RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9828
(311 letters)
>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 = 60.4 bits (147), Expect = 4e-11
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 87 SGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRA 131
IR + ++G+H LLDI P V +L AQ YPIVIF+
Sbjct: 68 YYGTSKETIRQVAEKGKHCLLDIDPQGVKQLRKAQLYPIVIFIAP 112
>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 = 56.5 bits (137), Expect = 8e-11
Identities = 17/27 (62%), Positives = 26/27 (96%)
Query: 46 HIKTHFNYDQPEKGEMSFRKGDVFHVI 72
+I+THF+Y++P KGE+SF+KG+VFHV+
Sbjct: 1 YIRTHFDYEKPAKGELSFKKGEVFHVV 27
>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 = 41.8 bits (99), Expect = 1e-05
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 43 DSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
+ ++ ++Y + E+SF+KGD+ V+E
Sbjct: 1 EGPQVRALYDYTAQDPDELSFKKGDIITVLE 31
>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 = 41.0 bits (96), Expect = 3e-05
Identities = 15/31 (48%), Positives = 24/31 (77%)
Query: 43 DSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
DSF+I+THF+Y+ +SF +G+VFHV++
Sbjct: 1 DSFYIRTHFDYEPDPPSGLSFTRGEVFHVLD 31
>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 = 40.1 bits (95), Expect = 5e-05
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 46 HIKTHFNYDQPEKGEMSFRKGDVFHVIELEN 76
+ + F+Y + E+S +KGDV V++ ++
Sbjct: 1 YGRVIFDYVATDPNELSLKKGDVVKVLDKDD 31
>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 = 38.0 bits (88), Expect = 3e-04
Identities = 13/32 (40%), Positives = 23/32 (71%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
GDSF I+THF Y++ ++F +G++F V++
Sbjct: 1 GDSFFIRTHFEYEKELPQSLAFTRGEIFRVVD 32
>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 = 37.8 bits (87), Expect = 4e-04
Identities = 15/31 (48%), Positives = 23/31 (74%)
Query: 43 DSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
DSF+I+THF Y++ +SF KG+VF V++
Sbjct: 1 DSFYIRTHFEYEKESPYGLSFNKGEVFRVVD 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 = 37.4 bits (87), Expect = 6e-04
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 9/39 (23%)
Query: 46 HIKTHFNYDQPEKGE--------MSFRKGDVFHVIELEN 76
H++ HF+YD PE +SF+KGD+ HVI E+
Sbjct: 1 HVRAHFDYD-PEDDPYIPCRELGLSFQKGDILHVISQED 38
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 39.3 bits (92), Expect = 9e-04
Identities = 12/71 (16%), Positives = 27/71 (38%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKLNSAQ 151
AI + + G+ +LD+ V +L A+ PI +F++ + ++ +
Sbjct: 83 KEAIEQIAESGKICILDVDIQGVKQLRKAELSPISVFIKPPSLKVLQRRLKRRGTEQEEK 142
Query: 152 FFSVVIFLRAE 162
+ E
Sbjct: 143 INKRMEAAEQE 153
>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 = 35.0 bits (80), Expect = 0.003
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELEN 76
++ FN+ Q + E+SF KGDV HV +E
Sbjct: 2 VRAKFNFQQTNEDELSFSKGDVIHVTRVEE 31
>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 = 10/26 (38%), Positives = 17/26 (65%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIELEN 76
++Y E E+SF+KGD+ V+E +
Sbjct: 4 YDYTAREPDELSFKKGDIIIVLEKSD 29
>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 = 34.6 bits (80), Expect = 0.004
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELEN 76
I+ ++Y GE+SF KGD FHVI E+
Sbjct: 2 IRALYDYRAQTPGELSFSKGDFFHVIGEED 31
>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 = 34.2 bits (79), Expect = 0.005
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVI 72
+++ E GE+SFR+GD +I
Sbjct: 6 MDFEGVEPGELSFRQGDSIEII 27
>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 = 33.6 bits (78), Expect = 0.009
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 48 KTHFNYDQPEKGEMSFRKGDVFHVIE 73
+ ++Y+ + E+SF+KGD+ V+E
Sbjct: 3 RALYDYEAQDDDELSFKKGDIITVLE 28
>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 = 33.3 bits (76), Expect = 0.013
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIE 73
F++D E GE+ FR+GD V++
Sbjct: 6 FDFDPQEDGELGFRRGDFIEVMD 28
>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 = 32.6 bits (75), Expect = 0.022
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 52 NYDQPEKGEMSFRKGDVFHVIE 73
+Y+ E+S ++G+V V+E
Sbjct: 7 DYEAQGDDEISLQEGEVVEVLE 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 = 32.6 bits (75), Expect = 0.025
Identities = 13/58 (22%), Positives = 26/58 (44%), Gaps = 14/58 (24%)
Query: 46 HIKTHFNYDQ--------PEKGEMSFRKGDVFHVIELENM-----MEESDSKKCSGII 90
++ F+YD E G +SF+KGD+ ++ ++ + D +G+I
Sbjct: 1 FVRALFDYDPEEDPLIPCKEAG-LSFKKGDILQIVNQDDPNWWQARKVGDPNGRAGLI 57
>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 = 32.3 bits (73), Expect = 0.034
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELEN 76
+K FN+ Q + E+S KGD+ +V +E
Sbjct: 4 VKARFNFKQTNEDELSVCKGDIIYVTRVEE 33
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 35.5 bits (82), Expect = 0.041
Identities = 21/112 (18%), Positives = 31/112 (27%), Gaps = 14/112 (12%)
Query: 203 PSTKPLRSVSNAG----DTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPR 258
P+ R+ S++ + +++S S S PG P P R PP
Sbjct: 307 PAPSSPRASSSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRP-PPPADPSSP 365
Query: 259 SATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTSLERHNTTRTT 310
R + S T R A + R T R
Sbjct: 366 RKRPRPSRAPSSPAASA---------GRPTRRRARAAVAGRARRRDATGRFP 408
Score = 32.1 bits (73), Expect = 0.40
Identities = 27/108 (25%), Positives = 35/108 (32%), Gaps = 5/108 (4%)
Query: 189 SSPSQAIKFSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRT 248
SSP + S++ + S+ S S + A S S+ P PS P P D R
Sbjct: 310 SSPRASSSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSP--RK 367
Query: 249 NKPPRTNPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPP 296
P P A GR G A +AT P
Sbjct: 368 RPRPSRAPSSPAASA--GRPTRRRARAAVAGRARRR-DATGRFPAGRP 412
Score = 31.3 bits (71), Expect = 0.82
Identities = 15/87 (17%), Positives = 20/87 (22%), Gaps = 8/87 (9%)
Query: 211 VSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSATERLFGRERE 270
+ A + PP GPG T P S
Sbjct: 51 AAVTVVAGAAACDRFEPPTGPPPGPGTEAPANESRSTPTWSLSTLAPASP--------AR 102
Query: 271 SSVSKDGGGEAPNYINATPHRTGAPPT 297
G +P+ TP PP+
Sbjct: 103 EGSPTPPGPSSPDPPPPTPPPASPPPS 129
Score = 29.8 bits (67), Expect = 2.1
Identities = 30/109 (27%), Positives = 45/109 (41%), Gaps = 10/109 (9%)
Query: 202 DPSTKPLRSV---SNAGDTLATSSPSGGSKYPP----PSGPGAPPDLPPRIDRT---NKP 251
P+ P RS + A + ++SS S G + P P AP LP RI N P
Sbjct: 219 SPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGP 278
Query: 252 PRTNPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTS 300
P S++ R S S G G AP+ A+ + + +++S
Sbjct: 279 SSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSSS 327
Score = 29.8 bits (67), Expect = 2.1
Identities = 18/104 (17%), Positives = 31/104 (29%), Gaps = 7/104 (6%)
Query: 198 SANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPP 257
+ P P+ + + + PS S P P + P
Sbjct: 253 NECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSP 312
Query: 258 RSATERLFGRERESSVSK-----DGGGEAPNYINATPHRTGAPP 296
R+++ RESS S + A +P R+ +P
Sbjct: 313 RASSSS--SSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPS 354
Score = 29.8 bits (67), Expect = 2.4
Identities = 19/110 (17%), Positives = 36/110 (32%), Gaps = 2/110 (1%)
Query: 190 SPSQAIKFSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTN 249
+P+ + + + ST S + G S P P PP P +
Sbjct: 79 APANESRSTPTWSLSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEML 138
Query: 250 KPPRTNPPRSATERLFGRERESSVSKD--GGGEAPNYINATPHRTGAPPT 297
+P + P A ++V+ D +A +++ AP +
Sbjct: 139 RPVGSPGPPPAASPPAAGASPAAVASDAASSRQAALPLSSPEETARAPSS 188
Score = 29.4 bits (66), Expect = 2.8
Identities = 23/102 (22%), Positives = 34/102 (33%), Gaps = 1/102 (0%)
Query: 188 GSSPSQAIKFSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDR 247
G+SP+ +A+ + PL S ++ PP + PP I
Sbjct: 156 GASPAAVASDAASSRQAALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISA 215
Query: 248 TNKPPRTNPPRSATERLFGRERESSVSKDGGGEAPNYINATP 289
+ P P RSA + G S S + G N P
Sbjct: 216 SASSPAPAPGRSAADDA-GASSSDSSSSESSGCGWGPENECP 256
>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 = 31.8 bits (73), Expect = 0.044
Identities = 6/23 (26%), Positives = 15/23 (65%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIE 73
++Y+ ++SF+KGD +++
Sbjct: 6 YDYEARTDDDLSFKKGDRLQILD 28
>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 = 31.1 bits (71), Expect = 0.067
Identities = 8/23 (34%), Positives = 17/23 (73%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIE 73
++++ E GE+ FR+GD+ V++
Sbjct: 6 YDFNPQEPGELEFRRGDIITVLD 28
>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 = 31.5 bits (72), Expect = 0.073
Identities = 10/38 (26%), Positives = 21/38 (55%)
Query: 45 FHIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESD 82
+ ++ +Y + E++F KGDV VI ++ E+ +
Sbjct: 3 YKVRATHDYTAEDTDELTFEKGDVILVIPFDDPEEQDE 40
>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 = 30.4 bits (69), Expect = 0.12
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 46 HIKTHFNYDQPEKGEMSFRKGDV 68
K +NY+ E G++SF+KGD+
Sbjct: 1 CAKALYNYEGKEPGDLSFKKGDI 23
>gnl|CDD|237605 PRK14086, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 617
Score = 33.3 bits (76), Expect = 0.17
Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 4/71 (5%)
Query: 215 GDTLATSSPSGGSKYPPP---SGPGAPPDLPPRIDRTNKPPRTNPPRSATERLFGRERES 271
D L T+ P+ + P + P A D + R PPR P S +ER+
Sbjct: 136 QDQLPTARPAYPAYQQRPEPGAWPRAADDYGWQQQRLGFPPR-APYASPASYAPEQERDR 194
Query: 272 SVSKDGGGEAP 282
G E
Sbjct: 195 EPYDAGRPEYD 205
Score = 28.6 bits (64), Expect = 4.9
Identities = 20/107 (18%), Positives = 29/107 (27%), Gaps = 8/107 (7%)
Query: 198 SANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRT--- 254
A Y + P + P D PR DRT++P
Sbjct: 177 RAPYASPASYAPEQERDREPYDAGRPEYDQRRRDYDHPRPDWD-RPRRDRTDRPEPPPGA 235
Query: 255 -NPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTS 300
+ R ER+ + AP + A P P T+
Sbjct: 236 GHVHRGGPG---PPERDDAPVVPIRPSAPGPLAAQPAPAPGPGEPTA 279
>gnl|CDD|212931 cd11998, SH3_PACSIN1-2, Src homology 3 domain of Protein kinase C
and Casein kinase Substrate in Neurons 1 (PACSIN1) and
PACSIN 2. PACSIN 1 or Syndapin I (Synaptic
dynamin-associated protein I) is expressed specifically
in the brain and is localized in neurites and synaptic
boutons. It binds the brain-specific proteins dynamin I,
synaptojanin, synapsin I, and neural Wiskott-Aldrich
syndrome protein (nWASP), and functions as a link
between the cytoskeletal machinery and synaptic vesicle
endocytosis. PACSIN 1 interacts with huntingtin and may
be implicated in the neuropathology of Huntington's
disease. PACSIN 2 or Syndapin II is expressed
ubiquitously and is involved in the regulation of
tubulin polymerization. It associates with Golgi
membranes and forms a complex with dynamin II which is
crucial in promoting vesicle formation from the
trans-Golgi network. PACSINs act as regulators of
cytoskeletal and membrane dynamics. Vetebrates harbor
three isoforms with distinct expression patterns and
specific functions. PACSINs contain an N-terminal F-BAR
domain and a C-terminal 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 = 56
Score = 29.5 bits (66), Expect = 0.24
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKKCSGIIRLSAIRDMMDRGRHGL 106
++ ++YD E+ E+SF+ GD EL + +E + C G +D G+ GL
Sbjct: 3 VRALYDYDGQEQDELSFKAGD-----ELTKLEDEDEQGWCKG---------RLDSGQVGL 48
>gnl|CDD|212881 cd11948, SH3_GRAP_N, N-terminal Src homology 3 domain of
GRB2-related adaptor protein. GRAP is a GRB-2 like
adaptor protein that is highly expressed in lymphoid
tissues. It acts as a negative regulator of T cell
receptor (TCR)-induced lymphocyte proliferation by
downregulating the signaling to the Ras/ERK pathway. It
has been identified as a regulator of TGFbeta signaling
in diabetic kidney tubules and may have a role in the
pathogenesis of the disease. GRAP contains an
N-terminal SH3 domain, a central SH2 domain, and a
C-terminal SH3 domain. The N-terminal SH3 domain of the
related protein GRB2 binds to Sos and Sos-derived
proline-rich peptides. 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 = 29.4 bits (66), Expect = 0.28
Identities = 7/26 (26%), Positives = 17/26 (65%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIELEN 76
+++ E E+ F+KGD+ ++ +E+
Sbjct: 6 YSFQATESDELPFQKGDILKILNMED 31
>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 = 28.7 bits (64), Expect = 0.62
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 44 SFHIKTHFNYDQPE-----KGEMSFRKGDVFHVIE 73
F+I+ F+YD+ + +SFR GDV HVI+
Sbjct: 1 GFYIRALFDYDKTKDCGFLSQALSFRFGDVLHVID 35
>gnl|CDD|212777 cd11843, SH3_PACSIN, Src homology 3 domain of Protein kinase C
and Casein kinase Substrate in Neurons (PACSIN)
proteins. PACSINs, also called Synaptic
dynamin-associated proteins (Syndapins), act as
regulators of cytoskeletal and membrane dynamics. They
bind both dynamin and Wiskott-Aldrich syndrome protein
(WASP), and may provide direct links between the actin
cytoskeletal machinery through WASP and
dynamin-dependent endocytosis. Vetebrates harbor three
isoforms with distinct expression patterns and specific
functions. PACSINs contain an N-terminal F-BAR domain
and a C-terminal 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 = 53
Score = 28.5 bits (64), Expect = 0.66
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKKCSGIIR 91
++Y+ E E+SF+ GD+ + EE + C G +
Sbjct: 6 YDYEGQESDELSFKAGDIL-----TKLEEEDEQGWCKGRLD 41
>gnl|CDD|212776 cd11842, SH3_Ysc84p_like, Src homology 3 domain of Ysc84p and
similar fungal proteins. This family is composed of
the Saccharomyces cerevisiae proteins, Ysc84p (also
called LAS17-binding protein 4, Lsb4p) and Lsb3p, and
similar fungal proteins. They contain an N-terminal
SYLF domain (also called DUF500) and a C-terminal SH3
domain. Ysc84p localizes to actin patches and plays an
important in actin polymerization during endocytosis.
The N-terminal domain of both Ysc84p and Lsb3p can bind
and bundle actin filaments. A study of the yeast SH3
domain interactome predicts that the SH3 domains of
Lsb3p and Lsb4p may function as molecular hubs for the
assembly of endocytic complexes. 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 = 55
Score = 28.5 bits (64), Expect = 0.68
Identities = 5/30 (16%), Positives = 19/30 (63%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIELENMMEE 80
+++ + G+++F+KGD+ +++ + +
Sbjct: 6 YDFAGEQPGDLAFQKGDIITILKKSDSQND 35
>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 = 28.3 bits (63), Expect = 0.76
Identities = 7/25 (28%), Positives = 16/25 (64%)
Query: 48 KTHFNYDQPEKGEMSFRKGDVFHVI 72
K F+Y+ + E+ F++G++ +I
Sbjct: 5 KALFHYEGTNEDELDFKEGEIILII 29
>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 = 28.2 bits (63), Expect = 0.77
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 55 QPEKGEMSFRKGDVFHVIE 73
+P+ GE++F KGD+ ++E
Sbjct: 12 KPKPGELAFHKGDIVTIVE 30
>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 624
Score = 30.8 bits (69), Expect = 0.96
Identities = 18/81 (22%), Positives = 26/81 (32%), Gaps = 4/81 (4%)
Query: 221 SSPSGGSKYPPPSGPGAPP----DLPPRIDRTNKPPRTNPPRSATERLFGRERESSVSKD 276
+ S P PS +P D PP R+ PPR P + G + + D
Sbjct: 415 TPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAPRMPEASPVPGAPDSVASASD 474
Query: 277 GGGEAPNYINATPHRTGAPPT 297
+ + H P T
Sbjct: 475 APPTLGDPSDTAEHTPSGPRT 495
>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 = 27.9 bits (62), Expect = 1.2
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 60 EMSFRKGDVFHVIELE 75
E+SF+ GD F + E
Sbjct: 15 ELSFQAGDQFRIAERS 30
>gnl|CDD|215138 PLN02248, PLN02248, cellulose synthase-like protein.
Length = 1135
Score = 30.8 bits (70), Expect = 1.3
Identities = 20/81 (24%), Positives = 30/81 (37%), Gaps = 12/81 (14%)
Query: 219 ATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSATERLFGRERESSVSKDGG 278
++SS S PP ++ K R R+++ R R+ D
Sbjct: 3 SSSSKPSRKSLSSSSSSAGPPSNNSSSPQSVKFAR----RTSSGRYVSLSRDDL---DLS 55
Query: 279 GEAPN--YINATPHRTGAPPT 297
GE + Y+N T H PPT
Sbjct: 56 GELSSSDYLNYTVH---IPPT 73
>gnl|CDD|212750 cd11816, SH3_Eve1_3, Third Src homology 3 domain of ADAM-binding
protein Eve-1. Eve-1, also called SH3
domain-containing protein 19 (SH3D19) or EEN-binding
protein (EBP), exists in multiple alternatively spliced
isoforms. The longest isoform contains five SH3 domain
in the C-terminal region and seven proline-rich motifs
in the N-terminal region. It is abundantly expressed in
skeletal muscle and heart, and may be involved in
regulating the activity of ADAMs (A disintegrin and
metalloproteases). Eve-1 interacts with EEN, an
endophilin involved in endocytosis and may be the
target of the MLL-EEN fusion protein that is implicated
in leukemogenesis. 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 = 51
Score = 27.4 bits (61), Expect = 1.4
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 51 FNYDQPEKGEMSFRKGDVFHVIELEN 76
F+++ ++ E+SF +GDV + E
Sbjct: 6 FDFEGEQEDELSFSEGDVITLKEYVG 31
>gnl|CDD|237082 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
Length = 400
Score = 30.2 bits (68), Expect = 1.5
Identities = 19/117 (16%), Positives = 27/117 (23%), Gaps = 14/117 (11%)
Query: 198 SANYDPSTKPLRSVSNAGDT---------LATSSPSGGSKYPPPSGPGAPPDLPPRIDRT 248
A + GDT + G + PPS P +
Sbjct: 200 EAGKARYNASKALAEDIGDTVKRIDGTEVPLLAPWQGDAAPVPPSEAARPKSADAETNAA 259
Query: 249 NKPPRTNPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTSLERHN 305
K P T P +A + G A + A +LE
Sbjct: 260 LKTPATAPKAAAKNA-----KAPEAQPVSGTAAAEPAPKEAAKAAAAAAKPALEDKP 311
>gnl|CDD|218108 pfam04487, CITED, CITED. CITED, CBP/p300-interacting
transactivator with ED-rich tail, are characterized by a
conserved 32-amino acid sequence at the C-terminus.
CITED proteins do not bind DNA directly and are thought
to function as transcriptional co-activators.
Length = 206
Score = 29.5 bits (66), Expect = 1.8
Identities = 17/80 (21%), Positives = 25/80 (31%), Gaps = 7/80 (8%)
Query: 185 NFNGSSPSQAIKFSANYDPSTKPLRSVSNAGDTLATS-------SPSGGSKYPPPSGPGA 237
G P Q++ ++PS+KP + G L S + G P PG
Sbjct: 66 PMGGGHPHQSMPAYMMFNPSSKPQPFMLVPGPQLMASMQLQKLNTQYQGHAGAPAGHPGG 125
Query: 238 PPDLPPRIDRTNKPPRTNPP 257
R P + P
Sbjct: 126 GGPQQFRPGAGQPPGMQHMP 145
>gnl|CDD|212860 cd11927, SH3_SH3RF1_1, First Src Homology 3 domain of SH3 domain
containing ring finger protein 1, an E3
ubiquitin-protein ligase. SH3RF1 is also called POSH
(Plenty of SH3s) or SH3MD2 (SH3 multiple domains
protein 2). It is a scaffold protein that acts as an E3
ubiquitin-protein ligase. It 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.
SH3RF1 also enhances the ubiquitination of ROMK1
potassium channel resulting in its increased
endocytosis. It contains an N-terminal RING finger
domain and four SH3 domains. This model represents the
first SH3 domain, located at the N-terminal half, 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 = 54
Score = 27.2 bits (60), Expect = 1.8
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 48 KTHFNYDQPEKGEMSFRKGDV 68
K +NY+ E G++ F KGD+
Sbjct: 4 KALYNYEGKEPGDLKFSKGDI 24
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.9 bits (67), Expect = 2.0
Identities = 28/124 (22%), Positives = 36/124 (29%), Gaps = 29/124 (23%)
Query: 189 SSPSQAIKFSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGP-----------GA 237
+P Q+ + A D P + T +P PPP P
Sbjct: 2590 DAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPD-----PPPPSPSPAANEPDPHPPP 2644
Query: 238 PPDLPPRIDRTNKPPRTNPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPT 297
P R P R + PR A GR ++S P R A PT
Sbjct: 2645 TVPPPERPRDDPAPGRVSRPRRARRL--GRAAQASSPPQR-----------PRRRAARPT 2691
Query: 298 NTSL 301
SL
Sbjct: 2692 VGSL 2695
Score = 29.9 bits (67), Expect = 2.1
Identities = 23/103 (22%), Positives = 35/103 (33%), Gaps = 6/103 (5%)
Query: 204 STKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAP--PDLPPRIDRTNKPPRTNPPR--- 258
S PL A + + P+ + P+GP P P P R T PP PP
Sbjct: 2717 SATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPA 2776
Query: 259 SATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTSL 301
+ R R +S+S+ P+ + +L
Sbjct: 2777 AGPPRRLTRPAVASLSE-SRESLPSPWDPADPPAAVLAPAAAL 2818
Score = 28.0 bits (62), Expect = 9.5
Identities = 22/110 (20%), Positives = 28/110 (25%), Gaps = 13/110 (11%)
Query: 203 PSTKPLRSVSNAGDTLATSSPSGGSK-----YPP----PSGPGAPPDLPPRIDRTNKPPR 253
P P RSV S P+ S+ PP P P P PP
Sbjct: 2560 PPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRG----PAPPS 2615
Query: 254 TNPPRSATERLFGRERESSVSKDGGGEAPNYINATPHRTGAPPTNTSLER 303
PP + + ++ P R P S R
Sbjct: 2616 PLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPR 2665
Score = 28.0 bits (62), Expect = 9.7
Identities = 14/60 (23%), Positives = 19/60 (31%), Gaps = 1/60 (1%)
Query: 203 PSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPD-LPPRIDRTNKPPRTNPPRSAT 261
T+ RS +A A P P + P P + + PP P SA
Sbjct: 380 LPTRKRRSARHAATPFARGPGGDDQTRPAAPVPASVPTPAPTPVPASAPPPPATPLPSAE 439
>gnl|CDD|227665 COG5373, COG5373, Predicted membrane protein [Function unknown].
Length = 931
Score = 29.8 bits (67), Expect = 2.1
Identities = 19/116 (16%), Positives = 29/116 (25%), Gaps = 18/116 (15%)
Query: 159 LRAETKSNVKELRAGIPNYIKTISLINFNGSSPSQAIKFSANYDPSTKPLRS-VSNAGDT 217
R E ++ELR+ + G A + +A PL + +
Sbjct: 26 GRIE--RELRELRSLVAEGAA--------GPVAKAAEQMAAPEAAEAAPLPAAAESIASP 75
Query: 218 LATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKP-------PRTNPPRSATERLFG 266
+ P P P NP +A E L G
Sbjct: 76 EVPPPVPPAPAQEGEAPAAEQPSAVPAPSAAPAPAEPVEPSLAANPFAAAIEWLLG 131
>gnl|CDD|219404 pfam07415, Herpes_LMP2, Gammaherpesvirus latent membrane protein
(LMP2) protein. This family consists of several
Gammaherpesvirus latent membrane protein (LMP2)
proteins. Epstein-Barr virus is a human Gammaherpesvirus
that infects and establishes latency in B lymphocytes in
vivo. The latent membrane protein 2 (LMP2) gene is
expressed in latently infected B cells and encodes two
protein isoforms, LMP2A and LMP2B, that are identical
except for an additional N-terminal 119 aa cytoplasmic
domain which is present in the LMP2A isoform. LMP2A is
thought to play a key role in either the establishment
or the maintenance of latency and/or the reactivation of
productive infection from the latent state. The
significance of LMP2B and its role in pathogenesis
remain unclear.
Length = 489
Score = 29.4 bits (66), Expect = 2.4
Identities = 15/59 (25%), Positives = 17/59 (28%), Gaps = 11/59 (18%)
Query: 225 GGSKYPPPSGPGAPPDLP-PRIDRTNKPPRTNPPRSATERLFGRERESSVSKDGGGEAP 282
G S PS G+ D P P + P PP S GG P
Sbjct: 25 GDSNPYYPSSFGSSWDRPGPPVPEDYDAPSHRPP----------PYGGSNGDRHGGYQP 73
>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 = 27.4 bits (60), Expect = 2.5
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 7/35 (20%)
Query: 44 SFHIKTHFNYDQ------PEKGEMSFRKGDVFHVI 72
S +++ F+Y++ P +G +SFR GD+ HVI
Sbjct: 5 SLYVRAMFDYEKSKDSGLPSQG-LSFRYGDILHVI 38
>gnl|CDD|151482 pfam11035, SnAPC_2_like, Small nuclear RNA activating complex
subunit 2-like. This family of proteins is SnAPC
subunit 2-like. SnAPC allows the transcription of human
small nuclear RNA genes to occur by recognition of the
proximal sequence element.
Length = 344
Score = 29.2 bits (65), Expect = 2.8
Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 3/74 (4%)
Query: 205 TKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTN--PPRSATE 262
++P + G L S+P GG + P P G P P + P T P + +E
Sbjct: 139 SRPGKPTQARGKPLLLSAP-GGQEDPAPEGSSPAPMAPADPKASGSNPETPGPAPEAPSE 197
Query: 263 RLFGRERESSVSKD 276
L G E + D
Sbjct: 198 SLAGSSTERDFAVD 211
>gnl|CDD|233728 TIGR02102, pullulan_Gpos, pullulanase, extracellular, Gram-positive.
Pullulan is an unusual, industrially important
polysaccharide in which short alpha-1,4 chains
(maltotriose) are connected in alpha-1,6 linkages.
Enzymes that cleave alpha-1,6 linkages in pullulan and
release maltotriose are called pullulanases although
pullulan itself may not be the natural substrate. In
contrast, a glycogen debranching enzyme such GlgX,
homologous to this family, can release glucose at
alpha,1-6 linkages from glycogen first subjected to limit
degradation by phosphorylase. Characterized members of
this family include a surface-located pullulanase from
Streptococcus pneumoniae (PMID:11083842) and an
extracellular bifunctional amylase/pullulanase with
C-terminal pullulanase activity (PMID:8798645).
Length = 1111
Score = 29.4 bits (66), Expect = 3.0
Identities = 21/87 (24%), Positives = 25/87 (28%), Gaps = 5/87 (5%)
Query: 202 DPSTKPLRSVSNAGDTLATSSPSGG---SKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPR 258
DP T + V T P + PP P + NK P T P
Sbjct: 995 DPLTAAVVRVGGIEAPEKTPPPPEHEPQAPKPPTQDPDGSKPKDKVDPKDNKDPLTPPGS 1054
Query: 259 SAT--ERLFGRERESSVSKDGGGEAPN 283
E G E + D G PN
Sbjct: 1055 DDENGETPKGNEEKKEEQPDKGANLPN 1081
>gnl|CDD|237926 PRK15213, PRK15213, fimbrial outer membrane usher protein PefC;
Provisional.
Length = 797
Score = 29.3 bits (66), Expect = 3.2
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 6/89 (6%)
Query: 119 YAQFYPIVIFLRAETKSNVK-ELRAGIPKLNSAQFFSVVIFLRAETKSNVKELRAGIP-- 175
+A FYP ++ R+ TK + G+ S F S+ + S+ KE A +
Sbjct: 453 FADFYPTDLYTRSNTKRRYEDIFSQGLS--QSLFFLSLSGWQEDYWPSSGKETGATVSLS 510
Query: 176 NYIKTISLINFNGSSPSQAIKFSANYDPS 204
IK +S+ N NGS + +Y S
Sbjct: 511 TTIKGVSV-NLNGSYSKRNSLGENDYSAS 538
>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 = 26.5 bits (59), Expect = 3.2
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HIKTHFNYDQ------PEKGEMSFRKGDVFHVI 72
+++ F+YD P +G +SF+ GD+ HV
Sbjct: 1 YVRALFDYDPSRDSGLPSQG-LSFKFGDILHVT 32
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 29.2 bits (65), Expect = 3.3
Identities = 12/49 (24%), Positives = 17/49 (34%)
Query: 215 GDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSATER 263
GD A + + P PS G+ P P + P P A +
Sbjct: 201 GDANAAPAEPAEEEAPAPSEAGSEPAPDPAARAPHAAPDPPAPAPAPAK 249
>gnl|CDD|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 484
Score = 29.2 bits (66), Expect = 3.4
Identities = 16/84 (19%), Positives = 23/84 (27%), Gaps = 3/84 (3%)
Query: 214 AGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPR-TNPPRSATERLFGRERESS 272
A LA +P + P A P + R P P + +RE
Sbjct: 44 ADSDLAALAPPAAAAPAAAQPPPAAA--PAAVSRPAAPAAEPAPWLVEHAKRLTAQREQL 101
Query: 273 VSKDGGGEAPNYINATPHRTGAPP 296
V++ AP A
Sbjct: 102 VARAAAPAAPEAQAPAAPAERAAA 125
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 28.9 bits (65), Expect = 3.5
Identities = 36/179 (20%), Positives = 56/179 (31%), Gaps = 44/179 (24%)
Query: 117 LNYAQFYPIVIFLRAETKSNVKELRAGIPKLN-------SAQFFSVV-IF--LRAETKSN 166
N+A +F RA+ K+ RAG N ++ FF V+ IF L E
Sbjct: 77 ENFAL----KLFNRAD-----KQDRAGRATKNTAKTFYAASTFFEVLAIFGELDEEVAQK 127
Query: 167 VK-----------ELRAG--------------IPNYIKTISLINFNGSSPSQAIKFSANY 201
+K L+ G + T S +F G A ++
Sbjct: 128 IKYAKWKAARIHKALKEGEDPNPGPPLDEEDEDADVATTNSDNSFPGEDADPASASPSDP 187
Query: 202 DPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSA 260
S+ + S + + ++ S S P PP P + PP P
Sbjct: 188 PSSSPGVPSFPSPPEDPSSPSDSSLPPAPSSFQSDTPPPSPESPTNPSPPPGPAAPPPP 246
>gnl|CDD|216289 pfam01080, Presenilin, Presenilin. Mutations in presenilin-1 are a
major cause of early onset Alzheimer's disease. It has
been found that presenilin-1 binds to beta-catenin
in-vivo. This family also contains SPE proteins from
C.elegans.
Length = 403
Score = 28.6 bits (64), Expect = 4.5
Identities = 23/116 (19%), Positives = 38/116 (32%), Gaps = 5/116 (4%)
Query: 145 PKLNSAQFFSVVIFLRAETKSNVKELRAGIPNYIKTISLINFNGSSP-SQAIKFSANYDP 203
P + + S V+ SN +E G P+ I+ S + ++P S S P
Sbjct: 212 PIFPALIYSSTVV--VLTVGSNQEETNEGTPSTIRRTSKSTRSAANPDSAPTSHSTLELP 269
Query: 204 STK-PLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPR 258
+ D+ T S S S P P++ +N+ R
Sbjct: 270 EKSSTPELSDDESDSSETESQSDSSLAPEED-AAEQPEVQSNSLPSNEKREEEEER 324
>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 = 26.8 bits (60), Expect = 4.8
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 1 MDMKGITREEAVLFLLSLQDQIHLIVQ 27
+ ++G+T EEAV L + D++ L V+
Sbjct: 56 VSVEGLTHEEAVELLKNSGDEVTLTVR 82
>gnl|CDD|223041 PHA03321, PHA03321, tegument protein VP11/12; Provisional.
Length = 694
Score = 28.8 bits (64), Expect = 4.8
Identities = 18/78 (23%), Positives = 20/78 (25%), Gaps = 7/78 (8%)
Query: 231 PPSGPGAPPD----LPPRIDRTNKPPR-TNPPRSATERLFGRERESSVSKDGGGEAPNYI 285
P G AP PP R P R+ R G E + A
Sbjct: 429 QPPGAPAPRRDNDPPPPPRARPGSTPACARRARAQRARDAGPEYVDPLGALRRLPAGAAP 488
Query: 286 NATPHRTGAPPTNTSLER 303
P AP T R
Sbjct: 489 PPEP--AAAPSPATYYTR 504
Score = 28.0 bits (62), Expect = 9.0
Identities = 21/90 (23%), Positives = 29/90 (32%), Gaps = 20/90 (22%)
Query: 223 PSGGSKYPPPSGP-----------GAPPDLPPRIDRT------NKPPRTNPPRSATERLF 265
P+G + P P+ G PP LPPR T PP PP +
Sbjct: 483 PAGAAPPPEPAAAPSPATYYTRMGGGPPRLPPRNRATETLRPDWGPPAAAPPEQMEDPYL 542
Query: 266 GRERESSVSKDGGGEAPNYINATPHRTGAP 295
+ + +DG + P AP
Sbjct: 543 EPDDDRFDRRDGA---AAAATSHPREAPAP 569
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 28.7 bits (64), Expect = 5.5
Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 3/79 (3%)
Query: 183 LINFNGSSPSQAIKFSANYDPS-TKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDL 241
L++ ++ Y P+ + L V G ++P G + PP G G P
Sbjct: 867 LVSVREPRTEGGVRVG--YAPTLAEALDQVFGPGTGRVATAPGGDAASAPPPGAGPPAPP 924
Query: 242 PPRIDRTNKPPRTNPPRSA 260
P PPR
Sbjct: 925 QAVPPPRTTQPPAAPPRGP 943
>gnl|CDD|218950 pfam06236, MelC1, Tyrosinase co-factor MelC1. This family consists
of several tyrosinase co-factor MELC1 proteins from a
number of Streptomyces species. The melanin operon
(melC) of Streptomyces antibioticus contains two genes,
melC1 and melC2 (apotyrosinase). It is thought that
MelC1 forms a transient binary complex with the
downstream apotyrosinase MelC2 to facilitate the
incorporation of copper ion and the secretion of
tyrosinase indicating that MelC1 is a chaperone for the
apotyrosinase MelC2.
Length = 124
Score = 27.2 bits (60), Expect = 5.8
Identities = 12/64 (18%), Positives = 16/64 (25%)
Query: 217 TLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSATERLFGRERESSVSKD 276
A + + AP T + P S E GR + S
Sbjct: 2 GAAAALAAAAGLAAGGEAAAAPDAAAHPGPSTGRGAPGGAPASFDEVYKGRRIQGGPSAG 61
Query: 277 GGGE 280
GG
Sbjct: 62 GGHH 65
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 28.3 bits (64), Expect = 5.8
Identities = 14/64 (21%), Positives = 22/64 (34%)
Query: 197 FSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNP 256
F A+Y P + + + A A S+P+ P+ P P KP
Sbjct: 32 FFADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAAAA 91
Query: 257 PRSA 260
+A
Sbjct: 92 AAAA 95
>gnl|CDD|218107 pfam04484, DUF566, Family of unknown function (DUF566). Family of
related proteins that is plant specific.
Length = 313
Score = 28.0 bits (62), Expect = 6.0
Identities = 10/57 (17%), Positives = 17/57 (29%)
Query: 204 STKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSA 260
S+ +L+ S P P A L + + ++P RS
Sbjct: 58 SSSSFGLSKQRPSSLSRGRLSSRFVSPSRGSPSAAASLNGSLATASTSGSSSPSRSR 114
>gnl|CDD|152960 pfam12526, DUF3729, Protein of unknown function (DUF3729). This
family of proteins is found in viruses. Proteins in this
family are typically between 145 and 1707 amino acids in
length. The family is found in association with
pfam01443, pfam01661, pfam05417, pfam01660, pfam00978.
There is a single completely conserved residue L that
may be functionally important.
Length = 115
Score = 26.9 bits (60), Expect = 6.4
Identities = 14/66 (21%), Positives = 17/66 (25%), Gaps = 3/66 (4%)
Query: 202 DPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPR---TNPPR 258
DP + + PS + PP P P P P PP
Sbjct: 45 DPRPPVVDTPPPVSAVWVLPPPSEPAAPPPDPEPPVPGPAGPPSPLAPPAPARKPPLPPP 104
Query: 259 SATERL 264
RL
Sbjct: 105 RPQRRL 110
>gnl|CDD|221581 pfam12446, DUF3682, Protein of unknown function (DUF3682). This
domain family is found in eukaryotes, and is typically
between 125 and 136 amino acids in length.
Length = 133
Score = 27.1 bits (60), Expect = 7.2
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 214 AGDTLATSSPSGGSKYPPPSGPGAPPDLPP 243
G SG S PP+GPG P+ PP
Sbjct: 2 TGGDGTGGVSSGSSAPAPPAGPGPGPNAPP 31
>gnl|CDD|223035 PHA03294, PHA03294, envelope glycoprotein H; Provisional.
Length = 835
Score = 28.1 bits (63), Expect = 7.8
Identities = 18/68 (26%), Positives = 22/68 (32%), Gaps = 4/68 (5%)
Query: 200 NYDPSTKPLRSVSNAGDTLATSSPSGGSKY-PPPSGPGAPPDLPPRIDRTNKPPRTNPPR 258
D ST LR + T SSP G + P + G P R PP
Sbjct: 67 GADLSTIFLRPPAEFVLT-GASSPLGQLLFVLPTALLGQPTFAKLPA--RAPTGRLPPPV 123
Query: 259 SATERLFG 266
+ L G
Sbjct: 124 APLSGLLG 131
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 27.9 bits (62), Expect = 8.0
Identities = 14/59 (23%), Positives = 18/59 (30%), Gaps = 1/59 (1%)
Query: 203 PSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGA-PPDLPPRIDRTNKPPRTNPPRSA 260
T S +T + + PP P PP R PP + P SA
Sbjct: 370 KPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPRPVAPPVPHTPESA 428
>gnl|CDD|225463 COG2911, COG2911, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1278
Score = 28.1 bits (63), Expect = 8.7
Identities = 19/93 (20%), Positives = 30/93 (32%), Gaps = 6/93 (6%)
Query: 214 AGDTLATSSPSGGSKYPPPSGPGAPPDLPPRI--DRTNKPPRTNPPRSATERLFGRERES 271
AGD P+ + PS + P LP + D + T + F S
Sbjct: 112 AGDIAVLRPPTPDKEPSGPSSRISTP-LPISLDLDALDVIRITIGKTTVGLEDF-LSAAS 169
Query: 272 SVSKDGGGEAPNYINATPHRTGAPPTNTSLERH 304
++ G P +NA P N + +
Sbjct: 170 LNNEAALGLHPTSLNA--ALVDLPKLNAAADVA 200
>gnl|CDD|222011 pfam13257, DUF4048, Domain of unknown function (DUF4048). This
presumed domain is functionally uncharacterized. This
domain family is found in eukaryotes, and is typically
between 228 and 257 amino acids in length.
Length = 242
Score = 27.4 bits (61), Expect = 9.0
Identities = 24/96 (25%), Positives = 35/96 (36%), Gaps = 24/96 (25%)
Query: 217 TLATSSPSGGSKYPPPSGPGAPPDLPPRIDRTNKPPRTNPPRSATERLFGRERESSVSKD 276
TL+ SP+ G + P + G D R + PRSAT SV +
Sbjct: 4 TLSLLSPNSGPPFSPLASSGGSTD--SDGSRP-----SRHPRSAT--------LPSVDRS 48
Query: 277 GGGEAPNYINATP---------HRTGAPPTNTSLER 303
+ N ++A RT PP+ +L R
Sbjct: 49 DNSKPANALSAAQSTEDMKAQWRRTLPPPSREALMR 84
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 27.8 bits (61), Expect = 9.2
Identities = 20/76 (26%), Positives = 28/76 (36%), Gaps = 2/76 (2%)
Query: 190 SPSQAIKFSANYDPSTKP-LRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDRT 248
+PSQ I + + PS + P S PPP P LPP+ +R
Sbjct: 176 TPSQKIPETTDPKPSPPAEDKQKPKVESAPVAEKPKAPSSPPPPKQSAKEPQLPPK-ERE 234
Query: 249 NKPPRTNPPRSATERL 264
+ P T + RL
Sbjct: 235 RRVPMTRLRKRVATRL 250
>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 504
Score = 27.5 bits (61), Expect = 9.9
Identities = 19/74 (25%), Positives = 26/74 (35%), Gaps = 4/74 (5%)
Query: 188 GSSPSQAIKFSANYDPSTKPLRSVSNAGDTLATSSPSGGSKYPPPSGPGAPPDLPPRIDR 247
G +PS+ + A P+ L N + S S + + PD PR
Sbjct: 343 GGAPSEGVAAVAPPAPAPADLTQRLNRLEKEVRSLRSAPTAAATAA-GAPLPDFDPRPRG 401
Query: 248 TNKPPRTNPPRSAT 261
PP P RSA
Sbjct: 402 ---PPAPEPARSAE 412
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
0.315 0.132 0.380
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: 15,889,113
Number of extensions: 1530780
Number of successful extensions: 1618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1510
Number of HSP's successfully gapped: 131
Length of query: 311
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 214
Effective length of database: 6,635,264
Effective search space: 1419946496
Effective search space used: 1419946496
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 59 (26.3 bits)