RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2836
(215 letters)
>gnl|CDD|214604 smart00295, B41, Band 4.1 homologues. Also known as
ezrin/radixin/moesin (ERM) protein domains. Present in
myosins, ezrin, radixin, moesin, protein tyrosine
phosphatases. Plasma membrane-binding domain. These
proteins play structural and regulatory roles in the
assembly and stabilization of specialized plasmamembrane
domains. Some PDZ domain containing proteins bind one or
more of this family. Now includes JAKs.
Length = 201
Score = 115 bits (290), Expect = 3e-32
Identities = 55/148 (37%), Positives = 81/148 (54%), Gaps = 8/148 (5%)
Query: 1 MRVFPLHSTRLFPKTANVDPLQFSFRVKFYPPDPFKLKEDITRY-QIYLQLKRDLLHGRL 59
+R + + L + +PL FRVKFYPPDP +LKED TR +YLQ++ D+L GRL
Sbjct: 52 LRHWLDPAKTLLDQDVKSEPLTLYFRVKFYPPDPNQLKEDPTRLNLLYLQVRNDILEGRL 111
Query: 60 YCDPNAAAQLGAYILQEELGDFNPEEH-VGNYVADLKILLKQT------TYIEEKMMEFH 112
C A L A LQ E GD++ E H + ++ + L KQ E+++E H
Sbjct: 112 PCPEEEALLLAALALQAEFGDYDEELHDLRGELSLKRFLPKQLLDSRKLKEWRERIVELH 171
Query: 113 EKLKDQTPEQVETAFLRKAACLDTYGVD 140
++L +PE+ + +L A L TYGV+
Sbjct: 172 KELIGLSPEEAKLKYLELARKLPTYGVE 199
>gnl|CDD|241346 cd13192, FERM_C_FRMD3_FRMD5, FERM domain-containing protein 3 and 5
FERM (FRMD3 and 5) domain C-lobe. FRMD3 (also called
Band 4.1-like protein 4O/4.1O though it is not a true
member of that family) is a novel putative tumor
suppressor gene that is implicated in the origin and
progression of lung cancer. In humans there are 5
isoforms that are produced by alternative splicing. Less
is known about FRMD5, though there are 2 isoforms of the
human protein are produced by alternative splicing. Both
FRMD3 and FRMD5 contain a N-terminal FERM domain,
followed by a FERM adjacent (FA) domain, and 4.1 protein
C-terminal domain (CTD). The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 105
Score = 112 bits (281), Expect = 5e-32
Identities = 39/74 (52%), Positives = 51/74 (68%)
Query: 124 ETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYLWKQVQNINY 183
E FLRKA L+TYGVDP PVKDH G Q+YLG HTG++ F G +R + W + NY
Sbjct: 2 ELNFLRKAHTLETYGVDPHPVKDHYGTQLYLGFTHTGVVVFQGGKRVHHFKWDDISKFNY 61
Query: 184 EGKMFIVHLVFHED 197
EGK FI+H++ +E+
Sbjct: 62 EGKTFILHVMQNEE 75
>gnl|CDD|215882 pfam00373, FERM_M, FERM central domain. This domain is the central
structural domain of the FERM domain.
Length = 113
Score = 99.7 bits (249), Expect = 4e-27
Identities = 42/112 (37%), Positives = 66/112 (58%), Gaps = 7/112 (6%)
Query: 37 LKEDITRYQIYLQLKRDLLHGRLYCDPNAAAQLGAYILQEELGDFNPEEHVGNYVADLKI 96
L++++TR +YLQLKRD+L GRL C A L A LQ E GD+NPE+H +Y+ +L+
Sbjct: 1 LQDEVTRELLYLQLKRDILEGRLPCSEEEALLLAALALQAEFGDYNPEKHSSSYLKELEY 60
Query: 97 LLKQTT-------YIEEKMMEFHEKLKDQTPEQVETAFLRKAACLDTYGVDP 141
L +E++++E H+ L+ +P + + +L+ A L TYGV
Sbjct: 61 FLPSRLIKKEKSKELEKRILEAHKNLRGLSPAEAKLKYLQIAQSLPTYGVTF 112
>gnl|CDD|241338 cd13184, FERM_C_4_1_family, Protein 4.1 family FERM domain C-lobe.
The protein 4.1 family includes four well-defined
members: erythroid protein 4.1 (4.1R), the bestknown and
characterized member, 4.1G (general), 4.1N (neuronal),
and 4.1 B (brain). The less well understood 4.1O/FRMD3
is not a true member of this family and is not included
in this hierarchy. Besides three highly conserved
domains, FERM, SAB (spectrin and actin binding domain)
and CTD (C-terminal domain), the proteins from this
family contain several unique domains: U1, U2 and U3.
FERM domains like other members of the FERM domain
superfamily have a cloverleaf architecture with three
distinct lobes (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The brain is a particularly rich source of protein 4.1
isoforms. The various 4.1R, 4.1G, 4.1N, and 4.1B mRNAs
are all expressed in distinct patterns within the brain.
It is likely that 4.1 proteins play important functional
roles in the brain including motor coordination and
spatial learning, postmitotic differentiation, and
synaptic architecture and function. In addition they are
found in nonerythroid, nonneuronal cells where they may
play a general structural role in nuclear architecture
and/or may interact with splicing factors. The FERM C
domain is the third structural domain within the FERM
domain. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 113
Score = 65.8 bits (161), Expect = 4e-14
Identities = 29/75 (38%), Positives = 38/75 (50%)
Query: 118 QTPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYLWKQ 177
QTP + E FL A L YGVD P KD G I LG+ GIL + R R+ W +
Sbjct: 2 QTPAEAELHFLENAKKLALYGVDLHPAKDSEGVDIMLGVCAGGILVYRDRLRINRFAWPK 61
Query: 178 VQNINYEGKMFIVHL 192
+ I+Y+ F + L
Sbjct: 62 ILKISYKRNNFYIKL 76
>gnl|CDD|241340 cd13186, FERM_C_NBL4_NBL5, Novel band 4.1-like protein 4 and 5 FERM
(NBL4 and 5) domain C-lobe. NBL4 (also called
Erythrocyte protein band 4.1-like 4; Epb4 1l4) plays a
role the beta-catenin/Tcf signaling pathway and is
thought to be involved in establishing the cell polarity
or proliferation. NBL4 may be also involved in adhesion,
in cell motility and/or in cell-to-cell communication.
No role for NBL5 has been proposed to date. Both NBL4
and NBL5 contain a N-terminal FERM domain which has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
A single FERM_C repeat 2 from Tetraodon nigroviridis
also included in this cdThe C-lobe is a member of the PH
superfamily. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 111
Score = 61.9 bits (151), Expect = 9e-13
Identities = 25/72 (34%), Positives = 41/72 (56%)
Query: 119 TPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYLWKQV 178
TP + E +L KA L+ YGVD PVK GN+ +LG+ TGIL + + + W ++
Sbjct: 1 TPAEAELNYLNKAKWLEMYGVDLHPVKGEDGNEYFLGLTPTGILVYENKTKIGLFFWPKI 60
Query: 179 QNINYEGKMFIV 190
++++GK +
Sbjct: 61 TKLDFKGKKLKL 72
>gnl|CDD|220216 pfam09380, FERM_C, FERM C-terminal PH-like domain.
Length = 90
Score = 54.2 bits (131), Expect = 4e-10
Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 146 DHAGNQIYLGINHTGILTFLGNRRTTRYLWKQVQNINYEGKMFIVHLV 193
D G ++LG++ GIL + N + + W +++ I+++ K F++ L
Sbjct: 1 DKKGTDLWLGVSAKGILVYEDNNKINTFPWSEIRKISFKRKKFLIKLR 48
>gnl|CDD|241343 cd13189, FERM_C_PTPN4_PTPN3_like, Protein tyrosine phosphatase
non-receptor proteins 3 and 4 (PTPN4 and PTPN3) FERM
domain C-lobe. PTPN4 (also called PTPMEG, protein
tyrosine phosphatase, megakaryocyte) is a cytoplasmic
protein-tyrosine phosphatase (PTP) thought to play a
role in cerebellar function. PTPMEG-knockout mice have
impaired memory formation and cerebellar long-term
depression. PTPN3/PTPH1 is a membrane-associated PTP
that is implicated in regulating tyrosine
phosphorylation of growth factor receptors, p97 VCP
(valosin-containing protein, or Cdc48 in Saccharomyces
cerevisiae), and HBV (Hepatitis B Virus) gene
expression; it is mutated in a subset of colon cancers.
PTPMEG and PTPN3/PTPH1 contains a N-terminal FERM
domain, a middle PDZ domain, and a C-terminal
phosphatase domain. PTP1/Tyrosine-protein phosphatase 1
from nematodes and a FERM_C repeat 1 from Tetraodon
nigroviridis also included in this cd. The FERM domain
has a cloverleaf tripart structure (FERM_N, FERM_M,
FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1,
F2, F3). The C-lobe within the FERM domain is part of
the PH domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 123
Score = 55.0 bits (133), Expect = 6e-10
Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 118 QTPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYLWKQ 177
Q+P + E FL A L+ YGV+ +D + ++ +G+ GIL F R + W +
Sbjct: 2 QSPAEAEFNFLNTARTLELYGVELHSARDASNLELQVGVTSGGILVFQNGIRINTFPWSK 61
Query: 178 VQNINYEGKMFIVHL 192
+ I+++ K F + L
Sbjct: 62 IVKISFKRKQFFIQL 76
>gnl|CDD|241345 cd13191, FERM_C_FRMD4A_FRMD4B, FERM domain-containing protein 4A
and 4B (FRMD4A and 4B) FERM domain C-lobe. FRMD4A is
part of the Par-3/FRMD4A/cytohesin-1 complex that
activates Arf6, a central player in actin cytoskeleton
dynamics and membrane trafficking, during junctional
remodeling and epithelial polarization. The
Par-3/Par-6/aPKC/Cdc42 complex regulates the conversion
of primordial adherens junctions (AJs) into belt-like
AJs and the formation of linear actin cables. When
primordial AJs are formed, Par-3 recruits scaffolding
protein FRMD4A which connects Par-3 and the Arf6
guanine-nucleotide exchange factor (GEF), cytohesin-1.
FRMD4B (also called GRP1-binding protein, GRSP1) is a
novel member of GRP1 signaling complexes that are
recruited to plasma membrane ruffles in response to
insulin receptor signaling. The GRSP1/FRMD4B protein
contains a FERM protein domain as well as two coiled
coil domains and may function as a scaffolding protein.
GRP1 and GRSP1 interact through the coiled coil domains
in the two proteins. The FERM domain has a cloverleaf
tripart structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 115
Score = 46.9 bits (112), Expect = 4e-07
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 136 TYGVDPQPVKDHAGNQIYLGINHTGILTF-LGNRRTTR--YLWKQVQNINYEGKMFIV 190
TYGV VKD G +LG+++ GI + L ++ R + WKQ++N+ + + F +
Sbjct: 2 TYGVHYYEVKDKNGIPWWLGLSYKGIGQYDLQDKVKPRKLFQWKQLENLYFRDRKFSI 59
>gnl|CDD|241347 cd13193, FERM_C_FARP1-like, FERM, RhoGEF and pleckstrin
domain-containing protein 1 and related proteins FERM
domain. Members here include FARP1 (also called
Chondrocyte-derived ezrin-like protein; PH
domain-containing family C member 2), FARP2 (also called
FIR/FERM domain including RhoGEF; FGD1-related
Cdc42-GEF/FRG), and FRMD7(FERM domain containing 7).
FARP1 and FARP2 are members of the Dbl family guanine
nucleotide exchange factors (GEFs) which are upstream
positive regulators of Rho GTPases. FARP1 has increased
expression in differentiated chondrocytes. FARP2 is
thought to regulate neurite remodeling by mediating the
signaling pathways from membrane proteins to Rac. It is
found in brain, lung, and testis, as well as embryonic
hippocampal and cortical neurons. These members are
composed of a N-terminal FERM domain, a proline-rich
(PR) domain, Dbl-homology (DH), and two C-terminal PH
domains. Other members in this family do not contain
the DH domains such as the Human FERM domain containing
protein 7 and Caenorhabditis elegans CFRM3, both of
which have unknown functions. They contain an N-terminal
FERM domain, a PH domain, followed by a FA (FERM
adjacent) domain. The FERM domain has a cloverleaf
tripart structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 122
Score = 46.5 bits (111), Expect = 6e-07
Identities = 17/59 (28%), Positives = 32/59 (54%)
Query: 134 LDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYLWKQVQNINYEGKMFIVHL 192
+ YG+ P KD G + L + H GIL F G + + W +++ ++++ K F++ L
Sbjct: 6 CELYGIRLHPAKDREGVDLNLAVAHMGILVFQGFTKINTFSWAKIRKLSFKRKRFLIKL 64
>gnl|CDD|241342 cd13188, FERM_C_PTPN14_PTPN21, Protein tyrosine phosphatase
non-receptor proteins 14 and 21 (PTPN14 and 21) FERM
domain. This CD contains PTP members: pez/PTPN14 and
PTPN21. A number of mutations in Pez have been shown to
be associated with breast and colorectal cancer. The
PTPN protein family belong to larger family of PTPs.
PTPs are known to be signaling molecules that regulate a
variety of cellular processes including cell growth,
differentiation, mitotic cycle, and oncogenic
transformation. The members are composed of a N-terminal
FERM domain and a C-terminal PTP catalytic domain. The
FERM domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. Like most other ERM
members they have a phosphoinositide-binding site in
their FERM domain. The FERM C domain is the third
structural domain within the FERM domain. The FERM
domain is found in the cytoskeletal-associated proteins
such as ezrin, moesin, radixin, 4.1R, and merlin. These
proteins provide a link between the membrane and
cytoskeleton and are involved in signal transduction
pathways. The FERM domain is also found in protein
tyrosine phosphatases (PTPs) , the tyrosine kinases FAK
and JAK, in addition to other proteins involved in
signaling. This domain is structurally similar to the PH
and PTB domains and consequently is capable of binding
to both peptides and phospholipids at different sites.
Length = 111
Score = 46.1 bits (110), Expect = 6e-07
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 119 TPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTRYL-WKQ 177
+P + E ++++ LD YG + P KD+ GN I++G + GI N R W
Sbjct: 3 SPAEAELLYIQEVEQLDGYGEESYPAKDNQGNDIFIGASFEGIFVKHKNGRPPVVFKWND 62
Query: 178 VQNINYEGKMFIVHLVFHEDP 198
+ NI++ F V L+ E+
Sbjct: 63 IGNISHNKSFFSVELINKEET 83
>gnl|CDD|241349 cd13195, FERM_C_MYLIP_IDOL, The E3 ubiquitin ligase myosin
regulatory light chain-interacting protein (MYLIP; also
called inducible degrader of the LDL receptor, IDOL)
FERM domain C-lobe. MYLIP/IDOL is a regulator of the
LDL receptor (LDLR) pathway via the nuclear receptor
liver X receptor (LXR). In response to cellular
cholesterol loading, the activation of LXR leads to the
induction of MYLIP expression. MYLIP stimulates
ubiquitination of the LDLR on its cytoplasmic tail,
directing its degradation. The LXR-MYLIP-LDLR pathway
provides a complementary pathway to sterol regulatory
element-binding proteins for the feedback inhibition of
cholesterol uptake. MYLIP has an N-terminal FERM domain
and in some cases a C-terminal RING domain. The FERM
domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 131
Score = 41.8 bits (99), Expect = 3e-05
Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 119 TPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTT-RYLWKQ 177
+P E FL++ + L+ YGV+ V+ G ++ +G+ GI + R +
Sbjct: 3 SPSTAEYLFLKEVSELENYGVETFHVRTIEGQKLVIGVGPDGIRICNDDGELIQRIPYTA 62
Query: 178 VQNINYEGKMFIVHLV 193
+Q GK+F + +
Sbjct: 63 IQMATSSGKVFTLTYL 78
>gnl|CDD|241341 cd13187, FERM_C_PTPH13, Protein tyrosine phosphatase non-receptor
13 (PTPH13) FERM domain C-lobe. There are many
functions of PTPN13 (also called PTPL1, PTP-BAS, hPTP1E,
FAP1, or PTPL1). Mice lacking PTPN13 activity have
abnormal regulation of signal transducer and activator
of transcription signaling in their T cells, mild
impairment of motor nerve repair, and a significant
reduction in the growth of retinal glia cultures. It
also plays a role in adipocyte differentiation. PTPN13
contains a kinase non-catalytic C-lobe domain (KIND), a
FERM domain with two potential phosphatidylinositol
4,5-biphosphate [PtdIns(4,5)P2]-binding motifs, 5 PDZ
domains, and a carboxy-terminal catalytic domain. There
is an nteraction between the FERM domain of PTPL1 and
PtdIns(4,5)P2 which is thought to regulate the membrane
localization of PTPN13. PDZ are protein/protein
interaction domains so there is the potential for
numerous partners that can actively participate in the
regulation of its phosphatase activity or can permit
direct or indirect recruitment of tyrosine
phosphorylated PTPL1 substrates. The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 124
Score = 39.2 bits (92), Expect = 3e-04
Identities = 26/100 (26%), Positives = 42/100 (42%), Gaps = 11/100 (11%)
Query: 120 PEQVETAFLRKAACLDTYGV---DPQPVKDHAGNQIYLGINHTGILTF--LGNRRTT--R 172
E+ E FL+ L YGV K + I+LGI GI+ + RT R
Sbjct: 4 EEEAELEFLKVCQKLPEYGVHFHRVYREKKSSTGGIWLGICSRGIIIYEVHNGARTPVLR 63
Query: 173 YLWKQVQNINYEGKMFIVHLVFHEDPR----TKNMMYSSY 208
+ W++ + I+++ K FI+ + T + S Y
Sbjct: 64 FPWRETKKISFDRKKFIIENRGGSGIKHTFYTDSYKKSQY 103
>gnl|CDD|241233 cd00836, FERM_C-lobe, FERM domain C-lobe. The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 91
Score = 37.0 bits (86), Expect = 0.001
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 138 GVDPQPVKDHAGNQ-IYLGINHTGILTF--LGNRRTTRYLWKQVQNINYEGKMFIVHL 192
GV+ VKD +G + LG++ GI T + W +++ I++ K F + +
Sbjct: 1 GVEFFDVKDKSGGSELILGVSLEGISVLDDNTGNPLTLFRWPEIRKISFSKKTFTIEI 58
>gnl|CDD|241348 cd13194, FERM_C_ERM, ERM family FERM domain C-lobe/F3. The ERM
family includes ezrin, radixin, moesin and merlin. They
are composed of a N-terminal FERM (ERM) domain (also
called N-ERMAD (N-terminal ERM association domain)), a
coiled coil region (CRR), and a C-terminal domain CERMAD
(C-terminal ERM association domain) which has an
F-actin-binding site (ABD). Two actin-binding sites have
been identified in the middle and N-terminal domains.
Merlin is structurally similar to the ERM proteins, but
instead of an actin-binding domain (ABD), it contains a
C-terminal domain (CTD), just like the proteins from the
4.1 family. Activated ezrin, radixin and moesin are
thought to be involved in the linking of actin filaments
to CD43, CD44, ICAM1-3 cell adhesion molecules, various
membrane channels and receptors, such as the Na+/H+
exchanger-3 (NHE3), cystic fibrosis transmembrane
conductance regulator (CFTR), and the beta2-adrenergic
receptor. The ERM proteins exist in two states, a
dormant state in which the FERM domain binds to its own
C-terminal tail and thereby precludes binding of some
partner proteins, and an activated state, in which the
FERM domain binds to one of many membrane binding
proteins and the C-terminal tail binds to F-actin. The
FERM domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
of ERM is part of the PH domain family. The FERM domain
is found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 97
Score = 32.6 bits (75), Expect = 0.036
Identities = 16/60 (26%), Positives = 36/60 (60%), Gaps = 3/60 (5%)
Query: 137 YGVDPQPVKDHAGNQIYLGINHTGILTF-LGNRRTTR--YLWKQVQNINYEGKMFIVHLV 193
YGV+ +K+ G ++LG++ G+ + L N+ T + + W +++NI++ K F++ +
Sbjct: 2 YGVNYFEIKNKKGTDLWLGVDALGLNIYELENKLTPKIGFPWSEIRNISFNDKKFVIKPI 61
>gnl|CDD|224627 COG1713, COG1713, Predicted HD superfamily hydrolase involved in
NAD metabolism [Coenzyme metabolism].
Length = 187
Score = 30.0 bits (68), Expect = 0.56
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 15/55 (27%)
Query: 28 KFYPPDPFKLKEDITRYQIYLQLKR---DLLHGRLYCDPNAAAQLGAYILQEELG 79
K P KL + +Y + L L+R LLHG++ GAY+L+EE G
Sbjct: 54 KELPEQ--KLLKIAKKYGLELDLERESPLLLHGKV----------GAYLLKEEFG 96
>gnl|CDD|224681 COG1767, CitG, Triphosphoribosyl-dephospho-CoA synthetase [Coenzyme
metabolism].
Length = 288
Score = 30.0 bits (68), Expect = 0.75
Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 3/52 (5%)
Query: 47 YLQLKRDLLHGRLYCDPNAAAQLGAYILQEELGDFNPEEHVGNYVADLKILL 98
L L L +A Q A +++ EL +E G + LL
Sbjct: 120 LLARTTPLDAVELC---DAIKQACAGLVKRELKADVSDETAGERLFRKYGLL 168
>gnl|CDD|223854 COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage
protectant) [Inorganic ion transport and metabolism].
Length = 156
Score = 28.8 bits (65), Expect = 1.3
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 74 LQEELGDFNPEEHVGNYVADLKILLKQTTYIEEKMMEFHEKLKDQT 119
++EE GD+ E + V D + L+K+ K +E ++ D+
Sbjct: 91 IKEEPGDYTAREMLKELVEDYEYLIKEL----RKGIELADEAGDEV 132
>gnl|CDD|107164 PHA02277, PHA02277, hypothetical protein.
Length = 150
Score = 27.8 bits (61), Expect = 3.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 73 ILQEELGDFNPEEHVGNYVADLKILLKQTTYIEEKMMEFHEKLKDQTPEQVET 125
I+++ELG +E VG L K+ Y++EK E +K +++ ++ E+
Sbjct: 87 IMEDELG--VTQEKVGKAKDKLNE--KREAYLKEKQEELRQKQQEEAQKKTES 135
>gnl|CDD|178043 PLN02423, PLN02423, phosphomannomutase.
Length = 245
Score = 27.8 bits (62), Expect = 3.8
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 64 NAAAQLGAYILQEELGDFNPEEHVG---NYVADLKILLKQTTYIE 105
+G L+ LG+ +E + +Y+ADL I +K+ T+IE
Sbjct: 78 KDGKLIGTQSLKSFLGEDKLKEFINFTLHYIADLDIPIKRGTFIE 122
>gnl|CDD|237025 PRK11929, PRK11929, putative bifunctional
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate
ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
alanine ligase; Provisional.
Length = 958
Score = 28.1 bits (63), Expect = 4.7
Identities = 11/22 (50%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 77 ELGDFNPEEH--VGNYVADLKI 96
ELGD P H VG Y L I
Sbjct: 874 ELGDNGPAMHREVGKYARQLGI 895
>gnl|CDD|148163 pfam06394, Pepsin-I3, Pepsin inhibitor-3-like repeated domain.
Pepsin inhibitor-3 consisting of two domains, each
comprising an antiparallel beta-sheet flanked by an
alpha-helix. In the enzyme-inhibitor complex, the
N-terminal beta-strand of PI-3 pairs with one strand of
the active site flap region of pepsin. The two domains
are tandem repeats of sequence, and has therefore been
termed repeated domain.
Length = 76
Score = 25.8 bits (57), Expect = 5.3
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 12/58 (20%)
Query: 72 YILQEELGDFNPEEHVGNYVADLKILLKQTTYIEEKMMEFHEKLKDQTPEQVETAFLR 129
Y + D E ++ +EK+ + E LK+Q ++VE F
Sbjct: 31 YANGFYVRDLTSSEQ------------QELKTFQEKVAAYKEYLKNQIQQRVEKLFGG 76
>gnl|CDD|132147 TIGR03103, trio_acet_GNAT, GNAT-family acetyltransferase TIGR03103.
Members of this protein family belong to the GNAT
family of acetyltransferases. Each is part of a
conserved three-gene cassette sparsely distributed
across at least twenty different species known so far,
including alpha, beta, and gamma Proteobacteria,
Mycobacterium, and Prosthecochloris, which is a member
of the Chlorobi. The other two members of the cassette
are a probable protease and an asparagine synthetase
family protein.
Length = 547
Score = 27.0 bits (60), Expect = 9.1
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 9/60 (15%)
Query: 113 EKLKDQTPEQVETAFLRKAACLDTYGVDPQPVKDHAGNQIYLGINHTGILTFLGNRRTTR 172
E L+++ P + + A Y DP V A +++L +HT L R R
Sbjct: 28 EALREEGPGRRDIAL---------YVRDPHVVLALAPQELFLDPSHTYRLWLTQYRPAAR 78
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
0.322 0.139 0.420
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,318,648
Number of extensions: 1083596
Number of successful extensions: 895
Number of sequences better than 10.0: 1
Number of HSP's gapped: 888
Number of HSP's successfully gapped: 28
Length of query: 215
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 122
Effective length of database: 6,812,680
Effective search space: 831146960
Effective search space used: 831146960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)