RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4567
(803 letters)
>gnl|CDD|219316 pfam07162, B9-C2, Ciliary basal body-associated, B9 protein. The
B9-C2 domain is found in proteins associated with the
ciliary basal body. B9 domains were identified as a
specific family of C2 domains. There are three
sub-families represented by this family, notably,
Mks1-Xbx7, Stumpy-Tza1 and Tza2 groups of proteins.
Mutations in human Mks1 result in the developmental
disorder Mechler-Gruber syndrome; mutations in mouse
Stumpy lead to perinatal hydrocephalus and severe
polycystic kidney disease. All the three distinct types
of B9-C2 proteins cooperatively localise to the basal
body or centrosome of cilia.
Length = 165
Score = 123 bits (311), Expect = 1e-32
Identities = 37/86 (43%), Positives = 52/86 (60%), Gaps = 1/86 (1%)
Query: 252 TNWKLISGKKEGQTQVD-SPVYDKLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFGRG 310
+WKL+SG GQTQ S D + V++HP D+H T GWP+L + V+ D +GR
Sbjct: 29 PDWKLVSGLTSGQTQTARSAGNDDVAVFNHPFDLHLKTTNPFGWPQLVVTVWSLDSWGRE 88
Query: 311 EIYGYGFTNVPMSPGTHNIDCHTWRP 336
+ GYG +VP++PG H + TWRP
Sbjct: 89 RLEGYGACHVPLTPGKHELRVPTWRP 114
Score = 74.6 bits (184), Expect = 1e-15
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 185 CPCDITVSTNWKLISGKKEGQTQVDSPVYDKLTA-WSHPIDVHFATRGVQGWPKLHLQVY 243
C + +WKL+SG GQTQ + A ++HP D+H T GWP+L + V+
Sbjct: 21 CRYQLVAGPDWKLVSGLTSGQTQTARSAGNDDVAVFNHPFDLHLKTTNPFGWPQLVVTVW 80
Query: 244 HYDKQGGRTN 253
D G
Sbjct: 81 SLDSWGRERL 90
>gnl|CDD|219565 pfam07773, DUF1619, Protein of unknown function (DUF1619). This is
a family of sequences derived from hypothetical
eukaryotic proteins. The region in question is
approximately 330 residues long and has a cysteine rich
amino-terminus.
Length = 292
Score = 91.0 bits (226), Expect = 5e-20
Identities = 46/144 (31%), Positives = 63/144 (43%), Gaps = 17/144 (11%)
Query: 383 CPCDITKGVCDINCCCDNDCSARDRLVFSHCLPLPILSS-SQYCFSKQLIYIKNSPHYIV 441
C CD+T G CD+NCCCD DCSA R +FS CLP + SQ C K+ ++
Sbjct: 1 CVCDLTPGQCDLNCCCDPDCSASVRQLFSFCLPEVVGGDYSQLCSQKETVHYSPGLQRRT 60
Query: 442 TQPDNSLLCIETENLRSKTNFTHFRPITTLKNFAKVFDRRKRPTWSQAVLRTSSPYSLDR 501
Q + LC+ N K+NF + F +P S S +L
Sbjct: 61 CQIGDGALCVIRSN--YKSNFLGY--------FYLPDGVSYKPLSSN-----PSDPALPS 105
Query: 502 LPHNQSYKVGQPIWILNATSVGVF 525
P + YK G P+ ++ SV F
Sbjct: 106 PP-SGKYKQGDPLQTPSSRSVAYF 128
>gnl|CDD|218673 pfam05642, Sporozoite_P67, Sporozoite P67 surface antigen. This
family consists of several Theileria P67 surface
antigens. A stage specific surface antigen of Theileria
parva, p67, is the basis for the development of an
anti-sporozoite vaccine for the control of East Coast
fever (ECF) in cattle. The antigen has been shown to
contain five distinct linear peptide sequences
recognised by sporozoite-neutralising murine monoclonal
antibodies.
Length = 727
Score = 35.0 bits (80), Expect = 0.16
Identities = 31/150 (20%), Positives = 52/150 (34%), Gaps = 3/150 (2%)
Query: 25 VEKERLVIVDVPKKDDENTPKDGNHTDLDHEIVVDKRSSNVEKGTLTEEVLNG-KIAKSE 83
V +E V + + D K + D D D +S++ + G +++ G +
Sbjct: 93 VSQESEVQDNTEQNQDTKGSKTDSEEDDDDSEEEDNKSTSSKDGKGSKKTQPGVSTSSGS 152
Query: 84 KTNEVIPDSIAEESGVTPSVDNPTVTVLTVNTDEPITEGAVEPTVGVTEANG--GASGVG 141
T+ ++ ++G+ S + + G P VGV G GVG
Sbjct: 153 TTSGTDLNTKQSQTGLGASGSHAQQDPAVSQSGVVGVPGLGVPGVGVPGGGGAGALPGVG 212
Query: 142 ANGVGASGGVAVPTLAVNEDDTKLTHKTTS 171
G S GV V L L T+
Sbjct: 213 VGRAGVSPGVGVGGLGGVPGVGILASNTSR 242
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 33.8 bits (78), Expect = 0.38
Identities = 33/105 (31%), Positives = 41/105 (39%), Gaps = 28/105 (26%)
Query: 93 IAEESGVTPSV-----D---------------NPTVTVLTVN--TDEPITEGAVEPTVGV 130
+A ESG P + D P V VL V+ E + A + G
Sbjct: 137 LAWESGAEPVIVLTKADLCEDAEEKIAEVEALAPGVPVLAVSALDGEGLDVLAAWLSGGK 196
Query: 131 TEANGGASGVG----ANGVGASGGVAVPTLAVNEDDTKLTHKTTS 171
T A G+SGVG N + G T AV EDD+K H TT
Sbjct: 197 TVALLGSSGVGKSTLVNAL--LGEEVQKTGAVREDDSKGRHTTTH 239
>gnl|CDD|180985 PRK07455, PRK07455,
keto-hydroxyglutarate-aldolase/keto-deoxy-
phosphogluconate aldolase; Provisional.
Length = 187
Score = 32.7 bits (75), Expect = 0.42
Identities = 22/55 (40%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 98 GVTPSVDNPTVTVLTVNTDEPITEGAVEPTVGVTEANGGASGVGANGVGASGGVA 152
TP VD + V D PI GA+ PT VT GAS V V A GG
Sbjct: 88 CFTPHVDPELIEA-AVAQDIPIIPGALTPTEIVTAWQAGASCVKVFPVQAVGGAD 141
>gnl|CDD|197975 smart00907, GDNF, GDNF/GAS1 domain. This cysteine rich domain is
found in multiple copies in GNDF and GAS1 proteins. GDNF
and neurturin (NTN) receptors are potent survival
factors for sympathetic, sensory and central nervous
system neurons.. GDNF and neurturin promote neuronal
survival by signaling through similar multicomponent
receptors that consist of a common receptor tyrosine
kinase and a member of a GPI-linked family of receptors
that determines ligand specificity.
Length = 86
Score = 30.7 bits (69), Expect = 0.63
Identities = 9/38 (23%), Positives = 11/38 (28%)
Query: 571 AQSELQSRSADLDFERDQCWCFCDLKEFTECEAIQRHI 608
A L R D +C C EC +R
Sbjct: 44 AYCGLALRPFYDDNSSVLLFCTCAGNRDEECLEFRRLF 81
>gnl|CDD|205806 pfam13629, T2SS-T3SS_pil_N, Pilus formation protein N terminal
region.
Length = 72
Score = 29.4 bits (67), Expect = 1.2
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 176 PITRVAVQDCP--CDITV-STNWKLISGKKEGQTQV 208
PI RVAV + P D+TV S ++GKK G T +
Sbjct: 20 PIARVAVGN-PAIADVTVLSPRTLYVTGKKPGTTNL 54
>gnl|CDD|223791 COG0719, SufB, Cysteine desulfurase activator SufB
[Posttranslational modification, protein turnover,
chaperones].
Length = 412
Score = 31.5 bits (72), Expect = 2.0
Identities = 17/83 (20%), Positives = 26/83 (31%), Gaps = 20/83 (24%)
Query: 297 LHLQVYHYDKFGRGEIY------GYGFTNV-------PMSPGTH-NIDCHTWRPLVIQLG 342
+ ++ H R I T + G+ +C T L+ L
Sbjct: 277 VGTKMIHNGPNTRSNILSKGIVKDGARTVFRGLIDIRKGATGSDAYQECRT---LL--LS 331
Query: 343 ADRSGGVAVPTLAVNEDDTKLTH 365
D + VP L + DD K H
Sbjct: 332 -DDARADTVPILEIETDDVKAGH 353
>gnl|CDD|234504 TIGR04216, halo_surf_glyco, major cell surface glycoprotein.
Members of this family are the S-layer-forming
halobacterial major cell surface glycoprotein. The
highest scores below model cutoffs are fragmentary
paralogs to actual members of the family. Modifications
include at N-linked and O-linked glycosylation, a
C-terminal diphytanylglyceryl modification, and probable
cleavage of the PGF-CTERM tail.
Length = 782
Score = 31.4 bits (71), Expect = 2.1
Identities = 26/138 (18%), Positives = 49/138 (35%), Gaps = 12/138 (8%)
Query: 31 VIVDVPKKDDEN-TPKDGNHTDLDHEIVVDKRSSNVEKGTLTEEVLNGKIAKSEKTNEVI 89
+ V++ +DD + T + + + D + V+ S+VE G T E +G +++ N +
Sbjct: 650 ITVELLNEDDTSVTLESTDEWNSDGQWSVEVDLSDVETGNYTVEADDGD--NTDRVNVEV 707
Query: 90 PDSIAEESGVTPSVDNPTVTVLTVNTDEPITEGAVEPTV------GVTEANGGASGVGAN 143
+ T T T T +E T T ++ G+
Sbjct: 708 VEETERPDTTTSEDPTTTTTPTTTGPEETTETAEPTTTTEEPTEETTTGSSTPGFGI--- 764
Query: 144 GVGASGGVAVPTLAVNED 161
V V LA+ +
Sbjct: 765 AVALVALVGAALLALRRN 782
>gnl|CDD|107373 cd06378, PBP1_iGluR_NMDA_NR2, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR2 subunit of NMDA receptor family.
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of the NR2 subunit of NMDA receptor
family. The ionotropic N-methyl-d-asparate (NMDA)
subtype of glutamate receptor serves critical functions
in neuronal development, functioning, and degeneration
in the mammalian central nervous system. The functional
NMDA receptor is a heterotetramer composed of two NR1
and two NR2 (A, B, C, and D) or of NR3 (A and B)
subunits. The receptor controls a cation channel that is
highly permeable to monovalent ions and calcium and
exhibits voltage-dependent inhibition by magnesium. Dual
agonists, glutamate and glycine, are required for
efficient activation of the NMDA receptor. Among NMDA
receptor subtypes, the NR2B subunit containing receptors
appear particularly important for pain perception; thus
NR2B-selective antagonists may be useful in the
treatment of chronic pain.
Length = 362
Score = 31.1 bits (71), Expect = 2.3
Identities = 16/79 (20%), Positives = 26/79 (32%), Gaps = 17/79 (21%)
Query: 117 EPITEGAVEPTVGVTEANGGASGVGANGVGASGGVAVPTLAVNEDDTKLTHKTTSIPRNP 176
+ V + A + + V V TL VNE D P++
Sbjct: 1 PGLNIAVVLSGTNSSTAFLRGRLTKEDFLDLPLDVNVVTLLVNETD----------PKSI 50
Query: 177 ITRVAVQDCPCDITVSTNW 195
+T++ CD +ST
Sbjct: 51 LTQL------CD-LLSTTK 62
>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
Length = 1627
Score = 31.0 bits (70), Expect = 3.2
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 246 DKQGGRTNWKLISGKKEGQTQVDSPVYDKLTVWSHPIDVHFATRGVQGWPKLHLQVYHY- 304
DK+GG+ + L+ + +VD V++ T+W +P++ + T + PK +
Sbjct: 1401 DKRGGQMDAPLVLTTRLDPKEVDGEVHNMDTMWYYPLEFYEKTLEMPS-PKEVKEFIETV 1459
Query: 305 -DKFGRGEIY-GYGFTN 319
D+ G+ E Y G G+T+
Sbjct: 1460 EDRLGKPEQYEGIGYTH 1476
>gnl|CDD|218435 pfam05104, Rib_recp_KP_reg, Ribosome receptor lysine/proline rich
region. This highly conserved region is found towards
the C-terminus of the transmembrane domain. The function
is unclear.
Length = 151
Score = 29.2 bits (65), Expect = 5.0
Identities = 19/71 (26%), Positives = 25/71 (35%), Gaps = 3/71 (4%)
Query: 60 KRSSNVEKGTLT---EEVLNGKIAKSEKTNEVIPDSIAEESGVTPSVDNPTVTVLTVNTD 116
K+ EK + EE NGKI + E EV + E P+V V V V
Sbjct: 29 KKEKVSEKKGKSKKKEEKPNGKIPEHEPNQEVTEVEVIIEKEPVPAVAVAPVPVAVVAPV 88
Query: 117 EPITEGAVEPT 127
+P
Sbjct: 89 VAPKPKKSQPV 99
>gnl|CDD|236140 PRK08026, PRK08026, flagellin; Validated.
Length = 529
Score = 30.1 bits (68), Expect = 5.1
Identities = 19/93 (20%), Positives = 26/93 (27%), Gaps = 11/93 (11%)
Query: 85 TNEVIPDSIAEESGVTPSVDNPTVTVLTVNTDEPITEGAVEPTVGVTEANGGASGVGANG 144
TN + A + + T +T GVT S NG
Sbjct: 301 TNNAGAATKATLDALKKTASEGAATAKAALAAAGVTV-----ADGVTAKTVKMSYTDKNG 355
Query: 145 VGASGGVAVPTL------AVNEDDTKLTHKTTS 171
GG AV T +E ++ TT
Sbjct: 356 KVIDGGYAVKTGDDYYAADYDEITGAISATTTY 388
>gnl|CDD|223500 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 30.0 bits (68), Expect = 5.3
Identities = 16/80 (20%), Positives = 28/80 (35%), Gaps = 1/80 (1%)
Query: 52 LDHEIVVDKRSSNVEKGTLTEEVLNGKIAKSEKTNEVIPDSIAEESGVTPSVDNPTVTVL 111
D V++ S V+ L E K + + + E +G S D + +
Sbjct: 348 YDEPKEVERWHSKVDLKFLGPE-FKKDAKKVAEALSELEELEKELNGYEVSKDLVIIEEV 406
Query: 112 TVNTDEPITEGAVEPTVGVT 131
T E +EP+ G+
Sbjct: 407 EKVTGEKYIPHVIEPSFGID 426
>gnl|CDD|233843 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A'.
This family consists of the archaeal A' subunit of the
DNA-directed RNA polymerase. The example from
Methanocaldococcus jannaschii contains an intein.
Length = 867
Score = 30.1 bits (68), Expect = 5.9
Identities = 37/122 (30%), Positives = 47/122 (38%), Gaps = 34/122 (27%)
Query: 55 EIVVDKRSSNVEKGTLTEEVLNGKIAKSEKTN--EVIPDSIAEESGVTPSVDNPTVTVLT 112
+I +K + E+G + K+ SE E IPD AE G+ P V P VLT
Sbjct: 153 KIKFEKPTYFYEEGKEGDV----KLTPSEIRERLEKIPDEDAELLGINPKVARPEWMVLT 208
Query: 113 VNTDEPITEGAVEPTVGVTEANGGASGVGANGVGASGGVAVPTLAVNEDDTKLTHKTTSI 172
V P+T V P+ +T G S EDD LTHK I
Sbjct: 209 VLPVPPVT---VRPS--ITLETGERS---------------------EDD--LTHKLVDI 240
Query: 173 PR 174
R
Sbjct: 241 IR 242
>gnl|CDD|133247 cd05116, PTKc_Syk, Catalytic domain of the Protein Tyrosine Kinase,
Spleen tyrosine kinase. Protein Tyrosine Kinase (PTK)
family; Spleen tyrosine kinase (Syk); catalytic (c)
domain. The PTKc family is part of a larger superfamily
that includes the catalytic domains of other kinases
such as protein serine/threonine kinases, RIO kinases,
and phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Syk,
together with Zap-70, form the Syk subfamily of kinases
which are cytoplasmic (or nonreceptor) tyr kinases
containing two Src homology 2 (SH2) domains N-terminal
to the catalytic tyr kinase domain. Syk was first cloned
from the spleen, and its function in hematopoietic cells
is well-established. Syk is involved in the signaling
downstream of activated receptors (including B-cell and
Fc receptors) that contain ITAMs (immunoreceptor tyr
activation motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. More recently, Syk
expression has been detected in other cell types
(including epithelial cells, vascular endothelial cells,
neurons, hepatocytes, and melanocytes), suggesting a
variety of biological functions in non-immune cells. Syk
plays a critical role in maintaining vascular integrity
and in wound healing during embryogenesis. It also
regulates Vav3, which is important in osteoclast
function including bone development. In breast
epithelial cells, where Syk acts as a negative regulator
for epidermal growth factor receptor (EGFR) signaling,
loss of Syk expression is associated with abnormal
proliferation during cancer development suggesting a
potential role as a tumor suppressor. In mice, Syk has
been shown to inhibit malignant transformation of
mammary epithelial cells induced with murine mammary
tumor virus (MMTV).
Length = 257
Score = 29.5 bits (66), Expect = 6.2
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 64 NVEKGTL----TEEVLNGKIAKSEKTNEVIPDSIAEESGVTPSVDNPTV 108
V+KG +E+ + KI K++ + + D + E+ V +DNP +
Sbjct: 10 TVKKGMYKMKKSEKTVAVKILKNDNNDPALKDELLREANVMQQLDNPYI 58
>gnl|CDD|165177 PHA02834, PHA02834, chemokine receptor-like protein; Provisional.
Length = 323
Score = 29.5 bits (66), Expect = 8.2
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 409 VFSHCLPLPILSSSQYCFSKQLIYIKNSPHYIVTQPDNSLLCIET 453
+F +PL I YC+SK L +KN + T+ +L + T
Sbjct: 195 IFGIVIPLII---LIYCYSKILYTLKNCKNKNKTRSIKIILTVVT 236
>gnl|CDD|118950 pfam10429, Mtr2, Nuclear pore RNA shuttling protein Mtr2. Mtr2 is
a monomeric, dual-action, RNA-shuttle protein found in
yeasts. Transport across the nuclear-cytoplasmic
membrane is via the macro-molecular membrane-spanning
nuclear pore complex, NPC. The pore is lined by a subset
of NPC members called nucleoporins that present FG
(Phe-Gly) receptors, characteristically GLFG and FXFG
motifs, for shuttling RNAs and proteins. RNA cargo is
bound to soluble transport proteins (nuclear export
factors) such as Mex67 in yeasts, and TAP in metazoa,
which pass along the pore by binding to successive FG
receptors. Mtr2 when bound to Mex67 maximises this
FG-binding. Mtr2 also acts independently of Mex67 in
transporting the large ribosomal RNA subunit through the
pore.
Length = 166
Score = 28.6 bits (64), Expect = 8.6
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 23/84 (27%)
Query: 391 VCDINCCCDNDCSARDRLVFSHCLPLPI-----------LSSSQYCFSKQLIY------- 432
+C+ NC D S RD++ LP P + S + S QL+
Sbjct: 83 ICNANCKVRFDESGRDKMGQDATLPAPPNGAVRMDKPRPIWGSYFGVSLQLVLDERIFRN 142
Query: 433 ----IKNSPHY-IVTQPDNSLLCI 451
+ NS +Y IV +P++SL+ I
Sbjct: 143 DENGVINSFNYRIVYKPEDSLIKI 166
>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 = 28.1 bits (63), Expect = 9.3
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 4/21 (19%)
Query: 297 LHLQVYHYDKFGR----GEIY 313
L+LQV YD+F R GE+
Sbjct: 85 LYLQVLDYDRFSRNDPIGEVS 105
>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 = 28.2 bits (63), Expect = 9.4
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 297 LHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHT--WRPL 337
L L V+HYD+FGR G +P+ + N D PL
Sbjct: 86 LQLSVWHYDRFGRNTFLGE--VEIPL--DSWNFDSQHEECLPL 124
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
0.317 0.135 0.423
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 40,653,609
Number of extensions: 3938718
Number of successful extensions: 2803
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2794
Number of HSP's successfully gapped: 25
Length of query: 803
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 698
Effective length of database: 6,280,432
Effective search space: 4383741536
Effective search space used: 4383741536
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 (28.4 bits)