RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14290
(332 letters)
>gnl|CDD|241353 cd13199, FERM_C2_MyoVII, Myosin VII (MyoVII, Myo7) FERM domain
C-lobe, repeat 2. MyoVII, a MyTH-FERM myosin, is an
actin-based motor protein essential for a variety of
biological processes in the actin cytoskeleton function.
Mutations in MyoVII leads to problems in sensory
perception: deafness and blindness in humans (Usher
Syndrome), retinal defects and deafness in mice (shaker
1), and aberrant auditory and vestibular function in
zebrafish. Myosin VIIAs have plus (barbed) end-directed
motor activity on actin filaments and a characteristic
actin-activated ATPase activity. MyoVII consists of a
conserved spectrin-like, SH3 subdomain N-terminal
region, a motor/head region, a neck made of 4-5 IQ
motifs, and a tail consisting of a coiled-coil domain,
followed by a tandem repeat of myosin tail homology 4
(MyTH4) domains and partial FERM domains that are
separated by an SH3 subdomain and are thought to mediate
dimerization and binding to other proteins or cargo.
Members include: MyoVIIa, MyoVIIb, and MyoVII members
that do not have distinct myosin VIIA and myosin VIIB
genes. 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 = 176
Score = 217 bits (554), Expect = 1e-70
Identities = 85/116 (73%), Positives = 103/116 (88%)
Query: 207 KEEAAKLAALVYRVRFGESKQELQAIPQMLRELIPSDSIKIQSSTEWKRCIIAAYNQDAG 266
KE+A +LAAL+YRVRFG+ K + Q+IP+ML+ELIP+D IK+QS EWK+ IIAAYN+ AG
Sbjct: 1 KEDAIQLAALIYRVRFGDDKSQFQSIPKMLKELIPADLIKLQSPDEWKKLIIAAYNKHAG 60
Query: 267 MSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQTK 322
MS E+AK+ FLKIIYRWPTFGSAFFEVKQTT+PN PE+LLIAINK+GVSLI P+TK
Sbjct: 61 MSSEEAKLAFLKIIYRWPTFGSAFFEVKQTTDPNLPEILLIAINKNGVSLIDPKTK 116
>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 = 99.7 bits (249), Expect = 5e-25
Identities = 50/195 (25%), Positives = 87/195 (44%), Gaps = 10/195 (5%)
Query: 102 EEFTFQ-SPNAEDIRDLVVYFLEGLKKRSSFVIALQDYKAPGEGSSFLSFHRGDLILLEE 160
EF S AE++ + V L G+++ F LQ + +L + L+ +
Sbjct: 12 LEFEVDSSTTAEELLETVCRKL-GIRESEYF--GLQFEDPDEDLRHWLDPAK-TLLDQDV 67
Query: 161 GSTGETVFFMKKLWTNTV--PGKDRNADLIFHFHQELPKLLRGYHKCSKEEAAKLAALVY 218
S T++F K + +D L + Q +L G C +EEA LAAL
Sbjct: 68 KSEPLTLYFRVKFYPPDPNQLKEDPTR-LNLLYLQVRNDILEGRLPCPEEEALLLAALAL 126
Query: 219 RVRFGESKQEL--QAIPQMLRELIPSDSIKIQSSTEWKRCIIAAYNQDAGMSPEDAKITF 276
+ FG+ +EL L+ +P + + EW+ I+ + + G+SPE+AK+ +
Sbjct: 127 QAEFGDYDEELHDLRGELSLKRFLPKQLLDSRKLKEWRERIVELHKELIGLSPEEAKLKY 186
Query: 277 LKIIYRWPTFGSAFF 291
L++ + PT+G F
Sbjct: 187 LELARKLPTYGVELF 201
>gnl|CDD|215882 pfam00373, FERM_M, FERM central domain. This domain is the central
structural domain of the FERM domain.
Length = 113
Score = 90.8 bits (226), Expect = 1e-22
Identities = 36/105 (34%), Positives = 55/105 (52%), Gaps = 2/105 (1%)
Query: 189 FHFHQELPKLLRGYHKCSKEEAAKLAALVYRVRFGESKQELQAIPQM--LRELIPSDSIK 246
+ Q +L G CS+EEA LAAL + FG+ E + + L +PS IK
Sbjct: 9 LLYLQLKRDILEGRLPCSEEEALLLAALALQAEFGDYNPEKHSSSYLKELEYFLPSRLIK 68
Query: 247 IQSSTEWKRCIIAAYNQDAGMSPEDAKITFLKIIYRWPTFGSAFF 291
+ S E ++ I+ A+ G+SP +AK+ +L+I PT+G FF
Sbjct: 69 KEKSKELEKRILEAHKNLRGLSPAEAKLKYLQIAQSLPTYGVTFF 113
>gnl|CDD|241352 cd13198, FERM_C1_MyoVII, Myosin VII (MyoVII/Myo7) FERM domain
C-lobe, repeat 1. MyoVII, a MyTH-FERM myosin, is an
actin-based motor protein essential for a variety of
biological processes in the actin cytoskeleton function.
Mutations in MyoVII leads to problems in sensory
perception: deafness and blindness in humans (Usher
Syndrome), retinal defects and deafness in mice (shaker
1), and aberrant auditory and vestibular function in
zebrafish. Myosin VIIAs have plus (barbed) end-directed
motor activity on actin filaments and a characteristic
actin-activated ATPase activity. MyoVII consists of a
conserved spectrin-like, SH3 subdomain N-terminal
region, a motor/head region, a neck made of 4-5 IQ
motifs, and a tail consisting of a coiled-coil domain,
followed by a tandem repeat of myosin tail homology 4
(MyTH4) domains and partial FERM domains that are
separated by an SH3 subdomain and are thought to mediate
dimerization and binding to other proteins or cargo.
Members include: MyoVIIa, MyoVIIb, and MyoVII members
that do not have distinct myosin VIIA and myosin VIIB
genes. 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 = 140
Score = 85.7 bits (213), Expect = 2e-20
Identities = 35/74 (47%), Positives = 46/74 (62%), Gaps = 6/74 (8%)
Query: 74 RKRLQVSAPLVIECASGESKQEH------RPIPGEEFTFQSPNAEDIRDLVVYFLEGLKK 127
+ L++S P + +S K++ I GEE+ FQS NAEDI +LV YFLEGLKK
Sbjct: 67 QVLLELSFPEISGVSSVRGKRDGGQSFTLSTIQGEEYVFQSSNAEDIAELVNYFLEGLKK 126
Query: 128 RSSFVIALQDYKAP 141
RS + +ALQDY P
Sbjct: 127 RSKYAVALQDYPTP 140
Score = 29.9 bits (68), Expect = 0.84
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 268 SPEDAK---ITFLKIIYRWPTFGSAFFEVKQTTEPNYP-EMLLIAINKHGVSLIHPQTKI 323
S + K + + + +WP S FFE + + P+ P ++IA+N G+ + Q ++
Sbjct: 11 SSQRVKEDIVDYAR--LKWPLLFSRFFEATKFSGPSLPKNEVIIAVNWTGIYFVDEQEQV 68
Query: 324 SL 325
L
Sbjct: 69 LL 70
>gnl|CDD|212814 cd11881, SH3_MYO7A, Src Homology 3 domain of Myosin VIIa and
similar proteins. Myo7A is an uncoventional myosin that
is involved in organelle transport. It is required for
sensory function in both Drosophila and mammals.
Mutations in the Myo7A gene cause both syndromic
deaf-blindness [Usher syndrome I (USH1)] and
nonsyndromic (DFNB2 and DFNA11) deafness in humans. It
contains an N-terminal motor domain, light chain-binding
IQ motifs, a coiled-coil region for heavy chain
dimerization, and a tail consisting of a pair of
MyTH4-FERM tandems separated by a SH3 domain. SH3
domains bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs;
they play a role in the regulation of enzymes by
intramolecular interactions, changing the subcellular
localization of signal pathway components and mediate
multiprotein complex assemblies.
Length = 64
Score = 59.8 bits (145), Expect = 6e-12
Identities = 27/48 (56%), Positives = 34/48 (70%), Gaps = 3/48 (6%)
Query: 129 SSFVIALQDYKAPGEGSSFLSFHRGDLILLEEGSTGETVFFMKKLWTN 176
S +V+ALQDY P +GSSFLSF +GDLI+L++ TGE V M W N
Sbjct: 1 SKYVVALQDYPNPSDGSSFLSFAKGDLIILDQ-DTGEQV--MNSGWCN 45
>gnl|CDD|241358 cd13204, FERM_C2_myosin_like, Myosin-like FERM domain C-lobe,
repeat 2. These myosin-like proteins are unidentified
though they are sequence similar to myosin 1/myo1,
myosin 7/myoVII, and myosin 10/myoX. These myosin-like
proteins contain an N-terminal motor/head region and a
C-terminal tail consisting of two myosin tail homology 4
(MyTH4) and twos FERM domains. In myoX the FERM domain
forms a supramodule with its MyTH4 domain which binds to
the negatively charged E-hook region in the tails of
alpha- and beta-tubulin forming a proposed motorized
link between actin filaments and microtubules and a
similar thing might happen in these myosins. 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 second FERM_N repeat is present
in this hierarchy. 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 = 113
Score = 60.5 bits (147), Expect = 1e-11
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 267 MSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQTK---I 323
M+ ++ K FL I+ WP +GS F+V Q+ N P+ L +AIN+ G+ ++ + K I
Sbjct: 1 MNEQECKRAFLNIVQSWPLYGSTIFDVMQSYTSNLPKTLWLAINQSGLHILERREKEPLI 60
Query: 324 SLDYKSI 330
S Y SI
Sbjct: 61 SYSYSSI 67
>gnl|CDD|241355 cd13201, FERM_C_MyoXV, Myosin XV (MyoXV/Myo15) FERM domain C-lobe.
MyoXV, a MyTH-FERM myosin, are actin-based motor
proteins essential for a variety of biological processes
in actin cytoskeleton function. Specifically MyoXV
functions in the actin organization in hair cells of the
organ of Corti. Mutations in Human MyoXVa causes
non-syndromic deafness, DFNB3 and the mouse shaker-2
mutation. MyoXV consists of a N-terminal motor/head
region, a neck made of 1-3 IQ motifs, and a tail that
consists of either a myosin tail homology 4 (MyTH4)
domains, followed by an SH3 domain, and a MyTH-FERM
domains as in rat Myo15 or two MyTH-FERM domains
separated by a SH3 domain as in human Myo15A. The
MyTH-FERM domains are thought to mediate dimerization
and binding to other proteins or cargo. 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 = 59.9 bits (146), Expect = 3e-11
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 267 MSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQTK 322
+SP A+ FL+I+ + P FGS FF V++ ++P P L+A+N+ G+ + P T
Sbjct: 11 LSPHQARAQFLEILSKLPLFGSNFFYVQRVSDPRIPGPCLLAVNREGLHFLDPNTH 66
>gnl|CDD|241354 cd13200, FERM_C_KCBP, kinesin-like calmodulin binding protein FERM
domain C-lobe. KCBPs (also called KIPK/Kinesin-like
Calmodulin-Binding Protein-Interacting Protein Kinase),
a member of the Kinesin-14 family, is a C-terminal
microtubule motor with three unique domains including a
myosin tail homology region 4 (MyTH4), a talin-like
domain, and a calmodulin-binding domain (CBD). Binding
of the Ca2+-activated calmodulin to KCBP causes the
motor to dissociate from microtubules. The microtubule
binding of KCBP is controlled by the calcium binding
protein KIC containing a single EF-hand motif. KCBPs
are unique to land plants and green algae. The MyTH4
and talin-like domains are not found in other kinesins,
while the CBD domain is also only found in
Strongylocentrotus purpuratus kinesin-C (SpKinC). 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 = 189
Score = 57.1 bits (138), Expect = 9e-10
Identities = 34/118 (28%), Positives = 56/118 (47%), Gaps = 4/118 (3%)
Query: 209 EAAKLAALVYRVRFGESK--QELQAIPQMLRELIPSDSIKIQSSTEWKRCIIAAYNQDAG 266
+AA+LAAL + G + + + Q+L +P + + EW I+A Y
Sbjct: 1 DAAQLAALQIQAEIGPVLGAEPPEELGQLLERYLPKQVLITRPREEWDADIVARYRALEQ 60
Query: 267 MSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPN--YPEMLLIAINKHGVSLIHPQTK 322
+S +DA+ L+I+ P S FF V++ +P P +++ INK GV P K
Sbjct: 61 LSKDDARQQLLRILRSLPYGNSIFFSVRRIEDPIGLLPGKIILGINKRGVHFFRPVPK 118
>gnl|CDD|241356 cd13202, FERM_C_MyoX, Myosin X (MyoX, Myo10) FERM domain C-lobe.
MyoX, a MyTH-FERM myosin, is a molecular motor that has
crucial functions in the transport and/or tethering of
integrins in the actin-based extensions known as
filopodia, microtubule binding, and in netrin-mediated
axon guidance. It functions as a dimer. MyoX walks on
bundles of actin, rather than single filaments, unlike
the other unconventional myosins. MyoX is present in
organisms ranging from humans to choanoflagellates, but
not in Drosophila and Caenorhabditis elegans.MyoX
consists of a N-terminal motor/head region, a neck made
of 3 IQ motifs, and a tail consisting of a coiled-coil
domain, a PEST region, 3 PH domains, a myosin tail
homology 4 (MyTH4), and a FERM domain at its very
C-terminus. The MyoX FERM domain binds to the NPXY motif
of several beta-integrins, a key family of cell surface
receptors that are involved in cell adhesion and
migration. In addition the FERM domain binds to the
cytoplasmic domains of the netrin receptors DCC (deleted
in colorectal cancer) and neogenin. The FERM domain also
forms a supramodule with its MyTH4 domain which binds to
the negatively charged E-hook region in the tails of
alpha- and beta-tubulin forming a proposed motorized
link between actin filaments and microtubules. 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 = 111
Score = 51.9 bits (125), Expect = 1e-08
Identities = 25/67 (37%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 267 MSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLI---HPQTKI 323
MS EDA ++ II WP +GS FEV+ E +P+ L + ++ GVSL P+
Sbjct: 1 MSQEDAMAKYMAIIREWPGYGSTLFEVECNKEGGFPQELWLGVSAKGVSLYKRGEPEPLE 60
Query: 324 SLDYKSI 330
S Y+ I
Sbjct: 61 SFPYEKI 67
>gnl|CDD|241357 cd13203, FERM_C1_myosin_like, Myosin-like FERM domain C-lobe,
repeat 1. These myosin-like proteins are unidentified
though they are sequence similar to myosin 1/myo1,
myosin 7/myoVII, and myosin 10/myoX. These myosin-like
proteins contain an N-terminal motor/head region and a
C-terminal tail consisting of two myosin tail homology 4
(MyTH4) and twos FERM domains. In myoX the FERM domain
forms a supramodule with its MyTH4 domain which binds to
the negatively charged E-hook region in the tails of
alpha- and beta-tubulin forming a proposed motorized
link between actin filaments and microtubules and a
similar thing might happen in these myosins. 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 first FERM_N repeat is present
in this hierarchy. 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 = 117
Score = 39.3 bits (92), Expect = 4e-04
Identities = 14/51 (27%), Positives = 30/51 (58%)
Query: 272 AKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQTK 322
AK+ +L + ++P +G+ F+V +YP L++ ++ G ++P+TK
Sbjct: 6 AKVLYLTCVMQYPLYGTTLFDVTYKGFWSYPNNLILGVHCDGFKFVNPKTK 56
>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 = 36.6 bits (85), Expect = 0.002
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 287 GSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQTK---ISLDYKSISW 332
G FF+VK + + L++ ++ G+S++ T + I
Sbjct: 1 GVEFFDVKDKSGGS---ELILGVSLEGISVLDDNTGNPLTLFRWPEIRK 46
>gnl|CDD|212690 cd00174, SH3, Src Homology 3 domain superfamily. Src Homology 3
(SH3) domains are protein interaction domains that bind
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. Thus, they
are referred to as proline-recognition domains (PRDs).
SH3 domains are less selective and show more diverse
specificity compared to other PRDs. They have been shown
to bind peptide sequences that lack the PxxP motif;
examples include the PxxDY motif of Eps8 and the
RKxxYxxY sequence in SKAP55. SH3 domain containing
proteins play versatile and diverse roles in the cell,
including the regulation of enzymes, changing the
subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies, among others. Many members of this
superfamily are adaptor proteins that associate with a
number of protein partners, facilitating complex
formation and signal transduction.
Length = 51
Score = 35.1 bits (82), Expect = 0.003
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLI-LLEEGSTG 164
+ AL DY+A + LSF +GD+I +LE+ G
Sbjct: 1 YARALYDYEAQDDD--ELSFKKGDIITVLEKDDDG 33
>gnl|CDD|214620 smart00326, SH3, Src homology 3 domains. Src homology 3 (SH3)
domains bind to target proteins through sequences
containing proline and hydrophobic amino acids.
Pro-containing polypeptides may bind to SH3 domains in 2
different binding orientations.
Length = 56
Score = 34.1 bits (79), Expect = 0.006
Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLILLEEGSTGE 165
V AL DY A LSF +GD+I + E S
Sbjct: 4 QVRALYDYTAQDPD--ELSFKKGDIITVLEKSDDG 36
>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 = 35.3 bits (82), Expect = 0.011
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 10/70 (14%)
Query: 266 GMSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSLIHPQT---- 321
GMSP A+ FLK + +G F V+ + L+I + G+ + +
Sbjct: 1 GMSPSTAEYLFLKEVSELENYGVETFHVRTI----EGQKLVIGVGPDGIRICNDDGELIQ 56
Query: 322 KISLDYKSIS 331
+I Y +I
Sbjct: 57 RIP--YTAIQ 64
>gnl|CDD|212817 cd11884, SH3_MYO15, Src Homology 3 domain of Myosin XV. This
subfamily is composed of proteins with similarity to
Myosin XVa. Myosin XVa is an unconventional myosin that
is critical for the normal growth of mechanosensory
stereocilia of inner ear hair cells. Mutations in the
myosin XVa gene are associated with nonsyndromic hearing
loss. Myosin XVa contains a unique N-terminal extension
followed by a motor domain, light chain-binding IQ
motifs, and a tail consisting of a pair of MyTH4-FERM
tandems separated by a SH3 domain, and a PDZ domain. SH3
domains bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs;
they play a role in the regulation of enzymes by
intramolecular interactions, changing the subcellular
localization of signal pathway components and mediate
multiprotein complex assemblies.
Length = 56
Score = 31.5 bits (72), Expect = 0.052
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLILL 158
+V+A++ Y + LSFH+GD+I L
Sbjct: 1 YVVAVRAYIT--RDQTLLSFHKGDVIKL 26
>gnl|CDD|213001 cd12068, SH3_MYO15B, Src Homology 3 domain of Myosin XVb. Myosin
XVb, also called KIAA1783, was named based on its
similarity with myosin XVa. It is a transcribed and
unprocessed pseudogene whose predicted amino acid
sequence contains mutated or deleted amino acid residues
that are normally conserved and important for myosin
function. The related myosin XVa is important for normal
growth of mechanosensory stereocilia of inner ear hair
cells. Myosin XVa contains a unique N-terminal extension
followed by a motor domain, light chain-binding IQ
motifs, and a tail consisting of a pair of MyTH4-FERM
tandems separated by a SH3 domain, and a PDZ domain. SH3
domains bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs;
they play a role in the regulation of enzymes by
intramolecular interactions, changing the subcellular
localization of signal pathway components and mediate
multiprotein complex assemblies.
Length = 55
Score = 30.2 bits (68), Expect = 0.14
Identities = 15/28 (53%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLILL 158
+V+AL+ Y + S LSFHRGDLI L
Sbjct: 1 YVVALRSYIT--DDKSLLSFHRGDLIKL 26
>gnl|CDD|212779 cd11845, SH3_Src_like, Src homology 3 domain of Src kinase-like
Protein Tyrosine Kinases. Src subfamily members include
Src, Lck, Hck, Blk, Lyn, Fgr, Fyn, Yrk, Yes, and Brk.
Src (or c-Src) proteins are cytoplasmic (or
non-receptor) PTKs which are anchored to the plasma
membrane. They contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). However,
Brk lacks the N-terminal myristoylation sites. Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. They were identified as the first
proto-oncogene products, and they regulate cell
adhesion, invasion, and motility in cancer cells, and
tumor vasculature, contributing to cancer progression
and metastasis. Src kinases are overexpressed in a
variety of human cancers, making them attractive targets
for therapy. They are also implicated in acute
inflammatory responses and osteoclast function. Src,
Fyn, Yes, and Yrk are widely expressed, while Blk, Lck,
Hck, Fgr, Lyn, and Brk show a limited expression
pattern. This subfamily also includes Drosophila Src42A,
Src oncogene at 42A (also known as Dsrc41) which
accumulates at sites of cell-cell or cell-matrix
adhesion, and participates in Drosphila development and
wound healing. It has been shown to promote tube
elongation in the tracheal system, is essential for
proper cell-cell matching during dorsal closure, and
regulates cell-cell contacts in developing Drosophila
eyes. The SH3 domain of Src kinases contributes to
substrate recruitment by binding adaptor
proteins/substrates, and regulation of kinase activity
through an intramolecular interaction. SH3 domains are
protein interaction domains that bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs. They play versatile and
diverse roles in the cell including the regulation of
enzymes, changing the subcellular localization of
signaling pathway components, and mediating the
formation of multiprotein complex assemblies.
Length = 52
Score = 29.9 bits (68), Expect = 0.21
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLILLEEGSTGE 165
+AL DY+A + LSF +GD + + + S G+
Sbjct: 1 IYVALYDYEARTDDD--LSFKKGDRLQILDDSDGD 33
>gnl|CDD|235079 PRK02866, PRK02866, cyanate hydratase; Validated.
Length = 147
Score = 31.7 bits (73), Expect = 0.23
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 10/51 (19%)
Query: 198 LLRGYHKCSKEEAAKLAALVYRVRFG---ESKQELQAIP--QMLRELIPSD 243
L G EEA K+A L G ++ LQ +P L +P+D
Sbjct: 38 ALLGQMTLPAEEAEKVAEL-----LGLDEDAVALLQEVPYRGSLPPAVPTD 83
>gnl|CDD|215659 pfam00018, SH3_1, SH3 domain. SH3 (Src homology 3) domains are
often indicative of a protein involved in signal
transduction related to cytoskeletal organisation. First
described in the Src cytoplasmic tyrosine kinase. The
structure is a partly opened beta barrel.
Length = 47
Score = 27.9 bits (63), Expect = 0.88
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 133 IALQDYKAPGEGSSFLSFHRGDLILL 158
+AL DY A LSF +GD+I++
Sbjct: 1 VALYDYTA--REPDELSFKKGDIIIV 24
>gnl|CDD|213000 cd12067, SH3_MYO15A, Src Homology 3 domain of Myosin XVa. Myosin
XVa is an unconventional myosin that is critical for the
normal growth of mechanosensory stereocilia of inner ear
hair cells. Mutations in the myosin XVa gene are
associated with nonsyndromic hearing loss. Myosin XVa
contains a unique N-terminal extension followed by a
motor domain, light chain-binding IQ motifs, and a tail
consisting of a pair of MyTH4-FERM tandems separated by
a SH3 domain, and a PDZ domain. SH3 domains bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs; they play a
role in the regulation of enzymes by intramolecular
interactions, changing the subcellular localization of
signal pathway components and mediate multiprotein
complex assemblies.
Length = 80
Score = 28.6 bits (64), Expect = 1.2
Identities = 12/29 (41%), Positives = 21/29 (72%), Gaps = 2/29 (6%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLILLE 159
+V+A+++Y E + LSFH+GD+I L+
Sbjct: 1 YVVAVRNYLP--EDPALLSFHKGDIIHLQ 27
>gnl|CDD|219499 pfam07653, SH3_2, Variant SH3 domain. SH3 (Src homology 3) domains
are often indicative of a protein involved in signal
transduction related to cytoskeletal organisation. First
described in the Src cytoplasmic tyrosine kinase. The
structure is a partly opened beta barrel.
Length = 53
Score = 27.4 bits (62), Expect = 1.5
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 131 FVIALQDYKAPGEGSSFLSFHRGDLI 156
+ + DY A LS +GD++
Sbjct: 1 YGRVIFDYVATDPN--ELSLKKGDVV 24
>gnl|CDD|212720 cd11786, SH3_SH3RF_1, First Src Homology 3 domain of SH3 domain
containing ring finger proteins. This model represents
the first SH3 domain of SH3RF1 (or POSH), SH3RF2 (or
POSHER), SH3RF3 (POSH2), and similar domains. Members of
this family are scaffold proteins that function as E3
ubiquitin-protein ligases. They all contain an
N-terminal RING finger domain and multiple SH3 domains;
SH3RF1 and SH3RF3 have four SH3 domains while SH3RF2 has
three. SH3RF1 plays a role in calcium homeostasis
through the control of the ubiquitin domain protein
Herp. It may also have a role in regulating death
receptor mediated and JNK mediated apoptosis. SH3RF3
interacts with p21-activated kinase 2 (PAK2) and
GTP-loaded Rac1. It may play a role in regulating JNK
mediated apoptosis in certain conditions. SH3RF2 acts as
an anti-apoptotic regulator of the JNK pathway by
binding to and promoting the degradation of SH3RF1. SH3
domains are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 53
Score = 26.9 bits (60), Expect = 2.4
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 6/27 (22%)
Query: 134 ALQDY--KAPGEGSSFLSFHRGDLILL 158
AL +Y K PG+ LSF +GD+ILL
Sbjct: 4 ALYNYEGKEPGD----LSFKKGDIILL 26
>gnl|CDD|235877 PRK06850, PRK06850, hypothetical protein; Provisional.
Length = 507
Score = 28.8 bits (65), Expect = 4.1
Identities = 28/108 (25%), Positives = 51/108 (47%), Gaps = 11/108 (10%)
Query: 136 QDYKAPGEGSSFLSFHRGDLILLEEGSTGETVFF--MKKLW--TNTVPGKDRNADLIFHF 191
+D PG+ S F + LLEE + + ++KL G R +
Sbjct: 399 EDLPWPGDDQS--LFGSDEADLLEELCQEDGLHLELVRKLLDLERQYRGLSRRS----GI 452
Query: 192 HQELPKLLRGYHKCSKEEAAKLAALVYRVRFGESKQELQAIPQMLREL 239
+ +L K+L+ + S EE A+ AAL+ +++ + +++ I Q L+EL
Sbjct: 453 YDKLEKILKQDWR-SLEEIAQNAALLRKLKDAIHQGDIEKIEQELQEL 499
>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 = 27.7 bits (62), Expect = 4.4
Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 266 GMSPEDAKITFLKIIYRWPTFGSAFFEVKQTTEPNYPEMLLIAINKHGVSL 316
G+S E+A++ FLK+ + P +G F V + + + + I G+ +
Sbjct: 1 GLSEEEAELEFLKVCQKLPEYGVHFHRV-YREKKSSTGGIWLGICSRGIII 50
>gnl|CDD|237944 PRK15327, PRK15327, type III secretion system needle complex
protein PrgH; Provisional.
Length = 393
Score = 28.2 bits (63), Expect = 6.4
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 201 GYHKCSKEEAAKLAALVYRVRFGESKQELQAIPQMLRELIP-SDSIKI 247
Y++ +E K + R R SK+EL+ + Q LR L+P +DS+ I
Sbjct: 246 AYYRLHFDEPRKPVLWLSRQRNVLSKKELEVLSQKLRALMPYADSVNI 293
>gnl|CDD|236677 PRK10378, PRK10378, inactive ferrous ion transporter periplasmic
protein EfeO; Provisional.
Length = 375
Score = 28.2 bits (63), Expect = 6.6
Identities = 12/53 (22%), Positives = 25/53 (47%)
Query: 137 DYKAPGEGSSFLSFHRGDLILLEEGSTGETVFFMKKLWTNTVPGKDRNADLIF 189
D++ F FHR + L + +T + +L+T+ + + R ++L F
Sbjct: 203 DFEQKAADPKFTGFHRLEKALFGDNTTKGMDKYADQLYTDVLDLQKRISELAF 255
>gnl|CDD|132208 TIGR03164, UHCUDC, OHCU decarboxylase. Previously thought to only
proceed spontaneously, the decarboxylation of
2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU)
has been recently been shown to be catalyzed by this
enzyme in Mus musculus. Homologs of this enzyme are
found adjacent to and fused with uricase in a number of
prokaryotes and are represented by this model.
Length = 157
Score = 27.3 bits (61), Expect = 8.2
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 201 GYHKCSKEEAAKLAAL--VYRVRFG 223
G + S+EE A+ L YR RFG
Sbjct: 84 GLDQLSQEEFARFTRLNNAYRARFG 108
>gnl|CDD|241274 cd01241, PH_PKB, Protein Kinase B-like pleckstrin homology (PH)
domain. PKB (also called Akt), a member of the AGC
kinase family, is a phosphatidylinositol 3'-kinase
(PI3K)-dependent Ser/Thr kinase which alters the
activity of the targeted protein. The name AGC is based
on the three proteins that it is most similar to
cAMP-dependent protein kinase 1 (PKA; also known as
PKAC), cGMP-dependent protein kinase (PKG; also known as
CGK1) and protein kinase C (PKC). Human Akt has three
isoforms derived for distinct genes: Akt1/PKBalpha,
Akt2/PKBbeta, and Akt3/PKBgamma. All Akts have an
N-terminal PH domain with an activating Thr
phosphorylation site, a kinase domain, and a short
C-terminal regulatory tail with an activating Ser
phosphorylation site. The PH domain recruits Akt to the
plasma membrane by binding to phosphoinositides
(PtdIns-3,4-P2) and is required for activation. The
phosphorylation of Akt at its Thr and Ser
phosphorylation sites leads to increased Akt activity
toward forkhead transcription factors, the mammalian
target of rapamycin (mTOR), and the
Bcl-xL/Bcl-2-associated death promoter (BAD), all of
which possess a consensus motif R-X-R-XX-ST-B (X = amino
acid, B = bulky hydrophobic residue) for Akt
phosphorylation. PH domains have diverse functions, but
in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 121
Score = 26.6 bits (59), Expect = 9.8
Identities = 14/52 (26%), Positives = 19/52 (36%)
Query: 1 PIRSGFLNQIHNFAQHCSKTEREVLARGFQLVVFLHEEAWTNHRSTGKDRTA 52
P I Q + E +V+ R F + L E WTN K R+
Sbjct: 70 PKEVIENTFIIRCLQWTTPDELKVIERTFHVKSQLEREEWTNAIYAVKSRSK 121
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
0.321 0.135 0.408
Gapped
Lambda K H
0.267 0.0813 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,054,639
Number of extensions: 1639061
Number of successful extensions: 1341
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1334
Number of HSP's successfully gapped: 33
Length of query: 332
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 235
Effective length of database: 6,635,264
Effective search space: 1559287040
Effective search space used: 1559287040
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 (21.8 bits)
S2: 59 (26.3 bits)