RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9829
(333 letters)
>gnl|CDD|212793 cd11859, SH3_ZO, Src homology 3 domain of the Tight junction
proteins, Zonula occludens (ZO) proteins. ZO proteins
are scaffolding proteins that associate with each other
and with other proteins of the tight junction, zonula
adherens, and gap junctions. They play roles in
regulating cytoskeletal dynamics at these cell
junctions. They are considered members of the MAGUK
(membrane-associated guanylate kinase) protein family,
which is characterized by the presence of a core of
three domains: PDZ, SH3, and guanylate kinase (GuK). The
GuK domain in MAGUK proteins is enzymatically inactive;
instead, the domain mediates protein-protein
interactions and associates intramolecularly with the
SH3 domain. Vertebrates contain three ZO proteins (ZO-1,
ZO-2, and ZO-3) with redundant and non-redundant roles.
They contain three PDZ domains, followed by SH3 and GuK
domains; in addition, ZO-1 and ZO-2 contains a
proline-rich (PR) actin binding domain at the C-terminus
while ZO-3 contains this PR domain between the second
and third PDZ domains. The C-terminal regions of the
three ZO proteins are unique. The SH3 domain of ZO-1 has
been shown to bind ZONAB, ZAK, afadin, and Galpha12. 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 = 62
Score = 87.7 bits (218), Expect = 4e-22
Identities = 27/42 (64%), Positives = 36/42 (85%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRID 213
RTHF+Y++P KGE+SF+KG+VFHV+DTL+ G VGSWQ R+
Sbjct: 3 RTHFDYEKPAKGELSFKKGEVFHVVDTLYQGTVGSWQAVRVG 44
Score = 84.3 bits (209), Expect = 6e-21
Identities = 27/43 (62%), Positives = 36/43 (83%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAHN 164
THF+Y++P KGE+SF+KG+VFHV+DTL+ G VGSWQ R+ N
Sbjct: 4 THFDYEKPAKGELSFKKGEVFHVVDTLYQGTVGSWQAVRVGRN 46
>gnl|CDD|214504 smart00072, GuKc, Guanylate kinase homologues. Active enzymes
catalyze ATP-dependent phosphorylation of GMP to GDP.
Structure resembles that of adenylate kinase. So-called
membrane-associated guanylate kinase homologues (MAGUKs)
do not possess guanylate kinase activities; instead at
least some possess protein-binding functions.
Length = 174
Score = 60.8 bits (148), Expect = 4e-11
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 11 SGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRA 55
IR + ++G+H LLDI P V +L AQ YPIVIF+
Sbjct: 68 YYGTSKETIRQVAEKGKHCLLDIDPQGVKQLRKAQLYPIVIFIAP 112
>gnl|CDD|238492 cd00992, PDZ_signaling, PDZ domain found in a variety of Eumetazoan
signaling molecules, often in tandem arrangements. May
be responsible for specific protein-protein
interactions, as most PDZ domains bind C-terminal
polypeptides, and binding to internal (non-C-terminal)
polypeptides and even to lipids has been demonstrated.
In this subfamily of PDZ domains an N-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in proteases.
Length = 82
Score = 53.3 bits (129), Expect = 2e-09
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 210 FRIDFGIILGNKIFVKEVTHRLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLID 269
F + G G IFV V A L GD +L++N +G++ +EA +L+
Sbjct: 16 FSLRGGKDSGGGIFVSRVEP----GGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLK 71
Query: 270 SSKEKLSLTIR 280
+S ++++LT+R
Sbjct: 72 NSGDEVTLTVR 82
>gnl|CDD|212959 cd12026, SH3_ZO-1, Src homology 3 domain of the Tight junction
protein, Zonula occludens protein 1. ZO-1 is a
scaffolding protein that associates with other ZO
proteins and other proteins of the tight junction,
zonula adherens, and gap junctions. ZO proteins play
roles in regulating cytoskeletal dynamics at these cell
junctions. ZO-1 plays an essential role in embryonic
development. It regulates the assembly and dynamics of
the cortical cytoskeleton at cell-cell junctions. It is
considered a member of the MAGUK (membrane-associated
guanylate kinase) protein family, which is characterized
by the presence of a core of three domains: PDZ, SH3,
and guanylate kinase (GuK). The GuK domain in MAGUK
proteins is enzymatically inactive; instead, the domain
mediates protein-protein interactions and associates
intramolecularly with the SH3 domain. The C-terminal
region of ZO-1 is the largest of the three ZO proteins
and contains an actin-binding region and domains of
unknown function designated alpha and ZU5. The SH3
domain of ZO-1 has been shown to bind ZONAB, ZAK,
afadin, and Galpha12. 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 = 65
Score = 51.2 bits (122), Expect = 9e-09
Identities = 22/41 (53%), Positives = 29/41 (70%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRI 212
RTHF Y++ +SF KG+VF V+DTL+NG +GSW RI
Sbjct: 6 RTHFEYEKESPYGLSFNKGEVFRVVDTLYNGKLGSWLAIRI 46
Score = 50.8 bits (121), Expect = 1e-08
Identities = 22/43 (51%), Positives = 29/43 (67%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAHN 164
THF Y++ +SF KG+VF V+DTL+NG +GSW RI N
Sbjct: 7 THFEYEKESPYGLSFNKGEVFRVVDTLYNGKLGSWLAIRIGKN 49
>gnl|CDD|212961 cd12028, SH3_ZO-3, Src homology 3 domain of the Tight junction
protein, Zonula occludens protein 3. ZO-3 is a
scaffolding protein that associates with other ZO
proteins and other proteins of the tight junction,
zonula adherens, and gap junctions. ZO proteins play
roles in regulating cytoskeletal dynamics at these cell
junctions. ZO-3 is critical for epidermal barrier
function. It regulates cyclin D1-dependent cell
proliferation. It is considered a member of the MAGUK
(membrane-associated guanylate kinase) protein family,
which is characterized by the presence of a core of
three domains: PDZ, SH3, and guanylate kinase (GuK). The
GuK domain in MAGUK proteins is enzymatically inactive;
instead, the domain mediates protein-protein
interactions and associates intramolecularly with the
SH3 domain. The C-terminal region of ZO-3 is the
smallest of the three ZO proteins. The SH3 domain of the
related protein ZO-1 has been shown to bind ZONAB, ZAK,
afadin, and Galpha12. 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 = 65
Score = 51.0 bits (122), Expect = 9e-09
Identities = 20/41 (48%), Positives = 29/41 (70%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRI 212
RTHF+Y+ +SF +G+VFHV+DT+H G +GSW R+
Sbjct: 6 RTHFDYEPDPPSGLSFTRGEVFHVLDTMHRGKLGSWLAVRM 46
Score = 49.5 bits (118), Expect = 3e-08
Identities = 19/43 (44%), Positives = 29/43 (67%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAHN 164
THF+Y+ +SF +G+VFHV+DT+H G +GSW R+ +
Sbjct: 7 THFDYEPDPPSGLSFTRGEVFHVLDTMHRGKLGSWLAVRMGRD 49
>gnl|CDD|214570 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2. Also
called DHR (Dlg homologous region) or GLGF (relatively
well conserved tetrapeptide in these domains). Some PDZs
have been shown to bind C-terminal polypeptides; others
appear to bind internal (non-C-terminal) polypeptides.
Different PDZs possess different binding specificities.
Length = 85
Score = 50.1 bits (120), Expect = 3e-08
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 210 FRIDFGIILGNKIFVKEVTHRLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLID 269
F + G G + V V + A L GDV+L++N +G++ EA L+
Sbjct: 16 FSLVGGKDEGGGVVVSSVVP----GSPAAKAGLRVGDVILEVNGTSVEGLTHLEAVDLLK 71
Query: 270 SSKEKLSLTIRR 281
+ K++LT+ R
Sbjct: 72 KAGGKVTLTVLR 83
>gnl|CDD|212960 cd12027, SH3_ZO-2, Src homology 3 domain of the Tight junction
protein, Zonula occludens protein 2. ZO-2 is a
scaffolding protein that associates with other ZO
proteins and other proteins of the tight junction,
zonula adherens, and gap junctions. ZO proteins play
roles in regulating cytoskeletal dynamics at these cell
junctions. ZO-2 plays an essential role in embryonic
development. It is critical for the blood-testis barrier
integrity and male fertility. It also regulates the
expression of cyclin D1 and cell proliferation. It is
considered a member of the MAGUK (membrane-associated
guanylate kinase) protein family, which is characterized
by the presence of a core of three domains: PDZ, SH3,
and guanylate kinase (GuK). The GuK domain in MAGUK
proteins is enzymatically inactive; instead, the domain
mediates protein-protein interactions and associates
intramolecularly with the SH3 domain. The C-terminal
region of ZO-2 contains an actin-binding region and a
domain of unknown function designated beta. The SH3
domain of the related protein ZO-1 has been shown to
bind ZONAB, ZAK, afadin, and Galpha12. 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 = 63
Score = 46.8 bits (111), Expect = 3e-07
Identities = 17/41 (41%), Positives = 29/41 (70%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRI 212
RTHF Y++ ++F +G++F V+DTL++G +G+W RI
Sbjct: 7 RTHFEYEKELPQSLAFTRGEIFRVVDTLYDGKLGNWLAVRI 47
Score = 45.3 bits (107), Expect = 9e-07
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAH 163
THF Y++ ++F +G++F V+DTL++G +G+W RI +
Sbjct: 8 THFEYEKELPQSLAFTRGEIFRVVDTLYDGKLGNWLAVRIGN 49
>gnl|CDD|212794 cd11860, SH3_DLG5, Src homology 3 domain of Disks Large homolog 5.
DLG5 is a multifunctional scaffold protein that is
located at sites of cell-cell contact and is involved in
the maintenance of cell shape and polarity. Mutations in
the DLG5 gene are associated with Crohn's disease (CD)
and inflammatory bowel disease (IBD). DLG5 is a member
of the MAGUK (membrane-associated guanylate kinase)
protein family, which is characterized by the presence
of a core of three domains: PDZ, SH3, and guanylate
kinase (GuK). The GuK domain in MAGUK proteins is
enzymatically inactive; instead, the domain mediates
protein-protein interactions and associates
intramolecularly with the SH3 domain. DLG5 contains 4
PDZ domains as well as an N-terminal domain of unknown
function. 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 = 63
Score = 45.0 bits (107), Expect = 1e-06
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 166 ISAQIKRTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRID 213
+ A R+ N + E+SF+K D+ +V +T+ NGV G W+ + +D
Sbjct: 2 VRALFDRSAEN-----EDELSFKKDDILYVDNTMFNGVFGQWRAWLVD 44
Score = 44.3 bits (105), Expect = 2e-06
Identities = 12/35 (34%), Positives = 22/35 (62%)
Query: 130 EKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAHN 164
+ E+SF+K D+ +V +T+ NGV G W+ + +
Sbjct: 12 NEDELSFKKDDILYVDNTMFNGVFGQWRAWLVDEE 46
>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 = 40.9 bits (97), Expect = 2e-05
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQV 209
R F+Y + E+S +KGDV V+D G W+
Sbjct: 3 RVIFDYVATDPNELSLKKGDVVKVLDK---DDNGWWEG 37
Score = 39.0 bits (92), Expect = 1e-04
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQV 158
F+Y + E+S +KGDV V+D G W+
Sbjct: 4 VIFDYVATDPNELSLKKGDVVKVLDK---DDNGWWEG 37
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 41.8 bits (99), Expect = 2e-05
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 210 FRIDFGIILGNKIFVKEVTHRLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLID 269
F + G IFV EV +A L EGD +L IN + +S EA +
Sbjct: 14 FSLVGGSDGDPGIFVSEVLP----GGAAEAGGLQEGDRILSINGQDLENLSHDEAVLALK 69
Query: 270 SSKEKLSLTIR 280
S +++LTI
Sbjct: 70 GSGGEVTLTIL 80
>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 = 39.8 bits (94), Expect = 6e-05
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNG 202
R ++Y + E+SF+KGD+ V++ +G
Sbjct: 6 RALYDYTAQDPDELSFKKGDIITVLEKSDDG 36
Score = 37.9 bits (89), Expect = 3e-04
Identities = 9/30 (30%), Positives = 18/30 (60%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDTLHNG 151
++Y + E+SF+KGD+ V++ +G
Sbjct: 7 ALYDYTAQDPDELSFKKGDIITVLEKSDDG 36
>gnl|CDD|238080 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region)
or GLGF (after a conserved sequence motif). Many PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. Heterodimerization through
PDZ-PDZ domain interactions adds to the domain's
versatility, and PDZ domain-mediated interactions may be
modulated dynamically through target phosphorylation.
Some PDZ domains play a role in scaffolding
supramolecular complexes. PDZ domains are found in
diverse signaling proteins in bacteria, archebacteria,
and eurkayotes. This CD contains two distinct structural
subgroups with either a N- or C-terminal beta-strand
forming the peptide-binding groove base. The circular
permutation placing the strand on the N-terminus appears
to be found in Eumetazoa only, while the C-terminal
variant is found in all three kingdoms of life, and
seems to co-occur with protease domains. PDZ domains
have been named after PSD95(post synaptic density
protein), DlgA (Drosophila disc large tumor suppressor),
and ZO1, a mammalian tight junction protein.
Length = 70
Score = 38.8 bits (91), Expect = 2e-04
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 206 SWQVFRIDFGIILGNKIFVKEVTHRLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEAR 265
F I G G + V V + A L GDV+L +N +++++
Sbjct: 1 GGLGFSIRGGTEGG--VVVLSVEP--GSPAERA--GLQAGDVILAVNGTDVKNLTLEDVA 54
Query: 266 KLI-DSSKEKLSLTIR 280
+L+ EK++LT+R
Sbjct: 55 ELLKKEVGEKVTLTVR 70
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 39.6 bits (93), Expect = 8e-04
Identities = 11/49 (22%), Positives = 24/49 (48%)
Query: 16 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKEL 64
AI + + G+ +LD+ V +L A+ PI +F++ + ++
Sbjct: 83 KEAIEQIAESGKICILDVDIQGVKQLRKAELSPISVFIKPPSLKVLQRR 131
>gnl|CDD|212818 cd11885, SH3_SH3TC, Src Homology 3 domain of SH3 domain and
tetratricopeptide repeat-containing (SH3TC) proteins and
similar domains. This subfamily is composed of
vertebrate SH3TC proteins and hypothetical fungal
proteins containing BAR and SH3 domains. Mammals contain
two SH3TC proteins, SH3TC1 and SH3TC2. The function of
SH3TC1 is unknown. SH3TC2 is localized in Schwann cells
in the peripheral nervous system, where it interacts
with Rab11 and plays a role in peripheral nerve
myelination. Mutations in SH3TC2 are associated with
Charcot-Marie-Tooth disease type 4C, a severe hereditary
peripheral neuropathy with symptoms that include
progressive scoliosis, delayed age of walking, muscular
atrophy, distal weakness, and reduced nerve conduction
velocity. 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 = 36.5 bits (85), Expect = 9e-04
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNG 151
+++ E GE+SFR+GD +I L G
Sbjct: 6 MDFEGVEPGELSFRQGDSIEIIGDLIPG 33
Score = 36.5 bits (85), Expect = 9e-04
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 175 FNYDQPEKGEMSFRKGDVFHVIDTLHNG 202
+++ E GE+SFR+GD +I L G
Sbjct: 6 MDFEGVEPGELSFRQGDSIEIIGDLIPG 33
>gnl|CDD|212882 cd11949, SH3_GRB2_C, C-terminal Src homology 3 domain of Growth
factor receptor-bound protein 2. GRB2 is a critical
signaling molecule that regulates the Ras pathway by
linking tyrosine kinases to the Ras guanine nucleotide
releasing protein Sos (son of sevenless), which converts
Ras to the active GTP-bound state. It is ubiquitously
expressed in all tissues throughout development and is
important in cell cycle progression, motility,
morphogenesis, and angiogenesis. In lymphocytes, GRB2 is
associated with antigen receptor signaling components.
GRB2 contains an N-terminal SH3 domain, a central SH2
domain, and a C-terminal SH3 domain. The C-terminal SH3
domain of GRB2 binds to Gab2 (Grb2-associated binder 2)
through epitopes containing RxxK motifs, as well as to
the proline-rich C-terminus of FGRF2. SH3 domains are
protein interaction domains that typically 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 = 35.6 bits (82), Expect = 0.002
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQ 157
F++D E GE+ FR+GD V+D N W+
Sbjct: 6 FDFDPQEDGELGFRRGDFIEVMD---NSDPNWWK 36
Score = 35.6 bits (82), Expect = 0.002
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 175 FNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQ 208
F++D E GE+ FR+GD V+D N W+
Sbjct: 6 FDFDPQEDGELGFRRGDFIEVMD---NSDPNWWK 36
>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 = 34.7 bits (81), Expect = 0.004
Identities = 10/31 (32%), Positives = 20/31 (64%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNG 202
R ++Y+ + E+SF+KGD+ V++ +G
Sbjct: 3 RALYDYEAQDDDELSFKKGDIITVLEKDDDG 33
Score = 33.6 bits (78), Expect = 0.010
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNG 151
++Y+ + E+SF+KGD+ V++ +G
Sbjct: 6 YDYEAQDDDELSFKKGDIITVLEKDDDG 33
>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 = 34.5 bits (80), Expect = 0.004
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNG 151
++Y E E+SF+KGD+ V++ +G
Sbjct: 4 YDYTAREPDELSFKKGDIIIVLEKSDDG 31
Score = 34.5 bits (80), Expect = 0.004
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 175 FNYDQPEKGEMSFRKGDVFHVIDTLHNG 202
++Y E E+SF+KGD+ V++ +G
Sbjct: 4 YDYTAREPDELSFKKGDIIIVLEKSDDG 31
>gnl|CDD|212969 cd12036, SH3_MPP5, Src Homology 3 domain of Membrane Protein,
Palmitoylated 5 (or MAGUK p55 subfamily member 5).
MPP5, also called PALS1 (Protein associated with Lin7)
or Nagie oko protein in zebrafish or Stardust in
Drosophila, is a scaffolding protein which associates
with Crumbs homolog 1 (CRB1), CRB2, or CRB3 through its
PDZ domain and with PALS1-associated tight junction
protein (PATJ) or multi-PDZ domain protein 1 (MUPP1)
through its L27 domain. The resulting tri-protein
complexes are core proteins of the Crumb complex, which
localizes at tight junctions or subapical regions, and
is involved in the maintenance of apical-basal polarity
in epithelial cells and the morphogenesis and function
of photoreceptor cells. MPP5 is critical for the proper
stratification of the retina and is also expressed in T
lymphocytes where it is important for TCR-mediated
activation of NFkB. Drosophila Stardust exists in
several isoforms, some of which show opposing functions
in photoreceptor cells, which suggests that the relative
ratio of different Crumbs complexes regulates
photoreceptor homeostasis. MPP5 contains two L27 domains
followed by the core of three domains characteristic of
MAGUK (membrane-associated guanylate kinase) proteins:
PDZ, SH3, and guanylate kinase (GuK). In addition, it
also contains the Hook (Protein 4.1 Binding) motif in
between the SH3 and GuK domains. The GuK domain in MAGUK
proteins is enzymatically inactive; instead, the domain
mediates protein-protein interactions and associates
intramolecularly with the SH3 domain. 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 = 63
Score = 34.7 bits (80), Expect = 0.005
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 12/48 (25%)
Query: 172 RTHFNYDQPEKGE--------MSFRKGDVFHVIDTLHNGVVGSWQVFR 211
R HF+YD PE +SF+KGD+ HVI WQ +R
Sbjct: 3 RAHFDYD-PEDDPYIPCRELGLSFQKGDILHVISQEDP---NWWQAYR 46
Score = 32.4 bits (74), Expect = 0.037
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 12/47 (25%)
Query: 122 THFNYDQPEKGE--------MSFRKGDVFHVIDTLHNGVVGSWQVFR 160
HF+YD PE +SF+KGD+ HVI WQ +R
Sbjct: 4 AHFDYD-PEDDPYIPCRELGLSFQKGDILHVISQEDP---NWWQAYR 46
>gnl|CDD|238488 cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-,
tail-specific-, and tricorn proteases, which function in
posttranslational protein processing, maturation, and
disassembly or degradation, in Bacteria, Archaea, and
plant chloroplasts. May be responsible for substrate
recognition and/or binding, as most PDZ domains bind
C-terminal polypeptides, and binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 85
Score = 34.9 bits (81), Expect = 0.007
Identities = 14/44 (31%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 244 EGDVLLKINNHPTDGMSVKEARKLID-SSKEKLSLTIRREVPRP 286
GD+++ I+ P DG+S+++ KL+ + K+ LT++R P
Sbjct: 33 AGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGDGEP 76
>gnl|CDD|212790 cd11856, SH3_p47phox_like, Src homology 3 domains of the p47phox
subunit of NADPH oxidase and similar domains. This
family is composed of the tandem SH3 domains of p47phox
subunit of NADPH oxidase and Nox Organizing protein 1
(NoxO1), the four SH3 domains of Tks4 (Tyr kinase
substrate with four SH3 domains), the five SH3 domains
of Tks5, the SH3 domain of obscurin, Myosin-I, and
similar domains. Most members of this group also contain
Phox homology (PX) domains, except for obscurin and
Myosin-I. p47phox and NoxO1 are regulators of the
phagocytic NADPH oxidase complex (also called Nox2 or
gp91phox) and nonphagocytic NADPH oxidase Nox1,
respectively. They play roles in the activation of their
respective NADPH oxidase, which catalyzes the transfer
of electrons from NADPH to molecular oxygen to form
superoxide. Tks proteins are Src substrates and
scaffolding proteins that play important roles in the
formation of podosomes and invadopodia, the dynamic
actin-rich structures that are related to cell migration
and cancer cell invasion. Obscurin is a giant muscle
protein that plays important roles in the organization
and assembly of the myofibril and the sarcoplasmic
reticulum. Type I myosins (Myosin-I) are actin-dependent
motors in endocytic actin structures and actin patches.
They play roles in membrane traffic in endocytic and
secretory pathways, cell motility, and mechanosensing.
Myosin-I contains an N-terminal actin-activated ATPase,
a phospholipid-binding TH1 (tail homology 1) domain, and
a C-terminal extension which includes an F-actin-binding
TH2 domain, an SH3 domain, and an acidic peptide that
participates in activating the Arp2/3complex. The SH3
domain of myosin-I is required for myosin-I-induced
actin polymerization. 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 = 33.4 bits (77), Expect = 0.011
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 125 NYDQPEKGEMSFRKGDVFHVIDTLHNG 151
+Y+ E+S ++G+V V++ +G
Sbjct: 7 DYEAQGDDEISLQEGEVVEVLEKNDSG 33
Score = 33.4 bits (77), Expect = 0.011
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 176 NYDQPEKGEMSFRKGDVFHVIDTLHNG 202
+Y+ E+S ++G+V V++ +G
Sbjct: 7 DYEAQGDDEISLQEGEVVEVLEKNDSG 33
>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 = 33.3 bits (77), Expect = 0.013
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSW 156
++Y+ ++SF+KGD ++D G W
Sbjct: 6 YDYEARTDDDLSFKKGDRLQILDDSD----GDW 34
Score = 33.3 bits (77), Expect = 0.013
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 175 FNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSW 207
++Y+ ++SF+KGD ++D G W
Sbjct: 6 YDYEARTDDDLSFKKGDRLQILDDSD----GDW 34
>gnl|CDD|212994 cd12061, SH3_betaPIX, Src Homology 3 domain of beta-Pak Interactive
eXchange factor. Beta-PIX, also called Rho guanine
nucleotide exchange factor 7 (ARHGEF7) or Cool (Cloned
out of Library)-1, activates small GTPases by exchanging
bound GDP for free GTP. It acts as a GEF for both Cdc42
and Rac 1, and plays important roles in regulating
neuroendocrine exocytosis, focal adhesion maturation,
cell migration, synaptic vesicle localization, and
insulin secretion. PIX proteins contain an N-terminal
SH3 domain followed by RhoGEF (also called
Dbl-homologous or DH) and Pleckstrin Homology (PH)
domains, and a C-terminal leucine-zipper domain for
dimerization. The SH3 domain of PIX binds to an atypical
PxxxPR motif in p21-activated kinases (PAKs) with high
affinity. The binding of PAKs to PIX facilitate the
localization of PAKs to focal complexes and also
localizes PAKs to PIX targets Cdc43 and Rac, leading to
the activation of PAKs. 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 = 54
Score = 33.1 bits (75), Expect = 0.017
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 170 IKRTHFNYDQPEKGEMSFRKGDVFHV 195
+ R FN+ Q + E+SF KGDV HV
Sbjct: 1 VVRAKFNFQQTNEDELSFSKGDVIHV 26
Score = 31.2 bits (70), Expect = 0.087
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 124 FNYDQPEKGEMSFRKGDVFHV 144
FN+ Q + E+SF KGDV HV
Sbjct: 6 FNFQQTNEDELSFSKGDVIHV 26
>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Protein fate, Protein modification and repair].
Length = 334
Score = 35.8 bits (83), Expect = 0.026
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 245 GDVLLKINNHPTDGMSVKEARKLIDSSK-EKLSLTIRR 281
GD ++KIN GMS+ +A LI K K+SL I R
Sbjct: 83 GDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILR 120
>gnl|CDD|212739 cd11805, SH3_GRB2_like_C, C-terminal Src homology 3 domain of
Growth factor receptor-bound protein 2 (GRB2) and
related proteins. This family includes the adaptor
protein GRB2 and related proteins including Drosophila
melanogaster Downstream of receptor kinase (DRK),
Caenorhabditis elegans Sex muscle abnormal protein 5
(Sem-5), GRB2-related adaptor protein (GRAP), GRAP2, and
similar proteins. Family members contain an N-terminal
SH3 domain, a central SH2 domain, and a C-terminal SH3
domain. GRB2/Sem-5/DRK is a critical signaling molecule
that regulates the Ras pathway by linking tyrosine
kinases to the Ras guanine nucleotide releasing protein
Sos (son of sevenless), which converts Ras to the active
GTP-bound state. GRAP2 plays an important role in T cell
receptor (TCR) signaling by promoting the formation of
the SLP-76:LAT complex, which couples the TCR to the Ras
pathway. GRAP acts as a negative regulator of T cell
receptor (TCR)-induced lymphocyte proliferation by
downregulating the signaling to the Ras/ERK pathway. The
C-terminal SH3 domains (SH3c) of GRB2 and GRAP2 have
been shown to bind to classical PxxP motif ligands, as
well as to non-classical motifs. GRB2 SH3c binds Gab2
(Grb2-associated binder 2) through epitopes containing
RxxK motifs, while the SH3c of GRAP2 binds to the
phosphatase-like protein HD-PTP via a RxxxxK motif. SH3
domains are protein interaction domains that typically
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 = 32.2 bits (74), Expect = 0.030
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVID 146
++++ E GE+ FR+GD+ V+D
Sbjct: 6 YDFNPQEPGELEFRRGDIITVLD 28
Score = 32.2 bits (74), Expect = 0.030
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 175 FNYDQPEKGEMSFRKGDVFHVID 197
++++ E GE+ FR+GD+ V+D
Sbjct: 6 YDFNPQEPGELEFRRGDIITVLD 28
>gnl|CDD|212811 cd11878, SH3_Bem1p_1, First Src Homology 3 domain of Bud emergence
protein 1 and similar domains. Members of this
subfamily bear similarity to Saccharomyces cerevisiae
Bem1p, containing two Src Homology 3 (SH3) domains at
the N-terminus, a central PX domain, and a C-terminal
PB1 domain. Bem1p is a scaffolding protein that is
critical for proper Cdc42p activation during bud
formation in yeast. During budding and mating, Bem1p
migrates to the plasma membrane where it can serve as an
adaptor for Cdc42p and some other proteins. Bem1p also
functions as an effector of the G1 cyclin Cln3p and the
cyclin-dependent kinase Cdc28p in promoting vacuolar
fusion. 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 = 54
Score = 31.9 bits (73), Expect = 0.036
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVID 197
R ++Y GE+SF KGD FHVI
Sbjct: 3 RALYDYRAQTPGELSFSKGDFFHVIG 28
Score = 30.7 bits (70), Expect = 0.12
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 132 GEMSFRKGDVFHVID 146
GE+SF KGD FHVI
Sbjct: 14 GELSFSKGDFFHVIG 28
>gnl|CDD|212796 cd11862, SH3_MPP, Src Homology 3 domain of Membrane Protein,
Palmitoylated (or MAGUK p55 subfamily member) proteins.
The MPP/p55 subfamily of MAGUK (membrane-associated
guanylate kinase) proteins includes at least eight
vertebrate members (MPP1-7 and CASK), four Drosophila
proteins (Stardust, Varicose, CASK and Skiff), and other
similar proteins; they all contain one each of the core
of three domains characteristic of MAGUK proteins: PDZ,
SH3, and guanylate kinase (GuK). In addition, most
members except for MPP1 contain N-terminal L27 domains
and some also contain a Hook (Protein 4.1 Binding) motif
in between the SH3 and GuK domains. CASK has an
additional calmodulin-dependent kinase (CaMK)-like
domain at the N-terminus. Members of this subfamily are
scaffolding proteins that play important roles in
regulating and establishing cell polarity, cell
adhesion, and synaptic targeting and transmission, among
others. The GuK domain in MAGUK proteins is
enzymatically inactive; instead, the domain mediates
protein-protein interactions and associates
intramolecularly with the SH3 domain. 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 = 61
Score = 32.2 bits (74), Expect = 0.036
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 9/35 (25%)
Query: 172 RTHFNYDQ--------PEKGEMSFRKGDVFHVIDT 198
R F+YD E G +SF+KGD+ +++
Sbjct: 3 RALFDYDPEEDPLIPCKEAG-LSFKKGDILQIVNQ 36
Score = 29.5 bits (67), Expect = 0.34
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 9/34 (26%)
Query: 122 THFNYDQ--------PEKGEMSFRKGDVFHVIDT 147
F+YD E G +SF+KGD+ +++
Sbjct: 4 ALFDYDPEEDPLIPCKEAG-LSFKKGDILQIVNQ 36
>gnl|CDD|238487 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine
proteases, such as DegP/HtrA, which are oligomeric
proteins involved in heat-shock response, chaperone
function, and apoptosis. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 90
Score = 32.6 bits (75), Expect = 0.043
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 7/49 (14%)
Query: 235 ASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLIDSSK--EKLSLTIRR 281
A AG L GDV+L +N P SV + R+ + K +K++LT+ R
Sbjct: 38 AKAG---LKPGDVILAVNGKPVK--SVADLRRALAELKPGDKVTLTVLR 81
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 34.2 bits (79), Expect = 0.075
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 242 LAEGDVLLKINNHPTDGMSVKEARKLIDSSK-EKLSLTIRRE 282
+ GDV++KI+ G+S+ EA KLI K++LTI R
Sbjct: 130 IKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRA 171
>gnl|CDD|212745 cd11811, SH3_CHK, Src Homology 3 domain of CSK homologous kinase.
CHK is also referred to as megakaryocyte-associated
tyrosine kinase (Matk). It inhibits Src kinases using a
noncatalytic mechanism by simply binding to them. As a
negative regulator of Src kinases, Chk may play
important roles in cell proliferation, survival, and
differentiation, and consequently, in cancer development
and progression. To inhibit Src kinases that are
anchored to the plasma membrane, CHK is translocated to
the membrane via binding to specific transmembrane
proteins, G-proteins, or adaptor proteins near the
membrane. CHK also plays a role in neural
differentiation in a manner independent of Src by
enhancing MAPK activation via Ras-mediated signaling. It
is a cytoplasmic (or nonreceptor) tyr kinase containing
the Src homology domains, SH3 and SH2, N-terminal to the
catalytic tyr kinase domain. 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 = 59
Score = 30.6 bits (69), Expect = 0.14
Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 121 LTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQVFRIAHN 164
+T ++ +P+ GE++F KGD+ +++T W +R HN
Sbjct: 5 VTKKDHTKPKPGELAFHKGDIVTIVETCER---KGW--YRARHN 43
Score = 29.0 bits (65), Expect = 0.43
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 179 QPEKGEMSFRKGDVFHVIDT 198
+P+ GE++F KGD+ +++T
Sbjct: 12 KPKPGELAFHKGDIVTIVET 31
>gnl|CDD|212936 cd12003, SH3_EFS, Src homology 3 domain of CAS (Crk-Associated
Substrate) scaffolding protein family member, Embryonal
Fyn-associated Substrate. EFS is also called HEFS,
CASS3 (Cas scaffolding protein family member 3) or SIN
(Src-interacting protein). It was identified based on
interactions with the Src kinases, Fyn and Yes. It plays
a role in thymocyte development and acts as a negative
regulator of T cell proliferation. CAS proteins function
as molecular scaffolds to regulate protein complexes
that are involved in many cellular processes. They share
a common domain structure that includes an N-terminal
SH3 domain, an unstructured substrate domain that
contains many YxxP motifs, a serine-rich four-helix
bundle, and a FAT-like C-terminal domain. The SH3 domain
of CAS proteins binds to diverse partners including FAK,
FRNK, Pyk2, PTP-PEST, DOCK180, among others. 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 = 62
Score = 30.6 bits (69), Expect = 0.16
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 178 DQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQV-FRIDFGIILGNKI 222
+ PE E+SFR+GDV V+ H + G W GI N++
Sbjct: 12 ESPE--ELSFRRGDVLMVLKREHGSLPGWWLCSLHGQQGIAPANRL 55
Score = 29.5 bits (66), Expect = 0.38
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 127 DQPEKGEMSFRKGDVFHVIDTLHNGVVGSW 156
+ PE E+SFR+GDV V+ H + G W
Sbjct: 12 ESPE--ELSFRRGDVLMVLKREHGSLPGWW 39
>gnl|CDD|234035 TIGR02860, spore_IV_B, stage IV sporulation protein B. SpoIVB, the
stage IV sporulation protein B of endospore-forming
bacteria such as Bacillus subtilis, is a serine
proteinase, expressed in the spore (rather than mother
cell) compartment, that participates in a proteolytic
activation cascade for Sigma-K. It appears to be
universal among endospore-forming bacteria and occurs
nowhere else [Cellular processes, Sporulation and
germination].
Length = 402
Score = 33.5 bits (77), Expect = 0.16
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 242 LAEGDVLLKINNHPTDGMSVKEARKLI-DSSKEKLSLTIRR 281
+ GD +LKIN M + LI + EKL+LTI R
Sbjct: 131 IQIGDRILKINGEKIKNMD--DLANLINKAGGEKLTLTIER 169
>gnl|CDD|238489 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant
zinc metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 79
Score = 30.7 bits (70), Expect = 0.18
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 235 ASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLIDSSKEK-LSLTIRR 281
A AG L GD +L IN + + + K L+LT+ R
Sbjct: 26 AKAG---LKAGDRILAINGQKIKSWE--DLVDAVQENPGKPLTLTVER 68
>gnl|CDD|212789 cd11855, SH3_Sho1p, Src homology 3 domain of High osmolarity
signaling protein Sho1p. Sho1p (or Sho1), also called
SSU81 (Suppressor of SUA8-1 mutation), is a yeast
membrane protein that regulates adaptation to high salt
conditions by activating the HOG (high-osmolarity
glycerol) pathway. High salt concentrations lead to the
localization to the membrane of the MAPKK Pbs2, which is
then activated by the MAPKK Ste11 and in turn, activates
the MAPK Hog1. Pbs2 is localized to the membrane though
the interaction of its PxxP motif with the SH3 domain of
Sho1p. SH3 domains are protein interaction domains that
bind to proline-rich ligands with moderate affinity and
selectivity. 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 = 55
Score = 29.7 bits (67), Expect = 0.23
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 7/38 (18%)
Query: 172 RTHFNYD-QPEK-GEMSFRKGDVFHVIDTLHNGVVGSW 207
R + YD P+ E+SF KG++ V DT G W
Sbjct: 3 RALYPYDASPDDPNELSFEKGEILEVSDT-----SGKW 35
Score = 29.3 bits (66), Expect = 0.30
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 7/35 (20%)
Query: 124 FNYD-QPEK-GEMSFRKGDVFHVIDTLHNGVVGSW 156
+ YD P+ E+SF KG++ V DT G W
Sbjct: 6 YPYDASPDDPNELSFEKGEILEVSDT-----SGKW 35
>gnl|CDD|212935 cd12002, SH3_NEDD9, Src homology 3 domain of CAS (Crk-Associated
Substrate) scaffolding protein family member, Neural
precursor cell Expressed, Developmentally Down-regulated
9. NEDD9 is also called human enhancer of filamentation
1 (HEF1) or CAS-L (Crk-associated substrate in
lymphocyte). It was first described as a gene
predominantly expressed in early embryonic brain, and
was also isolated from a screen of human proteins that
regulate filamentous budding in yeast, and as a tyrosine
phosphorylated protein in lymphocytes. It promotes
metastasis in different solid tumors. NEDD9 localizes in
focal adhesions and associates with FAK and Abl kinase.
It also interacts with SMAD3 and the proteasomal
machinery which allows its rapid turnover; these
interactions are not shared by other CAS proteins. CAS
proteins function as molecular scaffolds to regulate
protein complexes that are involved in many cellular
processes. They share a common domain structure that
includes an N-terminal SH3 domain, an unstructured
substrate domain that contains many YxxP motifs, a
serine-rich four-helix bundle, and a FAT-like C-terminal
domain. The SH3 domain of CAS proteins binds to diverse
partners including FAK, FRNK, Pyk2, PTP-PEST, DOCK180,
among others. 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 = 57
Score = 29.6 bits (66), Expect = 0.26
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 126 YDQ-PEKG-EMSFRKGDVFHVIDTLHNGVVGSW 156
YD PE E++FRKGD+ VI+ G+ G W
Sbjct: 6 YDNVPECAEELAFRKGDILTVIEQNTGGLEGWW 38
Score = 29.6 bits (66), Expect = 0.26
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 177 YDQ-PEKG-EMSFRKGDVFHVIDTLHNGVVGSW 207
YD PE E++FRKGD+ VI+ G+ G W
Sbjct: 6 YDNVPECAEELAFRKGDILTVIEQNTGGLEGWW 38
>gnl|CDD|236802 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 32.8 bits (75), Expect = 0.28
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 242 LAEGDVLLKINNHPTDGMSVKEARKLIDSSKEKLSLTIRR 281
L +GDV++ N P ++ E RK++DS L+L I+R
Sbjct: 426 LKKGDVIIGANQQPVK--NIAELRKILDSKPSVLALNIQR 463
>gnl|CDD|177681 PLN00049, PLN00049, carboxyl-terminal processing protease;
Provisional.
Length = 389
Score = 32.4 bits (74), Expect = 0.33
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 245 GDVLLKINNHPTDGMSVKE-ARKLIDSSKEKLSLTIRRE 282
GDV+L I+ T+G+S+ E A +L + LT+RR
Sbjct: 123 GDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRRG 161
>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 = 28.9 bits (65), Expect = 0.44
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 172 RTHFNYDQPEKGEMSFRKGDV 192
+ +NY+ E G++SF+KGD+
Sbjct: 3 KALYNYEGKEPGDLSFKKGDI 23
Score = 28.5 bits (64), Expect = 0.68
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 124 FNYDQPEKGEMSFRKGDV 141
+NY+ E G++SF+KGD+
Sbjct: 6 YNYEGKEPGDLSFKKGDI 23
>gnl|CDD|212989 cd12056, SH3_CD2AP_3, Third Src Homology 3 domain (SH3C) of
CD2-associated protein. CD2AP, also called CMS (Cas
ligand with Multiple SH3 domains) or METS1
(Mesenchyme-to-Epithelium Transition protein with SH3
domains), is a cytosolic adaptor protein that plays a
role in regulating the cytoskeleton. It is critical in
cell-to-cell union necessary for kidney function. It
also stabilizes the contact between a T cell and
antigen-presenting cells. It is primarily expressed in
podocytes at the cytoplasmic face of the slit diaphragm
and serves as a linker anchoring podocin and nephrin to
the actin cytoskeleton. CD2AP contains three SH3
domains, a proline-rich region, and a C-terminal
coiled-coil domain. All of these domains enable CD2AP to
bind various protein partners and assemble complexes
that have been implicated in many different functions.
This alignment model represents the third SH3 domain
(SH3C) of CD2AP. SH3C has been shown to bind ubiquitin.
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 = 57
Score = 29.0 bits (65), Expect = 0.50
Identities = 9/37 (24%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQ 208
+ F+Y+ + E+ F++G++ +I G G W+
Sbjct: 5 KALFHYEGTNEDELDFKEGEIILIISK-DTGEPGWWK 40
>gnl|CDD|212762 cd11828, SH3_ARHGEF9_like, Src homology 3 domain of ARHGEF9-like
Rho guanine nucleotide exchange factors. Members of
this family contain a SH3 domain followed by RhoGEF
(also called Dbl-homologous or DH) and Pleckstrin
Homology (PH) domains. They include the Rho guanine
nucleotide exchange factors ARHGEF9, ASEF (also called
ARHGEF4), ASEF2, and similar proteins. GEFs activate
small GTPases by exchanging bound GDP for free GTP.
ARHGEF9 specifically activates Cdc42, while both ASEF
and ASEF2 can activate Rac1 and Cdc42. ARHGEF9 is highly
expressed in the brain and it interacts with gephyrin, a
postsynaptic protein associated with GABA and glycine
receptors. ASEF plays a role in angiogenesis and cell
migration. ASEF2 is important in cell migration and
adhesion dynamics. ASEF exists in an autoinhibited form
and is activated upon binding of the tumor suppressor
APC (adenomatous polyposis coli), leading to the
activation of Rac1 or Cdc42. In its autoinhibited form,
the SH3 domain of ASEF forms an extensive interface with
the DH and PH domains, blocking the Rac binding site.
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 = 28.9 bits (65), Expect = 0.52
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 123 HFNYDQPEKGEMSFRKGDVFHVIDTLH 149
H D PE E+ F+ GDV V+D
Sbjct: 8 HVTMD-PE--ELGFKAGDVIEVLDMSD 31
Score = 28.9 bits (65), Expect = 0.52
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 174 HFNYDQPEKGEMSFRKGDVFHVIDTLH 200
H D PE E+ F+ GDV V+D
Sbjct: 8 HVTMD-PE--ELGFKAGDVIEVLDMSD 31
>gnl|CDD|212722 cd11788, SH3_RasGAP, Src Homology 3 domain of Ras GTPase-Activating
Protein 1. RasGAP, also called Ras p21 protein
activator, RASA1, or p120RasGAP, is part of the GAP1
family of GTPase-activating proteins. It is a 120kD
cytosolic protein containing an SH3 domain flanked by
two SH2 domains at the N-terminal end, a pleckstrin
homology (PH) domain, a calcium dependent phospholipid
binding domain (CaLB/C2), and a C-terminal catalytic GAP
domain. It stimulates the GTPase activity of normal RAS
p21. It acts as a positive effector of Ras in tumor
cells. It also functions as a regulator downstream of
tyrosine receptors such as those of PDGF, EGF, ephrin,
and insulin, among others. The SH3 domain of RasGAP is
unable to bind proline-rich sequences but have been
shown to interact with protein partners such as the G3BP
protein, Aurora kinases, and the Calpain small subunit
1. The RasGAP SH3 domain is necessary for the downstream
signaling of Ras and it also influences Rho-mediated
cytoskeletal reorganization. SH3 domains are protein
interaction domains that typically 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 = 59
Score = 28.9 bits (65), Expect = 0.60
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 129 PEKGEMSFRKGDVFHVIDTLHNGVVGSW 156
P+ E+SF+KGD+F +HN + W
Sbjct: 14 PDTDELSFQKGDIF----VVHNELEDGW 37
Score = 28.9 bits (65), Expect = 0.60
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 180 PEKGEMSFRKGDVFHVIDTLHNGVVGSW 207
P+ E+SF+KGD+F +HN + W
Sbjct: 14 PDTDELSFQKGDIF----VVHNELEDGW 37
>gnl|CDD|212934 cd12001, SH3_BCAR1, Src homology 3 domain of the CAS
(Crk-Associated Substrate) scaffolding protein family
member, Breast Cancer Anti-estrogen Resistance 1.
BCAR1, also called p130cas or CASS1, is the founding
member of the CAS family of scaffolding proteins and was
originally identified through its ability to associate
with Crk. The name BCAR1 was designated because the
human gene was identified in a screen for genes that
promote resistance to tamoxifen. It is widely expressed
and its deletion is lethal in mice. It plays a role in
regulating cell motility, survival, proliferation,
transformation, cancer progression, and bacterial
pathogenesis. CAS proteins function as molecular
scaffolds to regulate protein complexes that are
involved in many cellular processes. They share a common
domain structure that includes an N-terminal SH3 domain,
an unstructured substrate domain that contains many YxxP
motifs, a serine-rich four-helix bundle, and a FAT-like
C-terminal domain. The SH3 domain of CAS proteins binds
to diverse partners including FAK, FRNK, Pyk2, PTP-PEST,
DOCK180, among others. 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 = 68
Score = 28.9 bits (64), Expect = 0.73
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 184 EMSFRKGDVFHVIDTLHNGVVGSWQV-FRIDFGIILGNKI 222
E+SFRKGD+ V++ G+ G W GI+ GN++
Sbjct: 18 ELSFRKGDIMTVLERDTQGLDGWWLCSLHGRQGIVPGNRL 57
Score = 28.1 bits (62), Expect = 1.4
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 133 EMSFRKGDVFHVIDTLHNGVVGSW 156
E+SFRKGD+ V++ G+ G W
Sbjct: 18 ELSFRKGDIMTVLERDTQGLDGWW 41
>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures [Protein
fate, Protein folding and stabilization, Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 428
Score = 31.0 bits (71), Expect = 0.75
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 7/49 (14%)
Query: 235 ASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLIDSSKEK--LSLTIRR 281
A AG L GDV+L +N P SV E RK++ +K+ ++L I R
Sbjct: 376 ARAG---LQPGDVILSVNQQPVS--SVAELRKVLARAKKGGRVALLILR 419
>gnl|CDD|212704 cd11770, SH3_Nephrocystin, Src Homology 3 domain of Nephrocystin
(or Nephrocystin-1). Nephrocystin contains an SH3
domain involved in signaling pathways that regulate cell
adhesion and cytoskeletal organization. It is a protein
that in humans is associated with juvenile
nephronophthisis, an inherited kidney disease
characterized by renal fibrosis that lead to chronic
renal failure in children. It is localized in cell-cell
junctions in renal duct cells, and is known to interact
with Ack1, an activated Cdc42-associated kinase. 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 = 54
Score = 28.4 bits (64), Expect = 0.78
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 130 EKGEMSFRKGDVFHVIDTLHNG 151
++G++SF+KG+V +I +G
Sbjct: 12 QEGDLSFKKGEVLRIISKRADG 33
Score = 28.4 bits (64), Expect = 0.78
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 181 EKGEMSFRKGDVFHVIDTLHNG 202
++G++SF+KG+V +I +G
Sbjct: 12 QEGDLSFKKGEVLRIISKRADG 33
>gnl|CDD|212810 cd11877, SH3_PIX, Src Homology 3 domain of Pak Interactive eXchange
factors. PIX proteins are Rho guanine nucleotide
exchange factors (GEFs), which activate small GTPases by
exchanging bound GDP for free GTP. They act as GEFs for
both Cdc42 and Rac 1, and have been implicated in cell
motility, adhesion, neurite outgrowth, and cell
polarity. Vertebrates contain two proteins from the PIX
subfamily, alpha-PIX and beta-PIX. Alpha-PIX, also
called ARHGEF6, is localized in dendritic spines where
it regulates spine morphogenesis. Mutations in the
ARHGEF6 gene cause X-linked intellectual disability in
humans. Beta-PIX play roles in regulating neuroendocrine
exocytosis, focal adhesion maturation, cell migration,
synaptic vesicle localization, and insulin secretion.
PIX proteins contain an N-terminal SH3 domain followed
by RhoGEF (also called Dbl-homologous or DH) and
Pleckstrin Homology (PH) domains, and a C-terminal
leucine-zipper domain for dimerization. The SH3 domain
of PIX binds to an atypical PxxxPR motif in
p21-activated kinases (PAKs) with high affinity. The
binding of PAKs to PIX facilitate the localization of
PAKs to focal complexes and also localizes PAKs to PIX
targets Cdc43 and Rac, leading to the activation of
PAKs. 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 = 28.0 bits (63), Expect = 0.84
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDTL--------HNGVVGSW 207
R FN++ + E+SF KGD+ V + NG G W
Sbjct: 3 RAKFNFEGTNEDELSFDKGDIITVTQVVEGGWWEGTLNGKTG-W 45
Score = 28.0 bits (63), Expect = 1.1
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 9/41 (21%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTL--------HNGVVGSW 156
FN++ + E+SF KGD+ V + NG G W
Sbjct: 6 FNFEGTNEDELSFDKGDIITVTQVVEGGWWEGTLNGKTG-W 45
>gnl|CDD|212778 cd11844, SH3_CAS, Src homology 3 domain of CAS (Crk-Associated
Substrate) scaffolding proteins. CAS proteins function
as molecular scaffolds to regulate protein complexes
that are involved in many cellular processes including
migration, chemotaxis, apoptosis, differentiation, and
progenitor cell function. They mediate the signaling of
integrins at focal adhesions where they localize, and
thus, regulate cell invasion and survival.
Over-expression of these proteins is implicated in poor
prognosis, increased metastasis, and resistance to
chemotherapeutics in many cancers such as breast, lung,
melanoma, and glioblastoma. CAS proteins have also been
linked to the pathogenesis of inflammatory disorders,
Alzheimer's, Parkinson's, and developmental defects.
They share a common domain structure that includes an
N-terminal SH3 domain, an unstructured substrate domain
that contains many YxxP motifs, a serine-rich four-helix
bundle, and a FAT-like C-terminal domain. Vertebrates
contain four CAS proteins: BCAR1 (or p130Cas), NEDD9 (or
HEF1), EFS (or SIN), and CASS4 (or HEPL). The SH3 domain
of CAS proteins binds to diverse partners including FAK,
FRNK, Pyk2, PTP-PEST, DOCK180, among others. 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 = 56
Score = 28.1 bits (63), Expect = 1.0
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 184 EMSFRKGDVFHVIDTLHNGVVGSWQVF-RIDFGIILGNKI 222
E++FR+GD+ V++ G+ G W R GI GN++
Sbjct: 15 ELAFRRGDILTVLEQNTAGLEGWWLCSLRGRQGIAPGNRL 54
Score = 27.3 bits (61), Expect = 1.7
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 133 EMSFRKGDVFHVIDTLHNGVVGSW 156
E++FR+GD+ V++ G+ G W
Sbjct: 15 ELAFRRGDILTVLEQNTAGLEGWW 38
>gnl|CDD|197876 smart00792, Agouti, Agouti protein. The agouti protein regulates
pigmentation in the mouse hair follicle producing a
black hair with a subapical yellow band. A highly
homologous protein agouti signal protein (ASIP) is
present in humans and is expressed at highest levels in
adipose tissue where it may play a role in energy
homeostasis and possibly human pigmentation.
Length = 124
Score = 29.5 bits (66), Expect = 1.0
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 230 RLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEARKLIDSSKEKLSLT-IRREVPRP 286
+N+S +Q V + N +S +EA K + KEK +LT + R PR
Sbjct: 30 GARSNSS--LNQADFPSVSIVGLNKKPKKISAEEAEKKLLQKKEKKALTNVLRPEPRS 85
>gnl|CDD|212963 cd12030, SH3_DLG4, Src Homology 3 domain of Disks Large homolog 4.
DLG4, also called postsynaptic density-95 (PSD95) or
synapse-associated protein 90 (SAP90), is a scaffolding
protein that clusters at synapses and plays an important
role in synaptic development and plasticity. It is
responsible for the membrane clustering and retention of
many transporters and receptors such as potassium
channels and PMCA4b, a P-type ion transport ATPase,
among others. DLG4 is a member of the MAGUK
(membrane-associated guanylate kinase) protein family,
which is characterized by the presence of a core of
three domains: PDZ, SH3, and guanylate kinase (GuK). The
GuK domain in MAGUK proteins is enzymatically inactive;
instead, the domain mediates protein-protein
interactions and associates intramolecularly with the
SH3 domain. DLG4 contains three PDZ domains. The SH3
domain of DLG4 binds and clusters the kainate subgroup
of glutamate receptors via two proline-rich sequences in
their C-terminal tail. It also binds AKAP79/150
(A-kinase anchoring protein). 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 = 66
Score = 28.4 bits (63), Expect = 1.1
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 172 RTHFNYDQPE-----KGEMSFRKGDVFHVIDT 198
R F+YD+ + +SFR GDV HVID
Sbjct: 5 RALFDYDKTKDCGFLSQALSFRFGDVLHVIDA 36
Score = 27.2 bits (60), Expect = 2.5
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 124 FNYDQPE-----KGEMSFRKGDVFHVIDT 147
F+YD+ + +SFR GDV HVID
Sbjct: 8 FDYDKTKDCGFLSQALSFRFGDVLHVIDA 36
>gnl|CDD|212993 cd12060, SH3_alphaPIX, Src Homology 3 domain of alpha-Pak
Interactive eXchange factor. Alpha-PIX, also called Rho
guanine nucleotide exchange factor 6 (ARHGEF6) or Cool
(Cloned out of Library)-2, activates small GTPases by
exchanging bound GDP for free GTP. It acts as a GEF for
both Cdc42 and Rac 1, and is localized in dendritic
spines where it regulates spine morphogenesis. It
controls dendritic length and spine density in the
hippocampus. Mutations in the ARHGEF6 gene cause
X-linked intellectual disability in humans. PIX proteins
contain an N-terminal SH3 domain followed by RhoGEF
(also called Dbl-homologous or DH) and Pleckstrin
Homology (PH) domains, and a C-terminal leucine-zipper
domain for dimerization. The SH3 domain of PIX binds to
an atypical PxxxPR motif in p21-activated kinases (PAKs)
with high affinity. The binding of PAKs to PIX
facilitate the localization of PAKs to focal complexes
and also localizes PAKs to PIX targets Cdc43 and Rac,
leading to the activation of PAKs. 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 = 58
Score = 28.0 bits (62), Expect = 1.1
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 170 IKRTHFNYDQPEKGEMSFRKGDVFHV 195
+ + FN+ Q + E+S KGD+ +V
Sbjct: 3 VVKARFNFKQTNEDELSVCKGDIIYV 28
>gnl|CDD|212795 cd11861, SH3_DLG-like, Src Homology 3 domain of Disks large homolog
proteins. The DLG-like proteins are scaffolding
proteins that cluster at synapses and are also called
PSD (postsynaptic density)-95 proteins or SAPs
(synapse-associated proteins). They play important roles
in synaptic development and plasticity, cell polarity,
migration and proliferation. They are members of the
MAGUK (membrane-associated guanylate kinase) protein
family, which is characterized by the presence of a core
of three domains: PDZ, SH3, and guanylate kinase (GuK).
The GuK domain in MAGUK proteins is enzymatically
inactive; instead, the domain mediates protein-protein
interactions and associates intramolecularly with the
SH3 domain. DLG-like proteins contain three PDZ domains
and varying N-terminal regions. All DLG proteins exist
as alternatively-spliced isoforms. Vertebrates contain
four DLG proteins from different genes, called DLG1-4.
DLG4 and DLG2 are found predominantly at postsynaptic
sites and they mediate surface ion channel and receptor
clustering. DLG3 is found axons and some presynaptic
terminals. DLG1 interacts with AMPA-type glutamate
receptors and is critical in their maturation and
delivery to synapses. The SH3 domain of DLG4 binds and
clusters the kainate subgroup of glutamate receptors via
two proline-rich sequences in their C-terminal tail. It
also binds AKAP79/150 (A-kinase anchoring protein). 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 = 61
Score = 28.1 bits (63), Expect = 1.2
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 7/33 (21%)
Query: 172 RTHFNYDQ------PEKGEMSFRKGDVFHVIDT 198
R F+YD P +G +SF+ GD+ HV +
Sbjct: 3 RALFDYDPSRDSGLPSQG-LSFKFGDILHVTNA 34
Score = 26.9 bits (60), Expect = 3.1
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 7/30 (23%)
Query: 124 FNYDQ------PEKGEMSFRKGDVFHVIDT 147
F+YD P +G +SF+ GD+ HV +
Sbjct: 6 FDYDPSRDSGLPSQG-LSFKFGDILHVTNA 34
>gnl|CDD|212724 cd11790, SH3_Amphiphysin, Src Homology 3 domain of Amphiphysin and
related domains. Amphiphysins function primarily in
endocytosis and other membrane remodeling events. They
exist in several isoforms and mammals possess two
amphiphysin proteins from distinct genes. Amphiphysin I
proteins, enriched in the brain and nervous system,
contain domains that bind clathrin, Adaptor Protein
complex 2 (AP2), dynamin, and synaptojanin. They
function in synaptic vesicle endocytosis. Human
autoantibodies to amphiphysin I hinder GABAergic
signaling and contribute to the pathogenesis of
paraneoplastic stiff-person syndrome. Some amphiphysin
II isoforms, also called Bridging integrator 1 (Bin1),
are localized in many different tissues and may function
in intracellular vesicle trafficking. In skeletal
muscle, Bin1 plays a role in the organization and
maintenance of the T-tubule network. Mutations in Bin1
are associated with autosomal recessive centronuclear
myopathy. Amphiphysins contain an N-terminal BAR domain
with an additional N-terminal amphipathic helix (an
N-BAR), a variable central domain, and a C-terminal SH3
domain. The SH3 domain of amphiphysins bind proline-rich
motifs present in binding partners such as dynamin,
synaptojanin, and nsP3. It also belongs to a subset of
SH3 domains that bind ubiquitin in a site that overlaps
with the peptide binding site. 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 = 64
Score = 28.1 bits (63), Expect = 1.3
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 172 RTHFNYDQPEKGEMSFRKGDVFHVIDT 198
R +Y + E++F KGDV VI
Sbjct: 6 RATHDYTAEDTDELTFEKGDVILVIPF 32
Score = 27.3 bits (61), Expect = 2.2
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 122 THFNYDQPEKGEMSFRKGDVFHVIDT 147
TH +Y + E++F KGDV VI
Sbjct: 8 TH-DYTAEDTDELTFEKGDVILVIPF 32
>gnl|CDD|212948 cd12015, SH3_Tks_1, First Src homology 3 domain of Tyrosine kinase
substrate (Tks) proteins. Tks proteins are Src
substrates and scaffolding proteins that play important
roles in the formation of podosomes and invadopodia, the
dynamic actin-rich structures that are related to cell
migration and cancer cell invasion. Vertebrates contain
two Tks proteins, Tks4 (Tyr kinase substrate with four
SH3 domains) and Tks5 (Tyr kinase substrate with five
SH3 domains), which display partially overlapping but
non-redundant functions. Both associate with the ADAMs
family of transmembrane metalloproteases, which function
as sheddases and mediators of cell and matrix
interactions. Tks5 interacts with N-WASP and Nck, while
Tks4 is essential for the localization of MT1-MMP
(membrane-type 1 matrix metalloproteinase) to
invadopodia. Tks proteins contain an N-terminal Phox
homology (PX) domain and four or five SH3 domains. This
model characterizes the first SH3 domain of Tks
proteins. 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 = 27.8 bits (62), Expect = 1.3
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 125 NYDQPEKGEMSFRKGDVFHVIDTLHNG 151
+Y + + E+S R GDV VI+ NG
Sbjct: 7 DYKKQQPNEISLRAGDVVDVIEKNENG 33
Score = 27.8 bits (62), Expect = 1.3
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 176 NYDQPEKGEMSFRKGDVFHVIDTLHNG 202
+Y + + E+S R GDV VI+ NG
Sbjct: 7 DYKKQQPNEISLRAGDVVDVIEKNENG 33
>gnl|CDD|212706 cd11772, SH3_OSTF1, Src Homology 3 domain of metazoan osteoclast
stimulating factor 1. OSTF1, also named OSF or SH3P2,
is a signaling protein containing SH3 and ankyrin-repeat
domains. It acts through a Src-related pathway to
enhance the formation of osteoclasts and bone
resorption. It also acts as a negative regulator of cell
motility. 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 = 27.3 bits (61), Expect = 1.8
Identities = 8/29 (27%), Positives = 17/29 (58%)
Query: 170 IKRTHFNYDQPEKGEMSFRKGDVFHVIDT 198
+ R ++Y+ E+SF +GD+ ++ D
Sbjct: 1 VFRALYDYEAQHPDELSFEEGDLLYISDK 29
>gnl|CDD|221961 pfam13180, PDZ_2, PDZ domain.
Length = 81
Score = 28.0 bits (63), Expect = 1.8
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 242 LAEGDVLLKINNHPTDGMSVKEARKLIDSSK--EKLSLTIRR 281
L GD++L I+ + S+ E ++I + K + + LT+ R
Sbjct: 31 LKPGDIILSIDGKKVN--SLTELIEVILNGKPGDTVKLTVYR 70
>gnl|CDD|212781 cd11847, SH3_Brk, Src homology 3 domain of Brk (Breast tumor
kinase) Protein Tyrosine Kinase (PTK), also called PTK6.
Brk is a cytoplasmic (or non-receptor) PTK with limited
homology to Src kinases. It has been found to be
overexpressed in a majority of breast tumors. It plays
roles in normal cell differentiation, proliferation,
survival, migration, and cell cycle progression. Brk
substrates include RNA-binding proteins (SLM-1/2,
Sam68), transcription factors (STAT3/5), and signaling
molecules (Akt, paxillin, IRS-4). Src kinases in general
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 site. 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 = 58
Score = 27.1 bits (60), Expect = 2.2
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 133 EMSFRKGDVFHVID 146
E+SF+ GD F + +
Sbjct: 15 ELSFQAGDQFRIAE 28
Score = 27.1 bits (60), Expect = 2.2
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 184 EMSFRKGDVFHVID 197
E+SF+ GD F + +
Sbjct: 15 ELSFQAGDQFRIAE 28
>gnl|CDD|234386 TIGR03900, prc_long_Delta, putative carboxyl-terminal-processing
protease, deltaproteobacterial. This model describes a
multidomain protein of about 1070 residues, restricted
to the order Myxococcales in the Deltaproteobacteria.
Members contain a PDZ domain (pfam00595), an S41 family
peptidase domain (pfam03572), and an SH3 domain
(pfam06347). A core region of this family, including PDZ
and S41 regions, is described by TIGR00225, C-terminal
processing peptidase, which recognizes the Prc protease.
The species distribution of this family approximates
that of largely Deltaproteobacterial C-terminal putative
protein-sorting domain, TIGR03901, analogous to LPXTG
and PEP-CTERM, but the co-occurrence may reflect shared
restriction to the Myxococcales rather than a
substrate/target relationship.
Length = 973
Score = 29.7 bits (67), Expect = 2.4
Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 242 LAEGDVLLKINNHPTDGMSVKEA-RKLIDSSKEKLSLTIRRE 282
L DV++KI++ T M++ +A +L K+++ +RRE
Sbjct: 169 LQRNDVIVKIDDESTVNMTLNDAVGRLRGPPDTKVTIWVRRE 210
>gnl|CDD|234068 TIGR02946, acyl_WS_DGAT, acyltransferase, WS/DGAT/MGAT. This
bacteria-specific protein family includes a
characterized, homodimeric, broad specificity
acyltransferase from Acinetobacter sp. strain ADP1,
active as wax ester synthase, as acyl coenzyme
A:diacylglycerol acyltransferase, and as
acyl-CoA:monoacylglycerol acyltransferase [Unknown
function, Enzymes of unknown specificity].
Length = 446
Score = 29.2 bits (66), Expect = 3.1
Identities = 19/92 (20%), Positives = 29/92 (31%), Gaps = 22/92 (23%)
Query: 13 IIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKYH 72
+ RLSAI M R + + NA+ L + P
Sbjct: 315 VERLSAIHASMTRAKESGQAMGANAL--LALSGLLP--------------------APLL 352
Query: 73 TNLARQRSRVLFPVGSTFVGSVLGARGALDLA 104
R +R + + + +V G R L LA
Sbjct: 353 RLALRALARKAQRLFNLVISNVPGPREPLYLA 384
>gnl|CDD|232801 TIGR00054, TIGR00054, RIP metalloprotease RseP. Members of this
nearly universal bacterial protein family are regulated
intramembrane proteolysis (RIP) proteases. Older and
synonymous gene symbols include yaeL in E. coli, mmpA in
Caulobacter crescentus, etc. This family includes a
region that hits the PDZ domain, found in a number of
proteins targeted to the membrane by binding to a
peptide ligand. The N-terminal region of this family
contains a perfectly conserved motif HEXGH as found in a
number of metalloproteinases, where the Glu is the
active site and the His residues coordinate the metal
cation [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 419
Score = 29.0 bits (65), Expect = 4.2
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 7/76 (9%)
Query: 207 WQVFRIDFGIILGNKIFVKEVTHRLDNNASAGTHQLAEGDVLLKINNHPTDGMSVKEARK 266
+ G+ V V LD N+ A + GD +L +N + G K+ R+
Sbjct: 115 IFIS--LIGVP---GYEVGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGF--KDVRQ 167
Query: 267 LIDSSKEKLSLTIRRE 282
I + + I E
Sbjct: 168 QIADIAGEPMVEILAE 183
>gnl|CDD|212965 cd12032, SH3_DLG2, Src Homology 3 domain of Disks Large homolog 2.
DLG2, also called postsynaptic density-93 (PSD93) or
Channel-associated protein of synapse-110 (chapsyn 110),
is a scaffolding protein that clusters at synapses and
plays an important role in synaptic development and
plasticity. The DLG2 delta isoform binds inwardly
rectifying potassium Kir2 channels, which determine
resting membrane potential in neurons. It regulates the
spatial and temporal distribution of Kir2 channels
within neuronal membranes. DLG2 is a member of the MAGUK
(membrane-associated guanylate kinase) protein family,
which is characterized by the presence of a core of
three domains: PDZ, SH3, and guanylate kinase (GuK). The
GuK domain in MAGUK proteins is enzymatically inactive;
instead, the domain mediates protein-protein
interactions and associates intramolecularly with the
SH3 domain. DLG2 contains three PDZ domains. 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 = 74
Score = 26.6 bits (58), Expect = 5.6
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 7/32 (21%)
Query: 172 RTHFNYDQ------PEKGEMSFRKGDVFHVID 197
R F+Y++ P +G +SFR GD+ HVI+
Sbjct: 9 RAMFDYEKSKDSGLPSQG-LSFRYGDILHVIN 39
>gnl|CDD|182937 PRK11061, PRK11061, fused phosphoenolpyruvate-protein
phosphotransferase PtsP/GAF domain; Provisional.
Length = 748
Score = 28.4 bits (64), Expect = 6.0
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 261 VKEARKLIDSSKEKLSLTIRREVPRP 286
V EAR+LID + ++ + E+P+P
Sbjct: 565 VDEARRLIDRAGREVEEMLGYEIPKP 590
>gnl|CDD|143330 cd07706, IgV_TCR_delta, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) delta chain. IgV_TCR_delta:
immunoglobulin (Ig) variable (V) domain of the delta
chain of gamma/delta T-cell receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
heterodimers consisting of alpha and beta chains or
gamma and delta chains. Each chain contains a variable
(V) and a constant (C) region. The majority of T cells
contain alpha/beta TCRs but a small subset contain
gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. Gamma/delta TCRs recognize
intact protein antigens; they recognize protein antigens
directly and without antigen processing, and MHC
independently of the bound peptide. Gamma/delta T cells
can also be stimulated by non-peptide antigens such as
small phosphate- or amine-containing compounds. The
variable domain of gamma/delta TCRs is responsible for
antigen recognition and is located at the N-terminus of
the receptor.
Length = 116
Score = 27.1 bits (60), Expect = 7.1
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 5/48 (10%)
Query: 124 FNYDQPEKGEMSFRKGDVFHVIDTLHNGVVGSWQV-FRIAHNCISAQI 170
F Y Q GEM+F + N G + V F+ A IS I
Sbjct: 33 FWYKQLPSGEMTF----LIRQKSIYGNATKGRYSVNFQKAQKSISLTI 76
>gnl|CDD|223676 COG0603, COG0603, Predicted PP-loop superfamily ATPase [General
function prediction only].
Length = 222
Score = 27.6 bits (62), Expect = 7.9
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 120 HLTHFNYDQPEKGEMSFRK------GDVFHVIDT 147
H F+Y Q + E+ K G H+ID
Sbjct: 30 HALTFDYGQRHRKELEAAKELAKKLGVPHHIIDV 63
>gnl|CDD|185631 PTZ00452, PTZ00452, actin; Provisional.
Length = 375
Score = 27.8 bits (61), Expect = 8.1
Identities = 24/69 (34%), Positives = 31/69 (44%), Gaps = 5/69 (7%)
Query: 258 GMSVKEARKLIDSSKEKLSLTIRREVPRPTAYQESTTL-PGKENNYMDPLSTNYSSQNLY 316
G+ V L SS +K L +R+E+ R TTL PG N + L TN L
Sbjct: 268 GLEVAGIHHLAYSSIKKCDLDLRQELCRNIVLSGGTTLFPGIANRLSNEL-TNLVPSQLK 326
Query: 317 VQ---PPTR 322
+Q PP R
Sbjct: 327 IQVAAPPDR 335
>gnl|CDD|197270 cd09173, PLDc_Nuc_like_unchar1_2, Putative catalytic domain, repeat
2, of uncharacterized hypothetical proteins similar to
Nuc, an endonuclease from Salmonella typhimurium.
Putative catalytic domain, repeat 2, of uncharacterized
hypothetical proteins, which show high sequence homology
to the endonuclease from Salmonella typhimurium and
vertebrate phospholipase D6. Nuc and PLD6 belong to the
phospholipase D (PLD) superfamily. They contain a short
conserved sequence motif, the HKD motif (H-x-K-x(4)-D,
where x represents any amino acid residue), which
characterizes the PLD superfamily and is essential for
catalysis. Nuc and PLD6 utilize a two-step mechanism to
cleave phosphodiester bonds: Upon substrate binding, the
bond is first attacked by a histidine residue from one
HKD motif to form a covalent phosphohistidine
intermediate, which is then hydrolyzed by water with the
aid of a second histidine residue from the other HKD
motif in the opposite subunit. However, proteins in this
subfamily have two HKD motifs in a single polypeptide
chain.
Length = 159
Score = 26.9 bits (60), Expect = 9.1
Identities = 20/88 (22%), Positives = 27/88 (30%), Gaps = 20/88 (22%)
Query: 79 RSRVLFPVGSTFVGSVLGARGALDLAN------YDPSTKPHSKSTGSHLTHFNYDQP--- 129
+S VLF + G++L A A A D S + + + P
Sbjct: 22 KSSVLFALFDFSDGALLDALLAAADAGLFVRGLVDKRFGGRYYSAAADMGGIDPVYPAAL 81
Query: 130 -------EKGEMSFRKGDVFH----VID 146
GE GD H VID
Sbjct: 82 APDEPEKFVGEPLLGVGDKLHHKFMVID 109
>gnl|CDD|119425 cd05165, PI3Kc_I, Phosphoinositide 3-kinase (PI3K), class I,
catalytic domain; The PI3K catalytic domain family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. PI3Ks catalyze the transfer of the
gamma-phosphoryl group from ATP to the 3-hydroxyl of the
inositol ring of D-myo-phosphatidylinositol (PtdIns) or
its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class I PI3Ks are the only enzymes
capable of converting PtdIns(4,5)P2 to the critical
second messenger PtdIns(3,4,5)P3. In vitro, they can
also phosphorylate the substrates PtdIns and PtdIns(4)P.
Class I enzymes are heterodimers and exist in multiple
isoforms consisting of one catalytic subunit (out of
four isoforms) and one of several regulatory subunits.
They are further classified into class IA (alpha, beta
and delta) and IB (gamma).
Length = 366
Score = 27.8 bits (62), Expect = 9.4
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 208 QVFRIDFGIILGNK 221
Q+F IDFG ILGN
Sbjct: 231 QLFHIDFGHILGNY 244
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.135 0.400
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,128,515
Number of extensions: 1645807
Number of successful extensions: 1549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1548
Number of HSP's successfully gapped: 100
Length of query: 333
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 236
Effective length of database: 6,635,264
Effective search space: 1565922304
Effective search space used: 1565922304
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.8 bits)