities = 11/17 (64%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
++KK +K+KKKKK+KKK
Sbjct: 388 EEKKPQKRKKKKKRKKK 404
Score = 29.6 bits (67), Expect = 6.5
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+++KK +K+KKKKK+KK
Sbjct: 387 REEKKPQKRKKKKKRKK 403
Score = 29.2 bits (66), Expect = 8.9
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKK+++KK +K+KKKK
Sbjct: 383 PKKKREEKKPQKRKKKK 399
>gnl|CDD|175998 cd04032, C2_Perforin, C2 domain of Perforin. Perforin contains a
single copy of a C2 domain in its C-terminus and plays a
role in lymphocyte-mediated cytotoxicity. Mutations in
perforin leads to familial hemophagocytic
lymphohistiocytosis type 2. The function of perforin is
calcium dependent and the C2 domain is thought to confer
this binding to target cell membranes. 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 = 127
Score = 30.3 bits (69), Expect = 1.3
Identities = 31/101 (30%), Positives = 46/101 (45%), Gaps = 20/101 (19%)
Query: 622 CFSTKK-RA-LIVNLIKCTNLIPMDSNG--FS--DPFIKLYLKPDLHKRKYK-TGVKWKT 674
C T++ A L V +++ T L G F+ D ++K++ + K T V W
Sbjct: 20 CCPTRRGLATLTVTVLRATGL-----WGDYFTSTDGYVKVF-----FGGQEKRTEVIWNN 69
Query: 675 LNPIFNEEFAIETKITELSK-QTLVITVWDKDYGKSNDYLG 714
NP +N F + ELS L VWD+D G +D LG
Sbjct: 70 NNPRWNATFDFGS--VELSPGGKLRFEVWDRDNGWDDDLLG 108
Score = 28.4 bits (64), Expect = 6.1
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 11/94 (11%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFYSV 546
L VT+ RA GL D ++D + K+ RT+ NP ++ F SV
Sbjct: 30 LTVTVLRATGLWG-DYFTSTDGYVKVFF-----GGQEKRTEVIWNNNNPRWNATFDFGSV 83
Query: 547 SETDLS-LQSLHILVLD-DDKYGHDFLGEARFPL 578
+LS L V D D+ + D LG
Sbjct: 84 ---ELSPGGKLRFEVWDRDNGWDDDLLGTCSVVP 114
>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6. The surfeit locus
protein SURF-6 is shown to be a component of the
nucleolar matrix and has a strong binding capacity for
nucleic acids.
Length = 206
Score = 31.1 bits (71), Expect = 1.4
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 2 KKKKKKKKKKKKKKKKKIV 20
K KK KKKKK KKK +I+
Sbjct: 188 KDDKKNKKKKKAKKKGRIL 206
Score = 29.6 bits (67), Expect = 4.6
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
K+K KK KKKKK KKK
Sbjct: 185 KKRKDDKKNKKKKKAKKK 202
Score = 28.8 bits (65), Expect = 8.6
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 2 KKKKKKKKKKKKKKKKKIVI 21
+K KK KKKKK KKK ++
Sbjct: 187 RKDDKKNKKKKKAKKKGRIL 206
>gnl|CDD|219939 pfam08619, Nha1_C, Alkali metal cation/H+ antiporter Nha1 C
terminus. The C terminus of the plasma membrane Nha1
antiporter plays an important role in the immediate cell
response to hypo-osmotic shock which prevents an
execessive loss of ions and water. This domain is found
with pfam00999.
Length = 430
Score = 31.7 bits (72), Expect = 1.6
Identities = 19/90 (21%), Positives = 32/90 (35%), Gaps = 7/90 (7%)
Query: 277 SANKSSEDNSSS-DEEDARLARSKQVVSDARATCPNREVVTTARSSYPCSEEEEEEEVET 335
S K +D + S +A R + S + R + + + ++E ET
Sbjct: 347 SEEKLEDDLAHSLLGSEASERRKNREPSSSSPPSRPRSRRDSEDEDTERDDSDSDDEEET 406
Query: 336 DAEKSPSLKSIDIFTAISEFTSIANVSDTE 365
AE+ L A+ E S + D E
Sbjct: 407 PAERRRRL------AALGELPSARDDDDEE 430
>gnl|CDD|188850 cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a. The first LIM
domain of Lhx3a: Lhx3a is a member of LHX protein
family, which features two tandem N-terminal LIM domains
and a C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Lhx3a is one of
the two isoforms of Lhx3. The Lhx3 gene is expressed in
the ventral spinal cord, the pons, the medulla
oblongata, and the pineal gland of the developing
nervous system during mouse embryogenesis, and
transcripts are found in the emergent pituitary gland.
Lhx3 functions in concert with other transcription
factors to specify interneuron and motor neuron fates
during development. Lhx3 proteins have been demonstrated
to directly bind to the promoters of several pituitary
hormone gene promoters. The Lhx3 gene encodes two
isoforms, LHX3a and LHX3b that differ in their
amino-terminal sequences, where Lhx3a has longer
N-terminal. They show differential activation of
pituitary hormone genes and distinct DNA binding
properties. In human, Lhx3a trans-activated the
alpha-glycoprotein subunit promoter and genes containing
a high-affinity Lhx3 binding site more effectively than
the hLhx3b isoform. In addition, hLhx3a induce
transcription of the TSHbeta-subunit gene by acting on
pituitary POU domain factor, Pit-1, while hLhx3b does
not. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 56
Score = 28.6 bits (64), Expect = 1.7
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 9/42 (21%)
Query: 138 CALCGDKFSPIFDRLGL------FGAKCLVCHDCRGGVCQKC 173
CA C PIFDR L + +KCL C DC+ + KC
Sbjct: 4 CAGCD---HPIFDRFILKVQDKPWHSKCLKCVDCQAQLTDKC 42
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal.
This domain is found to the N-terminus of bacterial
signal peptidases of the S49 family (pfam01343).
Length = 154
Score = 30.6 bits (70), Expect = 1.7
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 2 KKKKKKKKKKKKKKKKKI 19
K +KK +K K K +KKK
Sbjct: 73 KAEKKAEKAKAKAEKKKA 90
Score = 29.0 bits (66), Expect = 4.5
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+KK +K K K +KKK K
Sbjct: 75 EKKAEKAKAKAEKKKAK 91
Score = 28.3 bits (64), Expect = 8.2
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDK 25
+KK +K K K +KKK
Sbjct: 74 AEKKAEKAKAKAEKKKAKKEEPKP 97
>gnl|CDD|222379 pfam13786, DUF4179, Domain of unknown function (DUF4179).
Length = 93
Score = 29.5 bits (67), Expect = 1.7
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 7 KKKKKKKKKKKKIVIAI 23
KK KKK+KKKKKI A
Sbjct: 1 KKVKKKRKKKKKIAAAA 17
Score = 28.0 bits (63), Expect = 5.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 5 KKKKKKKKKKKKKKIVIAI 23
KK KKK+KKKKK A+
Sbjct: 1 KKVKKKRKKKKKIAAAAAL 19
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 30.4 bits (69), Expect = 1.8
Identities = 13/19 (68%), Positives = 16/19 (84%)
Query: 2 KKKKKKKKKKKKKKKKKIV 20
K++KKK+KKKKKKK KK
Sbjct: 89 KRQKKKQKKKKKKKAKKGN 107
Score = 30.4 bits (69), Expect = 1.8
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
KKK+KKKKKKK KK K
Sbjct: 91 QKKKQKKKKKKKAKKGNK 108
Score = 30.0 bits (68), Expect = 2.2
Identities = 12/18 (66%), Positives = 16/18 (88%)
Query: 2 KKKKKKKKKKKKKKKKKI 19
KK+ K++KKK+KKKKKK
Sbjct: 85 KKRAKRQKKKQKKKKKKK 102
Score = 29.6 bits (67), Expect = 2.5
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 1 MKKKKKKKKKKKKKKKKKIV 20
KK+KKKKKKK KK KK
Sbjct: 92 KKKQKKKKKKKAKKGNKKEE 111
Score = 28.1 bits (63), Expect = 9.0
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K++KKK+KKKKKKK K
Sbjct: 88 AKRQKKKQKKKKKKKAK 104
>gnl|CDD|215629 PLN03200, PLN03200, cellulose synthase-interactive protein;
Provisional.
Length = 2102
Score = 31.6 bits (72), Expect = 1.8
Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 10/96 (10%)
Query: 486 SLHVTLHRAKGL-RAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRTINPEFHEKLTFY 544
SL VT+ R L ++M G ++ FCKL L R +TK + +PE+ E T+
Sbjct: 1981 SLTVTIKRGNNLKQSM---GNTNAFCKLTL---GNGPPR-QTKVVSHSSSPEWKEGFTW- 2032
Query: 545 SVSETDLSLQSLHILVLDDDKYGHDFLGEARFPLNR 580
++ Q LHI + +G LG+ ++R
Sbjct: 2033 -AFDSPPKGQKLHISCKSKNTFGKSSLGKVTIQIDR 2067
>gnl|CDD|226861 COG4454, COG4454, Uncharacterized copper-binding protein [Inorganic
ion transport and metabolism].
Length = 158
Score = 30.1 bits (68), Expect = 2.2
Identities = 6/25 (24%), Positives = 13/25 (52%)
Query: 727 LRHWVDMMKYPDHKHEGIHNLSIKP 751
L H M+ D +H+ + +++ P
Sbjct: 96 LEHVTHMILADDMEHDDPNTVTLAP 120
>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria
(DUF2058). This domain, found in various prokaryotic
proteins, has no known function.
Length = 177
Score = 30.3 bits (69), Expect = 2.4
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 1 MKKKKKKKKKKKKKKKKKIVIAID 24
KK KK+K+K++K+ +K D
Sbjct: 17 AKKAKKEKRKQRKQARKGADDGDD 40
>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain.
This presumed domain is found at the N-terminus of
Ribosomal L30 proteins and has been termed RL30NT or
NUC018.
Length = 71
Score = 28.3 bits (64), Expect = 2.4
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 6/41 (14%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAI-----DKIYRFKAEKEPIQ 37
K+ KK+ KK +KKK+ +I K YR AE++ I+
Sbjct: 15 KRAKKRAAKKAARKKKRKLIFKRAEKYVKEYR-AAERDEIR 54
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 30.4 bits (69), Expect = 2.4
Identities = 12/40 (30%), Positives = 16/40 (40%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQESLT 41
K KK KK K +KK A DK+ +L+
Sbjct: 98 DKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETLSTLS 137
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase;
Provisional.
Length = 330
Score = 31.0 bits (71), Expect = 2.5
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAID 24
KKK+K++ K K K K + +D
Sbjct: 74 KKKEKQEAKAAKAKSKPRLFVLD 96
Score = 29.4 bits (67), Expect = 8.0
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K +KKK+K++ K K K
Sbjct: 71 KAQKKKEKQEAKAAKAK 87
>gnl|CDD|232957 TIGR00398, metG, methionyl-tRNA synthetase. The methionyl-tRNA
synthetase (metG) is a class I amino acyl-tRNA ligase.
This model appears to recognize the methionyl-tRNA
synthetase of every species, including eukaryotic
cytosolic and mitochondrial forms. The UPGMA difference
tree calculated after search and alignment according to
This model shows an unusual deep split between two
families of MetG. One family contains forms from the
Archaea, yeast cytosol, spirochetes, and E. coli, among
others. The other family includes forms from yeast
mitochondrion, Synechocystis sp., Bacillus subtilis, the
Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori.
The E. coli enzyme is homodimeric, although monomeric
forms can be prepared that are fully active. Activity of
this enzyme in bacteria includes aminoacylation of
fMet-tRNA with Met; subsequent formylation of the Met to
fMet is catalyzed by a separate enzyme. Note that the
protein from Aquifex aeolicus is split into an alpha
(large) and beta (small) subunit; this model does not
include the C-terminal region corresponding to the beta
chain [Protein synthesis, tRNA aminoacylation].
Length = 530
Score = 30.8 bits (70), Expect = 3.0
Identities = 29/113 (25%), Positives = 38/113 (33%), Gaps = 20/113 (17%)
Query: 144 KFSPIFDRLGLFGAKCLVCH--DCRGGVCQKCGIESVSASKKENIWL----CKICAETRE 197
F P G C C D RG C+ CG E L CKIC E
Sbjct: 128 MFLPDRYVEG----TCPKCGSEDARGDHCEVCG------RHLEPTELINPRCKICGAKPE 177
Query: 198 MWKKSNAWFFKVSGLPYECLDHYTTEAVSGLPYECLDHYT---TEAGLPKYTI 247
+ S +FF++S E + SG P + + + GL I
Sbjct: 178 -LRDSEHYFFRLSAFEKELEEWIRKNPESGSPASNVKNKAQNWLKGGLKDLAI 229
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 29.1 bits (65), Expect = 3.1
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKK KK KK KK KK
Sbjct: 103 KKKKSKKTKKPKKSSKK 119
Score = 29.1 bits (65), Expect = 3.5
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKKK KK KK KK
Sbjct: 101 KKKKKKSKKTKKPKKSS 117
Score = 28.3 bits (63), Expect = 6.0
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKK KK KK KK K
Sbjct: 102 KKKKKSKKTKKPKKSSK 118
Score = 27.9 bits (62), Expect = 8.2
Identities = 11/17 (64%), Positives = 11/17 (64%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKK KK KK KK KK
Sbjct: 104 KKKSKKTKKPKKSSKKD 120
Score = 27.9 bits (62), Expect = 9.1
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K KKKKKK KK KK KK
Sbjct: 99 KPKKKKKKSKKTKKPKK 115
>gnl|CDD|176046 cd08401, C2A_RasA2_RasA3, C2 domain first repeat present in RasA2
and RasA3. RasA2 and RasA3 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. RasA2 and RasA3 are both inositol
1,3,4,5-tetrakisphosphate-binding proteins and contain
an N-terminal C2 domain, a Ras-GAP domain, a
pleckstrin-homology (PH) domain which localizes it to
the plasma membrane, and Bruton's Tyrosine Kinase (BTK)
a 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 = 29.3 bits (66), Expect = 3.1
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 666 YKTGVKWKTLNPIFNEEFAIETKITELSKQTLVITVWDKDYGKSNDYLG 714
++T K+L P F E+F E T + L ++D+D + + +G
Sbjct: 36 FRTKTVEKSLCPFFGEDFYFEIPRT---FRHLSFYIYDRDVLRRDSVIG 81
>gnl|CDD|191688 pfam07107, WI12, Wound-induced protein WI12. This family consists
of several plant wound-induced protein sequences related
to WI12 from Mesembryanthemum crystallinum. Wounding,
methyl jasmonate, and pathogen infection is known to
induce local WI12 expression. WI12 expression is also
thought to be developmentally controlled in the placenta
and developing seeds. WI12 preferentially accumulates in
the cell wall and it has been suggested that it plays a
role in the reinforcement of cell wall composition after
wounding and during plant development. This family seems
partly related to the NTF2-like superfamily.
Length = 109
Score = 29.1 bits (65), Expect = 3.2
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 449 TLKRGVITEEKEYFVTSQADTNLG 472
T+ GVIT+ +EYF TS T LG
Sbjct: 46 TVGDGVITQVREYFNTSLTVTRLG 69
>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is typically
between 156 to 174 amino acids in length. This domain is
found associated with pfam07780, pfam01728.
Length = 154
Score = 29.6 bits (67), Expect = 3.2
Identities = 6/20 (30%), Positives = 17/20 (85%)
Query: 1 MKKKKKKKKKKKKKKKKKIV 20
+ K K++K+++ ++K+K+I+
Sbjct: 128 LAKLKREKRRENERKQKEIL 147
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 28.5 bits (64), Expect = 3.4
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
+ KKKKKKKKKK +
Sbjct: 22 LVKKKKKKKKKKAEDTAA 39
Score = 27.7 bits (62), Expect = 5.0
Identities = 15/45 (33%), Positives = 18/45 (40%)
Query: 5 KKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQESLTASVLRNRL 49
KKKKKKKKKK + A K + AE L +
Sbjct: 22 LVKKKKKKKKKKAEDTAATAKAKKATAEDVSEGAMFMEGFLGEKF 66
Score = 27.3 bits (61), Expect = 6.7
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 2 KKKKKKKKKKKKKKKKK 18
KKKKKKKKKK +
Sbjct: 24 KKKKKKKKKKAEDTAAT 40
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 30.6 bits (69), Expect = 3.5
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 6/95 (6%)
Query: 275 IASANKSSEDNSSSDEEDARLARSKQVVSDARATCPNR----EVVTTARSSYPCSEEEEE 330
+ S+ K + N+ D+ED+ + S VS T N +V S E E E
Sbjct: 20 VESSQKRIQQNNG-DKEDSSTSTSSLSVSAVEKT-SNAKEEIQVDFQHNSESAVEEVEAE 77
Query: 331 EEVETDAEKSPSLKSIDIFTAISEFTSIANVSDTE 365
+E+E + +S LKS I S T + + D
Sbjct: 78 DEIEVEQNQSDVLKSSSIVKEESISTDMDGIDDDS 112
>gnl|CDD|150531 pfam09871, DUF2098, Uncharacterized protein conserved in archaea
(DUF2098). This domain, found in various hypothetical
prokaryotic proteins, has no known function.
Length = 91
Score = 28.4 bits (64), Expect = 4.0
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 86 EPLDPTEQEKIEEVIKRAEALDYIEQERVGRLVERVDNMKRNVTGG 131
E D +++K E + E ++ I++E E VD GG
Sbjct: 47 EVTDKVKEKKEEREEDKEELIERIKKEE--ETFEDVDLGSAGCGGG 90
>gnl|CDD|219572 pfam07780, Spb1_C, Spb1 C-terminal domain. This presumed domain is
found at the C-terminus of a family of FtsJ-like
methyltransferases. Members of this family are involved
in 60S ribosomal biogenesis.
Length = 212
Score = 29.6 bits (67), Expect = 4.7
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 1 MKKKKKKKKKKKKKKKKKIVIA 22
+KK KK KKKKKK+KK V+A
Sbjct: 153 IKKLYKKAKKKKKKRKKTYVVA 174
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 30.1 bits (68), Expect = 4.9
Identities = 17/114 (14%), Positives = 37/114 (32%), Gaps = 14/114 (12%)
Query: 470 NLGSIELTVTYDSTTCSLHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTC 529
++ L+ + ++ GL+ D + DP L++ L + R+
Sbjct: 50 GNKNMSLSDEKGL----VRSSIAALDGLQNRDCLRSLDPLSVLSVDGLQTSETSFRSSAL 105
Query: 530 LRTINPEFHEKLTFYSVSETDLSLQSLHILVLDDDKYGHDFLGEARFPLNRLRP 583
+N E D+ L S + + D+ + + + L L
Sbjct: 106 NPYVNEFL---------CENDVRLSSSITIQVSDESKQNV-IEDVFSGLENLGS 149
>gnl|CDD|227238 COG4901, COG4901, Ribosomal protein S25 [Translation, ribosomal
structure and biogenesis].
Length = 107
Score = 28.3 bits (63), Expect = 5.1
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQES-LTASVLRNRL 49
K KKK KKKKK++ + + +D+ K KE +E +T VL +R
Sbjct: 21 AKDKKKWSKKKKKEEARRAVTVDEELLDKIRKEVPRERVVTPYVLASRY 69
>gnl|CDD|220357 pfam09716, ETRAMP, Malarial early transcribed membrane protein
(ETRAMP). These sequences represent a family of
proteins from the malaria parasite Plasmodium
falciparum, several of which have been shown to be
expressed specifically in the ring stage as well as the
rodent parasite Plasmodium yoelii. A homologue from
Plasmodium chabaudi was localized to the
parasitophorous vacuole membrane. Members have an
initial hydrophobic, Phe/Tyr-rich, stretch long enough
to span the membrane, a highly charged region rich in
Lys, a second putative transmembrane region and a
second highly charged, low complexity sequence region.
Some members have up to 100 residues of additional
C-terminal sequence. These genes have been shown to be
found in the sub-telomeric regions of both Plasmodium
falciparum and P. yoelii chromosomes.
Length = 82
Score = 27.6 bits (62), Expect = 5.1
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 3 KKKKKKKKKKKKKKKKIVIA 22
KK +KKKK KKKI+I+
Sbjct: 38 KKIDDDLEKKKKNKKKIIIS 57
>gnl|CDD|217479 pfam03297, Ribosomal_S25, S25 ribosomal protein.
Length = 105
Score = 28.1 bits (63), Expect = 5.2
Identities = 21/49 (42%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKE-PIQESLTASVLRNRL 49
K KKKK K K K K + DK K KE P + +T SVL +RL
Sbjct: 21 KAKKKKWSKGKVKDKLNNAVLFDKATYDKLLKEVPTYKLITPSVLSDRL 69
>gnl|CDD|198322 cd10289, GST_C_AaRS_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of various
Aminoacyl-tRNA synthetases and similar domains.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl-tRNA synthetase (AaRS)-like
subfamily; This model characterizes the GST_C-like
domain found in the N-terminal region of some
eukaryotic AaRSs, as well as similar domains found in
proteins involved in protein synthesis including
Aminoacyl tRNA synthetase complex-Interacting
Multifunctional Protein 2 (AIMP2), AIMP3, and
eukaryotic translation Elongation Factor 1 beta
(eEF1b). AaRSs comprise a family of enzymes that
catalyze the coupling of amino acids with their
matching tRNAs. This involves the formation of an
aminoacyl adenylate using ATP, followed by the transfer
of the activated amino acid to the 3'-adenosine moiety
of the tRNA. AaRSs may also be involved in
translational and transcriptional regulation, as well
as in tRNA processing. AaRSs in this subfamily include
GluRS from lower eukaryotes, as well as GluProRS,
MetRS, and CysRS from higher eukaryotes. AIMPs are
non-enzymatic cofactors that play critical roles in the
assembly and formation of a macromolecular multi-tRNA
synthetase protein complex found in higher eukaryotes.
The GST_C-like domain is involved in protein-protein
interactions, mediating the formation of aaRS complexes
such as the MetRS-Arc1p-GluRS ternary complex in lower
eukaryotes and the multi-aaRS complex in higher
eukaryotes, that act as molecular hubs for protein
synthesis. AaRSs from prokaryotes, which are active as
dimers, do not contain this GST_C-like domain.
Length = 82
Score = 27.7 bits (62), Expect = 5.3
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 29 FKAEKEPIQESLTASVLRNR--LVSFITSLSDVSLFGFVHRLQTGWSVKAG----QLRRW 82
E E + +SL S L +R LV + +L+DV++F ++ S K + RW
Sbjct: 17 KGKELEALLKSL-NSYLASRTFLVGYSLTLADVAVFSALYPSGQKLSDKEKKKFPHVTRW 75
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 30.0 bits (68), Expect = 5.3
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 12/72 (16%)
Query: 325 SEEEEEEEVETDAEKSPSLKSIDIFT-----AISEFTSI-ANVSDTEQPIVIP-IR---- 373
EEEEEE+ + + + S +S FT + EF + VS +QP V+ IR
Sbjct: 369 EEEEEEEKEKKKKKSAESTRSELPFTFPCPKSHEEFLELLKGVSLEDQPTVVQRIRKCHH 428
Query: 374 -KIASGGSVKLE 384
K+A G KL
Sbjct: 429 PKLAEGNKEKLG 440
>gnl|CDD|201356 pfam00628, PHD, PHD-finger. PHD folds into an interleaved type of
Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 51
Score = 26.7 bits (59), Expect = 5.6
Identities = 14/56 (25%), Positives = 16/56 (28%), Gaps = 10/56 (17%)
Query: 138 CALCGDKFSPIFDRLGLFGAKCLVCHDCRGGVCQKC-GIESVSASKKENIWLCKIC 192
CA+CG L L+C C C G E W C C
Sbjct: 2 CAVCGKVDDD--GEL-------LLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPEC 48
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 29.0 bits (65), Expect = 6.0
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 2 KKKKKKKKKKKKKKKKK 18
K++KKKKK+KKKKKK+
Sbjct: 153 KERKKKKKEKKKKKKRH 169
Score = 28.6 bits (64), Expect = 7.9
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPI 36
KK KKKK + K++KKK K R E +
Sbjct: 142 KKHKKKKHEDDKERKKKKKEKKKKKKRHSPEHPGV 176
>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 239
Score = 29.3 bits (66), Expect = 6.2
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 4 KKKKKKKKKKKKKKKIVIAIDK--IYRFKAEKE 34
+++ KK K KKKKIV D +Y++K E++
Sbjct: 206 LQRELMKKGKGKKKKIVKDKDGKVVYKWKKERK 238
>gnl|CDD|221654 pfam12589, WBS_methylT, Methyltransferase involved in
Williams-Beuren syndrome. This domain family is found
in eukaryotes, and is typically between 72 and 83 amino
acids in length. The family is found in association
with pfam08241. This family is made up of
S-adenosylmethionine-dependent methyltransferases. The
proteins are deleted in Williams-Beuren syndrome (WBS),
a complex developmental disorder with multisystemic
manifestations including supravalvular aortic stenosis
(SVAS) and a specific cognitive phenotype.
Length = 85
Score = 27.6 bits (62), Expect = 6.2
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 2 KKKKKKKKKKKKKKKKK 18
+ ++KKKKKKK KKK K
Sbjct: 38 RNRRKKKKKKKLKKKSK 54
Score = 27.3 bits (61), Expect = 8.9
Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 4/22 (18%)
Query: 1 MKKKKKKKKKKKKKK----KKK 18
+KKKKKKK KKK K +KK
Sbjct: 40 RRKKKKKKKLKKKSKEWILRKK 61
>gnl|CDD|215193 PLN02337, PLN02337, lipoxygenase.
Length = 866
Score = 30.0 bits (68), Expect = 6.4
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 547 SETDLSLQSLHILVLDDDKYGH----DFLGEA 574
SE+ L L SL+I V D+++GH DFL A
Sbjct: 247 SESRLPLLSLNIYVPRDERFGHLKMSDFLAYA 278
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 29.8 bits (67), Expect = 6.6
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 3 KKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQES 39
+KKKKKKK K+KKKKK A +I+ + +E I+ S
Sbjct: 684 RKKKKKKKSKEKKKKKNREASKQIHALENIEEGIEGS 720
>gnl|CDD|188754 cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of Lhx3 and Lhx4
family. The first LIM domain of Lhx3-Lhx4 family: Lhx3
and Lhx4 belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. The LHX3 and LHX4
LIM-homeodomain transcription factors play essential
roles in pituitary gland and nervous system development.
Although LHX3 and LHX4 share marked sequence homology,
the genes have different expression patterns. They play
overlapping, but distinct functions during the
establishment of the specialized cells of the mammalian
pituitary gland and the nervous system. Lhx3 proteins
have been demonstrated the ability to directly bind to
the promoters/enhancers of several pituitary hormone
gene promoters to cause increased transcription. Lhx3a
and Lhx3b, whose mRNAs have distinct temporal expression
profiles during development, are two isoforms of Lhx3.
LHX4 plays essential roles in pituitary gland and
nervous system development. In mice, the lhx4 gene is
expressed in the developing hindbrain, cerebral cortex,
pituitary gland, and spinal cord. LHX4 shows significant
sequence similarity to LHX3, particularly to isoforms
Lhx3a. In gene regulation experiments, the LHX4 protein
exhibits regulation roles towards pituitary genes,
acting on their promoters/enhancers. As in other LIM
domains, this domain family is 50-60 amino acids in size
and shares two characteristic zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein.
Length = 52
Score = 26.6 bits (59), Expect = 7.8
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 6/39 (15%)
Query: 141 CGDKFSPIFDRLGL------FGAKCLVCHDCRGGVCQKC 173
CG I DR L + AKCL C+DC + KC
Sbjct: 1 CGGCQEHILDRFILKVLDRTWHAKCLKCNDCGAQLTDKC 39
>gnl|CDD|184185 PRK13618, psbV, cytochrome c-550; Provisional.
Length = 163
Score = 28.7 bits (64), Expect = 8.0
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 3/27 (11%)
Query: 330 EEEVETDAEKSPSLKSIDIFTAISEFT 356
EEE+ +E PS+KS DIFTA+ T
Sbjct: 111 EEEI---SEIHPSIKSADIFTAMRNLT 134
>gnl|CDD|233524 TIGR01677, pln_FAD_oxido, plant-specific FAD-dependent
oxidoreductase. This model represents an
uncharacterized plant-specific family of FAD-dependent
oxidoreductases. At least seven distinct members are
found in Arabidopsis thaliana. The family shows
considerable sequence similarity to three different
enzymes of ascorbic acid biosynthesis:
L-galactono-1,4-lactone dehydrogenase (EC 1.3.2.3) from
higher plants, D-arabinono-1,4-lactone oxidase (EC
1.1.3.37 from Saccharomyces cerevisiae, and
L-gulonolactone oxidase (EC 1.1.3.8) from mouse, as well
as to a bacterial sorbitol oxidase. The class of
compound acted on by members of this family is unknown.
Length = 557
Score = 29.4 bits (66), Expect = 8.0
Identities = 15/85 (17%), Positives = 33/85 (38%), Gaps = 4/85 (4%)
Query: 301 VVSDARATCPNREVVTTARSSYPCSEEEEEEEVETDAEKSPSLKSIDIFTAISEFTSIAN 360
VS+A P+R A +YP +E E V +K + ++ +A
Sbjct: 16 TVSNAYGAFPDRSTCRAANVAYPKTEAELVSVVAAATAAGRKMKVVTRYS--HSIPKLAC 73
Query: 361 VSDTEQPIVIPIRKIASGGSVKLEP 385
++ ++I +++ V ++
Sbjct: 74 PDGSDGALLISTKRL--NHVVAVDA 96
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 29.2 bits (66), Expect = 8.1
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 1 MKKKKKKKKKKKKKKKKK 18
+++++ KKKKKKKKKK K
Sbjct: 176 LEEERAKKKKKKKKKKTK 193
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 28.2 bits (64), Expect = 8.3
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 5 KKKKKKKKKKKKKKIVIAI 23
KKKK KKK KK I +
Sbjct: 1 AKKKKTVKKKVKKNIPSGV 19
>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 = 28.0 bits (63), Expect = 8.6
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 15/92 (16%)
Query: 487 LHVTLHRAKGLRAMDIHGTSDPFCKLNLVPLTKTSHRLRTKTCLRT-INPEFHEKLTFYS 545
L V + +A+ L DP+C L + +TK +TKT R +PE+ E+L F
Sbjct: 3 LVVVVLKARNLPNKRKLDKQDPYCVLRIGGVTK-----KTKTDFRGGQHPEWDEELRF-- 55
Query: 546 VSETDLSLQSLHIL---VLDDDKYGHDFLGEA 574
+++ IL V DDDK D +G+
Sbjct: 56 ----EITEDKKPILKVAVFDDDKRKPDLIGDT 83
>gnl|CDD|222126 pfam13435, Cytochrome_C554, Cytochrome c554 and c-prime. This
family is a tetra-haem cytochrome involved in the
oxidation of ammonia. It is found in both phototrophic
and denitrifying bacteria.
Length = 94
Score = 27.2 bits (60), Expect = 9.1
Identities = 9/31 (29%), Positives = 9/31 (29%)
Query: 143 DKFSPIFDRLGLFGAKCLVCHDCRGGVCQKC 173
F L C VCH G C C
Sbjct: 63 GGFDFSDATPALANVDCEVCHGPGGANCGSC 93
>gnl|CDD|181038 PRK07570, PRK07570, succinate dehydrogenase/fumarate reductase
iron-sulfur subunit; Validated.
Length = 250
Score = 29.0 bits (66), Expect = 9.1
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 163 HDCRGGVCQKCGI 175
HDCR G+C CG+
Sbjct: 56 HDCREGICGMCGL 68
>gnl|CDD|218693 pfam05687, DUF822, Plant protein of unknown function (DUF822).
This family consists of the N terminal regions of
several plant proteins of unknown function.
Length = 151
Score = 28.2 bits (63), Expect = 9.7
Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 1/73 (1%)
Query: 371 PIRKIASGGSVKLEPQSFPRPTSPVDSEKFSSSATVRSSPLMSRHTLPLTVNENSISPVS 430
R +G S P S SPV S S + +SP S P +++ IS +
Sbjct: 76 LERMEGAGSSATASPCS-SYQLSPVSSAFPSPVPSYSASPASSSFPSPSSLDSIPISSAA 134
Query: 431 PLSPICNGNFNTQ 443
L P +
Sbjct: 135 SLLPWLSVLSLVS 147
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation
factor 3 (eIF3). In yeast it is called Hcr1. The
Saccharomyces cerevisiae protein eIF3j (HCR1) has been
shown to be required for processing of 20S pre-rRNA and
binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 28.9 bits (65), Expect = 10.0
Identities = 12/38 (31%), Positives = 16/38 (42%)
Query: 2 KKKKKKKKKKKKKKKKKIVIAIDKIYRFKAEKEPIQES 39
K KK K K ++K+K +K R E P E
Sbjct: 56 AKAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDEL 93
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
0.316 0.132 0.397
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 37,526,381
Number of extensions: 3621879
Number of successful extensions: 9203
Number of sequences better than 10.0: 1
Number of HSP's gapped: 8617
Number of HSP's successfully gapped: 360
Length of query: 754
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 650
Effective length of database: 6,324,786
Effective search space: 4111110900
Effective search space used: 4111110900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 63 (28.1 bits)