RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy194
(525 letters)
>gnl|CDD|212892 cd11959, SH3_Cortactin, Src homology 3 domain of Cortactin.
Cortactin was originally identified as a substrate of
Src kinase. It is an actin regulatory protein that binds
to the Arp2/3 complex and stabilizes branched actin
filaments. It is involved in cellular processes that
affect cell motility, adhesion, migration, endocytosis,
and invasion. It is expressed ubiquitously except in
hematopoietic cells, where the homolog hematopoietic
lineage cell-specific 1 (HS1) is expressed instead.
Cortactin contains an N-terminal acidic domain, several
copies of a repeat domain found in cortactin and HS1, a
proline-rich region, and a C-terminal SH3 domain. The
N-terminal region interacts with the Arp2/3 complex and
F-actin, and is crucial in regulating branched actin
assembly. Cortactin also serves as a scaffold and
provides a bridge to the actin cytoskeleton for membrane
trafficking and signaling proteins that bind to its SH3
domain. Binding partners for the SH3 domain of cortactin
include dynamin2, N-WASp, MIM, FGD1, 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 = 53
Score = 120 bits (303), Expect = 2e-33
Identities = 47/53 (88%), Positives = 49/53 (92%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
TAVALYDYQA+ DDEISFDPDDIITNIEMIDEGWWRG C G+YGLFPANYV L
Sbjct: 1 TAVALYDYQAADDDEISFDPDDIITNIEMIDEGWWRGVCRGKYGLFPANYVEL 53
>gnl|CDD|213006 cd12073, SH3_HS1, Src homology 3 domain of Hematopoietic lineage
cell-specific protein 1. HS1, also called HCLS1
(hematopoietic cell-specific Lyn substrate 1), is a
cortactin homolog expressed specifically in
hematopoietic cells. It is an actin regulatory protein
that binds the Arp2/3 complex and stabilizes branched
actin filaments. It is required for cell spreading and
signaling in lymphocytes. It regulates cytoskeletal
remodeling that controls lymphocyte trafficking, and it
also affects tissue invasion and infiltration of
leukemic B cells. Like cortactin, HS1 contains an
N-terminal acidic domain, several copies of a repeat
domain found in cortactin and HS1, a proline-rich
region, and a C-terminal SH3 domain. The N-terminal
region binds the Arp2/3 complex and F-actin, while the
C-terminal region acts as an adaptor or scaffold that
can connect varied proteins that bind the SH3 domain
within the actin network. 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 = 104 bits (261), Expect = 1e-27
Identities = 39/53 (73%), Positives = 43/53 (81%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSLQ 524
AVALYDYQ DDEISFDP + IT+IEM+DEGWW+G CHG GLFPANYV L
Sbjct: 3 AVALYDYQGEGDDEISFDPQETITDIEMVDEGWWKGTCHGHRGLFPANYVELL 55
>gnl|CDD|212893 cd11960, SH3_Abp1_eu, Src homology 3 domain of eumetazoan
Actin-binding protein 1. Abp1, also called drebrin-like
protein, is an adaptor protein that functions in
receptor-mediated endocytosis and vesicle trafficking.
It contains an N-terminal actin-binding module, the
actin-depolymerizing factor (ADF) homology domain, a
helical domain, and a C-terminal SH3 domain. Mammalian
Abp1, unlike yeast Abp1, does not contain an acidic
domain that interacts with the Arp2/3 complex. It
regulates actin dynamics indirectly by interacting with
dynamin and WASP family proteins. Abp1 deficiency causes
abnormal organ structure and function of the spleen,
heart, and lung of mice. 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 = 101 bits (254), Expect = 1e-26
Identities = 40/54 (74%), Positives = 42/54 (77%), Gaps = 1/54 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC-HGQYGLFPANYVSL 523
A ALYDYQA+ D EISFDP DIIT+IE IDEGWWRG G YGLFPANYV L
Sbjct: 1 RARALYDYQAADDTEISFDPGDIITDIEQIDEGWWRGTGPDGTYGLFPANYVEL 54
>gnl|CDD|212753 cd11819, SH3_Cortactin_like, Src homology 3 domain of Cortactin and
related proteins. This subfamily includes cortactin,
Abp1 (actin-binding protein 1), hematopoietic lineage
cell-specific protein 1 (HS1), and similar proteins.
These proteins are involved in regulating actin dynamics
through direct or indirect interaction with the Arp2/3
complex, which is required to initiate actin
polymerization. They all contain at least one C-terminal
SH3 domain. Cortactin and HS1 bind Arp2/3 and actin
through an N-terminal region that contains an acidic
domain and several copies of a repeat domain found in
cortactin and HS1. Abp1 binds actin via an N-terminal
actin-depolymerizing factor (ADF) homology domain. Yeast
Abp1 binds Arp2/3 directly through two acidic domains.
Mammalian Abp1 does not directly interact with Arp2/3;
instead, it regulates actin dynamics indirectly by
interacting with dynamin and WASP family proteins. The
C-terminal region of these proteins acts as an adaptor
or scaffold that can connect membrane trafficking and
signaling proteins that bind the SH3 domain within the
actin network. 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 = 101 bits (254), Expect = 2e-26
Identities = 37/54 (68%), Positives = 39/54 (72%), Gaps = 1/54 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC-HGQYGLFPANYVSL 523
A ALYDYQA+ D+EISF DIIT IE IDEGWW G GQ GLFPANYV L
Sbjct: 1 RAKALYDYQAAEDNEISFVEGDIITQIEQIDEGWWLGVNAKGQKGLFPANYVEL 54
>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 = 80.3 bits (199), Expect = 5e-19
Identities = 29/54 (53%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 469 GYTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH-GQYGLFPANYV 521
G ALYDY A DE+SF DIIT +E D+GWW+G G+ GLFP+NYV
Sbjct: 2 GPQVRALYDYTAQDPDELSFKKGDIITVLEKSDDGWWKGRLGRGKEGLFPSNYV 55
>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 = 79.8 bits (198), Expect = 7e-19
Identities = 30/51 (58%), Positives = 36/51 (70%), Gaps = 1/51 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH-GQYGLFPANY 520
A ALYDY+A DDE+SF DIIT +E D+GWW G + G+ GLFPANY
Sbjct: 1 YARALYDYEAQDDDELSFKKGDIITVLEKDDDGWWEGELNGGREGLFPANY 51
>gnl|CDD|212894 cd11961, SH3_Abp1_fungi_C2, Second C-terminal Src homology 3 domain
of Fungal Actin-binding protein 1. Abp1 is an adaptor
protein that functions in receptor-mediated endocytosis
and vesicle trafficking. It contains an N-terminal
actin-binding module, the actin-depolymerizing factor
(ADF) homology domain, a central proline-rich region,
and a C-terminal SH3 domain (many yeast Abp1 proteins
contain two C-terminal SH3 domains). Yeast Abp1 also
contains two acidic domains that bind directly to the
Arp2/3 complex, which is required to initiate actin
polymerization. The SH3 domain of yeast Abp1 binds and
localizes the kinases, Ark1p and Prk1p, which facilitate
actin patch disassembly following vesicle
internalization. It also mediates the localization to
the actin patch of the synaptojanin-like protein, Sjl2p,
which plays a key role in endocytosis. 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 = 76.4 bits (188), Expect = 1e-17
Identities = 31/53 (58%), Positives = 38/53 (71%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A ALYDY A+ D+E+SF +D I NIE +D+ WW G CHG GLFP+NYV L
Sbjct: 1 WAKALYDYDAAEDNELSFFENDKIINIEFVDDDWWLGECHGSRGLFPSNYVEL 53
>gnl|CDD|202162 pfam02218, HS1_rep, Repeat in HS1/Cortactin. The function of this
repeat is unknown. Seven copies are found in cortactin
and four copies are found in HS1. The repeats are always
found amino terminal to an SH3 domain pfam00018.
Length = 37
Score = 72.1 bits (177), Expect = 3e-16
Identities = 32/37 (86%), Positives = 35/37 (94%)
Query: 158 GFGGKFGVQKDRQDKSAVGWDHQEKIEKHESQKDYAK 194
GFGGKFGVQKDRQDKSAVG+D+Q K EKHESQKDY+K
Sbjct: 1 GFGGKFGVQKDRQDKSAVGFDYQGKTEKHESQKDYSK 37
Score = 62.0 bits (151), Expect = 8e-13
Identities = 26/37 (70%), Positives = 29/37 (78%)
Query: 121 GFGGKFGVQNDRVDKSAVTWDHKEVIEKHASQKDYSS 157
GFGGKFGVQ DR DKSAV +D++ EKH SQKDYS
Sbjct: 1 GFGGKFGVQKDRQDKSAVGFDYQGKTEKHESQKDYSK 37
Score = 61.3 bits (149), Expect = 2e-12
Identities = 24/34 (70%), Positives = 30/34 (88%)
Query: 195 GFGGKFGIESDRQDKSAVGWDHVEKVDKHQSQKD 228
GFGGKFG++ DRQDKSAVG+D+ K +KH+SQKD
Sbjct: 1 GFGGKFGVQKDRQDKSAVGFDYQGKTEKHESQKD 34
Score = 58.2 bits (141), Expect = 2e-11
Identities = 23/35 (65%), Positives = 28/35 (80%)
Query: 84 GYGGKFGVEKDRMDESAVGHDYVAQLHQHESQSDY 118
G+GGKFGV+KDR D+SAVG DY + +HESQ DY
Sbjct: 1 GFGGKFGVQKDRQDKSAVGFDYQGKTEKHESQKDY 35
>gnl|CDD|212723 cd11789, SH3_Nebulin_family_C, C-terminal Src Homology 3 domain of
the Nebulin family of proteins. Nebulin family proteins
contain multiple nebulin repeats, and may contain an
N-terminal LIM domain and/or a C-terminal SH3 domain.
They have molecular weights ranging from 34 to 900 kD,
depending on the number of nebulin repeats, and they all
bind actin. They are involved in the regulation of actin
filament architecture and function as stabilizers and
scaffolds for cytoskeletal structures with which they
associate, such as long actin filaments or focal
adhesions. Nebulin family proteins that contain a
C-terminal SH3 domain include the giant filamentous
protein nebulin, nebulette, Lasp1, and Lasp2. Lasp2,
also called LIM-nebulette, is an alternatively spliced
variant of nebulette. 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 = 68.5 bits (168), Expect = 7e-15
Identities = 27/51 (52%), Positives = 35/51 (68%), Gaps = 2/51 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYV 521
A+YDY A+ DDE+SF D+I N+E+ID+GW G GQ G+ PANYV
Sbjct: 3 RAMYDYAAADDDEVSFQEGDVIINVEIIDDGWMEGTVQRTGQSGMLPANYV 53
>gnl|CDD|212759 cd11825, SH3_PLCgamma, Src homology 3 domain of Phospholipase C
(PLC) gamma. PLC catalyzes the hydrolysis of
phosphatidylinositol (4,5)-bisphosphate [PtdIns(4,5)P2]
to produce Ins(1,4,5)P3 and diacylglycerol (DAG) in
response to various receptors. Ins(1,4,5)P3 initiates
the calcium signaling cascade while DAG functions as an
activator of PKC. PLCgamma catalyzes this reaction in
tyrosine kinase-dependent signaling pathways. It is
activated and recruited to its substrate at the
membrane. Vertebrates contain two forms of PLCgamma,
PLCgamma1, which is widely expressed, and PLCgamma2,
which is primarily found in haematopoietic cells.
PLCgamma contains a Pleckstrin homology (PH) domain
followed by an elongation factor (EF) domain, two
catalytic regions of PLC domains that flank two tandem
SH2 domains, followed by a SH3 domain and C2 domain. The
SH3 domain of PLCgamma1 directly interacts with
dynamin-1 and can serve as a guanine nucleotide exchange
factor (GEF). It also interacts with Cbl, inhibiting its
phosphorylation and activity. 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 = 67.0 bits (164), Expect = 3e-14
Identities = 29/52 (55%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQY-GLFPANYV 521
T ALYDY+A DE+SF IITN+E D GWWRG G+ FPANYV
Sbjct: 1 TVKALYDYRAQRPDELSFCKHAIITNVEKEDGGWWRGDYGGKKQKWFPANYV 52
>gnl|CDD|212757 cd11823, SH3_Nostrin, Src homology 3 domain of Nitric Oxide
Synthase TRaffic INducer. Nostrin is expressed in
endothelial and epithelial cells and is involved in the
regulation, trafficking and targeting of endothelial NOS
(eNOS). It facilitates the endocytosis of eNOS by
coordinating the functions of dynamin and the
Wiskott-Aldrich syndrome protein (WASP). Increased
expression of Nostrin may be correlated to preeclampsia.
Nostrin contains 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 = 63.9 bits (156), Expect = 3e-13
Identities = 25/49 (51%), Positives = 32/49 (65%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALY Y A+ +DE+S P DII E D+GWW G +G+ G+FPA YV
Sbjct: 3 KALYSYTANREDELSLQPGDIIEVHEKQDDGWWLGELNGKKGIFPATYV 51
>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 = 63.8 bits (156), Expect = 3e-13
Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
ALYD+ E+ F DIIT ++ D WW+G G+ G+FPANYV
Sbjct: 4 ALYDFNPQEPGELEFRRGDIITVLDSSDPDWWKGELRGRVGIFPANYVQ 52
>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 = 63.9 bits (156), Expect = 3e-13
Identities = 22/48 (45%), Positives = 31/48 (64%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALYDY+A DE+SF+ D++ + D WW+ C G+ GL P+NYV
Sbjct: 4 ALYDYEAQHPDELSFEEGDLLYISDKSDPNWWKATCGGKTGLIPSNYV 51
>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 = 62.6 bits (153), Expect = 8e-13
Identities = 24/47 (51%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH-GQYGLFPA 518
VALYDY A DE+SF DII +E D+GWW+G G+ GL P+
Sbjct: 1 VALYDYTAREPDELSFKKGDIIIVLEKSDDGWWKGRLKGGKEGLIPS 47
>gnl|CDD|212774 cd11840, SH3_Intersectin_5, Fifth Src homology 3 domain (or SH3E)
of Intersectin. Intersectins (ITSNs) are adaptor
proteins that function in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction.
They are essential for initiating clathrin-coated pit
formation. They bind to many proteins through their
multidomain structure and facilitate the assembly of
multimeric complexes. Vertebrates contain two ITSN
proteins, ITSN1 and ITSN2, which exist in alternatively
spliced short and long isoforms. The short isoforms
contain two Eps15 homology domains (EH1 and EH2), a
coiled-coil region and five SH3 domains (SH3A-E), while
the long isoforms, in addition, contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin homology (PH)
and C2 domains. ITSN1 and ITSN2 are both widely
expressed, with variations depending on tissue type and
stage of development. The fifth SH3 domain (or SH3E) of
ITSN1 has been shown to bind many protein partners
including SGIP1, Sos1, dynamin1/2, CIN85, c-Cbl, SHIP2,
N-WASP, and synaptojanin-1, 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 = 53
Score = 62.4 bits (152), Expect = 9e-13
Identities = 25/49 (51%), Positives = 32/49 (65%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+AL+ Y A +DE+SF DII + D WWRG +GQ GLFP+NYV
Sbjct: 3 IALFPYTAQNEDELSFQKGDIINVLSKDDPDWWRGELNGQTGLFPSNYV 51
>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 = 62.3 bits (152), Expect = 1e-12
Identities = 21/48 (43%), Positives = 35/48 (72%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A ++++ + +DE+SFD DIIT ++++ GWW G +G+ G FP+NYV
Sbjct: 4 AKFNFEGTNEDELSFDKGDIITVTQVVEGGWWEGTLNGKTGWFPSNYV 51
>gnl|CDD|212700 cd11766, SH3_Nck_2, Second Src Homology 3 domain of Nck adaptor
proteins. Nck adaptor proteins regulate actin
cytoskeleton dynamics by linking proline-rich effector
molecules to protein tyrosine kinases and phosphorylated
signaling intermediates. They contain three SH3 domains
and a C-terminal SH2 domain. They function downstream of
the PDGFbeta receptor and are involved in Rho GTPase
signaling and actin dynamics. Vertebrates contain two
Nck adaptor proteins: Nck1 (also called Nckalpha) and
Nck2 (also called Nckbeta or Growth factor
receptor-bound protein 4, Grb4), which show partly
overlapping functions but also bind distinct targets.
Their SH3 domains are involved in recruiting downstream
effector molecules, such as the N-WASP/Arp2/3 complex,
which when activated induces actin polymerization that
results in the production of pedestals, or protrusions
of the plasma membrane. The second SH3 domain of Nck
appears to prefer ligands containing the APxxPxR motif.
SH3 domains are protein interaction domains that usually
bind to proline-rich ligands with moderate affinity and
selectivity, preferentially a PxxP motif. 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 = 62.3 bits (152), Expect = 1e-12
Identities = 23/52 (44%), Positives = 34/52 (65%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
AV ++Y+A +DE+S D + +E +GWWRG C+GQ G FP+NYV+
Sbjct: 1 PAVVKFNYEAQREDELSLRKGDRVLVLEKSSDGWWRGECNGQVGWFPSNYVT 52
>gnl|CDD|212760 cd11826, SH3_Abi, Src homology 3 domain of Abl Interactor proteins.
Abl interactor (Abi) proteins are adaptor proteins
serving as binding partners and substrates of Abl
tyrosine kinases. They are involved in regulating actin
cytoskeletal reorganization and play important roles in
membrane-ruffling, endocytosis, cell motility, and cell
migration. They localize to sites of actin
polymerization in epithelial adherens junction and
immune synapses, as well as to the leading edge of
lamellipodia. Vertebrates contain two Abi proteins, Abi1
and Abi2. Abi1 displays a wide expression pattern while
Abi2 is highly expressed in the eye and brain. Abi
proteins contain a homeobox homology domain, a
proline-rich region, and a SH3 domain. The SH3 domain of
Abi binds to a PxxP motif in Abl. 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 = 61.2 bits (149), Expect = 3e-12
Identities = 27/49 (55%), Positives = 32/49 (65%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VALYDY A DDE+SF DII + D+GW+ G +G GLFP NYV
Sbjct: 3 VALYDYTADKDDELSFQEGDIIYVTKKNDDGWYEGVLNGVTGLFPGNYV 51
>gnl|CDD|212754 cd11820, SH3_STAM, Src homology 3 domain of Signal Transducing
Adaptor Molecules. STAMs were discovered as proteins
that are highly phosphorylated following cytokine and
growth factor stimulation. They function in cytokine
signaling and surface receptor degradation, as well as
regulate Golgi morphology. They associate with many
proteins including Jak2 and Jak3 tyrosine kinases, Hrs,
AMSH, and UBPY. STAM adaptor proteins contain VHS
(Vps27, Hrs, STAM homology), ubiquitin interacting
(UIM), and SH3 domains. There are two vertebrate STAMs,
STAM1 and STAM2, which may be functionally redundant;
vertebrate STAMs contain ITAM motifs. They are part of
the endosomal sorting complex required for transport
(ESCRT-0). STAM2 deficiency in mice did not cause any
obvious abnormality, while STAM1 deficiency resulted in
growth retardation. Loss of both STAM1 and STAM2 in mice
proved lethal, indicating that STAMs are important for
embryonic development. 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 = 61.3 bits (149), Expect = 3e-12
Identities = 23/49 (46%), Positives = 35/49 (71%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
ALYD++A+ D+E++F +IIT ++ D WW+G H GLFPAN+V+
Sbjct: 5 ALYDFEAAEDNELTFKAGEIITVLDDSDPNWWKGSNHRGEGLFPANFVT 53
>gnl|CDD|212806 cd11873, SH3_CD2AP-like_1, First Src Homology 3 domain (SH3A) of
CD2-associated protein and similar proteins. This
subfamily is composed of the first SH3 domain (SH3A) of
CD2AP, CIN85 (Cbl-interacting protein of 85 kDa), and
similar domains. CD2AP and CIN85 are adaptor proteins
that bind to protein partners and assemble complexes
that have been implicated in T cell activation, kidney
function, and apoptosis of neuronal cells. They also
associate with endocytic proteins, actin cytoskeleton
components, and other adaptor proteins involved in
receptor tyrosine kinase (RTK) signaling. CD2AP and the
main isoform of CIN85 contain three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CD2AP and CIN85 to
bind various protein partners and assemble complexes
that have been implicated in many different functions.
SH3A of both proteins bind to an atypical PXXXPR motif
at the C-terminus of Cbl and the cytoplasmic domain of
the cell adhesion protein CD2. CIN85 SH3A binds to
internal proline-rich motifs within the proline-rich
region; this intramolecular interaction serves as a
regulatory mechanism to keep CIN85 in a closed
conformation, preventing the recruitment of other
proteins. CIN85 SH3A has also 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 = 53
Score = 60.7 bits (148), Expect = 4e-12
Identities = 21/51 (41%), Positives = 33/51 (64%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ +DY A DE++ DIITN++ ++EGWW G +G+ G+FP N+V
Sbjct: 1 EVIVEFDYDAEEPDELTLKVGDIITNVKKMEEGWWEGTLNGKRGMFPDNFV 51
>gnl|CDD|212883 cd11950, SH3_GRAP2_C, C-terminal Src homology 3 domain of
GRB2-related adaptor protein 2. GRAP2 is also called
GADS (GRB2-related adapter downstream of Shc), GrpL,
GRB2L, Mona, or GRID (Grb2-related protein with insert
domain). It is expressed specifically in the
hematopoietic system. It 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. It also has roles in antigen-receptor and
tyrosine kinase mediated signaling. GRAP2 is unique from
other GRB2-like adaptor proteins in that it can be
regulated by caspase cleavage. It contains an N-terminal
SH3 domain, a central SH2 domain, and a C-terminal SH3
domain. The C-terminal SH3 domain of GRAP2 binds to
different motifs found in substrate peptides including
the typical PxxP motif in hematopoietic progenitor
kinase 1 (HPK1), the RxxK motif in SLP-76 and HPK1, and
the RxxxxK motif in phosphatase-like protein HD-PTP. 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 = 60.6 bits (147), Expect = 4e-12
Identities = 24/50 (48%), Positives = 34/50 (68%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALYD++A DDE+ F+ D+I ++ + WW+G HG+ GLFPANYV
Sbjct: 2 VRALYDFEALEDDELGFNSGDVIEVLDSSNPSWWKGRLHGKLGLFPANYV 51
>gnl|CDD|212895 cd11962, SH3_Abp1_fungi_C1, First C-terminal Src homology 3 domain
of Fungal Actin-binding protein 1. Abp1 is an adaptor
protein that functions in receptor-mediated endocytosis
and vesicle trafficking. It contains an N-terminal
actin-binding module, the actin-depolymerizing factor
(ADF) homology domain, a central proline-rich region,
and a C-terminal SH3 domain (many yeast Abp1 proteins
contain two C-terminal SH3 domains). Yeast Abp1 also
contains two acidic domains that bind directly to the
Arp2/3 complex, which is required to initiate actin
polymerization. The SH3 domain of yeast Abp1 binds and
localizes the kinases, Ark1p and Prk1p, which facilitate
actin patch disassembly following vesicle
internalization. It also mediates the localization to
the actin patch of the synaptojanin-like protein, Sjl2p,
which plays a key role in endocytosis. 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 = 60.6 bits (147), Expect = 5e-12
Identities = 29/53 (54%), Positives = 36/53 (67%), Gaps = 1/53 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYVSL 523
AV LYDY+ D+EI +I+TNIEM+DE WW G G+ GLFP+NYV L
Sbjct: 2 AVVLYDYEKDEDNEIELVEGEIVTNIEMVDEDWWMGTNSKGESGLFPSNYVEL 54
>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 = 59.9 bits (145), Expect = 8e-12
Identities = 22/52 (42%), Positives = 30/52 (57%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
AL+D+ D E+ F D I ++ D WW+G CHGQ G+FP NYV+
Sbjct: 1 YVQALFDFDPQEDGELGFRRGDFIEVMDNSDPNWWKGACHGQTGMFPRNYVT 52
>gnl|CDD|212761 cd11827, SH3_MyoIe_If_like, Src homology 3 domain of Myosins Ie,
If, and similar proteins. Myosins Ie (MyoIe) and If
(MyoIf) are nonmuscle, unconventional, long tailed,
class I myosins containing an N-terminal motor domain
and a myosin tail with TH1, TH2, and SH3 domains. MyoIe
interacts with the endocytic proteins, dynamin and
synaptojanin-1, through its SH3 domain; it may play a
role in clathrin-dependent endocytosis. In the kidney,
MyoIe is critical for podocyte function and normal
glomerular filtration. Mutations in MyoIe is associated
with focal segmental glomerulosclerosis, a disease
characterized by massive proteinuria and progression to
end-stage kidney disease. MyoIf is predominantly
expressed in the immune system; it plays a role in
immune cell motility and innate immunity. Mutations in
MyoIf may be associated with the loss of hearing. The
MyoIf gene has also been found to be fused to the MLL
(Mixed lineage leukemia) gene in infant acute myeloid
leukemias (AML). 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 = 59.4 bits (144), Expect = 1e-11
Identities = 24/48 (50%), Positives = 29/48 (60%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALY Y A DE+SF+ DII ++ GWW G G+ GLFP NYV
Sbjct: 4 ALYAYDAQDTDELSFNEGDIIEILKEDPSGWWTGRLRGKEGLFPGNYV 51
>gnl|CDD|212737 cd11803, SH3_Endophilin_A, Src homology 3 domain of Endophilin-A.
Endophilins play roles in synaptic vesicle formation,
virus budding, mitochondrial morphology maintenance,
receptor-mediated endocytosis inhibition, and endosomal
sorting. They are classified into two types, A and B.
Vertebrates contain three endophilin-A isoforms (A1, A2,
and A3). Endophilin-A proteins are enriched in the brain
and play multiple roles in receptor-mediated
endocytosis. They tubulate membranes and regulate
calcium influx into neurons to trigger the activation of
the endocytic machinery. They are also involved in the
sorting of plasma membrane proteins, actin filament
assembly, and the uncoating of clathrin-coated vesicles
for fusion with endosomes. Endophilins contain an
N-terminal N-BAR domain (BAR domain with an additional
N-terminal amphipathic helix), followed by a variable
region containing proline clusters, 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 = 55
Score = 58.4 bits (142), Expect = 3e-11
Identities = 23/50 (46%), Positives = 29/50 (58%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALYD++ + E+ F DIIT IDE W+ G +GQ G FP NYV
Sbjct: 3 CRALYDFEPENEGELGFKEGDIITLTNQIDENWYEGMVNGQSGFFPVNYV 52
>gnl|CDD|212866 cd11933, SH3_Nebulin_C, C-terminal Src Homology 3 domain of
Nebulin. Nebulin is a giant filamentous protein
(600-900 kD) that is expressed abundantly in skeletal
muscle. It binds to actin thin filaments and regulates
its assembly and function. Nebulin was thought to be
part of a molecular ruler complex that is critical in
determining the lengths of actin thin filaments in
skeletal muscle since its length, which varies due to
alternative splicing, correlates with the length of thin
filaments in various muscle types. Recent studies
indicate that nebulin regulates thin filament length by
stabilizing the filaments and preventing
depolymerization. Mutations in nebulin can cause
nemaline myopathy, characterized by muscle weakness
which can be severe and can lead to neonatal lethality.
Nebulin contains an N-terminal LIM domain, many nebulin
repeats/super repeats, 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 = 58
Score = 57.3 bits (138), Expect = 7e-11
Identities = 27/55 (49%), Positives = 36/55 (65%), Gaps = 2/55 (3%)
Query: 469 GYTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYV 521
G + A+YDY+A+ DDE+SF D I N++ IDEGW G G+ G+ PANYV
Sbjct: 1 GKSFRAMYDYRAADDDEVSFKDGDTIVNVQTIDEGWMYGTVQRTGKTGMLPANYV 55
>gnl|CDD|212815 cd11882, SH3_GRAF-like, Src Homology 3 domain of GTPase Regulator
Associated with Focal adhesion kinase and similar
proteins. This subfamily is composed of Rho GTPase
activating proteins (GAPs) with similarity to GRAF.
Members contain an N-terminal BAR domain, followed by a
Pleckstrin homology (PH) domain, a Rho GAP domain, and a
C-terminal SH3 domain. Although vertebrates harbor four
Rho GAPs in the GRAF subfamily including GRAF, GRAF2,
GRAF3, and Oligophrenin-1 (OPHN1), only three are
included in this model. OPHN1 contains the BAR, PH and
GAP domains, but not the C-terminal SH3 domain. GRAF and
GRAF2 show GAP activity towards RhoA and Cdc42. GRAF
influences Rho-mediated cytoskeletal rearrangements and
binds focal adhesion kinase. GRAF2 regulates
caspase-activated p21-activated protein kinase-2. The
SH3 domain of GRAF and GRAF2 binds PKNbeta, a target of
the small GTPase Rho. 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 = 56.5 bits (137), Expect = 1e-10
Identities = 25/54 (46%), Positives = 33/54 (61%), Gaps = 1/54 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYVSL 523
A ALY +A + E+SF+P IITN++ DE GW G +G+ GL P NYV
Sbjct: 1 RARALYACKAEDESELSFEPGQIITNVQPSDEPGWLEGTLNGRTGLIPENYVEF 54
>gnl|CDD|212770 cd11836, SH3_Intersectin_1, First Src homology 3 domain (or SH3A)
of Intersectin. Intersectins (ITSNs) are adaptor
proteins that function in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction.
They are essential for initiating clathrin-coated pit
formation. They bind to many proteins through their
multidomain structure and facilitate the assembly of
multimeric complexes. Vertebrates contain two ITSN
proteins, ITSN1 and ITSN2, which exist in alternatively
spliced short and long isoforms. The short isoforms
contain two Eps15 homology domains (EH1 and EH2), a
coiled-coil region and five SH3 domains (SH3A-E), while
the long isoforms, in addition, contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin homology (PH)
and C2 domains. ITSN1 and ITSN2 are both widely
expressed, with variations depending on tissue type and
stage of development. The first SH3 domain (or SH3A) of
ITSN1 has been shown to bind many proteins including
Sos1, dynamin1/2, CIN85, c-Cbl, PI3K-C2, SHIP2, N-WASP,
and CdGAP, 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 = 55
Score = 56.2 bits (136), Expect = 2e-10
Identities = 26/55 (47%), Positives = 30/55 (54%), Gaps = 10/55 (18%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE------GWWRGYCHGQYGLFPANYVS 522
ALY ++A DEISF P DII +DE GW G G+ G FPANYV
Sbjct: 4 ALYAFEARNPDEISFQPGDII----QVDESQVAEPGWLAGELKGKTGWFPANYVE 54
>gnl|CDD|212904 cd11971, SH3_Abi1, Src homology 3 domain of Abl Interactor 1.
Abi1, also called e3B1, is a central regulator of actin
cytoskeletal reorganization through interactions with
many protein complexes. It is part of WAVE, a
nucleation-promoting factor complex, that links Rac 1
activation to actin polymerization causing lamellipodia
protrusion at the plasma membrane. Abi1 interact with
formins to promote protrusions at the leading edge of
motile cells. It also is a target of alpha4 integrin,
regulating membrane protrusions at sites of integrin
engagement. Abi proteins are adaptor proteins serving as
binding partners and substrates of Abl tyrosine kinases.
They are involved in regulating actin cytoskeletal
reorganization and play important roles in
membrane-ruffling, endocytosis, cell motility, and cell
migration. Abi proteins contain a homeobox homology
domain, a proline-rich region, and a SH3 domain. The SH3
domain of Abi binds to a PxxP motif in Abl. 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 = 56.2 bits (135), Expect = 2e-10
Identities = 26/49 (53%), Positives = 32/49 (65%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VA+YDY DDE+SF II I+ D+GW+ G C+G GLFP NYV
Sbjct: 3 VAIYDYSKDKDDELSFMEGAIIYVIKKNDDGWYEGVCNGVTGLFPGNYV 51
>gnl|CDD|212749 cd11815, SH3_Eve1_2, Second 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 = 52
Score = 55.3 bits (133), Expect = 4e-10
Identities = 21/50 (42%), Positives = 32/50 (64%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
AV L+D+ A D++S + +I+ +E ID W+RG C G+FPAN+V
Sbjct: 2 AVVLHDFPAEHSDDLSLNSGEIVYLLEKIDTEWYRGKCKNTTGIFPANHV 51
>gnl|CDD|212868 cd11935, SH3_Nebulette_C, C-terminal Src Homology 3 domain of
Nebulette and LIM-nebulette (or Lasp2). Nebulette is a
cardiac-specific protein that localizes to the Z-disc.
It interacts with tropomyosin and is important in
stabilizing actin thin filaments in cardiac muscles.
Polymorphisms in the nebulette gene are associated with
dilated cardiomyopathy, with some mutations resulting in
severe heart failure. Nebulette is a 107kD protein that
contains an N-terminal acidic region, multiple nebulin
repeats, and a C-terminal SH3 domain. LIM-nebulette,
also called Lasp2 (LIM and SH3 domain protein 2), is an
alternatively spliced variant of nebulette. Although it
shares a gene with nebulette, Lasp2 is not transcribed
from a muscle-specific promoter, giving rise to its
multiple tissue expression pattern with highest amounts
in the brain. It can crosslink actin filaments and it
affects cell spreading. Lasp2 is a 34kD protein
containing an N-terminal LIM domain, three nebulin
repeats, 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 = 58
Score = 55.0 bits (132), Expect = 5e-10
Identities = 24/52 (46%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYVSL 523
A+YDY A +DE+SF D I N++ IDEGW G G+ G+ PANY+
Sbjct: 5 AMYDYSAQDEDEVSFRDGDYIVNVQPIDEGWMYGTVQRTGRTGMLPANYIEF 56
>gnl|CDD|212928 cd11995, SH3_Intersectin1_5, Fifth Src homology 3 domain (or SH3E)
of Intersectin-1. Intersectin-1 (ITSN1) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN1 localizes in membranous organelles, CCPs, the
Golgi complex, and may be involved in the cell membrane
trafficking system. It exists in alternatively spliced
short and long isoforms. The short isoform contains two
Eps15 homology domains (EH1 and EH2), a coiled-coil
region and five SH3 domains (SH3A-E), while the long
isoform, in addition, contains RhoGEF (also called
Dbl-homologous or DH), Pleckstrin homology (PH) and C2
domains. The fifth SH3 domain (or SH3E) of ITSN1 has
been shown to bind many protein partners including
SGIP1, Sos1, dynamin1/2, CIN85, c-Cbl, SHIP2, N-WASP,
and synaptojanin-1, 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 = 54
Score = 55.0 bits (132), Expect = 5e-10
Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
+ +YDY A DDE++F II + D WW+G +GQ GLFP+NYV L
Sbjct: 4 IGMYDYTAQNDDELAFSKGQIINVLNKEDPDWWKGELNGQVGLFPSNYVKL 54
>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 = 54.7 bits (132), Expect = 6e-10
Identities = 26/49 (53%), Positives = 33/49 (67%), Gaps = 1/49 (2%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYV 521
ALYDY+ DE+SF DI+T +E DE GW +G G+ GL+PANYV
Sbjct: 4 ALYDYEGQESDELSFKAGDILTKLEEEDEQGWCKGRLDGRVGLYPANYV 52
>gnl|CDD|212746 cd11812, SH3_AHI-1, Src Homology 3 domain of Abelson helper
integration site-1 (AHI-1). AHI-1, also called
Jouberin, is expressed in high levels in the brain,
gonad tissues, and skeletal muscle. It is an adaptor
protein that interacts with the small GTPase Rab8a and
regulates it distribution and function, affecting cilium
formation and vesicle transport. Mutations in the AHI-1
gene can cause Joubert syndrome, a disorder
characterized by brainstem malformations, cerebellar
aplasia/hypoplasia, and retinal dystrophy. AHI-1
variation is also associated with susceptibility to
schizophrenia and type 2 diabetes mellitus progression.
AHI-1 contains WD40 and SH3 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 = 52
Score = 54.4 bits (131), Expect = 6e-10
Identities = 25/52 (48%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRG-YCHGQYGLFPANYV 521
T VALYDY A+ DE++ DII + ++ WW G +GQ G FPANYV
Sbjct: 1 TVVALYDYTANRSDELTIHRGDIIRVLYKDNDNWWFGSLVNGQQGYFPANYV 52
>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 = 54.3 bits (131), Expect = 7e-10
Identities = 23/50 (46%), Positives = 32/50 (64%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A ALY+Y+ ++SF DII + IDE W+ G C+G+ G FPA+YV
Sbjct: 2 AKALYNYEGKEPGDLSFKKGDIILLRKRIDENWYHGECNGKQGFFPASYV 51
>gnl|CDD|212752 cd11818, SH3_Eve1_5, Fifth 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 = 50
Score = 54.4 bits (131), Expect = 7e-10
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
A ALYD+ +DE+SF DIIT +E IDE W G G+ G+FP N+
Sbjct: 2 ARALYDFTGENEDELSFKAGDIITELESIDEEWMSGELRGKSGIFPKNF 50
>gnl|CDD|212712 cd11778, SH3_Bzz1_2, Second Src Homology 3 domain of Bzz1 and
similar domains. Bzz1 (or Bzz1p) is a
WASP/Las17-interacting protein involved in endocytosis
and trafficking to the vacuole. It physically interacts
with type I myosins and functions in the early steps of
endocytosis. Together with other proteins, it induces
membrane scission in yeast. Bzz1 contains an N-terminal
F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs), a
central coiled-coil, and two C-terminal SH3 domains.
This model represents the second 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 = 51
Score = 54.4 bits (131), Expect = 7e-10
Identities = 24/48 (50%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMID-EGWWRGYCHGQYGLFPANY 520
ALYDY+A DDEIS D I I D GW G +G GLFP +Y
Sbjct: 4 ALYDYEAQGDDEISIRVGDRIAVIRGDDGSGWTYGEINGVKGLFPTSY 51
>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 = 53.5 bits (129), Expect = 1e-09
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL+D+ +E+ F D+I ++M D+ WW G + G FPA++V L
Sbjct: 1 LAEALWDHVTMDPEELGFKAGDVIEVLDMSDKDWWWGSIRDEEGWFPASFVRL 53
>gnl|CDD|213018 cd12142, SH3_D21-like, Src Homology 3 domain of SH3
domain-containing protein 21 (SH3D21) and similar
proteins. N-terminal SH3 domain of the uncharacterized
protein SH3 domain-containing protein 21, and similar
uncharacterized domains, it belongs to the CD2AP-like_3
subfamily of proteins. The CD2AP-like_3 subfamily is
composed of the third SH3 domain (SH3C) of CD2AP, CIN85
(Cbl-interacting protein of 85 kDa), and similar
domains. CD2AP and CIN85 are adaptor proteins that bind
to protein partners and assemble complexes that have
been implicated in T cell activation, kidney function,
and apoptosis of neuronal cells. They also associate
with endocytic proteins, actin cytoskeleton components,
and other adaptor proteins involved in receptor tyrosine
kinase (RTK) signaling. CD2AP and the main isoform of
CIN85 contain three SH3 domains, a proline-rich region,
and a C-terminal coiled-coil domain. All of these
domains enable CD2AP and CIN85 to bind various protein
partners and assemble complexes that have been
implicated in many different functions. SH3C of both
proteins have been shown to bind to 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 = 55
Score = 53.2 bits (128), Expect = 2e-09
Identities = 22/49 (44%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 475 LYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYV 521
L+DY A DE++ D+I I E DEGWW G +G+ G FP N+V
Sbjct: 5 LFDYNPVAPDELALKKGDVIEVISKETEDEGWWEGELNGRRGFFPDNFV 53
>gnl|CDD|212903 cd11970, SH3_PLCgamma1, Src homology 3 domain of Phospholipase C
(PLC) gamma 1. PLCgamma1 is widely expressed and is
essential in growth and development. It is activated by
the TrkA receptor tyrosine kinase and functions as a key
regulator of cell differentiation. It is also the
predominant PLCgamma in T cells and is required for T
cell and NK cell function. PLCs catalyze the hydrolysis
of phosphatidylinositol (4,5)-bisphosphate
[PtdIns(4,5)P2] to produce Ins(1,4,5)P3 and
diacylglycerol (DAG). Ins(1,4,5)P3 initiates the calcium
signaling cascade while DAG functions as an activator of
PKC. PLCgamma contains a Pleckstrin homology (PH) domain
followed by an elongation factor (EF) domain, two
catalytic regions of PLC domains that flank two tandem
SH2 domains, followed by a SH3 domain and C2 domain. The
SH3 domain of PLCgamma1 directly interacts with
dynamin-1 and can serve as a guanine nucleotide exchange
factor (GEF). It also interacts with Cbl, inhibiting its
phosphorylation and activity. 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 = 60
Score = 53.5 bits (128), Expect = 2e-09
Identities = 24/49 (48%), Positives = 34/49 (69%), Gaps = 1/49 (2%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGL-FPANYV 521
AL+DY+A +DE++F + II N+E + GWWRG G+ L FP+NYV
Sbjct: 8 ALFDYKAQREDELTFTKNAIIQNVEKQEGGWWRGDYGGKKQLWFPSNYV 56
>gnl|CDD|212758 cd11824, SH3_PSTPIP1, Src homology 3 domain of
Proline-Serine-Threonine Phosphatase-Interacting Protein
1. PSTPIP1, also called CD2 Binding Protein 1 (CD2BP1),
is mainly expressed in hematopoietic cells. It is a
binding partner of the cell surface receptor CD2 and
PTP-PEST, a tyrosine phosphatase which functions in cell
motility and Rac1 regulation. It also plays a role in
the activation of the Wiskott-Aldrich syndrome protein
(WASP), which couples actin rearrangement and T cell
activation. Mutations in the gene encoding PSTPIP1 cause
the autoinflammatory disorder known as PAPA (pyogenic
sterile arthritis, pyoderma gangrenosum, and acne)
syndrome. PSTPIP1 contains an N-terminal F-BAR domain,
PEST motifs, 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 = 53.1 bits (128), Expect = 2e-09
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
LYDY A DDE+S D++ IE ++GWW +GQ GL P Y+
Sbjct: 2 YSVLYDYTAQEDDELSISKGDVVAVIEKGEDGWWTVERNGQKGLVPGTYL 51
>gnl|CDD|212715 cd11781, SH3_Sorbs_1, First Src Homology 3 domain of Sorbin and SH3
domain containing (Sorbs) proteins and similar domains.
This family, also called the vinexin family, is composed
predominantly of adaptor proteins containing one sorbin
homology (SoHo) and three SH3 domains. Members include
the first SH3 domains of Sorbs1 (or ponsin), Sorbs2 (or
ArgBP2), Vinexin (or Sorbs3), and similar domains. They
are involved in the regulation of cytoskeletal
organization, cell adhesion, and growth factor
signaling. Members of this family bind multiple partners
including signaling molecules like c-Abl, c-Arg, Sos,
and c-Cbl, as well as cytoskeletal molecules such as
vinculin and afadin. They may have overlapping
functions. 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 = 53.1 bits (128), Expect = 2e-09
Identities = 21/51 (41%), Positives = 31/51 (60%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A ALY ++A + E+S DII ID+ W+ G +G+ G+FPA+YV
Sbjct: 1 KARALYPFKAQSAKELSLKKGDIIYIRRQIDKNWYEGEHNGRVGIFPASYV 51
>gnl|CDD|212897 cd11964, SH3_STAM1, Src homology 3 domain of Signal Transducing
Adaptor Molecule 1. STAM1 is part of the endosomal
sorting complex required for transport (ESCRT-0) and is
involved in sorting ubiquitinated cargo proteins from
the endosome. It may also be involved in the regulation
of IL2 and GM-CSF mediated signaling, and has been
implicated in neural cell survival. STAMs were
discovered as proteins that are highly phosphorylated
following cytokine and growth factor stimulation. They
function in cytokine signaling and surface receptor
degradation, as well as regulate Golgi morphology. They
associate with many proteins including Jak2 and Jak3
tyrosine kinases, Hrs, AMSH, and UBPY. STAM adaptor
proteins contain VHS (Vps27, Hrs, STAM homology),
ubiquitin interacting (UIM), and SH3 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 = 55
Score = 53.0 bits (127), Expect = 2e-09
Identities = 21/49 (42%), Positives = 34/49 (69%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
A+YD++A+ D+E++F DIIT ++ D WW+G GLFP+N+V+
Sbjct: 5 AIYDFEAAEDNELTFKAGDIITILDDSDPNWWKGETPQGTGLFPSNFVT 53
>gnl|CDD|212929 cd11996, SH3_Intersectin2_5, Fifth Src homology 3 domain (or SH3E)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The fifth SH3 domain (or
SH3E) of ITSN2 is expected to bind protein partners,
similar to ITSN1 which has been shown to bind many
protein partners including SGIP1, Sos1, dynamin1/2,
CIN85, c-Cbl, SHIP2, N-WASP, and synaptojanin-1, 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 = 54
Score = 52.7 bits (126), Expect = 3e-09
Identities = 22/51 (43%), Positives = 33/51 (64%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
+A+YDY A+ +DE+SF +I + D WW+G +G GLFP+NYV +
Sbjct: 4 IAMYDYTANNEDELSFSKGQLINVLNKDDPDWWQGEINGVTGLFPSNYVKM 54
>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 = 52.4 bits (126), Expect = 3e-09
Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VA +D++ +DE+SF D+IT E + E W +G +G+ G+FP N+V
Sbjct: 2 CVARFDFEGEQEDELSFSEGDVITLKEYVGEEWAKGELNGKIGIFPLNFV 51
>gnl|CDD|212808 cd11875, SH3_CD2AP-like_3, Third Src Homology 3 domain (SH3C) of
CD2-associated protein and similar proteins. This
subfamily is composed of the third SH3 domain (SH3C) of
CD2AP, CIN85 (Cbl-interacting protein of 85 kDa), and
similar domains. CD2AP and CIN85 are adaptor proteins
that bind to protein partners and assemble complexes
that have been implicated in T cell activation, kidney
function, and apoptosis of neuronal cells. They also
associate with endocytic proteins, actin cytoskeleton
components, and other adaptor proteins involved in
receptor tyrosine kinase (RTK) signaling. CD2AP and the
main isoform of CIN85 contain three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CD2AP and CIN85 to
bind various protein partners and assemble complexes
that have been implicated in many different functions.
SH3C of both proteins have been shown to bind to
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 = 55
Score = 52.4 bits (126), Expect = 4e-09
Identities = 21/55 (38%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYVSL 523
A L+DY+A +DE++ DI+T + + D+GWW+G +G+ G+FP N+V
Sbjct: 1 KARVLFDYEAENEDELTLREGDIVTILSKDCEDKGWWKGELNGKRGVFPDNFVEP 55
>gnl|CDD|212714 cd11780, SH3_Sorbs_3, Third (or C-terminal) Src Homology 3 domain
of Sorbin and SH3 domain containing (Sorbs) proteins and
similar domains. This family, also called the vinexin
family, is composed predominantly of adaptor proteins
containing one sorbin homology (SoHo) and three SH3
domains. Members include the third SH3 domains of Sorbs1
(or ponsin), Sorbs2 (or ArgBP2), Vinexin (or Sorbs3),
and similar domains. They are involved in the regulation
of cytoskeletal organization, cell adhesion, and growth
factor signaling. Members of this family bind multiple
partners including signaling molecules like c-Abl,
c-Arg, Sos, and c-Cbl, as well as cytoskeletal molecules
such as vinculin and afadin. They may have overlapping
functions. 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 = 52.3 bits (126), Expect = 4e-09
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYV 521
ALY Y +DE+ DI+ +E D+GW+ G G +G FP NYV
Sbjct: 4 ALYSYTPQNEDELELREGDIVYVMEKCDDGWFVGTSERTGLFGTFPGNYV 53
>gnl|CDD|212985 cd12052, SH3_CIN85_1, First Src Homology 3 domain (SH3A) of
Cbl-interacting protein of 85 kDa. CIN85, also called
SH3 domain-containing kinase-binding protein 1 (SH3KBP1)
or CD2-binding protein 3 (CD2BP3) or Ruk, is an adaptor
protein that is involved in the downregulation of
receptor tyrosine kinases by facilitating endocytosis
through interaction with endophilin-associated ubiquitin
ligase Cbl proteins. It is also important in many other
cellular processes including vesicle-mediated transport,
cytoskeletal remodelling, apoptosis, cell adhesion and
migration, and viral infection, among others. CIN85
exists as multiple variants from alternative splicing;
the main variant contains three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CIN85 to bind
various protein partners and assemble complexes that
have been implicated in many different functions. This
alignment model represents the first SH3 domain (SH3A)
of CIN85; SH3A binds to internal proline-rich motifs
within the proline-rich region. This intramolecular
interaction serves as a regulatory mechanism to keep
CIN85 in a closed conformation, preventing the
recruitment of other proteins. SH3A has also been shown
to bind ubiquitin and to an atypical PXXXPR motif at the
C-terminus of Cbl and the cytoplasmic end of the cell
adhesion protein CD2. 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 = 52.2 bits (125), Expect = 4e-09
Identities = 23/50 (46%), Positives = 32/50 (64%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A+ +DY+A +DE++ DIIT I+ D GWW G G+ GLFP N+V
Sbjct: 2 AIVEFDYKAQHEDELTITVGDIITKIKKDDGGWWEGEIKGRRGLFPDNFV 51
>gnl|CDD|212867 cd11934, SH3_Lasp1_C, C-terminal Src Homology 3 domain of LIM and
SH3 domain protein 1. Lasp1 is a cytoplasmic protein
that binds focal adhesion proteins and is involved in
cell signaling, migration, and proliferation. It is
overexpressed in several cancer cells including breast,
ovarian, bladder, and liver. In cancer cells, it can be
found in the nucleus; its degree of nuclear localization
correlates with tumor size and poor prognosis. Lasp1 is
a 36kD protein containing an N-terminal LIM domain, two
nebulin repeats, 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 = 59
Score = 51.9 bits (124), Expect = 6e-09
Identities = 24/50 (48%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYV 521
A+YDY A+ +DE+SF D I N++ ID+GW G G G+ PANYV
Sbjct: 7 AVYDYNAADEDEVSFQDGDTIVNVQQIDDGWMYGTVERTGDTGMLPANYV 56
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 57.9 bits (141), Expect = 7e-09
Identities = 35/104 (33%), Positives = 61/104 (58%), Gaps = 9/104 (8%)
Query: 361 IQNSNKEEEE--KEKQRMVQEEIKR------KEL-ERKEELEKEQIRIKEEQENIKKKKE 411
++ + KE E KE +EEI + KEL ER+ EL+K + R+ +++EN+ +K E
Sbjct: 44 LEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLE 103
Query: 412 QEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
EK +E E+ +K L +KQQE ++ + E + + EQ + +E +
Sbjct: 104 LLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERI 147
Score = 49.4 bits (119), Expect = 3e-06
Identities = 44/185 (23%), Positives = 82/185 (44%), Gaps = 55/185 (29%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSD 333
E AK+ EE++K +E K++ L+ + E+ KL EL+ + E++K
Sbjct: 37 EEEAKRILEEAKKEAEAIKKEALLEAK---EEIHKLRNEFEKELRERRNELQKLEK---- 89
Query: 334 VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
+ KEE K E ++++E EELE
Sbjct: 90 ----------------------------RLLQKEENLDRK----LELLEKRE----EELE 113
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
K++ ++++Q+ ++KK+ EE E +E+ Q+L + L AEE A+ E L+E
Sbjct: 114 KKEKELEQKQQELEKKE--EELEELIEEQLQEL-----ERISGLTAEE-AK----EILLE 161
Query: 454 ELRQQ 458
++ ++
Sbjct: 162 KVEEE 166
Score = 39.8 bits (94), Expect = 0.003
Identities = 27/96 (28%), Positives = 52/96 (54%), Gaps = 7/96 (7%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+E E+E +R+++E K E +KE L + KEE ++ + E+E +ER+ E QKL
Sbjct: 34 KEAEEEAKRILEEAKKEAEAIKKEAL----LEAKEEIHKLRNEFEKELRERR--NELQKL 87
Query: 427 LLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNE 462
+ Q+E+ L + L ++E +E+ ++ +
Sbjct: 88 EKRLLQKEENLD-RKLELLEKREEELEKKEKELEQK 122
Score = 36.7 bits (86), Expect = 0.028
Identities = 45/186 (24%), Positives = 82/186 (44%), Gaps = 69/186 (37%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
L AK E + R+E EKE R+ ++++ QKLE+R L KEE +++KL
Sbjct: 60 LEAKEEIH--------KLRNEFEKELRERRNEL-----QKLEKR----LLQKEENLDRKL 102
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+ K EEE EK+
Sbjct: 103 ---------------------------------ELLEKREEELEKKE------------- 116
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKE-----QEENQKLLLKKQQEEDRLKAEEQA 443
+ELE++Q +++++E +++ E++ +E + EE +++LL+K +EE R +A
Sbjct: 117 -KELEQKQQELEKKEEELEELIEEQLQELERISGLTAEEAKEILLEKVEEEARHEAAVLI 175
Query: 444 RLLEQE 449
+ +E+E
Sbjct: 176 KEIEEE 181
Score = 33.2 bits (77), Expect = 0.37
Identities = 37/137 (27%), Positives = 59/137 (43%), Gaps = 24/137 (17%)
Query: 268 NLRAKFENLAKQTEE-----ESRKRSEEEKEKRKL----KDQIDLEQAQKLEERRLSELK 318
LR +FE ++ E R +EE RKL K + +LE+ +K E++ EL+
Sbjct: 68 KLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELE 127
Query: 319 IKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ 378
KEEE+E+ + S T + +L++ +EE E +
Sbjct: 128 KKEEELEELIEEQLQELERISGLTAEEAKEILLEKV-----------EEEARHEAAVL-- 174
Query: 379 EEIKRKELERKEELEKE 395
IK E E KEE +K+
Sbjct: 175 --IKEIEEEAKEEADKK 189
>gnl|CDD|212933 cd12000, SH3_CASS4, Src homology 3 domain of CAS (Crk-Associated
Substrate) scaffolding protein family member 4. CASS4,
also called HEPL (HEF1-EFS-p130Cas-like), localizes to
focal adhesions and plays a role in regulating FAK
activity, focal adhesion integrity, and cell spreading.
It is most abundant in blood cells and lung tissue, and
is also found in high levels in leukemia and ovarian
cell lines. 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 = 51.4 bits (123), Expect = 8e-09
Identities = 25/55 (45%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMI---DEGWWRGYCHGQYGLFPANYVSL 523
A ALYD +A DE++F DI+T +E EGWW+ HG+ GL PAN + L
Sbjct: 3 ARALYDNKADCSDELAFRRGDILTVLEQNVPGSEGWWKCLLHGRQGLAPANRLQL 57
>gnl|CDD|212896 cd11963, SH3_STAM2, Src homology 3 domain of Signal Transducing
Adaptor Molecule 2. STAM2, also called EAST (Epidermal
growth factor receptor-associated protein with SH3 and
TAM domain) or Hbp (Hrs binding protein), is part of the
endosomal sorting complex required for transport
(ESCRT-0). It plays a role in sorting mono-ubiquinated
endosomal cargo for trafficking to the lysosome for
degradation. It is also involved in the regulation of
exocytosis. STAMs were discovered as proteins that are
highly phosphorylated following cytokine and growth
factor stimulation. They function in cytokine signaling
and surface receptor degradation, as well as regulate
Golgi morphology. They associate with many proteins
including Jak2 and Jak3 tyrosine kinases, Hrs, AMSH, and
UBPY. STAM adaptor proteins contain VHS (Vps27, Hrs,
STAM homology), ubiquitin interacting (UIM), and SH3
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 = 57
Score = 51.2 bits (122), Expect = 1e-08
Identities = 21/49 (42%), Positives = 33/49 (67%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
ALYD++A D+E++F +II ++ D WW+G H GLFP+N+V+
Sbjct: 6 ALYDFEAVEDNELTFKHGEIIIVLDDSDANWWKGENHRGVGLFPSNFVT 54
>gnl|CDD|212992 cd12059, SH3_MLK1-3, Src Homology 3 domain of Mixed Lineage Kinases
1, 2, and 3. MLKs 1, 2, and 3 are Serine/Threonine
Kinases (STKs), catalyzing the transfer of the
gamma-phosphoryl group from ATP to S/T residues on
protein substrates. MLKs act as mitogen-activated
protein kinase kinase kinases (MAP3Ks, MKKKs, MAPKKKs),
which phosphorylate and activate MAPK kinases (MAPKKs or
MKKs or MAP2Ks), which in turn phosphorylate and
activate MAPKs during signaling cascades that are
important in mediating cellular responses to
extracellular signals. MLKs play roles in immunity and
inflammation, as well as in cell death, proliferation,
and cell cycle regulation. Little is known about the
specific function of MLK1, also called MAP3K9. It is
capable of activating the c-Jun N-terminal kinase
pathway. Mice lacking both MLK1 and MLK2 are viable,
fertile, and have normal life spans. MLK2, also called
MAP3K10, is abundant in brain, skeletal muscle, and
testis. It functions upstream of the MAPK, c-Jun
N-terminal kinase. It binds hippocalcin, a
calcium-sensor protein that protects neurons against
calcium-induced cell death. Both MLK2 and hippocalcin
may be associated with the pathogenesis of Parkinson's
disease. MLK3, also called MAP3K11, is highly expressed
in breast cancer cells and its signaling through c-Jun
N-terminal kinase has been implicated in the migration,
invasion, and malignancy of cancer cells. It also
functions as a negative regulator of Inhibitor of
Nuclear Factor-KappaB Kinase (IKK) and thus, impacts
inflammation and immunity. MLKs contain an SH3 domain, a
catalytic kinase domain, a leucine zipper, a
proline-rich region, and a CRIB domain that mediates
binding to GTP-bound Cdc42 and Rac. 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 = 50.9 bits (122), Expect = 1e-08
Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 5/54 (9%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMI-----DEGWWRGYCHGQYGLFPANYVS 522
A++DY+ASA+DE++ D + + DEGWW G + + G+FP+NYV+
Sbjct: 4 AVFDYEASAEDELTLRRGDRVEVLSKDSAVSGDEGWWTGKINDRVGIFPSNYVT 57
>gnl|CDD|212775 cd11841, SH3_SH3YL1_like, Src homology 3 domain of SH3 domain
containing Ysc84-like 1 (SH3YL1) protein. SH3YL1
localizes to the plasma membrane and is required for
dorsal ruffle formation. It binds phosphoinositides
(PIs) with high affinity through its N-terminal SYLF
domain (also called DUF500). In addition, SH3YL1
contains a C-terminal SH3 domain which has been reported
to bind to N-WASP, dynamin 2, and SHIP2 (a PI
5-phosphatase). 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 = 50.9 bits (122), Expect = 1e-08
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDE--GWWRGYCHGQYGLFPANYVS 522
ALY ++ ++SF D IT + D WW G G+ G+FPANYVS
Sbjct: 1 EVTALYSFEGQQPCDLSFQAGDRITVLTRTDSQFDWWEGRLRGRVGIFPANYVS 54
>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 = 50.5 bits (122), Expect = 1e-08
Identities = 17/51 (33%), Positives = 29/51 (56%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
++DY A+ +E+S D++ ++ D GWW G G+ GL P++YV
Sbjct: 2 GRVIFDYVATDPNELSLKKGDVVKVLDKDDNGWWEGERGGRRGLVPSSYVE 52
>gnl|CDD|212730 cd11796, SH3_DNMBP_N3, Third N-terminal Src homology 3 domain of
Dynamin Binding Protein, also called Tuba. DNMBP or
Tuba is a cdc42-specific guanine nucleotide exchange
factor (GEF) that contains four N-terminal SH3 domains,
a central RhoGEF [or Dbl homology (DH)] domain followed
by a Bin/Amphiphysin/Rvs (BAR) domain, and two
C-terminal SH3 domains. It provides a functional link
between dynamin and key regulatory proteins of the actin
cytoskeleton. It plays an important role in regulating
cell junction configuration. The four N-terminal SH3
domains of DNMBP binds the GTPase dynamin, which plays
an important role in the fission of endocytic vesicles.
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 = 50.0 bits (120), Expect = 2e-08
Identities = 18/50 (36%), Positives = 30/50 (60%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A L D A D+E+ D++T ++D+GW+RG +G+ G+FP +V
Sbjct: 2 ARVLQDLSAQLDEELDLREGDVVTITGILDKGWFRGELNGRRGIFPEGFV 51
>gnl|CDD|212751 cd11817, SH3_Eve1_4, Fourth 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 = 50
Score = 50.2 bits (120), Expect = 2e-08
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
AVALYD+ ++++SF D I E +D W RG +G+ G+FP +
Sbjct: 2 AVALYDFTGETEEDLSFQRGDRILVTEHLDAEWSRGRLNGREGIFPRAF 50
>gnl|CDD|212905 cd11972, SH3_Abi2, Src homology 3 domain of Abl Interactor 2. Abi2
is highly expressed in the brain and eye. It regulates
actin cytoskeletal reorganization at adherens junctions
and dendritic spines, which is important in cell
morphogenesis, migration, and cognitive function. Mice
deficient with Abi2 show defects in orientation and
migration of lens fibers, neuronal migration, dendritic
spine morphology, as well as deficits in learning and
memory. Abi proteins are adaptor proteins serving as
binding partners and substrates of Abl tyrosine kinases.
They are involved in regulating actin cytoskeletal
reorganization and play important roles in
membrane-ruffling, endocytosis, cell motility, and cell
migration. Abi proteins contain a homeobox homology
domain, a proline-rich region, and a SH3 domain. The SH3
domain of Abi binds to a PxxP motif in Abl. 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 = 50.0 bits (119), Expect = 3e-08
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VA+YDY +DE+SF II I+ D+GW+ G +G GLFP NYV
Sbjct: 6 VAIYDYTKDKEDELSFQEGAIIYVIKKNDDGWYEGVMNGVTGLFPGNYV 54
>gnl|CDD|212767 cd11833, SH3_Stac_1, First C-terminal Src homology 3 domain of SH3
and cysteine-rich domain-containing (Stac) proteins.
Stac proteins are putative adaptor proteins that contain
a cysteine-rich C1 domain and one or two SH3 domains at
the C-terminus. There are three mammalian members
(Stac1, Stac2, and Stac3) of this family. Stac1 and
Stac3 contain two SH3 domains while Stac2 contains a
single SH3 domain at the C-terminus. This model
represents the first C-terminal SH3 domain of Stac1 and
Stac3, and the single C-terminal SH3 domain of Stac2.
Stac1 and Stac2 have been found to be expressed
differently in mature dorsal root ganglia (DRG) neurons.
Stac1 is mainly expressed in peptidergic neurons while
Stac2 is found in a subset of nonpeptidergic and all
trkB+ neurons. 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 = 49.8 bits (119), Expect = 3e-08
Identities = 19/51 (37%), Positives = 31/51 (60%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
T VALY ++ ++++ P D IT ++ +E WW+G + G FPAN+V
Sbjct: 1 TYVALYKFKPQENEDLEMRPGDKITLLDDSNEDWWKGKIEDRVGFFPANFV 51
>gnl|CDD|212807 cd11874, SH3_CD2AP-like_2, Second Src Homology 3 domain (SH3B) of
CD2-associated protein and similar proteins. This
subfamily is composed of the second SH3 domain (SH3B) of
CD2AP, CIN85 (Cbl-interacting protein of 85 kDa), and
similar domains. CD2AP and CIN85 are adaptor proteins
that bind to protein partners and assemble complexes
that have been implicated in T cell activation, kidney
function, and apoptosis of neuronal cells. They also
associate with endocytic proteins, actin cytoskeleton
components, and other adaptor proteins involved in
receptor tyrosine kinase (RTK) signaling. CD2AP and the
main isoform of CIN85 contain three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CD2AP and CIN85 to
bind various protein partners and assemble complexes
that have been implicated in many different functions.
SH3B of both proteins have been shown to bind to Cbl. In
the case of CD2AP, its SH3B binds to Cbl at a site
distinct from the c-Cbl/SH3A binding site. The CIN85
SH3B also binds 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 = 53
Score = 49.3 bits (118), Expect = 5e-08
Identities = 17/48 (35%), Positives = 28/48 (58%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
L+ Y +DE+ D I + ++EGWW G +G+ G+FP+N+V
Sbjct: 4 VLFSYTPQNEDELELKVGDTIEVLGEVEEGWWEGKLNGKVGVFPSNFV 51
>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 = 49.0 bits (117), Expect = 5e-08
Identities = 24/55 (43%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMID--EGWWRGYCHGQYGLFPANYVSL 523
AVALYD+ +++F DIIT ++ D WW G G+ G+FPANYV L
Sbjct: 1 KAVALYDFAGEQPGDLAFQKGDIITILKKSDSQNDWWTGRIGGREGIFPANYVEL 55
>gnl|CDD|212884 cd11951, SH3_GRAP_C, C-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 C-terminal SH3 domains (SH3c) of the related
proteins, 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 = 48.6 bits (116), Expect = 8e-08
Identities = 21/48 (43%), Positives = 27/48 (56%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A YD+ A ++SF DII ++ D WWRG G+ G FP NYV
Sbjct: 4 AQYDFSAEDPSQLSFRRGDIIEVLDCPDPNWWRGRISGRVGFFPRNYV 51
>gnl|CDD|212990 cd12057, SH3_CIN85_3, Third Src Homology 3 domain (SH3C) of
Cbl-interacting protein of 85 kDa. CIN85, also called
SH3 domain-containing kinase-binding protein 1 (SH3KBP1)
or CD2-binding protein 3 (CD2BP3) or Ruk, is an adaptor
protein that is involved in the downregulation of
receptor tyrosine kinases by facilitating endocytosis
through interaction with endophilin-associated ubiquitin
ligase Cbl proteins. It is also important in many other
cellular processes including vesicle-mediated transport,
cytoskeletal remodelling, apoptosis, cell adhesion and
migration, and viral infection, among others. CIN85
exists as multiple variants from alternative splicing;
the main variant contains three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CIN85 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 CIN85. 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 = 56
Score = 48.4 bits (115), Expect = 9e-08
Identities = 22/51 (43%), Positives = 33/51 (64%), Gaps = 2/51 (3%)
Query: 475 LYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYVSL 523
L+ Y+A +DE++ DI+T I + ID GWW G +G+ G+FP N+V L
Sbjct: 5 LFPYEAQNEDELTIKEGDIVTLISKDCIDAGWWEGELNGRRGVFPDNFVKL 55
>gnl|CDD|212902 cd11969, SH3_PLCgamma2, Src homology 3 domain of Phospholipase C
(PLC) gamma 2. PLCgamma2 is primarily expressed in
haematopoietic cells, specifically in B cells. It is
activated by tyrosine phosphorylation by B cell receptor
(BCR) kinases and is recruited to the plasma membrane
where its substrate is located. It is required in
pre-BCR signaling and in the maturation of B cells. PLCs
catalyze the hydrolysis of phosphatidylinositol
(4,5)-bisphosphate [PtdIns(4,5)P2] to produce
Ins(1,4,5)P3 and diacylglycerol (DAG). Ins(1,4,5)P3
initiates the calcium signaling cascade while DAG
functions as an activator of PKC. PLCgamma contains a
Pleckstrin homology (PH) domain followed by an
elongation factor (EF) domain, two catalytic regions of
PLC domains that flank two tandem SH2 domains, followed
by a SH3 domain and C2 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 = 55
Score = 48.3 bits (115), Expect = 1e-07
Identities = 24/56 (42%), Positives = 30/56 (53%), Gaps = 9/56 (16%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYG-----LFPANYV 521
T ALYDY+A DE+SF +I N+ GWW+ G YG FP+NYV
Sbjct: 1 TVKALYDYRAKRSDELSFCKGALIHNVSKETGGWWK----GDYGGKVQHYFPSNYV 52
>gnl|CDD|212696 cd11762, SH3_FCHSD_2, Second Src Homology 3 domain of FCH and
double SH3 domains proteins. This group is composed of
FCH and double SH3 domains protein 1 (FCHSD1) and
FCHSD2. These proteins have a common domain structure
consisting of an N-terminal F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs), two SH3, and C-terminal
proline-rich domains. They have only been characterized
in silico and their functions remain unknown. This group
also includes the insect protein, nervous wreck, which
acts as a regulator of synaptic growth signaling. 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 = 48.2 bits (115), Expect = 1e-07
Identities = 21/49 (42%), Positives = 32/49 (65%), Gaps = 4/49 (8%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEM----IDEGWWRGYCHGQYGLFPA 518
ALYDY+A +D+E+SF II + +D+GWW G +G+ G+FP+
Sbjct: 4 ALYDYEAQSDEELSFPEGAIIRILRKDDNGVDDGWWEGEFNGRVGVFPS 52
>gnl|CDD|212984 cd12051, SH3_DOCK1_5_A, Src Homology 3 domain of Class A Dedicator
of Cytokinesis proteins 1 and 5. Dock1, also called
Dock180, and Dock5 are class A DOCKs and are atypical
guanine nucleotide exchange factors (GEFs) that lack the
conventional Dbl homology (DH) domain. Dock1 interacts
with the scaffold protein Elmo and the resulting complex
functions upstream of Rac in many biological events
including phagocytosis of apoptotic cells, cell
migration and invasion. Dock5 functions upstream of Rac1
to regulate osteoclast function. All DOCKs contain two
homology domains: the DHR-1 (Dock homology region-1),
also called CZH1 (CED-5, Dock180, and MBC-zizimin
homology 1), and DHR-2 (also called CZH2 or Docker). The
DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate while DHR-2
contains the catalytic activity for Rac and/or Cdc42.
Class A DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus;
they are specific GEFs for Rac. The SH3 domain of Dock1
binds to DHR-2 in an autoinhibitory manner; binding of
Elmo to the SH3 domain of Dock1 exposes the DHR-2 domain
and promotes GEF activity. 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 = 47.9 bits (114), Expect = 1e-07
Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC---HGQYGLFPANYVSLQ 524
VA+Y+Y A DE+S D + +E EGW+RGY + G+FPA+Y+ L+
Sbjct: 2 GVAIYNYDARGPDELSLQIGDTVHILETY-EGWYRGYTLRKKSKKGIFPASYIHLK 56
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 54.4 bits (130), Expect = 1e-07
Identities = 42/194 (21%), Positives = 89/194 (45%), Gaps = 5/194 (2%)
Query: 272 KFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGH 331
K + K E + +++ +EK+K + E+ +K EE++ +E K EE K
Sbjct: 1523 KADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEE--DKNMAL 1580
Query: 332 SDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEE 391
+ E + L + + EE + + + + + E ++K++E+ ++
Sbjct: 1581 RKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKK 1640
Query: 392 LEKEQIRIKEE---QENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
E E+ + EE E K K EE ++ E+++ + KK +E+++ AE + E+
Sbjct: 1641 KEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEE 1700
Query: 449 ERLMEELRQQGTNE 462
+ EEL+++ E
Sbjct: 1701 AKKAEELKKKEAEE 1714
Score = 52.8 bits (126), Expect = 4e-07
Identities = 43/198 (21%), Positives = 92/198 (46%), Gaps = 1/198 (0%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
K + + K + K E + +++ +E +K + E+ +K +E + +E K EE
Sbjct: 1504 KAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEK 1563
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRK 384
+K K + + + + K+ + +E ++ + +IK +
Sbjct: 1564 KKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAE 1623
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
EL++ EE +K+ ++K+++ KKK E+ +K +E+ + + K+ EED+ KAEE +
Sbjct: 1624 ELKKAEEEKKKVEQLKKKEAEEKKKAEELKKA-EEENKIKAAEEAKKAEEDKKKAEEAKK 1682
Query: 445 LLEQERLMEELRQQGTNE 462
E E+ E ++ E
Sbjct: 1683 AEEDEKKAAEALKKEAEE 1700
Score = 51.7 bits (123), Expect = 9e-07
Identities = 62/237 (26%), Positives = 114/237 (48%), Gaps = 17/237 (7%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLN 329
A+ E + K EEE + ++EE K+ + K + + + + E++++ +LK KE E +KK
Sbjct: 1591 EARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAE 1650
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERK 389
L + E + K+ D + + K EE+++K E +K++ E K
Sbjct: 1651 -----ELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKA---AEALKKEAEEAK 1702
Query: 390 EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
+ E+++ KE +E KKK +E K+ +E+ + + KK+ EED+ KAEE + E++
Sbjct: 1703 K---AEELKKKEAEE---KKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEK 1756
Query: 450 RLMEELRQQGTNEDTEEDLGYTAV---ALYDYQASADDEISFDPDDIITNIEMIDEG 503
+ + L+++ + E AV L + E+ DI N I EG
Sbjct: 1757 KKIAHLKKEEEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDIFDNFANIIEG 1813
Score = 49.8 bits (118), Expect = 3e-06
Identities = 44/207 (21%), Positives = 87/207 (42%), Gaps = 8/207 (3%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDL-EQAQKLEERRLSELKIKEEE 323
K + K + K+ EE + + E D+ + E+ + E++ E K K +
Sbjct: 1323 KAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADA 1382
Query: 324 IEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKR 383
+KK + LK+ + + K+ EEK+K E K+
Sbjct: 1383 AKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKK---ADEAKKK 1439
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQ----EEKERKEQEENQKLLLKKQQEEDRLKA 439
E +K + K++ ++ E KKK E+ +E ++K +E + KK+ EE + KA
Sbjct: 1440 AEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKA 1499
Query: 440 EEQARLLEQERLMEELRQQGTNEDTEE 466
+E + E ++ +E ++ + +E
Sbjct: 1500 DEAKKAAEAKKKADEAKKAEEAKKADE 1526
Score = 47.8 bits (113), Expect = 1e-05
Identities = 51/206 (24%), Positives = 101/206 (49%), Gaps = 16/206 (7%)
Query: 277 AKQTEEESRKRSEE----EKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHS 332
AK+ EE++K+++E + K+K + E+A+K +E + +E K +E +K
Sbjct: 1488 AKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKK 1547
Query: 333 DVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEEL 392
L + E K ++ + ++ EE +K + E K E ++++
Sbjct: 1548 ADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKM 1607
Query: 393 EKEQIRIKEEQENIKK---KKEQEEKERKEQ-------EENQKLLLKKQQEEDRLKAEEQ 442
+ E+ + K E+ IK KK +EEK++ EQ E+ + LKK +EE+++KA E+
Sbjct: 1608 KAEEAK-KAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEE 1666
Query: 443 ARLLEQE-RLMEELRQQGTNEDTEED 467
A+ E++ + EE ++ +E +
Sbjct: 1667 AKKAEEDKKKAEEAKKAEEDEKKAAE 1692
Score = 47.8 bits (113), Expect = 1e-05
Identities = 48/195 (24%), Positives = 95/195 (48%), Gaps = 14/195 (7%)
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSEL--------KIKEEEIEKKLN 329
K+ EE+ + ++ E+ K E+A+K EE R+ E+ K+K EE +K
Sbjct: 1558 KKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEE 1617
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE-----KEKQRMVQEEIKRK 384
E V+ + K+ + + K EEE E+ + +E+ K+
Sbjct: 1618 AKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKA 1677
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
E +K E ++++ ++E + KK +E K+++ +E+ + LKK +EE+++KAEE +
Sbjct: 1678 EEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKK 1737
Query: 445 LLEQE-RLMEELRQQ 458
E++ + EE ++
Sbjct: 1738 EAEEDKKKAEEAKKD 1752
Score = 47.4 bits (112), Expect = 2e-05
Identities = 36/192 (18%), Positives = 82/192 (42%), Gaps = 2/192 (1%)
Query: 277 AKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
A+ R+ + + +E RK + E+ +K +E + +E K K +E +KK
Sbjct: 1260 ARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADE 1319
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
+ K+ + + K E E E K + E+K+E K+
Sbjct: 1320 AKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKK- 1378
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+ ++ ++KK+ +E ++K +E+ +K K+ + KA+E + E+++ +E +
Sbjct: 1379 -KADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAK 1437
Query: 457 QQGTNEDTEEDL 468
++ ++
Sbjct: 1438 KKAEEAKKADEA 1449
Score = 46.3 bits (109), Expect = 4e-05
Identities = 44/200 (22%), Positives = 88/200 (44%), Gaps = 8/200 (4%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
K + K E L K+ EE +K E +K + + K + E + E+++ +E K EE
Sbjct: 1627 KAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEED 1686
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRK 384
EKK + + K+ + + K EEE + + EE K++
Sbjct: 1687 EKK-----AAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIK---AEEAKKE 1738
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
E K++ E+ + +E+++ KKE+E+K + ++E + ++ ++ EED + E +
Sbjct: 1739 AEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDK 1798
Query: 445 LLEQERLMEELRQQGTNEDT 464
++ +G E
Sbjct: 1799 KIKDIFDNFANIIEGGKEGN 1818
Score = 45.5 bits (107), Expect = 7e-05
Identities = 58/253 (22%), Positives = 116/253 (45%), Gaps = 23/253 (9%)
Query: 218 EKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLA 277
+K D + + ++ ++ ++K + AA+ A++E K K + K +
Sbjct: 1329 KKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEE----KAEAAEKKKEEAKKKADAAK 1384
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
K+ EE+ +K E +K+ + K + D + +++ E K K EE +K +
Sbjct: 1385 KKAEEK-KKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEA 1443
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERK--EELEKE 395
+ K+ + + + K+ EE +K +E K+K E K +E +K+
Sbjct: 1444 KKADE--------AKKKAEEAKKAEEAKKKAEEAKKA----DEAKKKAEEAKKADEAKKK 1491
Query: 396 QIRIKEEQENIKKKKEQEEK--ERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
K++ + KK E ++K E K+ EE +K K+ EE + KA+E A+ E+++ +
Sbjct: 1492 AEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAK-KADE-AKKAEEKKKAD 1549
Query: 454 ELRQQGTNEDTEE 466
EL++ + EE
Sbjct: 1550 ELKKAEELKKAEE 1562
Score = 43.6 bits (102), Expect = 3e-04
Identities = 38/208 (18%), Positives = 95/208 (45%), Gaps = 4/208 (1%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
+ + ++A+ A + ++ K+ +E +K + K + D + + E ++ E K K EE
Sbjct: 1268 RQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEA 1327
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRK 384
+KK + ++ ++ + E++++E ++ K+
Sbjct: 1328 KKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKA 1387
Query: 385 ELERK-EELEKEQIRIKEEQENIKKKKEQEEKE---RKEQEENQKLLLKKQQEEDRLKAE 440
E ++K +E +K+ K++ + +KK ++K +K+ EE +K K++ E+ KA+
Sbjct: 1388 EEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKAD 1447
Query: 441 EQARLLEQERLMEELRQQGTNEDTEEDL 468
E + E+ + EE +++ ++
Sbjct: 1448 EAKKKAEEAKKAEEAKKKAEEAKKADEA 1475
Score = 42.8 bits (100), Expect = 5e-04
Identities = 39/194 (20%), Positives = 84/194 (43%), Gaps = 8/194 (4%)
Query: 282 EESRKRSEE---EKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSP 338
EE+RK + E K+ + + D E+A+K EE R +E K EE +
Sbjct: 1215 EEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKA 1274
Query: 339 STETPPVPVKSILKQPTSDGIPIQNSNKEEEE---KEKQRMVQEEIKRK--ELERKEELE 393
+K ++ +D K+ +E K ++ +E K+K E ++K +
Sbjct: 1275 EEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAA 1334
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
K++ ++ K + + + E E + +K++EE + KA+ + E+++ +
Sbjct: 1335 KKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKAD 1394
Query: 454 ELRQQGTNEDTEED 467
E +++ + + D
Sbjct: 1395 EAKKKAEEDKKKAD 1408
Score = 42.1 bits (98), Expect = 9e-04
Identities = 47/210 (22%), Positives = 95/210 (45%), Gaps = 27/210 (12%)
Query: 265 KPSNLRAKFENLAKQTEE-----ESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKI 319
K + K E K+ EE E++K++EE K+ + K + + + + E ++ +E K
Sbjct: 1451 KKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKK 1510
Query: 320 KEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE 379
K +E +K + E + EE++K + E
Sbjct: 1511 KADEAKKAEEAKKADEAKKAEEAKKAD---------------EAKKAEEKKKADELKKAE 1555
Query: 380 EIKRKELERK-------EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
E+K+ E ++K EE + +R EE + ++ + +E + E+E+ K K+
Sbjct: 1556 ELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKA 1615
Query: 433 EEDRLKAEEQARLLEQERLMEELRQQGTNE 462
EE ++KAEE + E+++ +E+L+++ E
Sbjct: 1616 EEAKIKAEELKKAEEEKKKVEQLKKKEAEE 1645
Score = 40.9 bits (95), Expect = 0.002
Identities = 57/294 (19%), Positives = 127/294 (43%), Gaps = 22/294 (7%)
Query: 180 QEKIEKHESQKDYAKGFGGKFGIESDRQDKSAVGWDHVEKVDKHQSQKDDNRQVVTSSKV 239
+ ++ E+ ++ A+ K + D + + +K D+ + + +++++ K
Sbjct: 1353 EAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKK 1412
Query: 240 KDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKD 299
+ A K+ + K K + K + K+ EE K++EE K+K +
Sbjct: 1413 AAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEE--AKKAEEAKKKAEEAK 1470
Query: 300 QIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGI 359
+ D + + E ++ E K K EE +KK + + K+ +
Sbjct: 1471 KADEAKKKAEEAKKADEAKKKAEEAKKKAD--------------EAKKAAEAKKKADEAK 1516
Query: 360 PIQNSNKEEEEK--EKQRMVQEEIKRKELERKEELEK-EQIRIKEEQENIKKKKEQEEKE 416
+ + K +E K E+ + E K +E ++ +EL+K E+++ EE++ ++ K+ EE +
Sbjct: 1517 KAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDK 1576
Query: 417 R---KEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
++ EE +K + +E +L EE+ E+ + EE + + E+
Sbjct: 1577 NMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEE 1630
Score = 37.4 bits (86), Expect = 0.021
Identities = 41/199 (20%), Positives = 81/199 (40%), Gaps = 18/199 (9%)
Query: 253 ENIKPKPNIGHVKPSNLRAKFENLAKQTEE----ESRKRSEEEKEKRKLKDQIDLEQAQK 308
E +K +K + K E K+ EE E ++ E K++ ++ E+ +K
Sbjct: 1650 EELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKK 1709
Query: 309 LEE---RRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSN 365
E ++ ELK EEE + K + K+ + +
Sbjct: 1710 KEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKK 1769
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKK-----------KKEQEE 414
EE KEK+ +++EE+ ++ +R+ E++K+ I + NI + KE E+
Sbjct: 1770 AEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDIFDNFANIIEGGKEGNLVINDSKEMED 1829
Query: 415 KERKEQEENQKLLLKKQQE 433
KE +++ + L++
Sbjct: 1830 SAIKEVADSKNMQLEEADA 1848
Score = 32.8 bits (74), Expect = 0.51
Identities = 48/188 (25%), Positives = 84/188 (44%), Gaps = 15/188 (7%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNG 330
AK +N A + EE+ ++EE K+ K + E + E ++ +E K EE K
Sbjct: 1083 AKEDNRADEATEEAFGKAEEAKKTETGKAE---EARKAEEAKKKAEDARKAEEARKA--- 1136
Query: 331 HSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKE 390
D + + + + D + + K E+ K+ + K +E+ + E
Sbjct: 1137 -EDARKAEEARKAEDAKRVEIARKAEDARKAEEARKAEDAKK----AEAARKAEEVRKAE 1191
Query: 391 ELEK-EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
EL K E R E +++++ EE + E +K K+ EE + AEE A+ E+E
Sbjct: 1192 ELRKAEDARKAEAARKAEEERKAEEARKAEDA--KKAEAVKKAEEAKKDAEE-AKKAEEE 1248
Query: 450 RLMEELRQ 457
R EE+R+
Sbjct: 1249 RNNEEIRK 1256
Score = 29.7 bits (66), Expect = 4.5
Identities = 51/190 (26%), Positives = 88/190 (46%), Gaps = 15/190 (7%)
Query: 282 EESRKRSEEEKEK--RKLKDQIDLEQAQKLEERRLSELKIKEEEIEK--KLNGHSDVPLS 337
EE+RK + ++ + RK +D E+A+K E+ + +E K EE+ K +L D +
Sbjct: 1143 EEARKAEDAKRVEIARKAEDARKAEEARKAEDAKKAEAARKAEEVRKAEELRKAEDARKA 1202
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ--------EEIKRKELERK 389
+ K+ + D + K EE K+ + EEI++ E R
Sbjct: 1203 EAARKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARM 1262
Query: 390 EELEKEQIRIK-EEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ Q IK EE + K+ EEK K+ +E +K KK+ +E + KAEE + E
Sbjct: 1263 AHFARRQAAIKAEEARKADELKKAEEK--KKADEAKKAEEKKKADEAKKKAEEAKKADEA 1320
Query: 449 ERLMEELRQQ 458
++ EE +++
Sbjct: 1321 KKKAEEAKKK 1330
>gnl|CDD|212991 cd12058, SH3_MLK4, Src Homology 3 domain of Mixed Lineage Kinase 4.
MLK4 is a Serine/Threonine Kinase (STK), catalyzing the
transfer of the gamma-phosphoryl group from ATP to S/T
residues on protein substrates. MLKs act as
mitogen-activated protein kinase kinase kinases (MAP3Ks,
MKKKs, MAPKKKs), which phosphorylate and activate MAPK
kinases (MAPKKs or MKKs or MAP2Ks), which in turn
phosphorylate and activate MAPKs during signaling
cascades that are important in mediating cellular
responses to extracellular signals. MLKs play roles in
immunity and inflammation, as well as in cell death,
proliferation, and cell cycle regulation. The specific
function of MLK4 is yet to be determined. Mutations in
the kinase domain of MLK4 have been detected in
colorectal cancers. MLK4 contains an SH3 domain, a
catalytic kinase domain, a leucine zipper, a
proline-rich region, and a CRIB domain that mediates
binding to GTP-bound Cdc42 and Rac. 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 = 48.0 bits (114), Expect = 1e-07
Identities = 23/54 (42%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMI-----DEGWWRGYCHGQYGLFPANYVS 522
ALYDY+AS +DE+S D++ + D+GWW G + G+FPANYV+
Sbjct: 4 ALYDYEASGEDELSLRRGDVVEVLSQDAAVSGDDGWWAGKIRHRLGIFPANYVT 57
>gnl|CDD|212835 cd11902, SH3_Nck2_2, Second Src Homology 3 domain of Nck2 adaptor
protein. Nck2 (also called Nckbeta or Growth factor
receptor-bound protein 4, Grb4) plays a crucial role in
connecting signaling pathways of tyrosine kinase
receptors and important effectors in actin dynamics and
cytoskeletal remodeling. It binds neuronal signaling
proteins such as ephrinB and Disabled-1 (Dab-1)
exclusively. Nck adaptor proteins regulate actin
cytoskeleton dynamics by linking proline-rich effector
molecules to protein tyrosine kinases and phosphorylated
signaling intermediates. They contain three SH3 domains
and a C-terminal SH2 domain. They function downstream of
the PDGFbeta receptor and are involved in Rho GTPase
signaling and actin dynamics. Vertebrates contain two
Nck adaptor proteins: Nck1 (also called Nckalpha) and
Nck2, which show partly overlapping functions but also
bind distinct targets. The second SH3 domain of Nck
appears to prefer ligands containing the APxxPxR motif.
SH3 domains are protein interaction domains that usually
bind to proline-rich ligands with moderate affinity and
selectivity, preferentially a PxxP motif. 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 = 47.7 bits (113), Expect = 2e-07
Identities = 21/50 (42%), Positives = 29/50 (58%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A + Y A +DE+S +T +E +GWWRG +GQ G FP+NYV
Sbjct: 3 AFVKFAYVAEREDELSLVKGSRVTVMEKCSDGWWRGSYNGQIGWFPSNYV 52
>gnl|CDD|212743 cd11809, SH3_srGAP, Src homology 3 domain of Slit-Robo GTPase
Activating Proteins. Slit-Robo GTPase Activating
Proteins (srGAPs) are Rho GAPs that interact with Robo1,
the transmembrane receptor of Slit proteins. Slit
proteins are secreted proteins that control axon
guidance and the migration of neurons and leukocytes.
Vertebrates contain three isoforms of srGAPs (srGAP1-3),
all of which are expressed during embryonic and early
development in the nervous system but with different
localization and timing. A fourth member has also been
reported (srGAP4, also called ARHGAP4). srGAPs contain
an N-terminal F-BAR domain, a Rho GAP 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 = 47.4 bits (113), Expect = 2e-07
Identities = 20/52 (38%), Positives = 30/52 (57%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A A +DY ++ E+SF D +T + + WWRG +GQ GL P Y++L
Sbjct: 2 ATAQFDYTGRSERELSFKKGDSLTLYRQVSDDWWRGQLNGQDGLVPHKYITL 53
>gnl|CDD|212771 cd11837, SH3_Intersectin_2, Second Src homology 3 domain (or SH3B)
of Intersectin. Intersectins (ITSNs) are adaptor
proteins that function in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction.
They are essential for initiating clathrin-coated pit
formation. They bind to many proteins through their
multidomain structure and facilitate the assembly of
multimeric complexes. Vertebrates contain two ITSN
proteins, ITSN1 and ITSN2, which exist in alternatively
spliced short and long isoforms. The short isoforms
contain two Eps15 homology domains (EH1 and EH2), a
coiled-coil region and five SH3 domains (SH3A-E), while
the long isoforms, in addition, contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin homology (PH)
and C2 domains. ITSN1 and ITSN2 are both widely
expressed, with variations depending on tissue type and
stage of development. The second SH3 domain (or SH3B) of
ITSN1 has been shown to bind WNK and CdGAP. 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 = 47.4 bits (113), Expect = 2e-07
Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH-GQYGLFPANYVSL 523
TA ALY ++A ++ +SF DIIT +E E WW G G+ G FP +YV
Sbjct: 1 TATALYPWRAKKENHLSFAKGDIITVLEQ-QEMWWFGELEGGEEGWFPKSYVKE 53
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 52.8 bits (127), Expect = 2e-07
Identities = 32/192 (16%), Positives = 74/192 (38%), Gaps = 7/192 (3%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEKKL-NGH 331
+ + K+ +K E++ ++ KL+ Q+ LE E +L E +++ K++ + +
Sbjct: 41 KQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLN 100
Query: 332 SDVPLSPSTETPPVPVKSIL---KQPTSDGIPIQNSNKEEEEKEKQRMVQ--EEIKRKEL 386
+ + E + Q + P E+ + R+ +
Sbjct: 101 ARLNALEVQEREQRRRLAEQLAALQRSGRNPPPALLVSPEDAQRSVRLAIYYGALNPARA 160
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
ER + L+ ++ + I ++ + EQ Q L + +E + A+ + L
Sbjct: 161 ERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELS 220
Query: 447 EQERLMEELRQQ 458
++ +EELR
Sbjct: 221 ADQKKLEELRAN 232
Score = 34.7 bits (80), Expect = 0.12
Identities = 14/90 (15%), Positives = 35/90 (38%)
Query: 374 QRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
QR Q ++ + ERK+ L + + +Q+ +++ + E + + E + K ++
Sbjct: 194 QRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLKNEIASAEAAAAKAREA 253
Query: 434 EDRLKAEEQARLLEQERLMEELRQQGTNED 463
+A + + E + E
Sbjct: 254 AAAAEAAAARARAAEAKRTGETYKPTAPEK 283
Score = 31.6 bits (72), Expect = 1.0
Identities = 21/162 (12%), Positives = 50/162 (30%), Gaps = 32/162 (19%)
Query: 260 NIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKI 319
G + P+ + L ++ + R+E E+ +L L Q+ ++ +L++L
Sbjct: 151 YYGALNPARAERI-DALKATLKQLAAVRAEIAAEQAELTT---LLSEQRAQQAKLAQLLE 206
Query: 320 KEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE 379
+ ++ +LN + K EE + + ++
Sbjct: 207 ERKKTLAQLN------------------SELSAD----------QKKLEELRANESRLKN 238
Query: 380 EIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
EI E + E + ++ + K
Sbjct: 239 EIASAEAAAAKAREAAAAAEAAAARARAAEAKRTGETYKPTA 280
>gnl|CDD|212755 cd11821, SH3_ASAP, Src homology 3 domain of ArfGAP with SH3 domain,
ankyrin repeat and PH domain containing proteins. ASAPs
are Arf GTPase activating proteins (GAPs) and they
function in regulating cell growth, migration, and
invasion. They contain an N-terminal BAR domain,
followed by a Pleckstrin homology (PH) domain, an Arf
GAP domain, ankyrin (ANK) repeats, and a C-terminal SH3
domain. Vertebrates contain at least three members,
ASAP1, ASAP2, and ASAP3, but some ASAP3 proteins do not
seem to harbor a C-terminal SH3 domain. ASAP1 and ASAP2
show GTPase activating protein (GAP) activity towards
Arf1 and Arf5. They do not show GAP activity towards
Arf6, but are able to mediate Arf6 signaling by binding
stably to GTP-Arf6. ASAP3 is an Arf6-specific GAP. 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 = 46.9 bits (112), Expect = 3e-07
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQ---YGLFPANY 520
ALYD QA DDE++F +II D+ WW G+ G G+FP ++
Sbjct: 4 ALYDCQADNDDELTFSEGEIIVVTGEEDDEWWEGHIEGDPSRRGVFPVSF 53
>gnl|CDD|212979 cd12046, SH3_p67phox_C, C-terminal (or second) Src Homology 3
domain of the p67phox subunit of NADPH oxidase.
p67phox, also called Neutrophil cytosol factor 2
(NCF-2), is a cytosolic subunit of the phagocytic NADPH
oxidase complex (also called Nox2 or gp91phox) which
plays a crucial role in the cellular response to
bacterial infection. NADPH oxidase catalyzes the
transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p67phox plays a regulatory role and contains
N-terminal TPR, first SH3 (or N-terminal or central
SH3), PB1, and C-terminal SH3 domains. It binds, via its
C-terminal SH3 domain, to a proline-rich region of
p47phox and upon activation, this complex assembles with
flavocytochrome b558, the Nox2-p22phox heterodimer.
Concurrently, RacGTP translocates to the membrane and
interacts with the TPR domain of p67phox, which leads to
the activation of NADPH oxidase. The PB1 domain of
p67phox binds to its partner PB1 domain in p40phox, and
this facilitates the assembly of p47phox-p67phox at the
membrane. 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 = 47.1 bits (112), Expect = 3e-07
Identities = 18/49 (36%), Positives = 31/49 (63%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VAL+ Y+AS +++ F D+I + ++E W G C G+ G+FP+ +V
Sbjct: 3 VALFSYEASQPEDLEFQKGDVILVLSKVNEDWLEGQCKGKIGIFPSAFV 51
>gnl|CDD|212772 cd11838, SH3_Intersectin_3, Third Src homology 3 domain (or SH3C)
of Intersectin. Intersectins (ITSNs) are adaptor
proteins that function in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction.
They are essential for initiating clathrin-coated pit
formation. They bind to many proteins through their
multidomain structure and facilitate the assembly of
multimeric complexes. Vertebrates contain two ITSN
proteins, ITSN1 and ITSN2, which exist in alternatively
spliced short and long isoforms. The short isoforms
contain two Eps15 homology domains (EH1 and EH2), a
coiled-coil region and five SH3 domains (SH3A-E), while
the long isoforms, in addition, contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin homology (PH)
and C2 domains. ITSN1 and ITSN2 are both widely
expressed, with variations depending on tissue type and
stage of development. The third SH3 domain (or SH3C) of
ITSN1 has been shown to bind many proteins including
dynamin1/2, CIN85, c-Cbl, SHIP2, Reps1, synaptojanin-1,
and WNK, among others. The SH3C of ITSN2 has been shown
to bind the K15 protein of Kaposi's sarcoma-associated
herpesvirus. 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 = 47.0 bits (112), Expect = 3e-07
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
+ALY Y+++ +++F+ D+I + D WW G + G+FP+NYV
Sbjct: 3 IALYPYESNEPGDLTFNAGDVILVTKK-DGEWWTGTIGDRTGIFPSNYVRP 52
>gnl|CDD|212820 cd11887, SH3_Bbc1, Src Homology 3 domain of Bbc1 and similar
domains. This subfamily is composed of Saccharomyces
cerevisiae Bbc1p, also called Mti1p (Myosin tail
region-interacting protein), and similar proteins. Bbc1p
interacts with and regulates type I myosins in yeast,
Myo3p and Myo5p, which are involved in actin
cytoskeletal reorganization. It also binds and inhibits
Las17, a WASp family protein that functions as an
activator of the Arp2/3 complex. Bbc1p contains an
N-terminal SH3 domain. SH3 domains bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs; they play a role in the
regulation of enzymes by intramolecular interactions,
changing the subcellular localization of signal pathway
components and mediate multiprotein complex assemblies.
Length = 60
Score = 47.0 bits (112), Expect = 3e-07
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 13/61 (21%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQY---------GLFPANY 520
+ ALY Y++ +D+++FD +IT E D W+ G+Y G+FP N+
Sbjct: 2 FKVKALYPYESDHEDDLNFDVGQLITVTEEEDADWY----FGEYVDSNGNTKEGIFPKNF 57
Query: 521 V 521
V
Sbjct: 58 V 58
>gnl|CDD|212809 cd11876, SH3_MLK, Src Homology 3 domain of Mixed Lineage Kinases.
MLKs are Serine/Threonine Kinases (STKs), catalyzing the
transfer of the gamma-phosphoryl group from ATP to S/T
residues on protein substrates. MLKs act as
mitogen-activated protein kinase kinase kinases (MAP3Ks,
MKKKs, MAPKKKs), which phosphorylate and activate MAPK
kinases (MAPKKs or MKKs or MAP2Ks), which in turn
phosphorylate and activate MAPKs during signaling
cascades that are important in mediating cellular
responses to extracellular signals. MLKs play roles in
immunity and inflammation, as well as in cell death,
proliferation, and cell cycle regulation. Mammals have
four MLKs (MLK1-4), mostly conserved in vertebrates,
which contain an SH3 domain, a catalytic kinase domain,
a leucine zipper, a proline-rich region, and a CRIB
domain that mediates binding to GTP-bound Cdc42 and Rac.
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 = 47.1 bits (112), Expect = 3e-07
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMI-----DEGWWRGYCHGQYGLFPANYVS 522
AL+DY A +DE++ + + DEGWW G + G+FP+NYV+
Sbjct: 3 TALFDYDARGEDELTLRRGQPVEVLSKDAAVSGDEGWWTGKIGDKVGIFPSNYVA 57
>gnl|CDD|212697 cd11763, SH3_SNX9_like, Src Homology 3 domain of Sorting Nexin 9
and similar proteins. Sorting nexins (SNXs) are Phox
homology (PX) domain containing proteins that are
involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. This subfamily consists of SH3 domain
containing SNXs including SNX9, SNX18, SNX33, and
similar proteins. SNX9 is localized to plasma membrane
endocytic sites and acts primarily in clathrin-mediated
endocytosis, while SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1. 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 = 46.6 bits (111), Expect = 4e-07
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNI-EMIDEGWWRGY-CHGQYGLFPANYV 521
ALYD+ + E+S +++T + + +GW G G+ GLFP++YV
Sbjct: 4 ALYDFDSQPSGELSLRAGEVLTITRQDVGDGWLEGRNSRGEVGLFPSSYV 53
>gnl|CDD|212987 cd12054, SH3_CD2AP_2, Second Src Homology 3 domain (SH3B) 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 second SH3 domain
(SH3B) of CD2AP. SH3B binds to c-Cbl in a site (TPSSRPLR
is the core binding motif) distinct from the c-Cbl/SH3A
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 = 55
Score = 46.1 bits (109), Expect = 6e-07
Identities = 20/47 (42%), Positives = 30/47 (63%)
Query: 475 LYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
L++Y +DE+ DII E ++EGWW G +G+ GLFP+N+V
Sbjct: 6 LFEYVPQNEDELELKVGDIIDINEEVEEGWWSGTLNGKSGLFPSNFV 52
>gnl|CDD|212747 cd11813, SH3_SGSM3, Src Homology 3 domain of Small G protein
Signaling Modulator 3. SGSM3 is also called
Merlin-associated protein (MAP), RUN and SH3
domain-containing protein (RUSC3), RUN and TBC1
domain-containing protein 3 (RUTBC3), Rab
GTPase-activating protein 5 (RabGAP5), or Rab GAP-like
protein (RabGAPLP). It is expressed ubiquitously and
functions as a regulator of small G protein RAP- and
RAB-mediated neuronal signaling. It is involved in
modulating NGF-mediated neurite outgrowth and
differentiation. It also interacts with the tumor
suppressor merlin and may play a role in the
merlin-associated suppression of cell growth. SGSM3
contains TBC, SH3, and RUN 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 = 53
Score = 46.0 bits (109), Expect = 7e-07
Identities = 24/52 (46%), Positives = 30/52 (57%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL D++ DDE+ F +DIIT I DE W G +G G FPA +V L
Sbjct: 2 AKALLDFERHDDDELGFRKNDIITIISQKDEHCWVGELNGLRGWFPAKFVEL 53
>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 = 45.8 bits (109), Expect = 8e-07
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMID---EGWWRGYCHGQYGLFPANYVSL 523
A ALYD A + DE++F DI+T +E EGWW G+ G+ P N + L
Sbjct: 2 ARALYDNVAESPDELAFRRGDILTVLEQNTAGLEGWWLCSLRGRQGIAPGNRLKL 56
>gnl|CDD|212738 cd11804, SH3_GRB2_like_N, N-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
N-terminal SH3 domain of 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 = 52
Score = 45.4 bits (108), Expect = 9e-07
Identities = 21/52 (40%), Positives = 33/52 (63%), Gaps = 3/52 (5%)
Query: 472 AVALYDYQASADDEISFDPDDI--ITNIEMIDEGWWRGYCHGQYGLFPANYV 521
AVA +D++A+A+DE+SF I + N+E D W++ G+ GL P NY+
Sbjct: 2 AVAKHDFKATAEDELSFKKGSILKVLNMED-DPNWYKAELDGKEGLIPKNYI 52
>gnl|CDD|212803 cd11870, SH3_p67phox-like_C, C-terminal Src Homology 3 domain of
the p67phox subunit of NADPH oxidase and similar
proteins. This subfamily is composed of p67phox, NADPH
oxidase activator 1 (Noxa1), and similar proteins.
p67phox, also called Neutrophil cytosol factor 2
(NCF-2), and Noxa1 are homologs and are the cytosolic
subunits of the phagocytic (Nox2) and nonphagocytic
(Nox1) NADPH oxidase complexes, respectively. NADPH
oxidase catalyzes the transfer of electrons from NADPH
to oxygen during phagocytosis forming superoxide and
reactive oxygen species. p67phox and Noxa1 play
regulatory roles. p67phox contains N-terminal TPR, first
SH3 (or N-terminal or central SH3), PB1, and C-terminal
SH3 domains. Noxa1 has a similar domain architecture
except it is lacking the N-terminal SH3 domain. The TPR
domain of both binds activated GTP-bound Rac, while the
C-terminal SH3 domain of p67phox and Noxa1 binds the
polyproline motif found at the C-terminus of p47phox and
Noxo1, respectively. 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 = 45.6 bits (108), Expect = 9e-07
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VAL+ Y+A +++ F D I + ++E W G+ G+ G+FP +V
Sbjct: 3 VALHRYEAQGPEDLGFREGDTIDVLSEVNEAWLEGHSDGRVGIFPKCFV 51
>gnl|CDD|212919 cd11986, SH3_Stac3_1, First C-terminal Src homology 3 domain of SH3
and cysteine-rich domain-containing protein 3 (Stac3).
Stac proteins are putative adaptor proteins that contain
a cysteine-rich C1 domain and one or two SH3 domains at
the C-terminus. There are three mammalian members
(Stac1, Stac2, and Stac3) of this family. Stac1 and
Stac3 contain two SH3 domains while Stac2 contains a
single SH3 domain at the C-terminus. Stac1 and Stac2
have been found to be expressed differently in mature
dorsal root ganglia (DRG) neurons. Stac1 is mainly
expressed in peptidergic neurons while Stac2 is found in
a subset of nonpeptidergic and all trkB+ neurons. 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 = 45.7 bits (108), Expect = 9e-07
Identities = 20/49 (40%), Positives = 30/49 (61%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VALY ++A D++ F P + IT I+ +E WWRG + G FP N++
Sbjct: 3 VALYRFKALEKDDLDFHPGERITVIDDSNEEWWRGKIGEKTGYFPMNFI 51
>gnl|CDD|212834 cd11901, SH3_Nck1_2, Second Src Homology 3 domain of Nck1 adaptor
protein. Nck1 (also called Nckalpha) plays a crucial
role in connecting signaling pathways of tyrosine kinase
receptors and important effectors in actin dynamics and
cytoskeletal remodeling. It binds and activates RasGAP,
resulting in the downregulation of Ras. It is also
involved in the signaling of endothilin-mediated
inhibition of cell migration. Nck adaptor proteins
regulate actin cytoskeleton dynamics by linking
proline-rich effector molecules to protein tyrosine
kinases and phosphorylated signaling intermediates. They
contain three SH3 domains and a C-terminal SH2 domain.
They function downstream of the PDGFbeta receptor and
are involved in Rho GTPase signaling and actin dynamics.
Vertebrates contain two Nck adaptor proteins: Nck1 (also
called Nckalpha) and Nck2, which show partly overlapping
functions but also bind distinct targets. The second SH3
domain of Nck appears to prefer ligands containing the
APxxPxR motif. SH3 domains are protein interaction
domains that usually bind to proline-rich ligands with
moderate affinity and selectivity, preferentially a PxxP
motif. 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 = 45.4 bits (107), Expect = 1e-06
Identities = 20/51 (39%), Positives = 30/51 (58%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
A ++Y A +DE+S + +E +GWWRG +GQ G FP+NYV+
Sbjct: 4 AYVKFNYTAEREDELSLVKGTKVIVMEKCSDGWWRGSYNGQVGWFPSNYVT 54
>gnl|CDD|212764 cd11830, SH3_VAV_2, C-terminal (or second) Src homology 3 domain of
VAV proteins. VAV proteins function both as cytoplasmic
guanine nucleotide exchange factors (GEFs) for Rho
GTPases and scaffold proteins and they play important
roles in cell signaling by coupling cell surface
receptors to various effector functions. They play key
roles in processes that require cytoskeletal
reorganization including immune synapse formation,
phagocytosis, cell spreading, and platelet aggregation,
among others. Vertebrates have three VAV proteins (VAV1,
VAV2, and VAV3). VAV proteins contain several domains
that enable their function: N-terminal calponin homology
(CH), acidic, RhoGEF (also called Dbl-homologous or DH),
Pleckstrin Homology (PH), C1 (zinc finger), SH2, and two
SH3 domains. The SH3 domain of VAV is involved in the
localization of proteins to specific sites within the
cell, by interacting with proline-rich sequences within
target 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 = 54
Score = 45.3 bits (107), Expect = 1e-06
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNI-EMIDEGWWRGYCHGQYGLFPANYV 521
TA A YD+ A E+S D++ + +GWWRG +G+ G FP+ YV
Sbjct: 1 TAKARYDFCARDMRELSLKEGDVVKIYNKKGQQGWWRGEINGRIGWFPSTYV 52
>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 = 45.2 bits (107), Expect = 1e-06
Identities = 19/52 (36%), Positives = 33/52 (63%), Gaps = 2/52 (3%)
Query: 474 ALYDYQASADDEISFDPDDII--TNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
AL+ Y+ + +DE+ F +II + + + GWW+G +G+ G+FP N+VS
Sbjct: 6 ALFHYEGTNEDELDFKEGEIILIISKDTGEPGWWKGELNGKEGVFPDNFVSQ 57
>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 = 45.1 bits (106), Expect = 1e-06
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A +++Q + +DE+SF D+I + + GWW G +G+ G FP+NYV
Sbjct: 4 AKFNFQQTNEDELSFSKGDVIHVTRVEEGGWWEGTHNGRTGWFPSNYV 51
>gnl|CDD|212853 cd11920, SH3_Sorbs2_1, First Src Homology 3 domain of Sorbin and
SH3 domain containing 2 (Sorbs2), also called
Arg-binding protein 2 (ArgBP2). Sorbs2 or ArgBP2 is an
adaptor protein containing one sorbin homology (SoHo)
and three SH3 domains. It regulates actin-dependent
processes including cell adhesion, morphology, and
migration. It is expressed in many tissues and is
abundant in the heart. Like vinexin, it is found in
focal adhesion where it interacts with vinculin and
afadin. It also localizes in epithelial cell stress
fibers and in cardiac muscle cell Z-discs. Sorbs2 has
been implicated to play roles in the signaling of c-Arg,
Akt, and Pyk2. Other interaction partners of Sorbs2
include c-Abl, flotillin, spectrin, dynamin 1/2,
synaptojanin, PTP-PEST, 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 = 55
Score = 45.4 bits (107), Expect = 1e-06
Identities = 20/50 (40%), Positives = 31/50 (62%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A A+YD++A E+SF D + + ID+ W+ G HG+ G+FP +YV
Sbjct: 3 ARAVYDFKAQTSKELSFKKGDTVYILRKIDQNWYEGEHHGRVGIFPISYV 52
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 50.7 bits (122), Expect = 1e-06
Identities = 29/111 (26%), Positives = 58/111 (52%), Gaps = 9/111 (8%)
Query: 361 IQNSNKEEEEKEKQRMVQ--EEIK--RKELE-----RKEELEKEQIRIKEEQENIKKKKE 411
I+ + KE E +K+ +++ EE+ R ELE R+ EL++ + R+ + +E + +K E
Sbjct: 38 IEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLERRLLQREETLDRKME 97
Query: 412 QEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNE 462
+K+ + E+ +K L K++ D + E + + EQ +E + E
Sbjct: 98 SLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQREELERISGLTQEE 148
Score = 43.8 bits (104), Expect = 2e-04
Identities = 40/188 (21%), Positives = 86/188 (45%), Gaps = 43/188 (22%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
E LAK+ EE++K +E K++ L+ + ++ + + ER ELK + E+++
Sbjct: 25 KKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELER---ELKERRNELQRL 81
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
+ + EE ++M + K + LE
Sbjct: 82 ----------------------------------ERRLLQREETLDRKMESLDKKEENLE 107
Query: 388 RKE-ELEKEQIRIKEEQENIKKKKEQEEKERKE-----QEENQKLLLKKQQEEDRLKAEE 441
+KE EL ++ + E++E +++ ++ +E + QEE +++LL++ +EE R +A +
Sbjct: 108 KKEKELSNKEKNLDEKEEELEELIAEQREELERISGLTQEEAKEILLEEVEEEARHEAAK 167
Query: 442 QARLLEQE 449
+ +E+E
Sbjct: 168 LIKEIEEE 175
Score = 31.0 bits (71), Expect = 1.6
Identities = 29/97 (29%), Positives = 53/97 (54%), Gaps = 9/97 (9%)
Query: 375 RMVQEEIKRKELERKEELEKEQI-RIKEEQENIKKKKEQEEKE--RKEQEENQKLLLKKQ 431
++++ I K+L EEL K I K+E E +KK+ E KE K + E ++ L +
Sbjct: 16 YLLRKRIAEKKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELEREL---K 72
Query: 432 QEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
+ + L+ E+ RLL++E ++ R+ + + EE+L
Sbjct: 73 ERRNELQRLER-RLLQREETLD--RKMESLDKKEENL 106
>gnl|CDD|212721 cd11787, SH3_SH3RF_2, Second Src Homology 3 domain of SH3 domain
containing ring finger proteins. This model represents
the second 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 = 44.2 bits (105), Expect = 2e-06
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 471 TAVALYDYQASADDE---ISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
ALYD++ +DE ++F D+IT I +DE W G + G+FP ++
Sbjct: 1 QCKALYDFEMKDEDEKDCLTFKKGDVITVIRRVDENWAEGRLGDKIGIFPISF 53
>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 = 44.6 bits (106), Expect = 2e-06
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEM-----IDEGWWRGY--CHGQYGLFPANY 520
Y A +DY A DE++F+ D+I I DEGW G G G+FP N+
Sbjct: 3 YKVRATHDYTAEDTDELTFEKGDVILVIPFDDPEEQDEGWLMGVKESTGCRGVFPENF 60
>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 = 44.2 bits (104), Expect = 3e-06
Identities = 19/52 (36%), Positives = 29/52 (55%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A ALY+Y+ ++ F DII +DE W+ G +G +G FP N+V +
Sbjct: 3 AKALYNYEGKEPGDLKFSKGDIIILRRQVDENWYHGEVNGIHGFFPTNFVQI 54
>gnl|CDD|212849 cd11916, SH3_Sorbs1_3, Third (or C-terminal) Src Homology 3 domain
of Sorbin and SH3 domain containing 1 (Sorbs1), also
called ponsin. Sorbs1 is also called ponsin, SH3P12, or
CAP (c-Cbl associated protein). It is an adaptor protein
containing one sorbin homology (SoHo) and three SH3
domains. It binds Cbl and plays a major role in
regulating the insulin signaling pathway by enhancing
insulin-induced phosphorylation of Cbl. Sorbs1, like
vinexin, localizes at cell-ECM and cell-cell adhesion
sites where it binds vinculin, paxillin, and afadin. It
may function in the control of cell motility. Other
interaction partners of Sorbs1 include c-Abl, Sos,
flotillin, Grb4, ataxin-7, filamin C, 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 = 59
Score = 44.6 bits (105), Expect = 3e-06
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYVSL 523
Y+ ALY Y DDE+ DI+ +E D+GW+ G Q+G FP NYV L
Sbjct: 2 YSYQALYSYAPQNDDELELRDGDIVDVMEKCDDGWFVGTSRRTKQFGTFPGNYVKL 57
>gnl|CDD|212988 cd12055, SH3_CIN85_2, Second Src Homology 3 domain (SH3B) of
Cbl-interacting protein of 85 kDa. CIN85, also called
SH3 domain-containing kinase-binding protein 1 (SH3KBP1)
or CD2-binding protein 3 (CD2BP3) or Ruk, is an adaptor
protein that is involved in the downregulation of
receptor tyrosine kinases by facilitating endocytosis
through interaction with endophilin-associated ubiquitin
ligase Cbl proteins. It is also important in many other
cellular processes including vesicle-mediated transport,
cytoskeletal remodelling, apoptosis, cell adhesion and
migration, and viral infection, among others. CIN85
exists as multiple variants from alternative splicing;
the main variant contains three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CIN85 to bind
various protein partners and assemble complexes that
have been implicated in many different functions. This
alignment model represents the second SH3 domain (SH3B)
of CIN85. SH3B has been shown to bind Cbl proline-rich
peptides and 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 = 53
Score = 44.2 bits (104), Expect = 3e-06
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ Y +DE+ DII + ++EGWW G +G+ G+FP+N++
Sbjct: 4 VAFSYLPQNEDELELKVGDIIEVVGEVEEGWWEGVLNGKTGMFPSNFI 51
>gnl|CDD|212861 cd11928, SH3_SH3RF3_1, First Src Homology 3 domain of SH3 domain
containing ring finger 3, an E3 ubiquitin-protein
ligase. SH3RF3 is also called POSH2 (Plenty of SH3s 2)
or SH3MD4 (SH3 multiple domains protein 4). It is a
scaffold protein with E3 ubiquitin-protein ligase
activity. It was identified in the screen for
interacting partners of p21-activated kinase 2 (PAK2).
It may play a role in regulating JNK mediated apoptosis
in certain conditions. It also interacts with GTP-loaded
Rac1. SH3RF3 is highly homologous to SH3RF1; it also
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 SH3RF3. 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 = 44.1 bits (104), Expect = 3e-06
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
ALY Y+ ++ F+ DII +DE W+ G +G +G PA+Y+
Sbjct: 5 ALYSYEGKEPGDLKFNKGDIIILRRKVDENWYHGELNGCHGFLPASYIQC 54
>gnl|CDD|212889 cd11956, SH3_srGAP4, Src homology 3 domain of Slit-Robo GTPase
Activating Protein 4. srGAP4, also called ARHGAP4, is
highly expressed in hematopoietic cells and may play a
role in lymphocyte differentiation. It is able to
stimulate the GTPase activity of Rac1, Cdc42, and RhoA.
In the nervous system, srGAP4 has been detected in
differentiating neurites and may be involved in axon and
dendritic growth. srGAPs are Rho GAPs that interact with
Robo1, the transmembrane receptor of Slit proteins. Slit
proteins are secreted proteins that control axon
guidance and the migration of neurons and leukocytes.
srGAPs contain an N-terminal F-BAR domain, a Rho GAP
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 = 55
Score = 44.1 bits (104), Expect = 3e-06
Identities = 19/52 (36%), Positives = 26/52 (50%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
AVA +DY E+SF D++ WWRG +G GL P Y+S+
Sbjct: 4 AVACFDYTGRTAQELSFKRGDVLLLHSKASSDWWRGEHNGMRGLIPHKYISV 55
>gnl|CDD|212769 cd11835, SH3_ARHGAP32_33, Src homology 3 domain of Rho
GTPase-activating proteins 32 and 33, and similar
proteins. Members of this family contain N-terminal PX
and Src Homology 3 (SH3) domains, a central Rho GAP
domain, and C-terminal extensions. RhoGAPs (or ARHGAPs)
bind to Rho proteins and enhance the hydrolysis rates of
bound GTP. ARHGAP32 is also called RICS, PX-RICS,
p250GAP, or p200RhoGAP. It is a Rho GTPase-activating
protein for Cdc42 and Rac1, and is implicated in the
regulation of postsynaptic signaling and neurite
outgrowth. PX-RICS, a variant of RICS that contain PX
and SH3 domains, is the main isoform expressed during
neural development. It is involved in neural functions
including axon and dendrite extension, postnatal
remodeling, and fine-tuning of neural circuits during
early brain development. ARHGAP33, also called sorting
nexin 26 or TCGAP (Tc10/CDC42 GTPase-activating
protein), is widely expressed in the brain where it is
involved in regulating the outgrowth of axons and
dendrites and is regulated by the protein tyrosine
kinase Fyn. It is translocated to the plasma membrane in
adipocytes in response to insulin and may be involved in
the regulation of insulin-stimulated glucose transport.
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 = 44.0 bits (104), Expect = 3e-06
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEM---IDEGWWRGYCHGQYGLFPANYV 521
A + Y A A DE+S + DI++ I+M + WWRG Q G FP+ V
Sbjct: 2 AHVIKRYTAQAPDELSLEVGDIVSVIDMPPPEESTWWRGKKGFQVGFFPSECV 54
>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 = 43.8 bits (104), Expect = 3e-06
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANY 520
VA+ DY+A DDEIS +++ +E D GWW Y + G PA+Y
Sbjct: 3 VAIADYEAQGDDEISLQEGEVVEVLEKNDSGWW--YVRKGDKEGWVPASY 50
>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 = 43.7 bits (104), Expect = 4e-06
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH---GQYGLFPANY 520
VALYDY+A DD++SF D + ++ D WW H G+ G P+NY
Sbjct: 3 VALYDYEARTDDDLSFKKGDRLQILDDSDGDWWLA-RHLSTGKEGYIPSNY 52
>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 = 44.0 bits (104), Expect = 4e-06
Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYVSL 523
AVALY +QA+ DE+ F DI+ + M D+ W++ G+ G P NY+ +
Sbjct: 2 AVALYSFQATESDELPFQKGDILKILNMEDDQNWYKAELQGREGYIPKNYIKV 54
>gnl|CDD|212923 cd11990, SH3_Intersectin2_2, Second Src homology 3 domain (or SH3B)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The second SH3 domain (or
SH3B) of ITSN2 is expected to bind protein partners,
similar to ITSN1 which has been shown to bind WNK and
CdGAP. 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 = 43.9 bits (103), Expect = 4e-06
Identities = 23/52 (44%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL + A D+ ++F +DIIT +E E WW G HG G FP +YV L
Sbjct: 2 AQALCSWTAKKDNHLNFSKNDIITVLEQ-QENWWFGEVHGGRGWFPKSYVKL 52
>gnl|CDD|212980 cd12047, SH3_Noxa1_C, C-terminal Src Homology 3 domain of NADPH
oxidase activator 1. Noxa1 is a homolog of p67phox and
is a cytosolic subunit of the nonphagocytic NADPH
oxidase complex Nox1, which catalyzes the transfer of
electrons from NADPH to molecular oxygen to form
superoxide. Noxa1 is co-expressed with Nox1 in colon,
stomach, uterus, prostate, and vascular smooth muscle
cells, consistent with its regulatory role. It does not
interact with p40phox, unlike p67phox, making Nox1
activity independent of p40phox, unlike Nox2. Noxa1
contains TPR, PB1, and C-terminal SH3 domains, but lacks
the central SH3 domain that is present in p67phox. The
TPR domain binds activated GTP-bound Rac. The C-terminal
SH3 domain binds the polyproline motif found at the
C-terminus of Noxo1, a homolog of p47phox. 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 = 43.7 bits (103), Expect = 4e-06
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VA +DY A +++ F D I + +++ W G+C G+ G+FP +
Sbjct: 3 VAQHDYSAQGPEDLEFSQGDTIDILSEVNQEWLEGHCDGRIGIFPKCFA 51
>gnl|CDD|212922 cd11989, SH3_Intersectin1_2, Second Src homology 3 domain (or SH3B)
of Intersectin-1. Intersectin-1 (ITSN1) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN1 localizes in membranous organelles, CCPs, the
Golgi complex, and may be involved in the cell membrane
trafficking system. It exists in alternatively spliced
short and long isoforms. The short isoform contains two
Eps15 homology domains (EH1 and EH2), a coiled-coil
region and five SH3 domains (SH3A-E), while the long
isoform, in addition, contains RhoGEF (also called
Dbl-homologous or DH), Pleckstrin homology (PH) and C2
domains. The second SH3 domain (or SH3B) of ITSN1 has
been shown to bind WNK and CdGAP. 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 = 43.5 bits (102), Expect = 4e-06
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A ALY ++A D+ ++F+ +D+IT +E D WW G GQ G FP +YV L
Sbjct: 2 AQALYPWRAKKDNHLNFNKNDVITVLEQQDM-WWFGEVQGQKGWFPKSYVKL 52
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 48.9 bits (117), Expect = 5e-06
Identities = 44/197 (22%), Positives = 93/197 (47%), Gaps = 11/197 (5%)
Query: 276 LAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVP 335
LAK E EE+ R ++ +L++ + E+ + ELK + EE+ ++L +
Sbjct: 231 LAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEEL 290
Query: 336 LSPSTETPPV-PVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEK 394
L E + S+L++ + ++N +E EE+ ++ + E ++ELE +E L +
Sbjct: 291 LELKEEIEELEGEISLLRERLEE---LENELEELEERLEELKEKIEALKEELEERETLLE 347
Query: 395 EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE----DRLKAEEQARLLEQER 450
E +++ +++ KE+ E++ E + L + +EE + AE + L E +R
Sbjct: 348 E---LEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKR 404
Query: 451 LMEELRQQGTNEDTEED 467
+E L ++ +
Sbjct: 405 EIESLEERLERLSERLE 421
Score = 48.2 bits (115), Expect = 1e-05
Identities = 38/190 (20%), Positives = 81/190 (42%), Gaps = 16/190 (8%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEK 326
L + L Q E+ + + E R L+D + +L + + ER+L ELK + +E+
Sbjct: 671 ELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEE 730
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
+L + + + + +E E+ E ++
Sbjct: 731 ELEQLQ---------------SRLEELEEELEELEEELEELQERLEELEEELESLEEALA 775
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
+ KEE+E+ + + + QE +++ +E+ E+ + + ++ L +Q +RL+ E +
Sbjct: 776 KLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEE 835
Query: 447 EQERLMEELR 456
E E L E+L
Sbjct: 836 EIEELEEKLD 845
Score = 48.2 bits (115), Expect = 1e-05
Identities = 46/201 (22%), Positives = 83/201 (41%), Gaps = 25/201 (12%)
Query: 269 LRAKFENLAKQTE--EESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
L + E L +Q E E ++ E +E L++ +K E EL EEE+E+
Sbjct: 198 LEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELEE 257
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
++ K+ I+ E EE ++ +E +
Sbjct: 258 LQEE----------------LEEAEKE-------IEELKSELEELREELEELQEELLELK 294
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
E EELE E ++E E ++ + E+ E+ +E +E + L ++ +E + L E + L
Sbjct: 295 EEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLA 354
Query: 447 EQERLMEELRQQGTNEDTEED 467
E E EEL ++ + E +
Sbjct: 355 ELEEAKEELEEKLSALLEELE 375
Score = 44.7 bits (106), Expect = 1e-04
Identities = 40/200 (20%), Positives = 88/200 (44%), Gaps = 5/200 (2%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-LEQAQKLEERRLSELKIKEEEIEKK 327
LR + E L ++ E + E E E L+++++ LE + E RL ELK K E ++++
Sbjct: 279 LREELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEE 338
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
L + + + ++ + +E E ++ + + E + E+
Sbjct: 339 LEERETLLEELEQLLAEL--EEAKEELEEKLSALLEELEELFEALREELAELEAELAEIR 396
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
+ E K +I + +E +++ E+ E ++E +E + L + Q E + L E + +
Sbjct: 397 NELEELKREI--ESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQ 454
Query: 448 QERLMEELRQQGTNEDTEED 467
E L + L++ ++
Sbjct: 455 LEELRDRLKELERELAELQE 474
Score = 43.5 bits (103), Expect = 2e-04
Identities = 43/201 (21%), Positives = 85/201 (42%), Gaps = 3/201 (1%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
L + L ++ EE + E E+ +LK++I+ + + E L E + ++
Sbjct: 299 ELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEE 358
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
+ LS E +++ ++ + E EE +++ EE + E
Sbjct: 359 AKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSE 418
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
R E+L++E ++ E E ++ + E+ +E +E EE + L + +E L+ E E
Sbjct: 419 RLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKE---LERELAELQEE 475
Query: 448 QERLMEELRQQGTNEDTEEDL 468
+RL +EL D E
Sbjct: 476 LQRLEKELSSLEARLDRLEAE 496
Score = 42.8 bits (101), Expect = 4e-04
Identities = 47/213 (22%), Positives = 96/213 (45%), Gaps = 15/213 (7%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID--LEQAQKLEERR------LSELK 318
L + E L ++ EE + E+ KLK++I+ E+ Q L+E L E +
Sbjct: 747 EELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAE 806
Query: 319 IKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ 378
+ + +E++L E L++ + + +EE E+ ++ + +
Sbjct: 807 RRLDALERELESLEQRRERLEQE------IEELEEEIEELEEKLDELEEELEELEKELEE 860
Query: 379 EEIKRKELE-RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
+ + +ELE KEELE E ++EE+E ++++ + E E E +E + L ++ +E +
Sbjct: 861 LKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAK 920
Query: 438 KAEEQARLLEQERLMEELRQQGTNEDTEEDLGY 470
+ L E E +EE + + E ++
Sbjct: 921 LERLEVELPELEEELEEEYEDTLETELEREIER 953
Score = 41.2 bits (97), Expect = 0.001
Identities = 51/197 (25%), Positives = 99/197 (50%), Gaps = 10/197 (5%)
Query: 267 SNLRAKFENLAKQTEEESRK-RSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIE 325
LR + E L +Q EE R+ + EE+ ++ +LE+ + E L EL+ + EE+E
Sbjct: 705 EELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELE 764
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE 385
++L + E + + ++ + ++ +E EE E++ E
Sbjct: 765 EELESLEEALAKLKEEI-----EELEEKRQALQEELEELEEELEEAERRLDALERELESL 819
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ----EENQKLLLKKQQEEDRLKAEE 441
+R+E LE+E ++EE E +++K ++ E+E +E EE ++ L + + E++ L+ E
Sbjct: 820 EQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDEL 879
Query: 442 QARLLEQERLMEELRQQ 458
+ E+E L EELR+
Sbjct: 880 KELEEEKEELEEELREL 896
Score = 37.8 bits (88), Expect = 0.017
Identities = 41/193 (21%), Positives = 95/193 (49%), Gaps = 17/193 (8%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID--------LEQAQKLEERRLSELK 318
+ L+ + E L ++ + + E E+E + + ++D LEQ ++ E+ + EL+
Sbjct: 775 AKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELE 834
Query: 319 IKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRM-V 377
+ EE+E+KL+ + E ++ + ++ + E +E E+++ +
Sbjct: 835 EEIEELEEKLDELEEELEELEKE-----LEELKEELEELEAEKEELEDELKELEEEKEEL 889
Query: 378 QEEIKRKELER---KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
+EE++ E E KEE+EK + R++E + +++ + + + +E EE + L+ + E
Sbjct: 890 EEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELER 949
Query: 435 DRLKAEEQARLLE 447
+ + EE+ L
Sbjct: 950 EIERLEEEIEALG 962
Score = 37.4 bits (87), Expect = 0.021
Identities = 37/228 (16%), Positives = 81/228 (35%), Gaps = 41/228 (17%)
Query: 218 EKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLA 277
E++++ + + + ++ + + +E + L FE L
Sbjct: 323 ERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALR 382
Query: 278 KQTEEESRKRSEEEKEKRKLKDQID-LEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
++ E + +E E +LK +I+ LE+ + RL +LK + +E+E +L
Sbjct: 383 EELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAEL-------- 434
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
EE + + E + E+ EEL
Sbjct: 435 --------------------------------EELQTELEELNEELEELEEQLEELRDRL 462
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
++ E ++++ ++ EKE E L +Q+ ++A +A
Sbjct: 463 KELERELAELQEELQRLEKELSSLEARLDRLEAEQRASQGVRAVLEAL 510
Score = 36.2 bits (84), Expect = 0.054
Identities = 51/236 (21%), Positives = 98/236 (41%), Gaps = 54/236 (22%)
Query: 230 NRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHV---KPSNLRAKFENLAKQTEEESRK 286
N + V ++DL+A + +I + + + KP R E A ++ + RK
Sbjct: 115 NGEKVRLKDIQDLLADSGIGKESYSIVSQGKVEEIINAKPEERRKLIEEAAGVSKYKERK 174
Query: 287 RSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVP 346
EE E++ LE+ + L L+ EE+EK+L L
Sbjct: 175 ---EEAERK-------LERTE----ENLERLEDLLEELEKQLE-----KLE--------- 206
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE----RKEELEKEQIRIKEE 402
++ E+ E+ + ++ E++ EL + +EL KE ++EE
Sbjct: 207 -------------------RQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEE 247
Query: 403 QENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
++++ E+ ++E +E E+ + L + +E E Q LLE + +EEL +
Sbjct: 248 LSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGE 303
Score = 35.8 bits (83), Expect = 0.060
Identities = 36/150 (24%), Positives = 72/150 (48%), Gaps = 8/150 (5%)
Query: 361 IQNSNKEEEEKEKQ----RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE 416
+++ EE +Q EE+KR+ +EELE+ Q R++E +E +++ +E+ E+
Sbjct: 697 LRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEEL 756
Query: 417 RKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGT----NEDTEEDLGYTA 472
++ EE ++ L ++ +LK E + +++ L EEL + E + L
Sbjct: 757 QERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALEREL 816
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDE 502
+L + + EI ++I E +DE
Sbjct: 817 ESLEQRRERLEQEIEELEEEIEELEEKLDE 846
Score = 33.5 bits (77), Expect = 0.30
Identities = 36/151 (23%), Positives = 71/151 (47%), Gaps = 13/151 (8%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEK 326
L + + L ++ EE + E E E +LK++I L + + E +L L+++ E+E+
Sbjct: 874 ELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEE 933
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
+L + L E L++ P+ EE E+ ++R +EL
Sbjct: 934 ELEEEYEDTLETELER----EIERLEEEIEALGPVNLRAIEEYEEVEER-------YEEL 982
Query: 387 ERK-EELEKEQIRIKEEQENIKKKKEQEEKE 416
+ + E+LE+ + ++ E E + K+K + KE
Sbjct: 983 KSQREDLEEAKEKLLEVIEELDKEKRERFKE 1013
Score = 30.8 bits (70), Expect = 2.1
Identities = 24/101 (23%), Positives = 48/101 (47%), Gaps = 5/101 (4%)
Query: 366 KEEEEKEKQRM--VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
KE +E+ ++++ +E ++R E EELEK+ +++ + E ++ +E K + E
Sbjct: 171 KERKEEAERKLERTEENLERLEDLL-EELEKQLEKLERQAEKAERYQEL--KAELRELEL 227
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDT 464
LL K ++ L+ E+ +E L E + E
Sbjct: 228 ALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKE 268
Score = 28.9 bits (65), Expect = 7.8
Identities = 33/176 (18%), Positives = 82/176 (46%), Gaps = 22/176 (12%)
Query: 265 KPSNLRAKFENLAKQTEE-ESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEE 323
+ L + E L ++ EE E+ K E++ K +++ +LE+ + E L+ELK + E+
Sbjct: 850 ELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEK 909
Query: 324 IEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE-EIK 382
+ ++L ++ + + ++ ++ E E +R ++ E +
Sbjct: 910 LRERLE------------ELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEE 957
Query: 383 RKEL--------ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
+ L E EE+E+ +K ++E++++ KE+ + +E ++ ++ K+
Sbjct: 958 IEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELDKEKRERFKE 1013
>gnl|CDD|212885 cd11952, SH3_iASPP, Src Homology 3 (SH3) domain of Inhibitor of
ASPP protein (iASPP). iASPP, also called
RelA-associated inhibitor (RAI), is an oncoprotein that
inhibits the apoptotic transactivation potential of p53.
It is upregulated in human breast cancers expressing
wild-type p53, in acute leukemias regardless of the p53
mutation status, as well as in ovarian cancer where it
is associated with poor patient outcome and
chemoresistance. iASPP is also a binding partner and
negative regulator of p65RelA, which promotes cell
proliferation and inhibits apoptosis; p65RelA has the
opposite effect on cell growth compared to the p53
family. It contains a proline-rich region, four ankyrin
(ANK) repeats, and an SH3 domain at its C-terminal half.
The SH3 domain and the ANK repeats of iASPP contribute
to the p53 binding site; they bind to the DNA binding
domain of p53. 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 = 43.4 bits (102), Expect = 6e-06
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEG--WWRGYCHGQYGLFPANYVSL 523
AL+DY A DE+SF D++T + EG WW G+ G P NY L
Sbjct: 5 ALWDYSAEFPDELSFKEGDMVTVLRKDGEGTDWWWASLCGREGYVPRNYFGL 56
>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 = 43.3 bits (102), Expect = 6e-06
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMID---EGWWRGYCHGQYGLFPANYVSLQQ 525
A ALYD A + +E+SF D++ ++ GWW HGQ G+ PAN + L
Sbjct: 3 AKALYDNAAESPEELSFRRGDVLMVLKREHGSLPGWWLCSLHGQQGIAPANRLRLLP 59
>gnl|CDD|212805 cd11872, SH3_DOCK_AB, Src Homology 3 domain of Class A and B
Dedicator of Cytokinesis proteins. DOCK proteins are
atypical guanine nucleotide exchange factors (GEFs) that
lack the conventional Dbl homology (DH) domain. They are
divided into four classes (A-D) based on sequence
similarity and domain architecture: class A includes
Dock1, 2 and 5; class B includes Dock3 and 4; class C
includes Dock6, 7, and 8; and class D includes Dock9, 10
and 11. All DOCKs contain two homology domains: the
DHR-1 (Dock homology region-1), also called CZH1 (CED-5,
Dock180, and MBC-zizimin homology 1), and DHR-2 (also
called CZH2 or Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate while DHR-2
contains the catalytic activity for Rac and/or Cdc42.
This subfamily includes only Class A and B DOCKs, which
also contain an SH3 domain at the N-terminal region and
a PxxP motif at the C-terminus. Class A/B DOCKs are
mostly specific GEFs for Rac, except Dock4 which
activates the Ras family GTPase Rap1, probably
indirectly through interaction with Rap regulatory
proteins. The SH3 domain of class A/B DOCKs have been
shown to bind Elmo, a scaffold protein that promotes GEF
activity of DOCKs by releasing DHR-2 autoinhibition by
the intramolecular 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 = 42.6 bits (101), Expect = 1e-05
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 4/56 (7%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC---HGQYGLFPANYVSLQ 524
VA+Y++Q + ++S D + +E EGW+RG+ G+FP +YV ++
Sbjct: 2 GVAIYNFQGDGEHQLSLQVGDTVQILE-ECEGWYRGFSLRNKSLKGIFPKSYVHIK 56
>gnl|CDD|212946 cd12013, SH3_RIM-BP_3, Third Src homology 3 domain of
Rab3-interacting molecules (RIMs) binding proteins.
RIMs binding proteins (RBPs, RIM-BPs) associate with
calcium channels present in photoreceptors, neurons, and
hair cells; they interact simultaneously with specific
calcium channel subunits, and active zone proteins, RIM1
and RIM2. RIMs are part of the matrix at the presynaptic
active zone and are associated with synaptic vesicles
through their interaction with the small GTPase Rab3.
RIM-BPs play a role in regulating synaptic transmission
by serving as adaptors and linking calcium channels with
the synaptic vesicle release machinery. RIM-BPs contain
three SH3 domains and two to three fibronectin III
repeats. Invertebrates contain one, while vertebrates
contain at least two RIM-BPs, RIM-BP1 and RIM-BP2.
RIM-BP1 is also called peripheral-type benzodiazapine
receptor associated protein 1 (PRAX-1). Mammals contain
a third protein, RIM-BP3. RIM-BP1 and RIM-BP2 are
predominantly expressed in the brain where they display
overlapping but distinct expression patterns, while
RIM-BP3 is almost exclusively expressed in the testis
and is essential in spermiogenesis. The SH3 domains of
RIM-BPs bind to the PxxP motifs of RIM1, RIM2, and
L-type (alpha1D) and N-type (alpha1B) calcium channel
subunits. 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 = 61
Score = 42.8 bits (101), Expect = 1e-05
Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 8/57 (14%)
Query: 473 VALYDY-------QASADDEISFDPDDIITNI-EMIDEGWWRGYCHGQYGLFPANYV 521
VAL+DY A+ E+SF DIIT EM ++G++ G +GQ GL P+N++
Sbjct: 3 VALFDYDPRESSPNVDAEVELSFRAGDIITVFGEMDEDGFYYGELNGQRGLVPSNFL 59
>gnl|CDD|212918 cd11985, SH3_Stac2_C, C-terminal Src homology 3 domain of SH3 and
cysteine-rich domain-containing protein 2 (Stac2). Stac
proteins are putative adaptor proteins that contain a
cysteine-rich C1 domain and one or two SH3 domains at
the C-terminus. There are three mammalian members
(Stac1, Stac2, and Stac3) of this family. Stac2 contains
a single SH3 domain at the C-terminus unlike Stac1 and
Stac3, which contain two C-terminal SH3 domains. Stac1
and Stac2 have been found to be expressed differently in
mature dorsal root ganglia (DRG) neurons. Stac1 is
mainly expressed in peptidergic neurons while Stac2 is
found in a subset of nonpeptidergic and all trkB+
neurons. 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 = 42.6 bits (100), Expect = 1e-05
Identities = 16/51 (31%), Positives = 29/51 (56%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ VALY + ++++ P D + ++ +E WW+G + G FPAN+V
Sbjct: 1 SYVALYKFLPQENNDLPLQPGDRVMVVDDSNEDWWKGKSGDRVGFFPANFV 51
>gnl|CDD|212701 cd11767, SH3_Nck_3, Third Src Homology 3 domain of Nck adaptor
proteins. This group contains the third SH3 domain of
Nck, the first SH3 domain of Caenorhabditis elegans
Ced-2 (Cell death abnormality protein 2), and similar
domains. Nck adaptor proteins regulate actin
cytoskeleton dynamics by linking proline-rich effector
molecules to protein tyrosine kinases and phosphorylated
signaling intermediates. They contain three SH3 domains
and a C-terminal SH2 domain. They function downstream of
the PDGFbeta receptor and are involved in Rho GTPase
signaling and actin dynamics. Vertebrates contain two
Nck adaptor proteins: Nck1 (also called Nckalpha) and
Nck2 (also called Nckbeta or Growth factor
receptor-bound protein 4, Grb4), which show partly
overlapping functions but also bind distinct targets.
Their SH3 domains are involved in recruiting downstream
effector molecules, such as the N-WASP/Arp2/3 complex,
which when activated induces actin polymerization that
results in the production of pedestals, or protrusions
of the plasma membrane. The third SH3 domain of Nck
appears to prefer ligands with a PxAPxR motif. SH3
domains are protein interaction domains that usually
bind to proline-rich ligands with moderate affinity and
selectivity, preferentially a PxxP motif. Ced-2 is a
cell corpse engulfment protein that interacts with Ced-5
in a pathway that regulates the activation of Ced-10, a
Rac small GTPase.
Length = 56
Score = 42.7 bits (101), Expect = 1e-05
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEM--IDEGWWRGY-CHGQYGLFPANYVSL 523
VALY + D+E+SF+ + + IE D WW+ G GL P NYV +
Sbjct: 2 VVALYPFTGENDEELSFEKGERLEIIEKPEDDPDWWKARNALGTTGLVPRNYVEV 56
>gnl|CDD|212783 cd11849, SH3_SPIN90, Src homology 3 domain of SH3 protein
interacting with Nck, 90 kDa (SPIN90). SPIN90 is also
called NCK interacting protein with SH3 domain
(NCKIPSD), Dia-interacting protein (DIP), 54 kDa
vimentin-interacting protein (VIP54), or
WASP-interacting SH3-domain protein (WISH). It is an
F-actin binding protein that regulates actin
polymerization and endocytosis. It associates with the
Arp2/3 complex near actin filaments and determines
filament localization at the leading edge of
lamellipodia. SPIN90 is expressed in the early stages of
neuronal differentiation and plays a role in regulating
growth cone dynamics and neurite outgrowth. It also
interacts with IRSp53 and regulates cell motility by
playing a role in the formation of membrane protrusions.
SPIN90 contains an N-terminal SH3 domain, a proline-rich
domain, and a C-terminal VCA (verprolin-homology and
cofilin-like acidic) 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 = 42.3 bits (100), Expect = 1e-05
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYV 521
ALYD++++ + +SF + +E + WW G+ G PANYV
Sbjct: 4 ALYDFKSAEPNTLSFSEGETFLLLERSNAHWWLVTNHSGETGYVPANYV 52
>gnl|CDD|212716 cd11782, SH3_Sorbs_2, Second Src Homology 3 domain of Sorbin and
SH3 domain containing (Sorbs) proteins and similar
domains. This family, also called the vinexin family,
is composed predominantly of adaptor proteins containing
one sorbin homology (SoHo) and three SH3 domains.
Members include the second SH3 domains of Sorbs1 (or
ponsin), Sorbs2 (or ArgBP2), Vinexin (or Sorbs3), and
similar domains. They are involved in the regulation of
cytoskeletal organization, cell adhesion, and growth
factor signaling. Members of this family bind multiple
partners including signaling molecules like c-Abl,
c-Arg, Sos, and c-Cbl, as well as cytoskeletal molecules
such as vinculin and afadin. They may have overlapping
functions. 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 = 42.3 bits (100), Expect = 1e-05
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A A Y++ A E+SF D+IT +DE W+ G G+ G+FP +YV
Sbjct: 2 ARAKYNFNADTGVELSFRKGDVITLTRRVDENWYEGRIGGRQGIFPVSYV 51
>gnl|CDD|212909 cd11976, SH3_VAV1_2, C-terminal (or second) Src homology 3 domain
of VAV1 protein. VAV1 is expressed predominantly in the
hematopoietic system and it plays an important role in
the development and activation of B and T cells. It is
activated by tyrosine phosphorylation to function as a
guanine nucleotide exchange factor (GEF) for Rho GTPases
following cell surface receptor activation, triggering
various effects such as cytoskeletal reorganization,
transcription regulation, cell cycle progression, and
calcium mobilization. It also serves as a scaffold
protein and has been shown to interact with Ku70, Socs1,
Janus kinase 2, SIAH2, S100B, Abl gene, ZAP-70, SLP76,
and Syk, among others. VAV proteins contain several
domains that enable their function: N-terminal calponin
homology (CH), acidic, RhoGEF (also called
Dbl-homologous or DH), Pleckstrin Homology (PH), C1
(zinc finger), SH2, and two SH3 domains. The C-terminal
SH3 domain of Vav1 interacts with a wide variety of
proteins including cytoskeletal regulators (zyxin),
RNA-binding proteins (Sam68), transcriptional
regulators, viral proteins, and dynamin 2. 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 = 42.2 bits (99), Expect = 2e-05
Identities = 24/52 (46%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYV 521
TA A YD+ A E+S DII + + GWWRG +G+ G FPANYV
Sbjct: 1 TAKARYDFCARDRSELSLKEGDIIKILNKKGQQGWWRGEIYGRVGWFPANYV 52
>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 = 42.2 bits (99), Expect = 2e-05
Identities = 26/50 (52%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYC-HGQYGLFPANYV 521
ALYDY DE+SF D +T +E DE GW +G GQ GL+PANYV
Sbjct: 5 ALYDYDGQEQDELSFKAGDELTKLEDEDEQGWCKGRLDSGQVGLYPANYV 54
>gnl|CDD|212705 cd11771, SH3_Pex13p_fungal, Src Homology 3 domain of fungal
peroxisomal membrane protein Pex13p. Pex13p, located in
the peroxisomal membrane, contains two transmembrane
regions and a C-terminal SH3 domain. It binds to the
peroxisomal targeting type I (PTS1) receptor Pex5p and
the docking factor Pex14p through its SH3 domain. It is
essential for both PTS1 and PTS2 protein import pathways
into the peroxisomal matrix. Pex13p binds Pex14p, which
contains a PxxP motif, in a classical fashion to the
proline-rich ligand binding site of its SH3 domain. It
binds the WxxxF/Y motif of Pex5p in a novel site that
does not compete with Pex14p binding. 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 = 60
Score = 42.3 bits (100), Expect = 2e-05
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 7/57 (12%)
Query: 474 ALYDYQASADD-EISFDPDDII-----TNIEMIDEGWWRGYCH-GQYGLFPANYVSL 523
ALYD+ + E+S DI+ T+ D WW+G G+ G FP+NYV +
Sbjct: 4 ALYDFTPENPEMELSLKKGDIVAVLSKTDPLGRDSEWWKGRTRDGRIGWFPSNYVEV 60
>gnl|CDD|212717 cd11783, SH3_SH3RF_3, Third Src Homology 3 domain of SH3 domain
containing ring finger 1 (SH3RF1), SH3RF3, and similar
domains. SH3RF1 (or POSH) and SH3RF3 (or POSH2) are
scaffold proteins that function as E3 ubiquitin-protein
ligases. They contain an N-terminal RING finger domain
and four SH3 domains. This model represents the third
SH3 domain, located in the middle of SH3RF1 and SH3RF3,
and similar domains. 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. 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 = 42.0 bits (99), Expect = 2e-05
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYV 521
VALY Y+ DE+ ++ T E +GW++G GQ G+FP NYV
Sbjct: 3 VALYPYKPQKPDELELRKGEMYTVTEKCQDGWFKGTSLRTGQSGVFPGNYV 53
>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 = 41.9 bits (98), Expect = 2e-05
Identities = 22/55 (40%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMID---EGWWRGYCHGQYGLFPANYVSL 523
A ALYD +E++F DI+T IE EGWW HG+ G+ P N + L
Sbjct: 2 ARALYDNVPECAEELAFRKGDILTVIEQNTGGLEGWWLCSLHGRQGIAPGNRLKL 56
>gnl|CDD|212708 cd11774, SH3_Sla1p_2, Second Src Homology 3 domain of the fungal
endocytic adaptor protein Sla1p. Sla1p facilitates
endocytosis by playing a role as an adaptor protein in
coupling components of the actin cytoskeleton to the
endocytic machinery. It interacts with Abp1p, Las17p and
Pan1p, which are activator proteins of actin-related
protein 2/3 (Arp2/3). Sla1p contains multiple domains
including three SH3 domains, a SAM (sterile alpha motif)
domain, and a Sla1 homology domain 1 (SHD1), which binds
to the NPFXD motif that is found in many integral
membrane proteins such as the Golgi-localized
Arf-binding protein Lsb5p and the P4-ATPases, Drs2p and
Dnf1p. 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 = 42.1 bits (99), Expect = 2e-05
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG-QYGLFPANYV 521
A ALYDY ++E+SF+ D + + D W +G Q+G PANY+
Sbjct: 1 QAKALYDYDKQTEEELSFNEGDTLDVYDDSDSDWILVGFNGTQFGFVPANYI 52
>gnl|CDD|212921 cd11988, SH3_Intersectin2_1, First Src homology 3 domain (or SH3A)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The first SH3 domain (or
SH3A) of ITSN2 is expected to bind many protein
partners, similar to ITSN1 which has been shown to bind
Sos1, dynamin1/2, CIN85, c-Cbl, PI3K-C2, SHIP2, N-WASP,
and CdGAP, 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 = 42.2 bits (99), Expect = 2e-05
Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 10/54 (18%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE------GWWRGYCHGQYGLFPANYV 521
ALY ++A DE+SF+ DII +DE GW G G +G FP NYV
Sbjct: 6 ALYPFEARNHDEMSFNAGDII----QVDEKTVGEPGWLYGSFQGNFGWFPCNYV 55
>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 = 41.9 bits (98), Expect = 2e-05
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A ++++ + +DE+S DII + + GWW G +G+ G FP+NYV
Sbjct: 6 ARFNFKQTNEDELSVCKGDIIYVTRVEEGGWWEGTLNGKTGWFPSNYV 53
>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 = 42.0 bits (98), Expect = 2e-05
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 468 LGYTAVALYDYQASADDEISFDPDDIITNIEMIDE---GWWRGYCHGQYGLFPANYVSL 523
L A ALYD A + DE+SF DI+T +E + GWW HG+ G+ P N + +
Sbjct: 1 LNVLAKALYDNVAESPDELSFRKGDIMTVLERDTQGLDGWWLCSLHGRQGIVPGNRLKI 59
>gnl|CDD|212773 cd11839, SH3_Intersectin_4, Fourth Src homology 3 domain (or SH3D)
of Intersectin. Intersectins (ITSNs) are adaptor
proteins that function in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction.
They are essential for initiating clathrin-coated pit
formation. They bind to many proteins through their
multidomain structure and facilitate the assembly of
multimeric complexes. Vertebrates contain two ITSN
proteins, ITSN1 and ITSN2, which exist in alternatively
spliced short and long isoforms. The short isoforms
contain two Eps15 homology domains (EH1 and EH2), a
coiled-coil region and five SH3 domains (SH3A-E), while
the long isoforms, in addition, contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin homology (PH)
and C2 domains. ITSN1 and ITSN2 are both widely
expressed, with variations depending on tissue type and
stage of development. The fourth SH3 domain (or SH3D) of
ITSN1 has been shown to bind SHIP2, Numb, CdGAP, and
N-WASP. 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 = 41.6 bits (98), Expect = 2e-05
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG-----QYGLFPANYVSL 523
A + + A+A++++S ++ + GWW G Q G FPANYV L
Sbjct: 2 AQVIAPFTATAENQLSLAVGQLVLVRKKSPSGWWEGELQARGKKRQIGWFPANYVKL 58
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 46.0 bits (109), Expect = 3e-05
Identities = 26/85 (30%), Positives = 47/85 (55%), Gaps = 4/85 (4%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
Q K + E+QR +E+ + +EL++K+ EQ R+K+ ++ ++ QE+K++ E+
Sbjct: 67 QQQQQKSAKRAEEQRKKKEQQQAEELQQKQA--AEQERLKQLEK--ERLAAQEQKKQAEE 122
Query: 421 EENQKLLLKKQQEEDRLKAEEQARL 445
Q L +KQ EE KA A+
Sbjct: 123 AAKQAALKQKQAEEAAAKAAAAAKA 147
Score = 36.7 bits (85), Expect = 0.023
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 12/82 (14%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+ EE ++KQ QE +K +LE++ +EQ KK+ E+ K+ +++ +
Sbjct: 88 QAEELQQKQAAEQERLK--QLEKERLAAQEQ----------KKQAEEAAKQAALKQKQAE 135
Query: 426 LLLKKQQEEDRLKAEEQARLLE 447
K + KAE +A+
Sbjct: 136 EAAAKAAAAAKAKAEAEAKRAA 157
Score = 33.6 bits (77), Expect = 0.22
Identities = 25/82 (30%), Positives = 46/82 (56%), Gaps = 9/82 (10%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
V E+ R++ ++K E+ R K+EQ+ + EE ++K+ E ++L KQ E++R
Sbjct: 60 VVEQYNRQQQQQKSAKRAEEQRKKKEQQ------QAEELQQKQAAEQERL---KQLEKER 110
Query: 437 LKAEEQARLLEQERLMEELRQQ 458
L A+EQ + E+ L+Q+
Sbjct: 111 LAAQEQKKQAEEAAKQAALKQK 132
Score = 29.8 bits (67), Expect = 3.6
Identities = 12/82 (14%), Positives = 36/82 (43%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ E++ +++ +E + +E +++ E +Q +K++Q K + K +
Sbjct: 92 LQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEA 151
Query: 422 ENQKLLLKKQQEEDRLKAEEQA 443
E ++ ++ K + +A
Sbjct: 152 EAKRAAAAAKKAAAEAKKKAEA 173
Score = 29.0 bits (65), Expect = 6.1
Identities = 36/168 (21%), Positives = 65/168 (38%), Gaps = 47/168 (27%)
Query: 279 QTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSEL---KIKEEEIEKKLNGHSDVP 335
Q +++S KR+EE+++K++ + +L+Q Q E+ RL +L ++ +E +K
Sbjct: 68 QQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKK--------- 118
Query: 336 LSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE 395
Q ++ KQ+ +E + K + E E
Sbjct: 119 --------------------------QAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAE 152
Query: 396 QIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
R KK E ++K + E KK E + KAE +A
Sbjct: 153 AKRAAAA-----AKKAAAEAKKKAEAEAA----KKAAAEAKKKAEAEA 191
Score = 29.0 bits (65), Expect = 6.7
Identities = 34/167 (20%), Positives = 73/167 (43%), Gaps = 4/167 (2%)
Query: 277 AKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
AK+ EE+ +K+ +++ E+ + K + E+ ++LE+ RL+ + K++ E
Sbjct: 74 AKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQ 133
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
+ E + + ++ + K+ + K++ E K+ E K++ E E
Sbjct: 134 A--EEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAEAEA 191
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
+ KKK E E K++ E +K + + + AE +A
Sbjct: 192 AAKAAAEA--KKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKA 236
>gnl|CDD|212924 cd11991, SH3_Intersectin1_3, Third Src homology 3 domain (or SH3C)
of Intersectin-1. Intersectin-1 (ITSN1) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN1 localizes in membranous organelles, CCPs, the
Golgi complex, and may be involved in the cell membrane
trafficking system. It exists in alternatively spliced
short and long isoforms. The short isoform contains two
Eps15 homology domains (EH1 and EH2), a coiled-coil
region and five SH3 domains (SH3A-E), while the long
isoform, in addition, contains RhoGEF (also called
Dbl-homologous or DH), Pleckstrin homology (PH) and C2
domains. The third SH3 domain (or SH3C) of ITSN1 has
been shown to bind many proteins including dynamin1/2,
CIN85, c-Cbl, SHIP2, Reps1, synaptojanin-1, and WNK,
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 = 52
Score = 41.1 bits (96), Expect = 3e-05
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
VA+Y Y+++ +++F D+I + D WW G + G+FP+NYV
Sbjct: 3 VAMYTYESNEQGDLTFQQGDVILVTKK-DGDWWTGTVGDKTGVFPSNYVRP 52
>gnl|CDD|212725 cd11791, SH3_UBASH3, Src homology 3 domain of Ubiquitin-associated
and SH3 domain-containing proteins, also called TULA (T
cell Ubiquitin LigAnd) family of proteins. UBASH3 or
TULA proteins are also referred to as Suppressor of T
cell receptor Signaling (STS) proteins. They contain an
N-terminal UBA domain, a central SH3 domain, and a
C-terminal histidine phosphatase domain. They bind c-Cbl
through the SH3 domain and to ubiquitin via UBA. In some
vertebrates, there are two TULA family proteins, called
UBASH3A (also called TULA or STS-2) and UBASH3B (also
called TULA-2 or STS-1), which show partly overlapping
as well as distinct functions. UBASH3B is widely
expressed while UBASH3A is only found in lymphoid cells.
UBASH3A facilitates apoptosis induced in T cells through
its interaction with the apoptosis-inducing factor AIF.
UBASH3B is an active phosphatase while UBASH3A is not.
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 = 41.1 bits (97), Expect = 3e-05
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 474 ALYDYQASADDEISFDPDDII----TNIEMIDEGWWRGYCH--GQYGLFPANYV 521
LY Y +DE+ P D I ++ +GW G G GL P NY
Sbjct: 4 VLYPYTPQEEDELELVPGDYIYVSPEELDSSSDGWVEGTSWLTGCSGLLPENYT 57
>gnl|CDD|212911 cd11978, SH3_VAV3_2, C-terminal (or second) Src homology 3 domain
of VAV3 protein. VAV3 is ubiquitously expressed and
functions as a phosphorylation-dependent guanine
nucleotide exchange factor (GEF) for RhoA, RhoG, and
Rac1. It has been implicated to function in the
hematopoietic, bone, cerebellar, and cardiovascular
systems. VAV3 is essential in axon guidance in neurons
that control blood pressure and respiration. It is
overexpressed in prostate cancer cells and it plays a
role in regulating androgen receptor transcriptional
activity. VAV proteins contain several domains that
enable their function: N-terminal calponin homology
(CH), acidic, RhoGEF (also called Dbl-homologous or DH),
Pleckstrin Homology (PH), C1 (zinc finger), SH2, and two
SH3 domains. The SH3 domain of VAV is involved in the
localization of proteins to specific sites within the
cell, by interacting with proline-rich sequences within
target 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 = 56
Score = 41.2 bits (96), Expect = 3e-05
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIIT-NIEMIDEGWWRGYCHGQYGLFPANYV 521
A+A YD+ A E+S D++ +M GWWRG +G+ G FP+ YV
Sbjct: 3 AIARYDFCARDMRELSLLKGDVVKIYTKMSTNGWWRGEVNGRVGWFPSTYV 53
>gnl|CDD|212910 cd11977, SH3_VAV2_2, C-terminal (or second) Src homology 3 domain
of VAV2 protein. VAV2 is widely expressed and functions
as a guanine nucleotide exchange factor (GEF) for RhoA,
RhoB and RhoG and also activates Rac1 and Cdc42. It is
implicated in many cellular and physiological functions
including blood pressure control, eye development,
neurite outgrowth and branching, EGFR endocytosis and
degradation, and cell cluster morphology, among others.
It has been reported to associate with Nek3. VAV
proteins contain several domains that enable their
function: N-terminal calponin homology (CH), acidic,
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
Homology (PH), C1 (zinc finger), SH2, and two SH3
domains. The SH3 domain of VAV is involved in the
localization of proteins to specific sites within the
cell, by interacting with proline-rich sequences within
target 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 = 58
Score = 41.2 bits (96), Expect = 3e-05
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMI--DEGWWRGYCHGQYGLFPANYV 521
TAVA Y++ A E+S D++ I D+GWW+G +G+ G FP+ YV
Sbjct: 2 TAVARYNFAARDMRELSLREGDVVRIYSRIGGDQGWWKGETNGRIGWFPSTYV 54
>gnl|CDD|212731 cd11797, SH3_DNMBP_N4, Fourth N-terminal Src homology 3 domain of
Dynamin Binding Protein, also called Tuba. DNMBP or
Tuba is a cdc42-specific guanine nucleotide exchange
factor (GEF) that contains four N-terminal SH3 domains,
a central RhoGEF [or Dbl homology (DH)] domain followed
by a Bin/Amphiphysin/Rvs (BAR) domain, and two
C-terminal SH3 domains. It provides a functional link
between dynamin and key regulatory proteins of the actin
cytoskeleton. It plays an important role in regulating
cell junction configuration. The four N-terminal SH3
domains of DNMBP bind the GTPase dynamin, which plays an
important role in the fission of endocytic vesicles. 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 = 50
Score = 40.9 bits (96), Expect = 3e-05
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFP 517
VALY +QA +E+ F+ D I I +++GW G G+ G+FP
Sbjct: 2 GVALYRFQALEPNELDFEVGDRIRIIATLEDGWLEGELKGRRGIFP 47
>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain.
Transcription of the anti-viral guanylate-binding
protein (GBP) is induced by interferon-gamma during
macrophage induction. This family contains GBP1 and
GPB2, both GTPases capable of binding GTP, GDP and GMP.
Length = 297
Score = 45.4 bits (108), Expect = 4e-05
Identities = 25/93 (26%), Positives = 49/93 (52%), Gaps = 10/93 (10%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE- 419
I+ + E E ++ + E +++E + E E+ QE++K+ E+ E ER++
Sbjct: 206 IEAERAKAEAAEAEQELLREKQKEEEQMMEAQERSY------QEHVKQLIEKMEAEREKL 259
Query: 420 QEENQKLLLKKQQE-EDRLKA--EEQARLLEQE 449
E +++L K QE E+ LK + +A L++E
Sbjct: 260 LAEQERMLEHKLQEQEELLKEGFKTEAESLQKE 292
Score = 29.2 bits (66), Expect = 5.3
Identities = 23/87 (26%), Positives = 46/87 (52%), Gaps = 10/87 (11%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE--QEENQKLLLKKQQEEDR 436
EE+ ++ L KE +E E I ++ K+K + E+ + E + E + L K+++EE
Sbjct: 175 EEVLQEFLNSKEAVE-EAILQTDQALTAKEKAIEAERAKAEAAEAEQELLREKQKEEEQM 233
Query: 437 LKA-----EEQARLLEQERLMEELRQQ 458
++A +E + L ++ ME R++
Sbjct: 234 MEAQERSYQEHVKQLIEK--MEAEREK 258
Score = 28.4 bits (64), Expect = 8.6
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 13/72 (18%)
Query: 366 KEEEEKEKQRMVQEEIKRKELER--KEELEKEQIRIKEEQENIKKKKEQEEK-------- 415
+E++++E+Q M +E +E + E++E E+ ++ EQE + + K QE++
Sbjct: 224 REKQKEEEQMMEAQERSYQEHVKQLIEKMEAEREKLLAEQERMLEHKLQEQEELLKEGFK 283
Query: 416 ---ERKEQEENQ 424
E ++E
Sbjct: 284 TEAESLQKEIQD 295
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 45.8 bits (109), Expect = 4e-05
Identities = 43/230 (18%), Positives = 83/230 (36%), Gaps = 28/230 (12%)
Query: 237 SKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRK 296
+ + ++ T SK + + S L + E+ ++ +
Sbjct: 58 RDPQISVVSSVTKLSKGPKDEPKQVKIPRQSGLSEE--------VAEAEAKATSVAAEAT 109
Query: 297 LKDQIDLEQAQKLEERRLSELKIKEE-----EIEKKLNGHSDV-PLSPSTETPPVPVKSI 350
I E + LEE LK E+ N D + + S
Sbjct: 110 TPKSIQ-ELVEALEELLEELLKETASDPVVQELVSIFNDLIDSIKEDNLKDDLESLIASA 168
Query: 351 LKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKK 410
++ + EEEE+ ++ +K K E +LE+E + E +E +K+
Sbjct: 169 KEELDQLSKKLAELKAEEEEE-----LERALKEKREELLSKLEEELLARLESKEAALEKQ 223
Query: 411 EQEEKERKEQEENQKLLLKKQQEEDRLKAE-EQARLLEQERLMEELRQQG 459
+ E ER+++E +K E++L+ E E+ +++L EL Q
Sbjct: 224 LRLEFEREKEELRKKY-------EEKLRQELERQAEAHEQKLKNELALQA 266
Score = 30.0 bits (68), Expect = 3.0
Identities = 38/161 (23%), Positives = 66/161 (40%), Gaps = 36/161 (22%)
Query: 296 KLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPT 355
+LK + + E + L+E+R L EEE+ +L ++ L++
Sbjct: 181 ELKAEEEEELERALKEKREELLSKLEEELLARLESK----------------EAALEK-- 222
Query: 356 SDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEE----------LEKEQIRIKEEQEN 405
Q + E EKE+ R EE R+ELER+ E + +E +
Sbjct: 223 ------QLRLEFEREKEELRKKYEEKLRQELERQAEAHEQKLKNELALQAIELQREFNKE 276
Query: 406 IKKKKEQEEKERKEQEENQKLLLK--KQQEEDRLKAEEQAR 444
IK+K E+E R + LK ++ + R +AE++
Sbjct: 277 IKEKVEEERNGRLAKLAELNSRLKGLEKALDSRSEAEDENH 317
>gnl|CDD|212817 cd11884, SH3_MYO15, Src Homology 3 domain of Myosin XV. This
subfamily is composed of proteins with similarity to
Myosin XVa. Myosin XVa is an unconventional myosin that
is critical for the normal growth of mechanosensory
stereocilia of inner ear hair cells. Mutations in the
myosin XVa gene are associated with nonsyndromic hearing
loss. Myosin XVa contains a unique N-terminal extension
followed by a motor domain, light chain-binding IQ
motifs, and a tail consisting of a pair of MyTH4-FERM
tandems separated by a SH3 domain, and a PDZ domain. SH3
domains bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs;
they play a role in the regulation of enzymes by
intramolecular interactions, changing the subcellular
localization of signal pathway components and mediate
multiprotein complex assemblies.
Length = 56
Score = 40.8 bits (96), Expect = 4e-05
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 3/53 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIIT---NIEMIDEGWWRGYCHGQYGLFPANYV 521
VA+ Y +SF D+I +D GW G G+ G FP YV
Sbjct: 2 VVAVRAYITRDQTLLSFHKGDVIKLLPKEGPLDPGWLFGTLDGRSGAFPKEYV 54
>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 = 40.5 bits (95), Expect = 6e-05
Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 4/56 (7%)
Query: 471 TAVALYDYQASADD--EISFDPDDIITNIEMIDEGWWRG-YCHGQYGLFPANYVSL 523
A ALY Y AS DD E+SF+ +I+ + WW+ +G+ G+ P+NY+ L
Sbjct: 1 RARALYPYDASPDDPNELSFEKGEIL-EVSDTSGKWWQARKSNGETGICPSNYLQL 55
>gnl|CDD|212703 cd11769, SH3_CSK, Src Homology 3 domain of C-terminal Src kinase.
CSK is a cytoplasmic (or nonreceptor) tyr kinase
containing the Src homology domains, SH3 and SH2,
N-terminal to the catalytic tyr kinase domain. They
negatively regulate the activity of Src kinases that are
anchored to the plasma membrane. To inhibit Src kinases,
CSK is translocated to the membrane via binding to
specific transmembrane proteins, G-proteins, or adaptor
proteins near the membrane. CSK catalyzes the tyr
phosphorylation of the regulatory C-terminal tail of Src
kinases, resulting in their inactivation. It is
expressed in a wide variety of tissues and plays a role,
as a regulator of Src, in cell proliferation, survival,
and differentiation, and consequently, in cancer
development and progression. In addition, CSK also shows
Src-independent functions. It is a critical component in
G-protein signaling, and plays a role in cytoskeletal
reorganization and cell migration. 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 = 40.4 bits (95), Expect = 6e-05
Identities = 16/56 (28%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 469 GYTAVALYDYQASADDEISFDPDDIITNIEMI-DEGWWRG-YCHGQYGLFPANYVS 522
G +A Y++ ++++++ F DI+T + + D W++ G+ G+ PANYV
Sbjct: 1 GTECIAKYNFNGASEEDLPFKKGDILTIVAVTKDPNWYKAKNKDGREGMIPANYVQ 56
>gnl|CDD|212740 cd11806, SH3_PRMT2, Src homology 3 domain of Protein arginine
N-methyltransferase 2. PRMT2, also called HRMT1L1,
belongs to the arginine methyltransferase protein
family. It functions as a coactivator to both estrogen
receptor alpha (ER-alpha) and androgen receptor (AR),
presumably through arginine methylation. The ER-alpha
transcription factor is involved in cell proliferation,
differentiation, morphogenesis, and apoptosis, and is
also implicated in the development and progression of
breast cancer. PRMT2 and its variants are upregulated in
breast cancer cells and may be involved in modulating
the ER-alpha signaling pathway during formation of
breast cancer. PRMT2 also plays a role in regulating the
function of E2F transcription factors, which are
critical cell cycle regulators, by binding to the
retinoblastoma gene product (RB). It contains an
N-terminal SH3 domain and an AdoMet binding 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 = 40.5 bits (95), Expect = 7e-05
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
VA+ D+ A+ D ++SF+ D + + WW +G G PA+++
Sbjct: 3 VAIADFVATDDSQLSFESGDKLLVLRKPSVDWWWAEHNGCCGYIPASHLH 52
>gnl|CDD|212763 cd11829, SH3_GAS7, Src homology 3 domain of Growth Arrest Specific
protein 7. GAS7 is mainly expressed in the brain and is
required for neurite outgrowth. It may also play a role
in the protection and migration of embryonic stem cells.
Treatment-related acute myeloid leukemia (AML) has been
reported resulting from mixed-lineage leukemia
(MLL)-GAS7 translocations as a complication of primary
cancer treatment. GAS7 contains an N-terminal SH3
domain, followed by a WW domain, and a central F-BAR
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 = 52
Score = 40.2 bits (94), Expect = 7e-05
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 474 ALYDYQASADDE-ISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
LY + + +SF+ ++I ++ D GWW G G G FPA+YV
Sbjct: 4 TLYAFTGEQHQQGLSFEAGELIRVLQAPDGGWWEGEKDGLRGWFPASYV 52
>gnl|CDD|212852 cd11919, SH3_Sorbs1_1, First Src Homology 3 domain of Sorbin and
SH3 domain containing 1 (Sorbs1), also called ponsin.
Sorbs1 is also called ponsin, SH3P12, or CAP (c-Cbl
associated protein). It is an adaptor protein containing
one sorbin homology (SoHo) and three SH3 domains. It
binds Cbl and plays a major role in regulating the
insulin signaling pathway by enhancing insulin-induced
phosphorylation of Cbl. Sorbs1, like vinexin, localizes
at cell-ECM and cell-cell adhesion sites where it binds
vinculin, paxillin, and afadin. It may function in the
control of cell motility. Other interaction partners of
Sorbs1 include c-Abl, Sos, flotillin, Grb4, ataxin-7,
filamin C, 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 = 55
Score = 40.3 bits (94), Expect = 8e-05
Identities = 18/52 (34%), Positives = 30/52 (57%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A A +D++A E+ DI+ + ID+ W+ G HG+ G+FP +Y+ L
Sbjct: 3 ARAKFDFKAQTLKELPLQKGDIVYIYKQIDQNWYEGEHHGRVGIFPRSYIEL 54
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 45.1 bits (107), Expect = 8e-05
Identities = 45/232 (19%), Positives = 100/232 (43%), Gaps = 12/232 (5%)
Query: 230 NRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSE 289
+ +K+ + + + ++ L+ + L + +E E
Sbjct: 518 IELLELEEALKEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEE 577
Query: 290 EEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKS 349
+ + ++ +L + K +++L EL+ + ++E+ L E ++S
Sbjct: 578 LRLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELES 637
Query: 350 ILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKK 409
L++ N + E +E + EE++ K E + E+ +E RI+ E++ +K
Sbjct: 638 ELEK----------LNLQAELEELLQAALEELEEKVEELEAEIRRELQRIENEEQLEEKL 687
Query: 410 KEQEEKERKEQEENQKL--LLKKQQEEDRLKAEEQARLLEQERLMEELRQQG 459
+E E+ E + ++ ++L LLKK E ++L E ++R E E L +EL +
Sbjct: 688 EELEQLEEELEQLREELEELLKKLGEIEQLIEELESRKAELEELKKELEKLE 739
Score = 42.4 bits (100), Expect = 5e-04
Identities = 43/193 (22%), Positives = 90/193 (46%), Gaps = 16/193 (8%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIEKKLN 329
+ E L ++ EE+ + E E+E +L+++++ +A E E L +LK EE +EK
Sbjct: 277 RELERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEE 336
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERK 389
+ L + ++ + +E E+ + + E+ K LER
Sbjct: 337 KLEKLE----------SELEELAEEKNELAKLLEERLKELEERLEEL--EKELEKALERL 384
Query: 390 EELEKEQIRIKEEQENIKK---KKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
++LE+ +KEE + + ++E +E +++ E + L++ +EE + E+ +L
Sbjct: 385 KQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEEQINQLE 444
Query: 447 EQERLMEELRQQG 459
+E ++ EL G
Sbjct: 445 SKELMIAELAGAG 457
Score = 42.1 bits (99), Expect = 8e-04
Identities = 44/198 (22%), Positives = 89/198 (44%), Gaps = 11/198 (5%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
LR + E L K+ E + E + + LK++++ E+ +KLE ++KE+ ++L
Sbjct: 499 LREEIEELEKELRELEEELIELLELEEALKEELE-EKLEKLENLLEELEELKEKLQLQQL 557
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
E +K +L++ + + KEE E+ ++R+ + + K KELE
Sbjct: 558 KEELRQLEDRLQE-----LKELLEELR-----LLRTRKEELEELRERLKELKKKLKELEE 607
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ +E ++ E E + +E EE+ E E+ ++ + L+ E+ +
Sbjct: 608 RLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELE 667
Query: 449 ERLMEELRQQGTNEDTEE 466
+ EL++ E EE
Sbjct: 668 AEIRRELQRIENEEQLEE 685
Score = 39.4 bits (92), Expect = 0.005
Identities = 34/193 (17%), Positives = 82/193 (42%), Gaps = 29/193 (15%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLN 329
+ E + EE + EE++ +LK ++ ++ +LE ++ E +++E E
Sbjct: 227 EEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELE------ 280
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERK 389
+ L++ ++ +E EE+ + E + LE+
Sbjct: 281 ----------------RLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKL 324
Query: 390 EELEKEQIRIKEEQENIKKKKE----QEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
+ LE+ +++E+ E ++ + E ++ + K EE K L ++ + L+ E + L
Sbjct: 325 KSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKEL---EERLEELEKELEKAL 381
Query: 446 LEQERLMEELRQQ 458
++L E +++
Sbjct: 382 ERLKQLEEAIQEL 394
Score = 39.0 bits (91), Expect = 0.007
Identities = 32/193 (16%), Positives = 84/193 (43%), Gaps = 11/193 (5%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIE 325
+ + L + +E + +E +++++++ + + E ER L EL+ + +++E
Sbjct: 378 EKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLE 437
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE 385
+++N L + + Q EE EKE + + E++ E
Sbjct: 438 EQINQLESKELMIAELAGAGEKCPVCGQEL----------PEEHEKELLELYELELEELE 487
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
E E E+ ++R + E+ + ++ +EE + E +++ E E+
Sbjct: 488 EELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEELEE 547
Query: 446 LEQERLMEELRQQ 458
L+++ +++L+++
Sbjct: 548 LKEKLQLQQLKEE 560
Score = 35.9 bits (83), Expect = 0.052
Identities = 42/206 (20%), Positives = 88/206 (42%), Gaps = 16/206 (7%)
Query: 272 KFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGH 331
K+E L++ +E ++ + + E+ + + LE + L E ELK + +++E+
Sbjct: 168 KYEKLSELLKEVIKEA-KAKIEELEGQLSELLEDIEDLLEALEEELK-ELKKLEEIQEEQ 225
Query: 332 SDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEE 391
+ L E L++ + +E+E E+ + EI+ ELE +
Sbjct: 226 EEEELEQEIE--------ALEER------LAELEEEKERLEELKARLLEIESLELEALKI 271
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERL 451
E+E ++ E +++K E+ E+ +E EE ++ L + + L+ + +ERL
Sbjct: 272 REEELRELERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERL 331
Query: 452 MEELRQQGTNEDTEEDLGYTAVALYD 477
+ + E E+L L
Sbjct: 332 EKLEEKLEKLESELEELAEEKNELAK 357
Score = 35.5 bits (82), Expect = 0.084
Identities = 33/181 (18%), Positives = 76/181 (41%), Gaps = 22/181 (12%)
Query: 288 SEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPV 347
E++ + +++ + + E+ +EL+ + EE+EK+L
Sbjct: 470 EHEKELLELYELELEELEEELSREKEEAELREEIEELEKELR------------------ 511
Query: 348 KSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIK 407
+ ++ + +E EEK ++ E + E KE+L+ +Q++ + Q +
Sbjct: 512 -ELEEELIELLELEEALKEELEEKLEKLENLLE---ELEELKEKLQLQQLKEELRQLEDR 567
Query: 408 KKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
++ +E E +K L++ +E + ++ L E+ +EEL Q + E +
Sbjct: 568 LQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAENE 627
Query: 468 L 468
L
Sbjct: 628 L 628
Score = 33.2 bits (76), Expect = 0.37
Identities = 27/89 (30%), Positives = 49/89 (55%), Gaps = 2/89 (2%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLL 428
E+ EK + +E+ ++ + EELE + + E+ E++ + E+E KE K+ EE Q+
Sbjct: 167 EKYEKLSELLKEVIKEAKAKIEELEGQLSELLEDIEDLLEALEEELKELKKLEEIQEEQE 226
Query: 429 KKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+++ E++ EE RL E E E L +
Sbjct: 227 EEELEQEIEALEE--RLAELEEEKERLEE 253
Score = 32.8 bits (75), Expect = 0.52
Identities = 38/165 (23%), Positives = 76/165 (46%), Gaps = 5/165 (3%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
LR + E L + E + + ++ + +L +L Q+ +L E +EL+ EEE+E +L
Sbjct: 581 LRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAE-NELEEAEEELESEL 639
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+ + + I + E EE+ ++++ + E +ELE+
Sbjct: 640 EKLNLQAELEELLQAALEELEEKVEELEAEIRRELQRIENEEQLEEKLEELEQLEEELEQ 699
Query: 389 K----EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK 429
EEL K+ I++ E ++ +K + E+ +KE E+ +K L
Sbjct: 700 LREELEELLKKLGEIEQLIEELESRKAELEELKKELEKLEKALEL 744
Score = 32.4 bits (74), Expect = 0.71
Identities = 42/203 (20%), Positives = 84/203 (41%), Gaps = 21/203 (10%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKD-QIDLEQAQKLEERRLSELKIKEEEIE 325
L +E ++ EEE + EE + + ++++ + +L + ++ L + +EE+E
Sbjct: 473 KELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELE 532
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE 385
+KL ++ L++ +Q +EE ++ + +QE + E
Sbjct: 533 EKLEKLENL----------------LEELEELKEKLQLQQLKEELRQLEDRLQELKELLE 576
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
R KE++ E+ KKK +E +ER Q E L + E + E +
Sbjct: 577 ELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEE----LLQSLELSEAENELEEAE 632
Query: 446 LEQERLMEELRQQGTNEDTEEDL 468
E E +E+L Q E+ +
Sbjct: 633 EELESELEKLNLQAELEELLQAA 655
Score = 29.0 bits (65), Expect = 8.2
Identities = 40/170 (23%), Positives = 71/170 (41%), Gaps = 20/170 (11%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKR--KLKDQIDLEQAQK-LEERRLSELKIKEEEIEKK 327
++ E L + E + EE E+ ++++L+ + L + L EL+ K EE+E +
Sbjct: 610 SQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAE 669
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
+ ++ ++ + EEE E Q + E K+L
Sbjct: 670 IRR----------------ELQRIENEEQLEEKLEELEQLEEELE-QLREELEELLKKLG 712
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
E+L +E K E E +KK+ E+ EK + EE ++ L K D L
Sbjct: 713 EIEQLIEELESRKAELEELKKELEKLEKALELLEELREKLGKAGLRADIL 762
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains separated
by a hinge in the middle. The eukaryotic SMC proteins
form two kind of heterodimers: the SMC1/SMC3 and the
SMC2/SMC4 types. These heterodimers constitute an
essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 45.0 bits (106), Expect = 9e-05
Identities = 41/224 (18%), Positives = 86/224 (38%), Gaps = 9/224 (4%)
Query: 218 EKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLA 277
E+ K +++ + Q++ + K A + + K + +
Sbjct: 808 EEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERLEEEITKE 867
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
+ +E K E E++K K + + E+ ++ ++ E + EK+ +
Sbjct: 868 ELLQELLLKEEELEEQKLKDELESKEEKEKEEKKELEEESQKDNLLEEKENEIEERIAEE 927
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI 397
L +D + NKEEEE+ +R+ L KEEL +
Sbjct: 928 AIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRL---------LLAKEELGNVNL 978
Query: 398 RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
E E +++ ++E +++ EE +K LL++ EE + +E
Sbjct: 979 MAIAEFEEKEERYNKDELKKERLEEEKKELLREIIEETCQRFKE 1022
Score = 43.8 bits (103), Expect = 2e-04
Identities = 42/192 (21%), Positives = 86/192 (44%), Gaps = 13/192 (6%)
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
+E K E + L+ Q ++++ ++ + ELK + E E+ L
Sbjct: 677 LAEQELQEKAESELAKNEILRRQEEIKKKEQRIKE---ELKKLKLEKEELLADKVQEAQD 733
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI 397
E +L+Q + + ++ ++E+E++ + +K KEL +EE ++
Sbjct: 734 KINEEL-----KLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKL- 787
Query: 398 RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL--LEQERLMEEL 455
K E+E +K K QEE+ R +EE ++ ++E+ ++ EE+ + LE+ L +
Sbjct: 788 --KVEEEKEEKLKAQEEELRALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKE 845
Query: 456 RQQGTNEDTEED 467
Q+ EE
Sbjct: 846 EQKLEKLAEEEL 857
Score = 42.6 bits (100), Expect = 5e-04
Identities = 43/203 (21%), Positives = 86/203 (42%), Gaps = 9/203 (4%)
Query: 268 NLRAKFENLA-KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
L + ENLA + E K E + +++ K + +KLE + L + ++ +
Sbjct: 178 KLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEENLLYLDYLKLNE 237
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQN-SNKEEEEKEKQRMVQEEIKRKE 385
+ L E KQ I KE +E+EK++ +QEE + K
Sbjct: 238 ERIDLLQELLRDEQEE-----IESSKQELEKEEEILAQVLKENKEEEKEKKLQEE-ELKL 291
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR-LKAEEQAR 444
L ++EE K ++ E ++ ++K +E ++ ++ E + K++ EE E + +
Sbjct: 292 LAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIK 351
Query: 445 LLEQERLMEELRQQGTNEDTEED 467
+E E+L + + E+
Sbjct: 352 REAEEEEEEQLEKLQEKLEQLEE 374
Score = 42.3 bits (99), Expect = 6e-04
Identities = 52/213 (24%), Positives = 94/213 (44%), Gaps = 9/213 (4%)
Query: 263 HVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEE 322
+ LR + E + +E + EEE + LK+ + E+ +KL+E L L +EE
Sbjct: 241 DLLQELLRDEQEEIESSKQELEK---EEEILAQVLKENKEEEKEKKLQEEELKLLAKEEE 297
Query: 323 EIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIK 382
E++ +L L +K K+ ++ +E EE EK+ E +
Sbjct: 298 ELKSELL-----KLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKR 352
Query: 383 RKELERKEELEKEQIR-IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
E E +E+LEK Q + + E+E + KKK + E+ + ++ L K +EE K
Sbjct: 353 EAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLLL 412
Query: 442 QARLLEQERLMEELRQQGTNEDTEEDLGYTAVA 474
+ E++ L EE +++ + E+ T
Sbjct: 413 ELSEQEEDLLKEEKKEELKIVEELEESLETKQG 445
Score = 42.3 bits (99), Expect = 6e-04
Identities = 39/195 (20%), Positives = 84/195 (43%), Gaps = 7/195 (3%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
NL + + + ++++ + +LE+ +++ + L E K +E+E + +
Sbjct: 226 NLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQ 285
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
++ L E L++ D +E EKE +++ +E K KE
Sbjct: 286 ---EEELKLLAKEEEELKSELLKLERRKVDD----EEKLKESEKELKKLEKELKKEKEEI 338
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
+ E E +++ IK E E ++++ ++ +E+ EQ E + L KK + E A +
Sbjct: 339 EELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEEL 398
Query: 448 QERLMEELRQQGTNE 462
+ + EE + E
Sbjct: 399 ELKNEEEKEAKLLLE 413
Score = 41.5 bits (97), Expect = 0.001
Identities = 40/195 (20%), Positives = 90/195 (46%), Gaps = 3/195 (1%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
R + E A + E+ +K+ +K + ++ +L LEE +L ELK+KE+
Sbjct: 151 MKPERRLEIEEEAAGSREKRKKKERLKKLIEETENLAELII--DLEELKLQELKLKEQAK 208
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDG-IPIQNSNKEEEEKEKQRMVQEEIKR 383
+ L E L + D + +EE E KQ + +EE
Sbjct: 209 KALEYYQLKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEIL 268
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
++ ++ + E+++ +++EE+ + K+E+E K + E +K+ +++ +E + ++
Sbjct: 269 AQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLE 328
Query: 444 RLLEQERLMEELRQQ 458
+ L++E+ E ++
Sbjct: 329 KELKKEKEEIEELEK 343
Score = 39.6 bits (92), Expect = 0.004
Identities = 43/206 (20%), Positives = 85/206 (41%), Gaps = 18/206 (8%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKL-KDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
+ E + + E + + + KL +++IDL Q +E+ E +E E E+++
Sbjct: 208 KKALEYYQLKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEI 267
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+ + + + KEEEE + + + E K + E+
Sbjct: 268 LAQVLKENKEEEKEKKLQEEELKL-----------LAKEEEELKSELLKLERRKVDDEEK 316
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKE------RKEQEENQKLLLKKQQEEDRLKAEEQ 442
+E EKE ++++E + K++ E+ EKE ++E EE ++ L+K QE+ EE
Sbjct: 317 LKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEEEL 376
Query: 443 ARLLEQERLMEELRQQGTNEDTEEDL 468
+ E + E+ E
Sbjct: 377 LAKKKLESERLSSAAKLKEEELELKN 402
Score = 38.8 bits (90), Expect = 0.007
Identities = 20/102 (19%), Positives = 45/102 (44%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K ++++ +++++E EL E K Q +EQ + Q +++ + +EEN
Sbjct: 169 KRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEENLL 228
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
L + E+R+ ++ EQE + ++ E+
Sbjct: 229 YLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQ 270
Score = 35.3 bits (81), Expect = 0.085
Identities = 50/267 (18%), Positives = 107/267 (40%), Gaps = 19/267 (7%)
Query: 199 KFGIESDRQDKSAVGWDHVEKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPK 258
+ +K V K +K + ++ ++ K+ S E K
Sbjct: 253 EIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRK-- 310
Query: 259 PNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSE-L 317
K + + L K+ ++E + E EKE ++L+ + + E+ ++ + +L E L
Sbjct: 311 -VDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKL 369
Query: 318 KIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEK--QR 375
+ EEE+ K S+ S + K + ++ E E+E+ +
Sbjct: 370 EQLEEELLAKKKLESERLSSAAKL------KEEELELKNEEEKEAKLLLELSEQEEDLLK 423
Query: 376 MVQEEIKRKELERKEELEKEQIRIKEEQENIK-------KKKEQEEKERKEQEENQKLLL 428
++E + E +E LE +Q ++ EE+E ++ K K + +K +E + + L
Sbjct: 424 EEKKEELKIVEELEESLETKQGKLTEEKEELEKQALKLLKDKLELKKSEDLLKETKLVKL 483
Query: 429 KKQQEEDRLKAEEQARLLEQERLMEEL 455
+Q E L+ + + ++ + E L
Sbjct: 484 LEQLELLLLRQKLEEASQKESKAREGL 510
Score = 30.3 bits (68), Expect = 3.1
Identities = 21/109 (19%), Positives = 48/109 (44%), Gaps = 1/109 (0%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I E + ++ KRK+ ER ++L +E + E ++++ K QE K +++
Sbjct: 148 IAMMKPERRLEIEEEAAGSREKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQA 207
Query: 421 EENQKLLLKKQQEEDRLKAEEQARLL-EQERLMEELRQQGTNEDTEEDL 468
++ + K++ E + L E ++ L++ +E E +
Sbjct: 208 KKALEYYQLKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIES 256
>gnl|CDD|212920 cd11987, SH3_Intersectin1_1, First Src homology 3 domain (or SH3A)
of Intersectin-1. Intersectin-1 (ITSN1) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN1 localizes in membranous organelles, CCPs, the
Golgi complex, and may be involved in the cell membrane
trafficking system. It exists in alternatively spliced
short and long isoforms. The short isoform contains two
Eps15 homology domains (EH1 and EH2), a coiled-coil
region and five SH3 domains (SH3A-E), while the long
isoform, in addition, contains RhoGEF (also called
Dbl-homologous or DH), Pleckstrin homology (PH) and C2
domains. The first SH3 domain (or SH3A) of ITSN1 has
been shown to bind many proteins including Sos1,
dynamin1/2, CIN85, c-Cbl, PI3K-C2, SHIP2, N-WASP, and
CdGAP, 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 = 55
Score = 40.0 bits (93), Expect = 1e-04
Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 10/53 (18%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE------GWWRGYCHGQYGLFPANY 520
ALY ++A + DEI+ P DI+ M+DE GW G G+ G FPANY
Sbjct: 4 ALYPFEARSHDEITIQPGDIV----MVDESQTGEPGWLGGELKGKTGWFPANY 52
>gnl|CDD|212707 cd11773, SH3_Sla1p_1, First Src Homology 3 domain of the fungal
endocytic adaptor protein Sla1p. Sla1p facilitates
endocytosis by playing a role as an adaptor protein in
coupling components of the actin cytoskeleton to the
endocytic machinery. It interacts with Abp1p, Las17p and
Pan1p, which are activator proteins of actin-related
protein 2/3 (Arp2/3). Sla1p contains multiple domains
including three SH3 domains, a SAM (sterile alpha motif)
domain, and a Sla1 homology domain 1 (SHD1), which binds
to the NPFXD motif that is found in many integral
membrane proteins such as the Golgi-localized
Arf-binding protein Lsb5p and the P4-ATPases, Drs2p and
Dnf1p. 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 = 39.7 bits (93), Expect = 1e-04
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWR-------GYCHGQYGLFPANY 520
ALYDY+ +DE++ DDI+ +E D+ WW+ GL PA Y
Sbjct: 4 ALYDYEPQTEDELTIQEDDILYLLEKSDDDWWKVKLKVNSSDDDEPVGLVPATY 57
>gnl|CDD|212986 cd12053, SH3_CD2AP_1, First Src Homology 3 domain (SH3A) 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 first SH3 domain
(SH3A) of CD2AP. SH3A binds to the PXXXPR motif present
in c-Cbl and the cytoplasmic domain of cell adhesion
protein CD2. Its interaction with CD2 anchors CD2 at
sites of cell contact. 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 = 39.8 bits (93), Expect = 1e-04
Identities = 19/47 (40%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 476 YDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYV 521
YDY A +DE++ +II N++ ++E GW G +G+ G+FP N+V
Sbjct: 6 YDYDAVHEDELTIRVGEIIRNVKKLEEEGWLEGELNGRRGMFPDNFV 52
>gnl|CDD|212880 cd11947, SH3_GRAP2_N, N-terminal Src homology 3 domain of
GRB2-related adaptor protein 2. GRAP2 is also called
GADS (GRB2-related adapter downstream of Shc), GrpL,
GRB2L, Mona, or GRID (Grb2-related protein with insert
domain). It is expressed specifically in the
hematopoietic system. It 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. It also have roles in antigen-receptor and
tyrosine kinase mediated signaling. GRAP2 is unique from
other GRB2-like adaptor proteins in that it can be
regulated by caspase cleavage. It 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 = 52
Score = 39.4 bits (92), Expect = 1e-04
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A +D+ AS +DE+SF D++ I D+ W++ +G+ G P N+V
Sbjct: 2 ARGKFDFTASGEDELSFKKGDVL-KILSSDDIWFKAELNGEEGYVPKNFV 50
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 44.7 bits (106), Expect = 1e-04
Identities = 51/195 (26%), Positives = 92/195 (47%), Gaps = 11/195 (5%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEER-RLSELKIKEEEIEK 326
NL + E L Q EE K E +E +L+++++ + + L EL+ + EE+E
Sbjct: 313 NLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELES 372
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
+L + + ++ V + Q S I+ E E +R ++ + L
Sbjct: 373 RLEELEEQLETLRSK-----VAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELL 427
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ--EENQKLLLKKQQEEDRLKAEE--- 441
++ EE E ++++ + E+ + ++ QEE ER E+ EE ++ L + +Q D + E
Sbjct: 428 KKLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQALDAAERELAQL 487
Query: 442 QARLLEQERLMEELR 456
QARL ERL E L
Sbjct: 488 QARLDSLERLQENLE 502
Score = 44.3 bits (105), Expect = 1e-04
Identities = 40/217 (18%), Positives = 83/217 (38%), Gaps = 29/217 (13%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIEK 326
L K E L ++ E + +E KE +L+++++ + + E R++S L+ +E
Sbjct: 681 ELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEA 740
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
++ + I +KE E E + EE +
Sbjct: 741 EVEQLEE--------------------------RIAQLSKELTELEAEIEELEERLEEAE 774
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
E E E E ++ + E +K++ + + E LL ++ + R+
Sbjct: 775 EELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIA 834
Query: 447 EQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASAD 483
ER +E+L +Q E+ ED+ A + + + +
Sbjct: 835 ATERRLEDLEEQ--IEELSEDIESLAAEIEELEELIE 869
Score = 43.5 bits (103), Expect = 3e-04
Identities = 45/206 (21%), Positives = 88/206 (42%), Gaps = 39/206 (18%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIEK 326
L + L +Q + + + E++ +L+ Q++ +++ E L+EL+ K EE+++
Sbjct: 292 ALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKE 351
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
+L ++ +E E + ++ + E ++L
Sbjct: 352 ELES------------------------------LEAELEELEAELEELESRLEELEEQL 381
Query: 387 ERKE----ELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQ 442
E +LE + + E E ++ + E+ E R+ ++ + LLKK +E + E Q
Sbjct: 382 ETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAE--LKELQ 439
Query: 443 ARLLEQERLMEELRQQGTNEDTEEDL 468
A L E E +EEL Q E EE L
Sbjct: 440 AELEELEEELEEL--QEELERLEEAL 463
Score = 42.4 bits (100), Expect = 6e-04
Identities = 41/196 (20%), Positives = 86/196 (43%), Gaps = 12/196 (6%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
+ L A+ E L ++ + S++ +E E E +L+++ LE+A++ +E++ E +IE+
Sbjct: 736 ARLEAEVEQLEERIAQLSKELTELEAEIEELEER--LEEAEEELAEAEAEIEELEAQIEQ 793
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQP----TSDGIPIQNSNKEEEEKEKQRMVQEEIK 382
+ +++ L + +++ + E++ EE
Sbjct: 794 LKEELK------ALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQI 847
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQ 442
+ E E L E ++E E ++ + E ER EE LL + +E E +
Sbjct: 848 EELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELE 907
Query: 443 ARLLEQERLMEELRQQ 458
++ E R +EELR++
Sbjct: 908 SKRSELRRELEELREK 923
Score = 41.6 bits (98), Expect = 0.001
Identities = 40/190 (21%), Positives = 76/190 (40%), Gaps = 46/190 (24%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
LR + E L ++ +E + E E ++L + LE+ +SEL+ + EE++K+L
Sbjct: 237 LREELEELQEELKEAEEELEELTAELQEL--EEKLEEL----RLEVSELEEEIEELQKEL 290
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
E E+Q+ + E R
Sbjct: 291 ---------------------------------YALANEISRLEQQKQILRE-------R 310
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
LE++ ++ + E ++ K ++ +E E EE + L ++ + + E +A L E
Sbjct: 311 LANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEEL 370
Query: 449 ERLMEELRQQ 458
E +EEL +Q
Sbjct: 371 ESRLEELEEQ 380
Score = 39.3 bits (92), Expect = 0.005
Identities = 43/205 (20%), Positives = 84/205 (40%), Gaps = 21/205 (10%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-LEQAQKLEERRLSELKIKEEEIE 325
L + E L K+ EE SR+ S K+ +L+ +++ LE+ + L+EL+ + EE+E
Sbjct: 708 EELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELE 767
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE------ 379
++L + E + + + + + E E + +
Sbjct: 768 ERLEEAEE-------ELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAA 820
Query: 380 --EIKRKELERKEELEKEQI-----RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
+ + LER+ + ++ +I+E E+I+ + E+ + EE + L
Sbjct: 821 NLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLN 880
Query: 433 EEDRLKAEEQARLLEQERLMEELRQ 457
E L+ E E L EELR+
Sbjct: 881 ERASLEEALALLRSELEELSEELRE 905
Score = 36.6 bits (85), Expect = 0.042
Identities = 42/233 (18%), Positives = 87/233 (37%), Gaps = 28/233 (12%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID--LEQAQKLEER------RLSELK 318
+ L A+ E L ++ EE + +E E E +L+ QI+ E+ + L E L+ L
Sbjct: 757 TELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLN 816
Query: 319 IKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ 378
+ + ++L +TE ++ +++ E+ E + +
Sbjct: 817 EEAANLRERLESLERR--IAATERRLEDLEEQIEE-----------LSEDIESLAAEIEE 863
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
E +ELE ELE +E + + + E+ +E E + + ++E + L+
Sbjct: 864 LEELIEELE--SELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELR 921
Query: 439 AE-EQARLLEQERLMEELRQQGT----NEDTEEDLGYTAVALYDYQASADDEI 486
+ Q L + + Q T E+ + D + A +
Sbjct: 922 EKLAQLELRLEGLEVRIDNLQERLSEEYSLTLEEAEALENKIEDDEEEARRRL 974
>gnl|CDD|212932 cd11999, SH3_PACSIN_like, Src homology 3 domain of an unknown
subfamily of proteins with similarity to 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 = 56
Score = 39.5 bits (92), Expect = 1e-04
Identities = 22/50 (44%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCH-GQYGLFPANYV 521
A+YDY DE+SF + + +E DE GW +G G GL+PANYV
Sbjct: 6 AVYDYTGQEPDELSFKAGEELLKVEDEDEQGWCKGVTDGGAVGLYPANYV 55
>gnl|CDD|212940 cd12007, SH3_Yes, Src homology 3 domain of Yes Protein Tyrosine
Kinase. Yes (or c-Yes) is a member of the Src subfamily
of proteins, which are cytoplasmic (or non-receptor)
PTKs. c-Yes kinase is the cellular homolog of the
oncogenic protein (v-Yes) encoded by the Yamaguchi 73
and Esh sarcoma viruses. It displays functional overlap
with other Src subfamily members, particularly Src. It
also shows some unique functions such as binding to
occludins, transmembrane proteins that regulate
extracellular interactions in tight junctions. Yes also
associates with a number of proteins in different cell
types that Src does not interact with, like JAK2 and
gp130 in pre-adipocytes, and Pyk2 in treated pulmonary
vein endothelial cells. Although the biological function
of Yes remains unclear, it appears to have a role in
regulating cell-cell interactions and vesicle
trafficking in polarized cells. Src kinases 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). 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 = 39.6 bits (92), Expect = 1e-04
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWW--RGYCHGQYGLFPANYVS 522
VALYDY+A +++SF + I + WW R G+ G P+NYV+
Sbjct: 4 VALYDYEARTTEDLSFKKGERFQIINNTEGDWWEARSIATGKNGYIPSNYVA 55
>gnl|CDD|212879 cd11946, SH3_GRB2_N, N-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. Its N-terminal SH3
domain 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 = 56
Score = 39.2 bits (91), Expect = 2e-04
Identities = 21/54 (38%), Positives = 36/54 (66%), Gaps = 1/54 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNI-EMIDEGWWRGYCHGQYGLFPANYVSLQ 524
A+A YD++A+ADDE+SF DI+ + E D+ W++ +G+ G P NY+ ++
Sbjct: 3 AIAKYDFKATADDELSFKRGDILKVLNEECDQNWYKAELNGKDGFIPKNYIEMK 56
>gnl|CDD|212862 cd11929, SH3_SH3RF2_1, First Src Homology 3 domain of SH3 domain
containing ring finger 2. SH3RF2 is also called POSHER
(POSH-eliminating RING protein) or HEPP1 (heart protein
phosphatase 1-binding protein). It acts as an
anti-apoptotic regulator of the JNK pathway by binding
to and promoting the degradation of SH3RF1 (or POSH), a
scaffold protein that is required for pro-apoptotic JNK
activation. It may also play a role in cardiac functions
together with protein phosphatase 1. SH3RF2 contains an
N-terminal RING finger domain and three SH3 domains.
This model represents the first SH3 domain, located at
the N-terminal half, of SH3RF2. 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 = 39.2 bits (91), Expect = 2e-04
Identities = 17/52 (32%), Positives = 29/52 (55%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL +Y+ ++ F+ D+I +DE W+ G +G G+FPA+ V +
Sbjct: 3 AKALCNYRGHNPGDLKFNKGDVILLRRQLDENWYLGEINGVSGIFPASSVEV 54
>gnl|CDD|212945 cd12012, SH3_RIM-BP_2, Second Src homology 3 domain of
Rab3-interacting molecules (RIMs) binding proteins.
RIMs binding proteins (RBPs, RIM-BPs) associate with
calcium channels present in photoreceptors, neurons, and
hair cells; they interact simultaneously with specific
calcium channel subunits, and active zone proteins, RIM1
and RIM2. RIMs are part of the matrix at the presynaptic
active zone and are associated with synaptic vesicles
through their interaction with the small GTPase Rab3.
RIM-BPs play a role in regulating synaptic transmission
by serving as adaptors and linking calcium channels with
the synaptic vesicle release machinery. RIM-BPs contain
three SH3 domains and two to three fibronectin III
repeats. Invertebrates contain one, while vertebrates
contain at least two RIM-BPs, RIM-BP1 and RIM-BP2.
RIM-BP1 is also called peripheral-type benzodiazapine
receptor associated protein 1 (PRAX-1). Mammals contain
a third protein, RIM-BP3. RIM-BP1 and RIM-BP2 are
predominantly expressed in the brain where they display
overlapping but distinct expression patterns, while
RIM-BP3 is almost exclusively expressed in the testis
and is essential in spermiogenesis. The SH3 domains of
RIM-BPs bind to the PxxP motifs of RIM1, RIM2, and
L-type (alpha1D) and N-type (alpha1B) calcium channel
subunits. 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 = 62
Score = 39.2 bits (92), Expect = 2e-04
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 9/59 (15%)
Query: 473 VALYDY--------QASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYVS 522
VAL+DY +A++E+ F +I D G++ G +G+ GL P N VS
Sbjct: 3 VALFDYDPLTMSPNPDAAEEELPFKEGQLIKVYGDKDADGFYLGEINGRRGLVPCNMVS 61
>gnl|CDD|212845 cd11912, SH3_Bzz1_1, First Src Homology 3 domain of Bzz1 and
similar domains. Bzz1 (or Bzz1p) is a
WASP/Las17-interacting protein involved in endocytosis
and trafficking to the vacuole. It physically interacts
with type I myosins and functions in the early steps of
endocytosis. Together with other proteins, it induces
membrane scission in yeast. Bzz1 contains an N-terminal
F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs), a
central coiled-coil, and two C-terminal SH3 domains.
This model represents the first 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 = 55
Score = 39.1 bits (92), Expect = 2e-04
Identities = 23/57 (40%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMID-EGWWR---GYCHGQYGLFPANYVSL 523
TA LYDY AS DDE+S + +T +E D GW + G G+ GL P +Y+ +
Sbjct: 1 TAKVLYDYTASGDDEVSISEGEEVTVLEPDDGSGWTKVRNGS--GEEGLVPTSYIEI 55
>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain. This is a family of proteins of
approximately 300 residues, found in plants and
vertebrates. They contain a highly conserved DDRGK
motif.
Length = 189
Score = 42.0 bits (99), Expect = 2e-04
Identities = 28/66 (42%), Positives = 44/66 (66%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
KR +LE K+ +++ +EE+E KK +E+ E ERKE+EE ++ KK++EE+R +
Sbjct: 4 GAKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKE 63
Query: 439 AEEQAR 444
EEQAR
Sbjct: 64 REEQAR 69
Score = 41.2 bits (97), Expect = 4e-04
Identities = 33/91 (36%), Positives = 58/91 (63%), Gaps = 7/91 (7%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ + EEE+ ++R EE + E + +EELE+E+ + KEE+E +KE+EE+ RKEQE
Sbjct: 18 RQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEE----RKEREEQARKEQE 73
Query: 422 ENQKLLLK---KQQEEDRLKAEEQARLLEQE 449
E +KL +++ D+L A+E++ L ++
Sbjct: 74 EYEKLKSSFVVEEEGTDKLSADEESNELLED 104
>gnl|CDD|212798 cd11864, SH3_PEX13_eumet, Src Homology 3 domain of eumetazoan
Peroxisomal biogenesis factor 13. PEX13 is a peroxin
and is required for protein import into the peroxisomal
matrix and membrane. It is an integral membrane protein
that is essential for the localization of PEX14 and the
import of proteins containing the peroxisome matrix
targeting signals, PTS1 and PTS2. Mutations of the PEX13
gene in humans lead to a wide range of peroxisome
biogenesis disorders (PBDs), the most severe of which is
known as Zellweger syndrome (ZS), a severe multisystem
disorder characterized by hypotonia, psychomotor
retardation, and neuronal migration defects. PEX13
contains two transmembrane regions 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 = 58
Score = 38.8 bits (91), Expect = 2e-04
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 5/56 (8%)
Query: 471 TAVALYDYQASADDEISFDPDDIIT----NIEMIDEGWWRGYCHGQ-YGLFPANYV 521
A A YD+ A ++DE+SF D + ++ GW GQ GL PANYV
Sbjct: 1 VARAEYDFVAESEDELSFRAGDKLRLAPKELQPRVRGWLLATVDGQKIGLVPANYV 56
>gnl|CDD|212930 cd11997, SH3_PACSIN3, Src homology 3 domain of Protein kinase C and
Casein kinase Substrate in Neurons 3 (PACSIN3). PACSIN
3 or Syndapin III (Synaptic dynamin-associated protein
III) is expressed ubiquitously and regulates glucose
uptake in adipocytes through its role in GLUT1
trafficking. It also modulates the subcellular
localization and stimulus-specific function of the
cation channel TRPV4. 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 = 38.8 bits (90), Expect = 3e-04
Identities = 23/50 (46%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE-GWWRG-YCHGQYGLFPANYV 521
ALYDY DE+SF + + I DE GW +G G+ GL+PANYV
Sbjct: 6 ALYDYTGQEADELSFKAGEELLKIGEEDEQGWCKGRLLSGRIGLYPANYV 55
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 43.4 bits (103), Expect = 3e-04
Identities = 43/246 (17%), Positives = 83/246 (33%), Gaps = 52/246 (21%)
Query: 236 SSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKR 295
+K+ + + + K N + E L K EEE + EKE +
Sbjct: 52 LTKLSEALDKLRSYLPKLNPLREEKKKVSV-----KSLEELIKDVEEEL---EKIEKEIK 103
Query: 296 KLKDQIDLEQAQKLEERRLSELKIKEEEIE---------KKLNGHSDV----------PL 336
+L+++I +LE + EL+ + E +E L G V L
Sbjct: 104 ELEEEI-----SELENE-IKELEQEIERLEPWGNFDLDLSLLLGFKYVSVFVGTVPEDKL 157
Query: 337 SPSTETPPVPVKSILKQ-PTSDGIPIQNSNKEEEEKEKQ--------------RMVQEEI 381
V + + + + +E E++ E I
Sbjct: 158 EELKLESDVENVEYISTDKGYVYVVVVVLKELSDEVEEELKKLGFERLELEEEGTPSELI 217
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
+ + E EE+EKE+ + EE + + KK +E E E + ++ + + +
Sbjct: 218 REIK-EELEEIEKERESLLEELKELAKKYLEELLALYEYLEIEL---ERAEALSKFLKTD 273
Query: 442 QARLLE 447
+ +E
Sbjct: 274 KTFAIE 279
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 43.2 bits (102), Expect = 3e-04
Identities = 28/112 (25%), Positives = 59/112 (52%), Gaps = 4/112 (3%)
Query: 352 KQPTSDGIPIQNSNKEEEEKEKQRMVQE-EIKRKELERK-EELEKEQIRIKEEQENIKKK 409
K+ T + + + E+ K+ + V+ E + EL+R+ EEL++E +++ E E +++
Sbjct: 406 KEGTEEEERREITVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRRE 465
Query: 410 KEQEEKERKEQEENQKLL--LKKQQEEDRLKAEEQARLLEQERLMEELRQQG 459
+ ++ +E + + L+K+ EE + + EE R L + R M +L G
Sbjct: 466 VRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELRKMRKLELSG 517
Score = 34.7 bits (80), Expect = 0.15
Identities = 36/196 (18%), Positives = 81/196 (41%), Gaps = 23/196 (11%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
+ K E + ++ E + E+ K + L +A LS++K +E EK+
Sbjct: 357 YKPKLEKVERKLPELG-IWKDVERIKALVIRGYPLAEA-------LSKVKEEERPREKEG 408
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKR----K 384
+ E ++ +++ +NS + E +E +R +++ +
Sbjct: 409 TEEEERREITVYEKRIKKLEETVERLE-----EENSELKRELEELKREIEKLESELERFR 463
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR------LK 438
R + + +IR ++ + +K+ +E+K+R E+ E + L+K ++ + +K
Sbjct: 464 REVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELRKMRKLELSGKGTPVK 523
Query: 439 AEEQARLLEQERLMEE 454
E+ L E EE
Sbjct: 524 VVEKLTLEAIEEAEEE 539
Score = 32.0 bits (73), Expect = 0.83
Identities = 23/93 (24%), Positives = 52/93 (55%), Gaps = 1/93 (1%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+ E++ + + EI E +R ++LE+ R++EE +K++ E+ ++E ++ E +
Sbjct: 402 RPREKEGTEEEERREITVYE-KRIKKLEETVERLEEENSELKRELEELKREIEKLESELE 460
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
++ +++ R E +AR ERL +EL ++
Sbjct: 461 RFRREVRDKVRKDREIRARDRRIERLEKELEEK 493
Score = 31.2 bits (71), Expect = 1.6
Identities = 39/165 (23%), Positives = 71/165 (43%), Gaps = 14/165 (8%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQK------LEERRLSELKIK 320
+ E L K+ EE+ ++ E E++ +L+ LE + K +E+ L ++
Sbjct: 477 RARDRRIERLEKELEEKKKRVEELERKLAELRKMRKLELSGKGTPVKVVEKLTLEAIEEA 536
Query: 321 EEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEE 380
EEE G + PS + I K+P + + S+ EE K +
Sbjct: 537 EEEY-GIKEGDVILVEDPSGGGARTAEELIDKKPRAIIRGEEMSHAAAEEFFKNEIPVLP 595
Query: 381 IKRKELERKEEL---EKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
++ R +E + E++R E + KK EE+ER+++EE
Sbjct: 596 EGDVQIIRLDEFAVVDSEELRRAIE----EWKKRFEERERRQKEE 636
Score = 30.1 bits (68), Expect = 3.9
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 9/83 (10%)
Query: 375 RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
V+EE + +E E EE E+ +I + E++ K+ EE + +EEN +L ++E
Sbjct: 395 SKVKEEERPREKEGTEEEERREITVYEKRI-----KKLEETVERLEEENSEL----KREL 445
Query: 435 DRLKAEEQARLLEQERLMEELRQ 457
+ LK E + E ER E+R
Sbjct: 446 EELKREIEKLESELERFRREVRD 468
Score = 29.3 bits (66), Expect = 6.9
Identities = 24/101 (23%), Positives = 48/101 (47%), Gaps = 13/101 (12%)
Query: 371 KEKQRMVQEEIKRKELERKEELEK----------EQIRIKEEQENIKKKKEQEEKERKEQ 420
K K V+ ++ + + E K E + +E+E ++K+ EE+ER+E
Sbjct: 358 KPKLEKVERKLPELGIWKDVERIKALVIRGYPLAEALSKVKEEERPREKEGTEEEERREI 417
Query: 421 EENQKLLLKKQQEEDRLKAEE---QARLLEQERLMEELRQQ 458
+K + K ++ +RL+ E + L E +R +E+L +
Sbjct: 418 TVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESE 458
>gnl|CDD|212816 cd11883, SH3_Sdc25, Src Homology 3 domain of Sdc25/Cdc25 guanine
nucleotide exchange factors. This subfamily is composed
of the Saccharomyces cerevisiae guanine nucleotide
exchange factors (GEFs) Sdc25 and Cdc25, and similar
proteins. These GEFs regulate Ras by stimulating the
GDP/GTP exchange on Ras. Cdc25 is involved in the
Ras/PKA pathway that plays an important role in the
regulation of metabolism, stress responses, and
proliferation, depending on available nutrients and
conditions. Proteins in this subfamily contain an
N-terminal SH3 domain as well as REM (Ras exchanger
motif) and RasGEF domains at the C-terminus. 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 = 38.4 bits (90), Expect = 3e-04
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRG--YCHGQY---GLFPANY 520
VALYD+ + +++SF DII + GWW G G FP+NY
Sbjct: 1 VVVALYDFTPKSKNQLSFKAGDIIYVLNKDPSGWWDGVIISSSGKVKRGWFPSNY 55
>gnl|CDD|212827 cd11894, SH3_FCHSD2_2, Second Src Homology 3 domain of FCH and
double SH3 domains protein 2. FCHSD2 has a domain
structure consisting of an N-terminal F-BAR (FES-CIP4
Homology and Bin/Amphiphysin/Rvs), two SH3, and
C-terminal proline-rich domains. It has only been
characterized in silico and its function is unknown. 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 = 38.4 bits (89), Expect = 4e-04
Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 474 ALYDYQASADDEISFDPDDIITNIE---MIDEGWWRGYCHGQYGLFPA 518
ALYDY+ DDE+SF II + D+G+W G +G+ G+FP+
Sbjct: 4 ALYDYEGQTDDELSFPEGAIIRILNKENQDDDGFWEGEFNGRIGVFPS 51
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 43.1 bits (102), Expect = 4e-04
Identities = 38/196 (19%), Positives = 76/196 (38%), Gaps = 33/196 (16%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
L+ + E L + ++ + E ++L+ +I+ + L +L+ ++E +L
Sbjct: 735 LKERLEELEEDLSSLEQEIENVKSELKELEARIEELEED------LHKLEEALNDLEARL 788
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+ + I + +K EEE + EI++K
Sbjct: 789 SHS--------------RIPEIQAE----------LSKLEEEVSRIEARLREIEQKLNRL 824
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE---QARL 445
E E + I+E QE KEQ + KE E + ++E + L+A ++RL
Sbjct: 825 TLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRL 884
Query: 446 LEQERLMEELRQQGTN 461
+ ++ +EL Q
Sbjct: 885 GDLKKERDELEAQLRE 900
Score = 40.8 bits (96), Expect = 0.002
Identities = 37/153 (24%), Positives = 78/153 (50%), Gaps = 7/153 (4%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEK 326
L A +L + + ++R E E + R+L+ +I +LE + + +RLSELK K E +E+
Sbjct: 872 ELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEE 931
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
+L+ D ++ +Q +E E M+ + + L
Sbjct: 932 ELSEIEDPKGEDEEIPEEELSLEDVQAE------LQRVEEEIRALEPVNMLAIQEYEEVL 985
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
+R +EL++++ +++EE++ I ++ E+ EK+++E
Sbjct: 986 KRLDELKEKRAKLEEERKAILERIEEYEKKKRE 1018
Score = 39.3 bits (92), Expect = 0.006
Identities = 36/198 (18%), Positives = 89/198 (44%), Gaps = 18/198 (9%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
N++++ + L + EE + E+ L+ ++ + +++ LS+L+ + IE +
Sbjct: 755 NVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSRIPEIQ-AELSKLEEEVSRIEAR 813
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
L + L+ T K L++ + + KE+ + ++ + K++ELE
Sbjct: 814 LR-EIEQKLNRLT-----LEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELE 867
Query: 388 RKEE--------LEKEQIRIKEEQENIKKKKEQEEKERKEQE---ENQKLLLKKQQEEDR 436
+ E LE +K+E++ ++ + + E++ +E E E ++ L + + +
Sbjct: 868 EELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLE 927
Query: 437 LKAEEQARLLEQERLMEE 454
EE + + + + EE
Sbjct: 928 ALEEELSEIEDPKGEDEE 945
Score = 37.4 bits (87), Expect = 0.021
Identities = 47/205 (22%), Positives = 86/205 (41%), Gaps = 31/205 (15%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
L + E L +Q E R+ + E+E KL E+ +LE+R L E++ EE+ KK+
Sbjct: 228 LLKEKEALERQKEAIERQLASLEEELEKLT-----EEISELEKR-LEEIEQLLEELNKKI 281
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
E + VK + + ++ I + E+E+E + + K +
Sbjct: 282 K--------DLGEEEQLRVKEKIGELEAE-IASLERSIAEKERELEDAEERLAKLEAEID 332
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL----------------LLKKQQ 432
K E E++ + E+E ++ K EE ++E L ++
Sbjct: 333 KLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYRE 392
Query: 433 EEDRLKAEEQARLLEQERLMEELRQ 457
+ ++LK E E +RL EEL++
Sbjct: 393 KLEKLKREINELKRELDRLQEELQR 417
Score = 36.6 bits (85), Expect = 0.035
Identities = 33/185 (17%), Positives = 88/185 (47%), Gaps = 23/185 (12%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEE--------RRLSELK 318
L A+ E L ++ EEE ++R + +E +LK++++ +A+ E L + +
Sbjct: 332 DKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYR 391
Query: 319 IKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ 378
K E++++++N + ++ L++ + + + + E K + +
Sbjct: 392 EKLEKLKREINEL---------KRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEE 442
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
+E K E++++E ++++ ++ K +++ ++E + +K L K Q+E +
Sbjct: 443 KEDKALEIKKQEW------KLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAE 496
Query: 439 AEEQA 443
A+ +A
Sbjct: 497 AQARA 501
Score = 35.8 bits (83), Expect = 0.062
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 4/94 (4%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERK-EELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+S + E + + R+ + + + RK E+EKE ++++E+E K K+ EE E
Sbjct: 691 SSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEE--KLKERLEELEEDLSS 748
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
Q++ K E L+A + + +L E L
Sbjct: 749 LEQEIENVK-SELKELEARIEELEEDLHKLEEAL 781
Score = 32.7 bits (75), Expect = 0.55
Identities = 17/99 (17%), Positives = 44/99 (44%), Gaps = 8/99 (8%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLL 428
E + + ++E + E L++E ++ E I+ + ++ +E + +
Sbjct: 671 SEPAELQRLRERL--------EGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIE 722
Query: 429 KKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
K+ ++ ++ + + + RL E E + L Q+ N +E
Sbjct: 723 KEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELK 761
Score = 32.0 bits (73), Expect = 1.0
Identities = 22/88 (25%), Positives = 47/88 (53%), Gaps = 4/88 (4%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
EEE++++ + EE E KEELE + ++E + + +++ + R++ E+ ++ +
Sbjct: 346 EEERKRRDKLTEEYA----ELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREI 401
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEEL 455
+ ++E DRL+ E Q E L +
Sbjct: 402 NELKRELDRLQEELQRLSEELADLNAAI 429
Score = 31.6 bits (72), Expect = 1.3
Identities = 33/191 (17%), Positives = 77/191 (40%), Gaps = 38/191 (19%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIE 325
S + A+ + ++ + ++ EKE ++L++Q + Q E+ + L K+EE+E
Sbjct: 808 SRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELE 867
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE 385
++L + + E + ++K++
Sbjct: 868 EEL---------------------------------EELEAALRDLESRL---GDLKKER 891
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
E + +L + + +I+E + I+KK+++ E K + E + L + ++ E
Sbjct: 892 DELEAQLRELERKIEELEAQIEKKRKR-LSELKAKLEALEEELSEIEDPKGEDEEIPEEE 950
Query: 446 LEQERLMEELR 456
L E + EL+
Sbjct: 951 LSLEDVQAELQ 961
Score = 30.8 bits (70), Expect = 2.2
Identities = 36/202 (17%), Positives = 84/202 (41%), Gaps = 21/202 (10%)
Query: 263 HVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-----LEQAQKLEERRLSEL 317
+ ++L ++ E+ + ++ E E KL +I+ +E+ +K ++ E
Sbjct: 300 EAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEY 359
Query: 318 KIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMV 377
+EE+E +V +K ++ ++ +E E +++
Sbjct: 360 AELKEELEDLRAELEEV--DKEFAETRDELKDYREK-------LEKLKREINELKRELDR 410
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
+E ++ E +L I+ + ++++KE + E K+QE +Q D
Sbjct: 411 LQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWK-----LEQLAADLS 465
Query: 438 KAEEQARLLEQE--RLMEELRQ 457
K E++ L++E R+ +EL +
Sbjct: 466 KYEQELYDLKEEYDRVEKELSK 487
>gnl|CDD|212802 cd11869, SH3_p40phox, Src Homology 3 domain of the p40phox subunit
of NADPH oxidase. p40phox, also called Neutrophil
cytosol factor 4 (NCF-4), is a cytosolic subunit of the
phagocytic NADPH oxidase complex (also called Nox2 or
gp91phox) which plays a crucial role in the cellular
response to bacterial infection. NADPH oxidase catalyzes
the transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p40phox positively regulates NADPH oxidase in
both phosphatidylinositol-3-phosphate (PI3P)-dependent
and PI3P-independent manner. It contains an N-terminal
PX domain, a central SH3 domain, and a C-terminal PB1
domain that interacts with p67phox. The SH3 domain of
p40phox binds to canonical polyproline and noncanonical
motifs at the C-terminus of p47phox. 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 = 38.2 bits (89), Expect = 4e-04
Identities = 15/52 (28%), Positives = 30/52 (57%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL+D+ ++ E++F D+I + +++ W G G G+FP ++V +
Sbjct: 2 AEALFDFTGNSKLELNFKAGDVIFLLSRVNKDWLEGTVRGATGIFPLSFVKI 53
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 42.8 bits (101), Expect = 4e-04
Identities = 22/95 (23%), Positives = 47/95 (49%)
Query: 372 EKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQ 431
K + VQ + +R + + KE+LE++ + E I+++K++++ +E + + L++Q
Sbjct: 373 GKHQDVQRKYERLKQKIKEQLERDLEKNNERLAAIREEKDRQKAAIEEDLQALESQLRQQ 432
Query: 432 QEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
E +L+ E+ LE + R EE
Sbjct: 433 LEAGKLEFNEEEYELELRLGRLKQRLDSATATPEE 467
Score = 40.1 bits (94), Expect = 0.003
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 16/138 (11%)
Query: 362 QNSNKEEEEKEKQRMVQ-EEIKRKELERKEELEK---EQIRIKEEQENIKKKKEQEEKER 417
K+ EE+ Q + EE KR E E + L++ + R++ EQ+++K K E ER
Sbjct: 620 VAKQKQAEEQLVQANAELEEQKRAEAEARTALKQARLDLQRLQNEQQSLKDKLELAIAER 679
Query: 418 KEQEENQ--------KLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLG 469
K+Q E Q K LL++QQ + E Q + + L
Sbjct: 680 KQQAETQLRQLDAQLKQLLEQQQA---FLEALKDDFRELRTERLAKWQV-VEGELDNQLA 735
Query: 470 YTAVALYDYQASADDEIS 487
+ A+ + A +
Sbjct: 736 QLSAAIEAARTQAKARLK 753
Score = 32.0 bits (73), Expect = 1.0
Identities = 40/203 (19%), Positives = 79/203 (38%), Gaps = 33/203 (16%)
Query: 268 NLRAKFENLAKQTE--EESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIE 325
++R++ E + + + + + + E+ K K I + + LE+ I+EE+
Sbjct: 356 SIRSELEEVEARLDALTGKHQDVQRKYERLKQK--IKEQLERDLEKNNERLAAIREEKDR 413
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEK--------EKQRMV 377
+K D+ L+ + EEE KQR+
Sbjct: 414 QKAAIEEDL--------------QALESQLRQQLEAGKLEFNEEEYELELRLGRLKQRLD 459
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
+ELE+ E ++ + +EEQE + EQ + E ++ L K++ E
Sbjct: 460 SATATPEELEQLEINDEALEKAQEEQEQAEANVEQLQSELRQ-------LRKRRDEALEA 512
Query: 438 KAEEQARLLEQERLMEELRQQGT 460
+ RLL+ + ++EL Q +
Sbjct: 513 LQRAERRLLQLRQALDELELQLS 535
Score = 30.4 bits (69), Expect = 3.3
Identities = 28/200 (14%), Positives = 80/200 (40%), Gaps = 28/200 (14%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
LR + + + + K+ + E++ + +++ + ++ E + LK +++ +L
Sbjct: 605 LRERLQQAEEALQSAVAKQKQAEEQLVQANAELE--EQKRAEAEARTALKQARLDLQ-RL 661
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+Q D + + + ++++ + + R + ++K+ ++
Sbjct: 662 QNE--------------------QQSLKDKLELAIAERKQQAETQLRQLDAQLKQLLEQQ 701
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ LE + +E + K + E E Q L E R +A+ + + L++
Sbjct: 702 QAFLEALKDDFRELRTERLAKWQVVEGELDNQLAQ----LSAAIEAARTQAKARLKELKK 757
Query: 449 ERLMEELRQQGTNEDTEEDL 468
+ EL + +T ++L
Sbjct: 758 QY-DRELASLDVDPNTVKEL 776
>gnl|CDD|212906 cd11973, SH3_ASEF, Src homology 3 domain of APC-Stimulated guanine
nucleotide Exchange Factor. ASEF, also called ARHGEF4,
exists in an autoinhibited form and is activated upon
binding of the tumor suppressor APC (adenomatous
polyposis coli). GEFs activate small GTPases by
exchanging bound GDP for free GTP. ASEF can activate
Rac1 or Cdc42. Truncated ASEF, which is found in
colorectal cancers, is constitutively active and has
been shown to promote angiogenesis and cancer cell
migration. ASEF contains a SH3 domain followed by RhoGEF
(also called Dbl-homologous or DH) and Pleckstrin
Homology (PH) domains. 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 = 73
Score = 38.8 bits (90), Expect = 4e-04
Identities = 21/68 (30%), Positives = 33/68 (48%)
Query: 457 QQGTNEDTEEDLGYTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLF 516
Q NE + A AL+D+ D E+ F D+I ++ ++ WW G G F
Sbjct: 5 QLAINELISDGSVVCAEALWDHVTMDDQELGFKAGDVIEVMDATNKEWWWGRVLDSEGWF 64
Query: 517 PANYVSLQ 524
PA++V L+
Sbjct: 65 PASFVRLR 72
>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain. Axonemal
dynein light chain proteins play a dynamic role in
flagellar and cilia motility. Eukaryotic cilia and
flagella are complex organelles consisting of a core
structure, the axoneme, which is composed of nine
microtubule doublets forming a cylinder that surrounds a
pair of central singlet microtubules. This
ultra-structural arrangement seems to be one of the most
stable micro-tubular assemblies known and is responsible
for the flagellar and ciliary movement of a large number
of organisms ranging from protozoan to mammals. This
light chain interacts directly with the N-terminal half
of the heavy chains.
Length = 189
Score = 41.0 bits (97), Expect = 4e-04
Identities = 22/78 (28%), Positives = 46/78 (58%), Gaps = 3/78 (3%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKK--KKEQEEKERKEQ 420
K + ++ + +++EIK+ E E KEELEK ++ + E I+K ++E++ +E++
Sbjct: 111 GMRKALQAEQGKSELEQEIKKLE-EEKEELEKRVAELEAKLEAIEKREEEERQIEEKRHA 169
Query: 421 EENQKLLLKKQQEEDRLK 438
+E L + QQ + +L+
Sbjct: 170 DEIAFLKKQNQQLKSQLE 187
Score = 35.6 bits (83), Expect = 0.027
Identities = 18/79 (22%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 373 KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
++ + E+ K + + ++LE+E+ +++ ++ K E EK +E+EE Q +
Sbjct: 113 RKALQAEQGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEK--REEEERQIEEKRHAD 170
Query: 433 EEDRLKAEEQARLLEQERL 451
E LK + Q + E++
Sbjct: 171 EIAFLKKQNQQLKSQLEQI 189
Score = 29.9 bits (68), Expect = 2.0
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 7/67 (10%)
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
++ L+ EQ + + EQE K ++E+EE E++ E L+ + E K EE+ R +E+
Sbjct: 113 RKALQAEQGKSELEQEIKKLEEEKEELEKRVAE------LEAKLEAIE-KREEEERQIEE 165
Query: 449 ERLMEEL 455
+R +E+
Sbjct: 166 KRHADEI 172
>gnl|CDD|212857 cd11924, SH3_Vinexin_2, Second Src Homology 3 domain of Vinexin,
also called Sorbin and SH3 domain containing 3 (Sorbs3).
Vinexin is also called Sorbs3, SH3P3, and
SH3-containing adapter molecule 1 (SCAM-1). It is an
adaptor protein containing one sorbin homology (SoHo)
and three SH3 domains. Vinexin was first identified as a
vinculin binding protein; it is co-localized with
vinculin at cell-ECM and cell-cell adhesion sites. There
are several splice variants of vinexin: alpha, which
contains the SoHo and three SH3 domains and displays
tissue-specific expression; and beta, which contains
only the three SH3 domains and is widely expressed.
Vinexin alpha stimulates the accumulation of F-actin at
focal contact sites. Vinexin also promotes keratinocyte
migration and wound healing. The SH3 domains of vinexin
have been reported to bind a number of ligands including
vinculin, WAVE2, DLG5, Abl, and Cbl. 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 = 38.0 bits (88), Expect = 4e-04
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG--QYGLFPANYVSL 523
AVA Y ++ + E+SF + I I ++E W+ G G + G+FPA+YV +
Sbjct: 3 AVAQYTFKGDLEVELSFRKGEHICLIRKVNENWYEGRITGTGRQGIFPASYVQV 56
>gnl|CDD|212854 cd11921, SH3_Vinexin_1, First Src Homology 3 domain of Vinexin,
also called Sorbin and SH3 domain containing 3 (Sorbs3).
Vinexin is also called Sorbs3, SH3P3, and
SH3-containing adapter molecule 1 (SCAM-1). It is an
adaptor protein containing one sorbin homology (SoHo)
and three SH3 domains. Vinexin was first identified as a
vinculin binding protein; it is co-localized with
vinculin at cell-ECM and cell-cell adhesion sites. There
are several splice variants of vinexin: alpha, which
contains the SoHo and three SH3 domains and displays
tissue-specific expression; and beta, which contains
only the three SH3 domains and is widely expressed.
Vinexin alpha stimulates the accumulation of F-actin at
focal contact sites. Vinexin also promotes keratinocyte
migration and wound healing. The SH3 domains of vinexin
have been reported to bind a number of ligands including
vinculin, WAVE2, DLG5, Abl, and Cbl. 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 = 38.0 bits (88), Expect = 5e-04
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 476 YDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
+D+QA + E++ DI+ + +D+ W G HG+ G+FPANYV +
Sbjct: 7 FDFQAQSPKELTLQKGDIVYIHKEVDKNWLEGEHHGRVGIFPANYVEV 54
>gnl|CDD|212718 cd11784, SH3_SH3RF2_3, Third Src Homology 3 domain of SH3 domain
containing ring finger 2. SH3RF2 is also called POSHER
(POSH-eliminating RING protein) or HEPP1 (heart protein
phosphatase 1-binding protein). It acts as an
anti-apoptotic regulator of the JNK pathway by binding
to and promoting the degradation of SH3RF1 (or POSH), a
scaffold protein that is required for pro-apoptotic JNK
activation. It may also play a role in cardiac functions
together with protein phosphatase 1. SH3RF2 contains an
N-terminal RING finger domain and three SH3 domains.
This model represents the third SH3 domain, located in
the middle, of SH3RF2. 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 = 37.8 bits (88), Expect = 5e-04
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYVS 522
VAL+ Y A +E+ + + + EGW RG G+ G+FP+NYVS
Sbjct: 3 VALHSYSAHRPEELELQKGEGVRVLGKFQEGWLRGLSLVTGRVGIFPSNYVS 54
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 41.9 bits (99), Expect = 6e-04
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 12/73 (16%)
Query: 379 EEIKRK-ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
E+ RK + R+EE EK I + E ++++ QE+KE K++EE ++ + +L
Sbjct: 255 PEVLRKVDKTREEEEEK----ILKAAEEERQEEAQEKKEEKKKEE-------REAKLAKL 303
Query: 438 KAEEQARLLEQER 450
EEQ +L E+ER
Sbjct: 304 SPEEQRKLEEKER 316
Score = 40.3 bits (95), Expect = 0.002
Identities = 20/59 (33%), Positives = 39/59 (66%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ +EEEE++ + +EE + + E+KEE +KE+ K + + +++++ EEKERK+Q
Sbjct: 262 DKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQA 320
Score = 37.6 bits (88), Expect = 0.012
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 8/64 (12%)
Query: 370 EKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK 429
+K ++ ++ +K E ER+EE +++ KEE KKK+E+E K K E Q+ L +
Sbjct: 262 DKTREEEEEKILKAAEEERQEEAQEK----KEE----KKKEEREAKLAKLSPEEQRKLEE 313
Query: 430 KQQE 433
K+++
Sbjct: 314 KERK 317
Score = 31.5 bits (72), Expect = 1.00
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 266 PSNLRAKFENLAKQTEEESRKRSEEEK-EKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
+ K + ++ EE+ K +EEE+ E+ + K ++ +K EER K+ EE
Sbjct: 254 SPEVLRKVDKTREEEEEKILKAAEEERQEEAQEK-----KEEKKKEEREAKLAKLSPEEQ 308
Query: 325 EKKL 328
K
Sbjct: 309 RKLE 312
Score = 30.7 bits (70), Expect = 1.8
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 268 NLRAKFE------NLAKQTEEESRKRSEEEKEKRK-LKDQIDLEQAQKLEER 312
R + E ++ EE K+ E++KE+R+ ++ E+ +KLEE+
Sbjct: 263 KTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEK 314
Score = 30.3 bits (69), Expect = 2.3
Identities = 10/49 (20%), Positives = 28/49 (57%)
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
+ + +K R+E+EE +++++E+ + +E+ + E+E + +L
Sbjct: 255 PEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKL 303
Score = 29.1 bits (66), Expect = 5.5
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 10/55 (18%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERK-EELEKEQIRIKEEQENIKKKKEQEEKERK 418
+E +E+ +++ +EE K++E E K +L E+ R EE KE++++ RK
Sbjct: 277 EEERQEEAQEK--KEEKKKEEREAKLAKLSPEEQRKLEE-------KERKKQARK 322
>gnl|CDD|212702 cd11768, SH3_Tec_like, Src Homology 3 domain of Tec-like Protein
Tyrosine Kinases. The Tec (Tyrosine kinase expressed in
hepatocellular carcinoma) subfamily is composed of Tec,
Btk, Bmx (Etk), Itk (Tsk, Emt), Rlk (Txk), and similar
proteins. They are cytoplasmic (or nonreceptor) tyr
kinases containing Src homology protein interaction
domains (SH3, SH2) N-terminal to the catalytic tyr
kinase domain. Most Tec subfamily members (except Rlk)
also contain an N-terminal pleckstrin homology (PH)
domain, which binds the products of PI3K and allows
membrane recruitment and activation. In addition, some
members contain the Tec homology (TH) domain, which
contains proline-rich and zinc-binding regions. Tec
kinases are expressed mainly by haematopoietic cells,
although Tec and Bmx are also found in endothelial
cells. B-cells express Btk and Tec, while T-cells
express Itk, Txk, and Tec. Collectively, Tec kinases are
expressed in a variety of myeloid cells such as mast
cells, platelets, macrophages, and dendritic cells. Each
Tec kinase shows a distinct cell-type pattern of
expression. The function of Tec kinases in lymphoid
cells have been studied extensively. They play important
roles in the development, differentiation, maturation,
regulation, survival, and function of B-cells and
T-cells. 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 = 37.6 bits (88), Expect = 6e-04
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYV 521
VALYD+Q ++ + + ++ +E WWR +G G P+NYV
Sbjct: 3 VALYDFQPIEPGDLPLEKGEEYVVLDDSNEHWWRARDKNGNEGYIPSNYV 52
>gnl|CDD|212997 cd12064, SH3_GRAF, Src Homology 3 domain of GTPase Regulator
Associated with Focal adhesion kinase. GRAF, also
called Rho GTPase activating protein 26 (ARHGAP26),
Oligophrenin-1-like (OPHN1L) or GRAF1, is a GAP with
activity towards RhoA and Cdc42 and is only weakly
active towards Rac1. It influences Rho-mediated
cytoskeletal rearrangements and binds focal adhesion
kinase (FAK), which is a critical component of integrin
signaling. It is essential for the major
clathrin-independent endocytic pathway mediated by
pleiomorphic membranes. GRAF contains an N-terminal BAR
domain, followed by a Pleckstrin homology (PH) domain, a
Rho GAP domain, and a C-terminal SH3 domain. The SH3
domain of GRAF binds PKNbeta, a target of the small
GTPase Rho. SH3 domains bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs; they play a role in the regulation of
enzymes by intramolecular interactions, changing the
subcellular localization of signal pathway components
and mediate multiprotein complex assemblies.
Length = 56
Score = 37.8 bits (87), Expect = 6e-04
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYVSL 523
A ALY +A D E+SF + N+ E GW G +G+ GL P NYV
Sbjct: 3 AKALYACKAEHDSELSFTAGTVFDNVHPSQEPGWLEGTLNGKTGLIPENYVEF 55
>gnl|CDD|212785 cd11851, SH3_RIM-BP, Src homology 3 domains of Rab3-interacting
molecules (RIMs) binding proteins. RIMs binding
proteins (RBPs, RIM-BPs) associate with calcium channels
present in photoreceptors, neurons, and hair cells; they
interact simultaneously with specific calcium channel
subunits, and active zone proteins, RIM1 and RIM2. RIMs
are part of the matrix at the presynaptic active zone
and are associated with synaptic vesicles through their
interaction with the small GTPase Rab3. RIM-BPs play a
role in regulating synaptic transmission by serving as
adaptors and linking calcium channels with the synaptic
vesicle release machinery. RIM-BPs contain three SH3
domains and two to three fibronectin III repeats.
Invertebrates contain one, while vertebrates contain at
least two RIM-BPs, RIM-BP1 and RIM-BP2. RIM-BP1 is also
called peripheral-type benzodiazapine receptor
associated protein 1 (PRAX-1). Mammals contain a third
protein, RIM-BP3. RIM-BP1 and RIM-BP2 are predominantly
expressed in the brain where they display overlapping
but distinct expression patterns, while RIM-BP3 is
almost exclusively expressed in the testis and is
essential in spermiogenesis. The SH3 domains of RIM-BPs
bind to the PxxP motifs of RIM1, RIM2, and L-type
(alpha1D) and N-type (alpha1B) calcium channel subunits.
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 = 62
Score = 37.7 bits (88), Expect = 7e-04
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 473 VALYDYQAS-------ADDEISFDPDDIITNIEMIDE-GWWRGY-CHGQYGLFPANYVS 522
VALYDY ++E+SF D++ +DE G++ G G+ GL P+N+V
Sbjct: 3 VALYDYNPETMSPNDDPEEELSFHAGDVVRVYGPMDEDGFYYGELEGGRKGLVPSNFVQ 61
>gnl|CDD|212908 cd11975, SH3_ARHGEF9, Src homology 3 domain of the Rho guanine
nucleotide exchange factor ARHGEF9. ARHGEF9, also
called PEM2 or collybistin, selectively activates Cdc42
by exchanging bound GDP for free GTP. It is highly
expressed in the brain and it interacts with gephyrin, a
postsynaptic protein associated with GABA and glycine
receptors. Mutations in the ARHGEF9 gene cause X-linked
mental retardation with associated features like
seizures, hyper-anxiety, aggressive behavior, and
sensory hyperarousal. ARHGEF9 contains a SH3 domain
followed by RhoGEF (also called Dbl-homologous or DH)
and Pleckstrin Homology (PH) 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 = 62
Score = 37.8 bits (87), Expect = 7e-04
Identities = 17/53 (32%), Positives = 32/53 (60%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
+A A++D+ A+ E++F D+I ++ ++ WW G + G FPA++V L
Sbjct: 6 SAEAVWDHVTMANRELAFKAGDVIKVLDASNKDWWWGQIDDEEGWFPASFVRL 58
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 41.5 bits (97), Expect = 7e-04
Identities = 29/84 (34%), Positives = 51/84 (60%), Gaps = 6/84 (7%)
Query: 366 KEEEEKEKQRMVQEEIKRK---ELERKEELEKEQIRIKEEQ---ENIKKKKEQEEKERKE 419
E++ K+K+ V EE+K K E ER ++LEKE+++ +E+Q E +K+ + E+K+++E
Sbjct: 77 GEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEE 136
Query: 420 QEENQKLLLKKQQEEDRLKAEEQA 443
Q KK+ E + KA +A
Sbjct: 137 QARKAAAEQKKKAEAAKAKAAAEA 160
Score = 39.5 bits (92), Expect = 0.004
Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL- 426
EE K KQ QE +K+ E ER + E+++ + E++ ++K+QEE+ RK E +K
Sbjct: 90 EELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKA 149
Query: 427 ---LLKKQQEEDRLKAEEQA-RLLEQERLMEE 454
K E +LKA +A + E+ E
Sbjct: 150 EAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAE 181
Score = 38.8 bits (90), Expect = 0.006
Identities = 24/84 (28%), Positives = 47/84 (55%), Gaps = 2/84 (2%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL- 427
++ + + Q K+ E +RK++ E+ +K +Q +++ +Q EKER + +E QK
Sbjct: 62 QQYGRIQSQQSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAE 121
Query: 428 -LKKQQEEDRLKAEEQARLLEQER 450
+KQ + ++ + EEQAR E+
Sbjct: 122 EAEKQAQLEQKQQEEQARKAAAEQ 145
Score = 37.6 bits (87), Expect = 0.012
Identities = 33/171 (19%), Positives = 72/171 (42%), Gaps = 41/171 (23%)
Query: 279 QTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSP 338
Q+++ S K+ E++++K++ + +L+ Q E+ RL +L+ + + +++
Sbjct: 68 QSQQSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQ----------- 116
Query: 339 STETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIR 398
K+ EE EKQ ++++ +++E RK E+++
Sbjct: 117 --------------------------QKQAEEAEKQAQLEQK-QQEEQARKAAAEQKK-- 147
Query: 399 IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
K E K E + + + + + K EE + KAE A + E
Sbjct: 148 -KAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAE 197
>gnl|CDD|212863 cd11930, SH3_SH3RF1_2, Second 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
second SH3 domain, located C-terminal of the first SH3
domain 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 = 55
Score = 37.3 bits (86), Expect = 7e-04
Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 4/52 (7%)
Query: 474 ALYDYQ---ASAD-DEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALYD++ AD D + F DDI+T I +DE W G + G+FP +YV
Sbjct: 4 ALYDFEVKDKEADKDCLPFAKDDILTVIRRVDENWAEGMLGDKIGIFPISYV 55
>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin. Trichoplein
or mitostatin, was first defined as a meiosis-specific
nuclear structural protein. It has since been linked
with mitochondrial movement. It is associated with the
mitochondrial outer membrane, and over-expression leads
to reduction in mitochondrial motility whereas lack of
it enhances mitochondrial movement. The activity appears
to be mediated through binding the mitochondria to the
actin intermediate filaments (IFs).
Length = 349
Score = 41.4 bits (98), Expect = 8e-04
Identities = 27/96 (28%), Positives = 58/96 (60%), Gaps = 5/96 (5%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE-----QENIKKKKEQEEKERKEQEE 422
+E+E+ + E I+ ++ +E ++Q +++EE +E I++K+E++E+ER+E+ +
Sbjct: 95 LQEREQMDEIIERIQEEDEAEAQEKREKQKKLREEIDEFNEERIERKEEEKEREREEELK 154
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
+ +K + E+ +AE + R E+ER + LR Q
Sbjct: 155 ILEYQREKAEREEEREAERRERKEEKEREVARLRAQ 190
Score = 40.3 bits (95), Expect = 0.002
Identities = 25/93 (26%), Positives = 56/93 (60%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+ EEE+E +R ++E K +E+ R ++E +EE + ++ QEE ERKE+++ ++
Sbjct: 164 EREEEREAERRERKEEKEREVARLRAQQEEAEDEREELDELRADLYQEEYERKERQKEKE 223
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
K+++++ L+ + ++ E+E ++E R +
Sbjct: 224 EAEKRRRQKQELQRAREEQIEEKEERLQEERAE 256
Score = 39.5 bits (93), Expect = 0.004
Identities = 44/189 (23%), Positives = 87/189 (46%), Gaps = 32/189 (16%)
Query: 276 LAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVP 335
L +Q EE ++R EE +E+ + ++Q+D + EE + +E++ + +
Sbjct: 76 LQEQIEEREKRRQEEYEERLQEREQMDEIIERIQEEDEAEAQEKREKQKKLREE------ 129
Query: 336 LSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEE---EKEKQRMVQEEIKRKELERKEEL 392
+ ++ + KEEE E+E++ + E + K ER+EE
Sbjct: 130 -----------IDEFNEE--------RIERKEEEKEREREEELKILEYQREKA-EREEER 169
Query: 393 EKEQIRIKEEQENIKKK-KEQEEKERKEQEENQKLLLKKQQEED--RLKAEEQARLLEQE 449
E E+ KEE+E + + Q+E+ E+EE +L QEE + + +E+ ++
Sbjct: 170 EAERRERKEEKEREVARLRAQQEEAEDEREELDELRADLYQEEYERKERQKEKEEAEKRR 229
Query: 450 RLMEELRQQ 458
R +EL++
Sbjct: 230 RQKQELQRA 238
Score = 36.4 bits (85), Expect = 0.033
Identities = 24/93 (25%), Positives = 55/93 (59%), Gaps = 1/93 (1%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
EEEE+E++R + R L+ + E E+E+ R +E +E ++++++ +E + QEE++
Sbjct: 56 AEEEERERKRKEERREGRAVLQEQIE-EREKRRQEEYEERLQEREQMDEIIERIQEEDEA 114
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
+K++++ +L+ E E+ EE +++
Sbjct: 115 EAQEKREKQKKLREEIDEFNEERIERKEEEKER 147
Score = 36.0 bits (84), Expect = 0.041
Identities = 30/99 (30%), Positives = 63/99 (63%), Gaps = 6/99 (6%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE-----QENIKKKKEQEEKERKEQ 420
+EE ++ + + QEE +RKE ++++E +++ R K+E +E I++K+E+ ++ER E+
Sbjct: 198 REELDELRADLYQEEYERKERQKEKEEAEKRRRQKQELQRAREEQIEEKEERLQEERAEE 257
Query: 421 EENQKLLLKKQQEEDRL-KAEEQARLLEQERLMEELRQQ 458
E ++ +L+KQ E++ L + + R +++ EL QQ
Sbjct: 258 EAERERMLEKQAEDEELEQENAEKRRMKRLEHRRELEQQ 296
Score = 34.5 bits (80), Expect = 0.12
Identities = 29/113 (25%), Positives = 57/113 (50%), Gaps = 5/113 (4%)
Query: 365 NKEEEEKEKQRMV-----QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
+ E +++++R QE+I+ +E R+EE E+ ++ E I++ +E++E E +E
Sbjct: 59 EERERKRKEERREGRAVLQEQIEEREKRRQEEYEERLQEREQMDEIIERIQEEDEAEAQE 118
Query: 420 QEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTA 472
+ E QK L ++ E + + E + E+ER E + E E + A
Sbjct: 119 KREKQKKLREEIDEFNEERIERKEEEKEREREEELKILEYQREKAEREEEREA 171
Score = 33.3 bits (77), Expect = 0.24
Identities = 21/93 (22%), Positives = 56/93 (60%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K+E ++ ++ ++E+ +R + ER EE + + ++++ E+ + ++E EK R ++ E+++
Sbjct: 232 KQELQRAREEQIEEKEERLQEERAEEEAERERMLEKQAEDEELEQENAEKRRMKRLEHRR 291
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
L ++ +E++ +A E+ LE+ + E +
Sbjct: 292 ELEQQIEEKEERRAAEREEELEEGERLREEEAE 324
Score = 33.0 bits (76), Expect = 0.32
Identities = 25/86 (29%), Positives = 54/86 (62%), Gaps = 3/86 (3%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIR---IKEEQENIKKKKEQEEKERKEQEE 422
+ EEE E++RM++++ + +ELE++ ++ R +E ++ I++K+E+ ER+E+ E
Sbjct: 254 RAEEEAERERMLEKQAEDEELEQENAEKRRMKRLEHRRELEQQIEEKEERRAAEREEELE 313
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ L +++ E EE+ RLL++
Sbjct: 314 EGERLREEEAERQARIEEERQRLLKE 339
Score = 33.0 bits (76), Expect = 0.37
Identities = 21/90 (23%), Positives = 54/90 (60%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
++E+ + K E++EE +++ +E + + +++E+E K ++E+ E + +L ++ +E ++
Sbjct: 26 IEEKKRIKAEEKEEERRIDEMMEEERLKALAEEEERERKRKEERREGRAVLQEQIEEREK 85
Query: 437 LKAEEQARLLEQERLMEELRQQGTNEDTEE 466
+ EE L++ M+E+ ++ ED E
Sbjct: 86 RRQEEYEERLQEREQMDEIIERIQEEDEAE 115
Score = 32.6 bits (75), Expect = 0.53
Identities = 19/100 (19%), Positives = 53/100 (53%), Gaps = 8/100 (8%)
Query: 365 NKEEEEKEKQRMVQ------EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK 418
K EE++E++R+ + + +E ER+ + ++E+ + + +++E+ +E
Sbjct: 32 IKAEEKEEERRIDEMMEEERLKALAEEEERERKRKEERREGRAVLQEQIEEREKRRQEEY 91
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
E+ ++ + + E R++ E++A E+ ++LR++
Sbjct: 92 EERLQEREQMDEIIE--RIQEEDEAEAQEKREKQKKLREE 129
Score = 31.8 bits (73), Expect = 0.88
Identities = 26/94 (27%), Positives = 51/94 (54%), Gaps = 4/94 (4%)
Query: 367 EEEEKEKQRMVQEEIKRKELERK-EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
E E KE+Q+ +E KR+ +++ + +EQI KEE+ ++++ +EE ER+ E Q
Sbjct: 212 EYERKERQKEKEEAEKRRRQKQELQRAREEQIEEKEERL--QEERAEEEAERERMLEKQA 269
Query: 426 LLLKKQQEEDRLKAEEQARL-LEQERLMEELRQQ 458
+ +QE + ++ E E+ +EE ++
Sbjct: 270 EDEELEQENAEKRRMKRLEHRRELEQQIEEKEER 303
Score = 31.4 bits (72), Expect = 1.0
Identities = 27/102 (26%), Positives = 58/102 (56%), Gaps = 12/102 (11%)
Query: 366 KEEEEKEKQRMVQEEIKRKE-------LERKEELEKEQIRIKEEQENIKKKKEQEE--KE 416
++E E + R QEE + + + +E + + R KE++E K++++++E +
Sbjct: 179 EKEREVARLRAQQEEAEDEREELDELRADLYQEEYERKERQKEKEEAEKRRRQKQELQRA 238
Query: 417 RKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
R+EQ E ++ L++++ E+ E+ R+LE++ EEL Q+
Sbjct: 239 REEQIEEKEERLQEERAEEE---AERERMLEKQAEDEELEQE 277
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 41.6 bits (98), Expect = 8e-04
Identities = 40/215 (18%), Positives = 71/215 (33%), Gaps = 26/215 (12%)
Query: 283 ESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELK-----IKEEEIEKKLNGHSDVPLS 337
E+ +S EE K K ++E+ + E RLSEL +++ E + + D LS
Sbjct: 91 EAELKSLEEVIKPAEKFSSEVEELTRKLEERLSELDEELEDLEDLLEELEPLAYLDFDLS 150
Query: 338 --PSTETPPVPVKSILKQPTSDGIPIQNSNKEEE---EKEKQRMV-----QEEIKRKELE 387
+ V + L + + E E + +V E K +
Sbjct: 151 LLRGLKFLLVRL--GLVRREKLEALVGVIEDEVALYGENVEASVVIVVAHGAEDLDKVSK 208
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
EL E + E + + E+ E ++ + L + + L + LL
Sbjct: 209 ILNELGFELYEVPEFDGGPSELISELEEVIAEIQDELESLRSELEA---LAEKIAEELLA 265
Query: 448 QERLMEELRQQGTNEDTEEDLGYTAVALYDYQASA 482
++E + G D L T Y
Sbjct: 266 VREILEIEKALG---DVLSKLARTE---YTLAIEG 294
>gnl|CDD|212828 cd11895, SH3_FCHSD1_2, Second Src Homology 3 domain of FCH and
double SH3 domains protein 1. FCHSD1 has a domain
structure consisting of an N-terminal F-BAR (FES-CIP4
Homology and Bin/Amphiphysin/Rvs), two SH3, and
C-terminal proline-rich domains. It has only been
characterized in silico and its function is unknown. 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 = 37.3 bits (86), Expect = 9e-04
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 472 AVALYDYQASADDEISFDPDDIITNI----EMIDEGWWRGYCHGQYGLFPA 518
A ALY Y + +E+SF +I + + +D+G+WRG G+ G+FP+
Sbjct: 2 ARALYSYTGQSPEELSFPEGALIRLLPRAQDGVDDGFWRGEFGGRVGVFPS 52
>gnl|CDD|212742 cd11808, SH3_Alpha_Spectrin, Src homology 3 domain of Alpha
Spectrin. Spectrin is a major structural component of
the red blood cell membrane skeleton and is important in
erythropoiesis and membrane biogenesis. It is a
flexible, rope-like molecule composed of two subunits,
alpha and beta, which consist of many spectrin-type
repeats. Alpha and beta spectrin associate to form
heterodimers and tetramers; spectrin tetramer formation
is critical for red cell shape and deformability.
Defects in alpha spectrin have been associated with
inherited hemolytic anemias including hereditary
spherocytosis (HSp), hereditary elliptocytosis (HE), and
hereditary pyropoikilocytosis (HPP). Alpha spectrin
contains a middle SH3 domain and a C-terminal EF-hand
binding motif in addition to multiple spectrin repeats.
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 = 37.1 bits (86), Expect = 0.001
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
VALYDYQ + E+S DI+T + ++ WW+ + + G PA YV
Sbjct: 3 VALYDYQEKSPREVSMKKGDILTLLNSSNKDWWKVEVNDRQGFVPAAYV 51
>gnl|CDD|212898 cd11965, SH3_ASAP1, Src homology 3 domain of ArfGAP with SH3
domain, ankyrin repeat and PH domain containing protein
1. ASAP1 is also called DDEF1 (Development and
Differentiation Enhancing Factor 1), AMAP1, centaurin
beta-4, or PAG2. an Arf GTPase activating protein (GAP)
with activity towards Arf1 and Arf5 but not Arf6.
However, it has been shown to bind GTP-Arf6 stably
without GAP activity. It has been implicated in cell
growth, migration, and survival, as well as in tumor
invasion and malignancy. It binds paxillin and
cortactin, two components of invadopodia which are
essential for tumor invasiveness. It also binds focal
adhesion kinase (FAK) and the SH2/SH3 adaptor CrkL.
ASAP1 contains an N-terminal BAR domain, followed by a
Pleckstrin homology (PH) domain, an Arf GAP domain,
ankyrin (ANK) repeats, 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 = 57
Score = 37.3 bits (86), Expect = 0.001
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 475 LYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQ---YGLFPANYVSL 523
+YD QA DDE++F ++I D+ WW G+ GQ G+FP ++V +
Sbjct: 5 IYDCQADNDDELTFVEGEVIIVTGEEDQEWWIGHIEGQPERKGVFPVSFVHI 56
>gnl|CDD|212692 cd11758, SH3_CRK_N, N-terminal Src Homology 3 domain of Ct10
Regulator of Kinase adaptor proteins. CRK adaptor
proteins consists of SH2 and SH3 domains, which bind
tyrosine-phosphorylated peptides and proline-rich
motifs, respectively. They function downstream of
protein tyrosine kinases in many signaling pathways
started by various extracellular signals, including
growth and differentiation factors. Cellular CRK (c-CRK)
contains a single SH2 domain, followed by N-terminal and
C-terminal SH3 domains. It is involved in the regulation
of many cellular processes including cell growth,
motility, adhesion, and apoptosis. CRK has been
implicated in the malignancy of various human cancers.
The N-terminal SH3 domain of CRK binds a number of
target proteins including DOCK180, C3G, SOS, and cABL.
The CRK family includes two alternatively spliced
protein forms, CRKI and CRKII, that are expressed by the
CRK gene, and the CRK-like (CRKL) protein, which is
expressed by a distinct gene (CRKL). 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 = 37.0 bits (86), Expect = 0.001
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYVS 522
AL+D+ + D+++ F +I+T I +E WW G+ G+ P YV
Sbjct: 1 EYVRALFDFPGNDDEDLPFKKGEILTVIRKPEEQWWNARNSEGKTGMIPVPYVE 54
>gnl|CDD|212939 cd12006, SH3_Fyn_Yrk, Src homology 3 domain of Fyn and Yrk Protein
Tyrosine Kinases. Fyn and Yrk (Yes-related kinase) are
members of the Src subfamily of proteins, which are
cytoplasmic (or non-receptor) PTKs. Fyn, together with
Lck, plays a critical role in T-cell signal transduction
by phosphorylating ITAM (immunoreceptor tyr activation
motif) sequences on T-cell receptors, ultimately leading
to the proliferation and differentiation of T-cells. In
addition, Fyn is involved in the myelination of neurons,
and is implicated in Alzheimer's and Parkinson's
diseases. Yrk has been detected only in chickens. It is
primarily found in neuronal and epithelial cells and in
macrophages. It may play a role in inflammation and in
response to injury. Src kinases 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).
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 = 56
Score = 37.0 bits (85), Expect = 0.001
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWW--RGYCHGQYGLFPANYVS 522
VALYDY+A +D++SF + + + WW R G+ G P+NYV+
Sbjct: 4 VALYDYEARTEDDLSFHKGEKFQILNSSEGDWWEARSLTTGETGYIPSNYVA 55
>gnl|CDD|212850 cd11917, SH3_Sorbs2_3, Third (or C-terminal) Src Homology 3 domain
of Sorbin and SH3 domain containing 2 (Sorbs2), also
called Arg-binding protein 2 (ArgBP2). Sorbs2 or ArgBP2
is an adaptor protein containing one sorbin homology
(SoHo) and three SH3 domains. It regulates
actin-dependent processes including cell adhesion,
morphology, and migration. It is expressed in many
tissues and is abundant in the heart. Like vinexin, it
is found in focal adhesion where it interacts with
vinculin and afadin. It also localizes in epithelial
cell stress fibers and in cardiac muscle cell Z-discs.
Sorbs2 has been implicated to play roles in the
signaling of c-Arg, Akt, and Pyk2. Other interaction
partners of Sorbs2 include c-Abl, flotillin, spectrin,
dynamin 1/2, synaptojanin, PTP-PEST, 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 = 61
Score = 36.9 bits (85), Expect = 0.001
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQ--YGLFPANYV 521
ALY+Y +DE+ D+I +E D+GW+ G +G FP NYV
Sbjct: 9 ALYNYMPRNEDELELREGDVIDVMEKCDDGWFVGTSRRTKFFGTFPGNYV 58
>gnl|CDD|212695 cd11761, SH3_FCHSD_1, First Src Homology 3 domain of FCH and double
SH3 domains proteins. This group is composed of FCH and
double SH3 domains protein 1 (FCHSD1) and FCHSD2. These
proteins have a common domain structure consisting of an
N-terminal F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs), two SH3, and C-terminal
proline-rich domains. They have only been characterized
in silico and their functions remain unknown. This group
also includes the insect protein, nervous wreck, which
acts as a regulator of synaptic growth signaling. 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 = 37.0 bits (86), Expect = 0.001
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMID-EGWWRGY-CHGQYGLFPANYV 521
T LY Y+A DE++ + + IE D +GW + G+ G P NY+
Sbjct: 3 TCKVLYSYEAQRPDELTITEGEELEVIEDGDGDGWVKARNKSGEVGYVPENYL 55
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 40.6 bits (95), Expect = 0.001
Identities = 23/119 (19%), Positives = 58/119 (48%), Gaps = 3/119 (2%)
Query: 335 PLSPSTETPPVPVKSILKQPTSDGIPI-QNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
L S + P I++ D + Q +N+ +++K+ ++E ++K ++ EE E
Sbjct: 22 SLYHSVKPEPGGGGEIIQAVLVDPGAVAQQANRIQQQKKPAAKKEQERQKKLEQQAEEAE 81
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL--KAEEQARLLEQER 450
K++ + Q+ ++++ E+ ++ ++ ++ K++Q E+ +A E E E
Sbjct: 82 KQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEA 140
Score = 39.0 bits (91), Expect = 0.004
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 4/84 (4%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+ E+ +Q+ +++ ++ ++ E +Q K++Q K K+ E + K + E +
Sbjct: 83 QRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAE- 141
Query: 426 LLLKKQQEEDRLKAEEQARLLEQE 449
KK +EE + +AEE+A+
Sbjct: 142 ---KKAKEEAKKQAEEEAKAKAAA 162
Score = 38.3 bits (89), Expect = 0.008
Identities = 36/175 (20%), Positives = 69/175 (39%), Gaps = 35/175 (20%)
Query: 277 AKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
A + E+E +K+ E++ E+ + + + + ++LE+R +E K+ E K
Sbjct: 62 AAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAK--------- 112
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
+ + EE K KQ E K K E+ KE+
Sbjct: 113 ----------------------QAEEKQKQAEEAKAKQA---AEAKAKAEAEAEKKAKEE 147
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE-EDRLKAEEQARLLEQER 450
+ + E+E K + +K+ E ++ + K + E + + KAEE E +
Sbjct: 148 AKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAK 202
Score = 37.5 bits (87), Expect = 0.012
Identities = 21/97 (21%), Positives = 49/97 (50%), Gaps = 4/97 (4%)
Query: 360 PIQNSNKEEEEKE--KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKER 417
+ K E++ E +++ E+ ++KELE++ EK + ++ + ++K++Q E+ +
Sbjct: 66 EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAK 125
Query: 418 KEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEE 454
+Q K K + E ++ EE + E+E +
Sbjct: 126 AKQAAEAK--AKAEAEAEKKAKEEAKKQAEEEAKAKA 160
Score = 37.5 bits (87), Expect = 0.014
Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 7/93 (7%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K ++ E+ EE +++ E K + E K + E +KK +EE +++ +EE
Sbjct: 102 KAAKQAEQAAKQAEEKQKQAEEAKAKQAAEA---KAKAEAEAEKKAKEEAKKQAEEEA-- 156
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
K E + KA E + E E + +
Sbjct: 157 --KAKAAAEAKKKAAEAKKKAEAEAKAKAEAKA 187
Score = 36.4 bits (84), Expect = 0.035
Identities = 39/186 (20%), Positives = 70/186 (37%), Gaps = 34/186 (18%)
Query: 279 QTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSP 338
Q +++ + E+E++K+ + + E+ + E+ R EL+ + +
Sbjct: 56 QQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAA----------K 105
Query: 339 STETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE-LERKEELE---K 394
E + KQ + K+ E + + + E K KE +++ E E K
Sbjct: 106 QAEQAAKQAEEKQKQAE------EAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAK 159
Query: 395 EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAE--------EQARLL 446
K++ KKK E E K + E + K + EE + KAE E A
Sbjct: 160 AAAEAKKKAAEAKKKAEAEAKAKAEAKA------KAKAEEAKAKAEAAKAKAAAEAAAKA 213
Query: 447 EQERLM 452
E E
Sbjct: 214 EAEAAA 219
Score = 31.7 bits (72), Expect = 0.79
Identities = 35/179 (19%), Positives = 66/179 (36%), Gaps = 48/179 (26%)
Query: 276 LAKQTEEESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEKKLNGHSDV 334
L +Q EE ++R+ E+ +++L+ + + A++ E+ + +++ E K
Sbjct: 73 LEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAK------- 125
Query: 335 PLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE-LERKEELE 393
K+ E + + + E K KE +++ E E
Sbjct: 126 ------------------------------AKQAAEAKAKAEAEAEKKAKEEAKKQAEEE 155
Query: 394 ---KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
K K++ KKK E E K + E + K + EE + KAE E
Sbjct: 156 AKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKA------KAKAEEAKAKAEAAKAKAAAE 208
Score = 31.0 bits (70), Expect = 1.7
Identities = 39/202 (19%), Positives = 64/202 (31%), Gaps = 47/202 (23%)
Query: 249 NASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQK 308
A + + K RA E AKQ E+ +++ E++K+ + K + E K
Sbjct: 76 QAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAK 135
Query: 309 LE---ERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSN 365
E E++ E K+ E E
Sbjct: 136 AEAEAEKKAKEEAKKQAEEEA--------------------------------------- 156
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K + E ++ E K+ E E K + E + K + E K K E + K E
Sbjct: 157 KAKAAAEAKKKAAEAKKKAEAEAKAKAEAKA---KAKAEEAKAKAEAAKA--KAAAEAAA 211
Query: 426 LLLKKQQEEDRLKAEEQARLLE 447
+ +AE +A E
Sbjct: 212 KAEAEAAAAAAAEAERKADEAE 233
>gnl|CDD|212888 cd11955, SH3_srGAP1-3, Src homology 3 domain of Slit-Robo GTPase
Activating Proteins 1, 2, and 3. srGAP1, also called
Rho GTPase-Activating Protein 13 (ARHGAP13), is a Cdc42-
and RhoA-specific GAP and is expressed later in the
development of central nervous system tissues. srGAP2 is
expressed in zones of neuronal differentiation. It plays
a role in the regeneration of neurons and axons. srGAP3,
also called MEGAP (MEntal disorder associated
GTPase-Activating Protein), is a Rho GAP with activity
towards Rac1 and Cdc42. It impacts cell migration by
regulating actin and microtubule cytoskeletal dynamics.
The association between srGAP3 haploinsufficiency and
mental retardation is under debate. srGAPs are Rho GAPs
that interact with Robo1, the transmembrane receptor of
Slit proteins. Slit proteins are secreted proteins that
control axon guidance and the migration of neurons and
leukocytes. srGAPs contain an N-terminal F-BAR domain, a
Rho GAP 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 = 36.5 bits (84), Expect = 0.001
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A+A +DY + E+SF + + WW G +G GL P Y+
Sbjct: 2 AIAKFDYVGRSARELSFKKGASLLLYHRASDDWWEGRHNGIDGLVPHQYI 51
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 40.8 bits (95), Expect = 0.001
Identities = 25/94 (26%), Positives = 47/94 (50%), Gaps = 1/94 (1%)
Query: 373 KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
K+R QE+ KR + + KEEL+K+QI + Q+ ++ +K+R E + Q+ +
Sbjct: 204 KERESQEDAKRAQ-QLKEELDKKQIDADKAQQKADFAQDNADKQRDEVRQKQQEAKNLPK 262
Query: 433 EEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
D +E ++ E ++ E Q ++ EE
Sbjct: 263 PADTSSPKEDKQVAENQKREIEKAQIEIKKNDEE 296
Score = 40.0 bits (93), Expect = 0.003
Identities = 39/198 (19%), Positives = 81/198 (40%), Gaps = 38/198 (19%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
N R +L ++ +E KR+++ KE+ K QID ++AQ+ + + +E+ +K
Sbjct: 195 NFRRDMTDLKERESQEDAKRAQQLKEELDKK-QIDADKAQQKADFAQDNADKQRDEVRQK 253
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
++P T +P E K+
Sbjct: 254 QQEAKNLPKPADTSSPK-----------------------------------EDKQVAEN 278
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
+K E+EK QI IK+ E K K+ + + K++ + + + ++ E + K E A +
Sbjct: 279 QKREIEKAQIEIKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAE--D 336
Query: 448 QERLMEELRQQGTNEDTE 465
++ ++ Q T+ + +
Sbjct: 337 LQKTKPQVEAQPTSLNED 354
Score = 31.9 bits (72), Expect = 0.85
Identities = 29/121 (23%), Positives = 48/121 (39%), Gaps = 18/121 (14%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ K+ + + Q+ + +R E +K+Q E + K KE K+
Sbjct: 221 ELDKKQIDADKAQQKADFAQDNADKQRDEVRQKQQ----EAKNLPKPADTSSPKEDKQVA 276
Query: 422 ENQKLLLKKQQEEDRLKAEE--------------QARLLEQERLMEELRQQGTNEDTEED 467
ENQK ++K Q E + EE +++ E+E +EL Q E ED
Sbjct: 277 ENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAED 336
Query: 468 L 468
L
Sbjct: 337 L 337
>gnl|CDD|212851 cd11918, SH3_Vinexin_3, Third (or C-terminal) Src Homology 3 domain
of Vinexin, also called Sorbin and SH3 domain containing
3 (Sorbs3). Vinexin is also called Sorbs3, SH3P3, and
SH3-containing adapter molecule 1 (SCAM-1). It is an
adaptor protein containing one sorbin homology (SoHo)
and three SH3 domains. Vinexin was first identified as a
vinculin binding protein; it is co-localized with
vinculin at cell-ECM and cell-cell adhesion sites. There
are several splice variants of vinexin: alpha, which
contains the SoHo and three SH3 domains and displays
tissue-specific expression; and beta, which contains
only the three SH3 domains and is widely expressed.
Vinexin alpha stimulates the accumulation of F-actin at
focal contact sites. Vinexin also promotes keratinocyte
migration and wound healing. The SH3 domains of vinexin
have been reported to bind a number of ligands including
vinculin, WAVE2, DLG5, Abl, and Cbl. 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 = 36.9 bits (85), Expect = 0.001
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYVS 522
A+Y Y+ +DE+ D + ++ D+GW+ G ++G FP NYV+
Sbjct: 6 AVYQYRPQNEDELELREGDRVDVMQQCDDGWFVGVSRRTQKFGTFPGNYVA 56
>gnl|CDD|212949 cd12016, SH3_Tks_2, Second 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 second 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 = 54
Score = 36.3 bits (84), Expect = 0.002
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ Y+A +DEI F+ ++ I+ +GWW+ G+ G PA Y+
Sbjct: 4 ITTQAYKAENEDEIGFETGVVVEVIQKNLDGWWKIRYQGKEGWAPATYL 52
>gnl|CDD|212859 cd11926, SH3_SH3RF1_3, Third Src Homology 3 domain of SH3 domain
containing ring finger 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 third SH3 domain, located in the middle,
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 = 55
Score = 36.5 bits (84), Expect = 0.002
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANYVS 522
VA+Y Y +DE+ ++ E +GW++G + G+FP NYV+
Sbjct: 3 VAIYPYTPRKEDELELRKGEMFLVFERCQDGWFKGTSMHTSKIGVFPGNYVA 54
>gnl|CDD|213017 cd12141, SH3_DNMBP_C2, Second C-terminal Src homology 3 domain of
Dynamin Binding Protein, also called Tuba, and similar
domains. DNMBP or Tuba is a cdc42-specific guanine
nucleotide exchange factor (GEF) that contains four
N-terminal SH3 domains, a central RhoGEF [or Dbl
homology (DH)] domain followed by a Bin/Amphiphysin/Rvs
(BAR) domain, and two C-terminal SH3 domains. It
provides a functional link between dynamin, Rho GTPase
signaling, and actin dynamics. It plays an important
role in regulating cell junction configuration. The
C-terminal SH3 domains of DNMBP bind to N-WASP and
Ena/VASP proteins, which are key regulatory proteins of
the actin cytoskeleton. 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 = 36.3 bits (84), Expect = 0.002
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEG----WWRGYCHGQYGLFPANYV 521
A+Y ++A + +E+S + + +E D WW +GQ G P+NY+
Sbjct: 4 AVYTFKARSPNELSVSANQRVRILEFSDLTGNKEWWLAEANGQKGYVPSNYI 55
>gnl|CDD|212925 cd11992, SH3_Intersectin2_3, Third Src homology 3 domain (or SH3C)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The third SH3 domain
(SH3C) of ITSN2 has been shown to bind the K15 protein
of Kaposi's sarcoma-associated herpesvirus. 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 = 36.1 bits (83), Expect = 0.002
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ALY Y +S +++F+ + I + D WW G + G+FP+NYV
Sbjct: 3 IALYPYSSSEPGDLTFNEGEEIL-VTQKDGEWWTGSIEDRTGIFPSNYV 50
>gnl|CDD|212999 cd12066, SH3_GRAF3, Src Homology 3 domain of GTPase Regulator
Associated with Focal adhesion kinase 3. GRAF3 is also
called Rho GTPase activating protein 42 (ARHGAP42) or
ARHGAP10-like. Though its function has not been
characterized, it may be a GAP with activity towards
RhoA and Cdc42, based on its similarity to GRAF and
GRAF2. It contains an N-terminal BAR domain, followed by
a Pleckstrin homology (PH) domain, a Rho GAP domain, and
a C-terminal SH3 domain. The SH3 domain of GRAF and
GRAF2 binds PKNbeta, a target of the small GTPase Rho.
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 = 36.2 bits (83), Expect = 0.002
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNI-EMIDEGWWRGYCHGQYGLFPANYV 521
A A+Y +A E+SF I +N+ ++ GW + G+ GL P NYV
Sbjct: 2 AKAMYSCKAEHSHELSFPQGAIFSNVYPSVEPGWLKATYEGKTGLVPENYV 52
>gnl|CDD|212741 cd11807, SH3_ASPP, Src homology 3 domain of Apoptosis Stimulating
of p53 proteins (ASPP). The ASPP family of proteins
bind to important regulators of apoptosis (p53, Bcl-2,
and RelA) and cell growth (APCL, PP1). They share
similarity at their C-termini, where they harbor a
proline-rich region, four ankyrin (ANK) repeats, and an
SH3 domain. Vertebrates contain three members of the
family: ASPP1, ASPP2, and iASPP. ASPP1 and ASPP2
activate the apoptotic function of the p53 family of
tumor suppressors (p53, p63, and p73), while iASPP is an
oncoprotein that specifically inhibits p53-induced
apoptosis. The expression of ASPP proteins is altered in
tumors; ASPP1 and ASPP2 are downregulated whereas iASPP
is upregulated is some cancer types. ASPP proteins also
bind and regulate protein phosphatase 1 (PP1), and this
binding is competitive with p53 binding. The SH3 domain
and the ANK repeats of ASPP contribute to the p53
binding site; they bind to the DNA binding domain of
p53. 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 = 35.8 bits (83), Expect = 0.003
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEG---WWRGYCHGQYGLFPANYVSL 523
AL+DY+A DE+SF D +T + D+ WW + + G P N + L
Sbjct: 5 ALFDYEAENGDELSFREGDELTVLRKGDDDETEWWWARLNDKEGYVPRNLLGL 57
>gnl|CDD|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 200 amino acids in length. This
domain is found associated with pfam00013, pfam01966.
This domain has a single completely conserved residue A
that may be functionally important.
Length = 201
Score = 38.7 bits (91), Expect = 0.003
Identities = 38/123 (30%), Positives = 65/123 (52%), Gaps = 25/123 (20%)
Query: 361 IQNSNKEEEE--KEKQRMVQEEIKR------KEL-ERKEELEKEQIRI--KEEQ-----E 404
I+ + KE E KE +EEI + +EL ER+ EL++++ R+ KEE E
Sbjct: 40 IEEAKKEAEALKKEALLEAKEEIHKLRAEAERELKERRNELQRQEKRLLQKEETLDRKDE 99
Query: 405 NIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE---------QERLMEEL 455
+++KK+E E++ KE Q+ L +K++E + L E+Q L +E L+EE+
Sbjct: 100 SLEKKEESLEEKEKELAARQQQLEEKEEELEELIEEQQQELERISGLTAEEAKEILLEEV 159
Query: 456 RQQ 458
+
Sbjct: 160 EAE 162
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 40.0 bits (94), Expect = 0.003
Identities = 31/256 (12%), Positives = 81/256 (31%), Gaps = 15/256 (5%)
Query: 181 EKIEKHESQKDYAKGFGGKF-GIESDRQDKSAVGWDHVEKVDKHQSQKDDNRQVVTSSKV 239
E +E+ E ++ + + K K ++ SS
Sbjct: 1139 EALEEQEEVEEKEIAKEQRLKSKTKGKASKLRK-----------PKLKKKEKKKKKSSAD 1187
Query: 240 KDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKD 299
K A+ N+ + + K + + + + EE+ K + ++ K K
Sbjct: 1188 KSKKASVVGNSKRVDSDEKRKLDDKPDNKKSNSSGSDQEDDEEQKTKPKKSSVKRLKSKK 1247
Query: 300 QIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGI 359
+ ++ +E +L + + + P P + +P+S
Sbjct: 1248 NNSSKSSEDNDEFSSDDLSKEGKPKNAPKRVSAVQYSPPPPSKRPDGESNGGSKPSSPTK 1307
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
E +++ K+ RK++ + + Q + ++ +++K
Sbjct: 1308 KKVKKRLEGSLAAL---KKKKKSEKKTARKKKSKTRVKQASASQSSRLLRRPRKKKSDSS 1364
Query: 420 QEENQKLLLKKQQEED 435
E++ + ++ED
Sbjct: 1365 SEDDDDSEVDDSEDED 1380
Score = 32.3 bits (74), Expect = 0.81
Identities = 35/163 (21%), Positives = 72/163 (44%), Gaps = 17/163 (10%)
Query: 287 RSEEEKEKRKLKDQIDLEQAQKLEERRLSEL-KIKEEEI---EKKLNGHSDVPLSPSTET 342
+ E K + +++ +KL R ++ K K E+I E++ D E
Sbjct: 1022 INGELVITNAKKKDL-VKELKKLGYVRFKDIIKKKSEKITAEEEEGAEEDDEADDEDDEE 1080
Query: 343 PPVPVKS---ILKQP----TSDGIPIQNSNKEEEEKEKQRMVQEEIK---RKELER-KEE 391
S +L P T + + N+ E++EKE +++ K ++L++ +E
Sbjct: 1081 ELGAAVSYDYLLSMPIWSLTKEKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEA 1140
Query: 392 LEK-EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
LE+ E++ KE + + K + + K K ++ K KK+++
Sbjct: 1141 LEEQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKK 1183
>gnl|CDD|212858 cd11925, SH3_SH3RF3_3, Third Src Homology 3 domain of SH3 domain
containing ring finger 3, an E3 ubiquitin-protein
ligase. SH3RF3 is also called POSH2 (Plenty of SH3s 2)
or SH3MD4 (SH3 multiple domains protein 4). It is a
scaffold protein with E3 ubiquitin-protein ligase
activity. It was identified in the screen for
interacting partners of p21-activated kinase 2 (PAK2).
It may play a role in regulating JNK mediated apoptosis
in certain conditions. It also interacts with GTP-loaded
Rac1. SH3RF3 is highly homologous to SH3RF1; it also
contains an N-terminal RING finger domain and four SH3
domains. This model represents the third SH3 domain,
located in the middle, of SH3RF3. 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 = 35.7 bits (82), Expect = 0.003
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYVS 522
+ALY Y+ +DE+ ++ IE +GW++G G G+FP NYV+
Sbjct: 4 LALYAYKPQKNDELELRKGEMYRVIEKCQDGWFKGTSLRTGVSGVFPGNYVT 55
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 39.8 bits (94), Expect = 0.003
Identities = 28/163 (17%), Positives = 68/163 (41%), Gaps = 35/163 (21%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
L A E L ++ E+++ + KE KLK+++ E+ +KL+E L+ E+E ++
Sbjct: 520 ELIASLEELERELEQKAEEAEALLKEAEKLKEEL-EEKKEKLQEEEDKLLEEAEKEAQQA 578
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
+ K+E ++ + + Q +
Sbjct: 579 IK----------------------------------EAKKEADEIIKELRQLQKGGYASV 604
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
+ EL + + R+ + E +KKK++++++++E + ++
Sbjct: 605 KAHELIEARKRLNKANEKKEKKKKKQKEKQEELKVGDEVKYLS 647
Score = 39.4 bits (93), Expect = 0.005
Identities = 22/88 (25%), Positives = 47/88 (53%), Gaps = 10/88 (11%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELER-KEELEKEQIRIKEEQENIKKKKEQEEKE---- 416
+ +E E+K ++ E KE E+ KEELE+++ +++EE++ + ++ E+E ++
Sbjct: 526 EELERELEQKAEE----AEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKE 581
Query: 417 -RKEQEENQKLLLKKQQEEDRLKAEEQA 443
+KE +E K L + Q+ +
Sbjct: 582 AKKEADEIIKELRQLQKGGYASVKAHEL 609
Score = 36.0 bits (84), Expect = 0.054
Identities = 36/171 (21%), Positives = 77/171 (45%), Gaps = 35/171 (20%)
Query: 282 EESRKRSEEEKEKRKLKDQI-DLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPST 340
EE++K E+KEK L + I LE+ ++ E++ E + +E EK
Sbjct: 505 EEAKKLIGEDKEK--LNELIASLEELERELEQKAEEAEALLKEAEKLK------------ 550
Query: 341 ETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRM---VQEEIKRKELERKEELEKEQI 397
+ + ++ + +EEE+K + Q+ IK + E E +++ +
Sbjct: 551 -------EELEEK--------KEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQ 595
Query: 398 RIKEEQENIKKKKEQEEKER--KEQEENQKLLLKKQQEEDRLKAEEQARLL 446
K ++K + E ++R K E+ +K K++++++ LK ++ + L
Sbjct: 596 LQKGGYASVKAHELIEARKRLNKANEKKEKKKKKQKEKQEELKVGDEVKYL 646
Score = 30.6 bits (70), Expect = 2.5
Identities = 23/99 (23%), Positives = 48/99 (48%), Gaps = 17/99 (17%)
Query: 372 EKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQ 431
E+ E+ K +E E L KE ++KEE E E+KE+ ++EE++ L ++
Sbjct: 526 EELERELEQ-KAEEAE---ALLKEAEKLKEELE--------EKKEKLQEEEDKLLEEAEK 573
Query: 432 QEEDRLKA--EEQARLLEQERLMEELRQQGTNEDTEEDL 468
+ + +K +E ++ + + +L++ G +L
Sbjct: 574 EAQQAIKEAKKEADEII---KELRQLQKGGYASVKAHEL 609
>gnl|CDD|212941 cd12008, SH3_Src, Src homology 3 domain of Src Protein Tyrosine
Kinase. Src (or c-Src) is a cytoplasmic (or
non-receptor) PTK and is the vertebrate homolog of the
oncogenic protein (v-Src) from Rous sarcoma virus.
Together with other Src subfamily proteins, it is
involved in signaling pathways that regulate cytokine
and growth factor responses, cytoskeleton dynamics, cell
proliferation, survival, and differentiation. Src also
play a role in regulating cell adhesion, invasion, and
motility in cancer cells, and tumor vasculature,
contributing to cancer progression and metastasis.
Elevated levels of Src kinase activity have been
reported in a variety of human cancers. Several
inhibitors of Src have been developed as anti-cancer
drugs. Src is also implicated in acute inflammatory
responses and osteoclast function. Src kinases 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). 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 = 56
Score = 35.5 bits (81), Expect = 0.003
Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY--CHGQYGLFPANYVS 522
T VALYDY++ + ++SF + + + + WW + GQ G P+NYV+
Sbjct: 1 TFVALYDYESRTETDLSFKKGERLQIVNNTEGDWWLAHSLTTGQTGYIPSNYVA 54
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 39.8 bits (93), Expect = 0.004
Identities = 37/195 (18%), Positives = 73/195 (37%), Gaps = 21/195 (10%)
Query: 264 VKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEE 323
V+ + A+QT E +E E E K + + + + L+E I+EE+
Sbjct: 248 VELEVEQQPAGKTAEQTREVKIILAETEAEVAAWKAE---TRREAEQAEILAEQAIQEEK 304
Query: 324 IEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKR 383
+ + +V + + E + V I +Q ++ ++ + QR QEE
Sbjct: 305 AQAEQ----EVQHAKALEAREMRVGLIERQKETE---LEPQERSYFINAAQRQAQEEA-- 355
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ---EENQKLLLKKQQE-EDRLKA 439
K + + + ++ +E EE ER EQ + ++Q E R +A
Sbjct: 356 -----KAAANIAEAIGAQAEAAVETARETEEAERAEQAALVAAAEAAEQEQVEIAVRAEA 410
Query: 440 EEQARLLEQERLMEE 454
+ + + E
Sbjct: 411 AKAEAEAQAAEIKAE 425
Score = 33.3 bits (76), Expect = 0.36
Identities = 20/116 (17%), Positives = 44/116 (37%), Gaps = 14/116 (12%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE--------QIRIKEEQENIKKKKEQ 412
+ + E+E + + + E++ +ER++E E E ++ QE K
Sbjct: 302 EEKAQAEQEVQHAKALEAREMRVGLIERQKETELEPQERSYFINAAQRQAQEEAKAAANI 361
Query: 413 EEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE--QERLMEELRQQGTNEDTEE 466
E + E ++ +E + + EQA L+ + E++ E +
Sbjct: 362 AEAIGAQAEAA----VETARETEEAERAEQAALVAAAEAAEQEQVEIAVRAEAAKA 413
Score = 32.5 bits (74), Expect = 0.64
Identities = 29/200 (14%), Positives = 66/200 (33%), Gaps = 18/200 (9%)
Query: 304 EQAQKLEERRL--SELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPI 361
AQ L++ + +E + + E + N + + + P ++
Sbjct: 215 RIAQVLQDAEIAENEAEKETEIAIAEANRDAKLVELEVEQQPAGKTAEQTREVKIILAET 274
Query: 362 QN--SNKEEEEKEKQRMVQEEIKRKELERKEELEKE-QIRIKEEQEN-----IKKKKEQE 413
+ + + E + + + ++ E K + E+E Q E I+++KE E
Sbjct: 275 EAEVAAWKAETRREAEQAEILAEQAIQEEKAQAEQEVQHAKALEAREMRVGLIERQKETE 334
Query: 414 EKER-------KEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME-ELRQQGTNEDTE 465
+ + Q + Q+ + + A+ +A + E E +Q
Sbjct: 335 LEPQERSYFINAAQRQAQEEAKAAANIAEAIGAQAEAAVETARETEEAERAEQAALVAAA 394
Query: 466 EDLGYTAVALYDYQASADDE 485
E V + +A E
Sbjct: 395 EAAEQEQVEIAVRAEAAKAE 414
Score = 32.1 bits (73), Expect = 0.73
Identities = 23/140 (16%), Positives = 50/140 (35%), Gaps = 6/140 (4%)
Query: 359 IPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK 418
I I +N++ + E + Q K E R+ ++ I E E + E +
Sbjct: 236 IAIAEANRDAKLVELEVEQQPAGKTAEQTREVKI------ILAETEAEVAAWKAETRREA 289
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDY 478
EQ E ++++ + + A+ LE + L ++ + E +
Sbjct: 290 EQAEILAEQAIQEEKAQAEQEVQHAKALEAREMRVGLIERQKETELEPQERSYFINAAQR 349
Query: 479 QASADDEISFDPDDIITNIE 498
QA + + + + + I
Sbjct: 350 QAQEEAKAAANIAEAIGAQA 369
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 39.5 bits (93), Expect = 0.004
Identities = 23/81 (28%), Positives = 54/81 (66%), Gaps = 5/81 (6%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ 424
++ K+ +++V++ K++E E+KE+ +K K+E+E ++K+++EE++ +E+EE
Sbjct: 404 GSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEE-- 461
Query: 425 KLLLKKQQEEDRLKAEEQARL 445
++++EE+ K ++QA L
Sbjct: 462 ---AEEEKEEEEEKKKKQATL 479
Score = 38.4 bits (90), Expect = 0.009
Identities = 20/68 (29%), Positives = 44/68 (64%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
+ K ++ EK +EE K+++ ++ +K++ +EE+E +++KE+EE+E +E++E
Sbjct: 409 TKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEE 468
Query: 424 QKLLLKKQ 431
++ KKQ
Sbjct: 469 EEEKKKKQ 476
Score = 31.4 bits (72), Expect = 1.1
Identities = 18/74 (24%), Positives = 42/74 (56%)
Query: 349 SILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKK 408
L I+ ++ E+K ++ +++ K ++KEE E+E+ KEE++ ++
Sbjct: 400 EFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEE 459
Query: 409 KKEQEEKERKEQEE 422
++ +EEKE +E+++
Sbjct: 460 EEAEEEKEEEEEKK 473
Score = 29.5 bits (67), Expect = 4.8
Identities = 19/69 (27%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 378 QEEIK----RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
+EEI+ K+ +K + E+ K E+E +KKK+ ++KE+EE ++ K++++
Sbjct: 396 EEEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEK 455
Query: 434 EDRLKAEEQ 442
E+ + E+
Sbjct: 456 EEEEEEAEE 464
>gnl|CDD|212864 cd11931, SH3_SH3RF3_2, Second Src Homology 3 domain of SH3 domain
containing ring finger 3, an E3 ubiquitin-protein
ligase. SH3RF3 is also called POSH2 (Plenty of SH3s 2)
or SH3MD4 (SH3 multiple domains protein 4). It is a
scaffold protein with E3 ubiquitin-protein ligase
activity. It was identified in the screen for
interacting partners of p21-activated kinase 2 (PAK2).
It may play a role in regulating JNK mediated apoptosis
in certain conditions. It also interacts with GTP-loaded
Rac1. SH3RF3 is highly homologous to SH3RF1; it also
contains an N-terminal RING finger domain and four SH3
domains. This model represents the second SH3 domain,
located C-terminal of the first SH3 domain at the
N-terminal half, of SH3RF3. 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 = 35.3 bits (81), Expect = 0.004
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 4/52 (7%)
Query: 474 ALYDYQASADDE----ISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALYD++ D+ ++F D+I+T I +DE W G + G+FP YV
Sbjct: 4 ALYDFEIKDKDQDKDCLTFTKDEILTVIRRVDENWAEGMLGDKIGIFPILYV 55
>gnl|CDD|223061 PHA03369, PHA03369, capsid maturational protease; Provisional.
Length = 663
Score = 39.6 bits (92), Expect = 0.004
Identities = 34/111 (30%), Positives = 47/111 (42%), Gaps = 9/111 (8%)
Query: 335 PLSPSTETPPVPVKSILKQPTS-DGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
P SP T P PV + QPT+ +PI +N ++ E KRK R EL+
Sbjct: 421 PQSPGTSYGPEPVGPVPPQPTNPYVMPISMANMVYPGHPQEH--GHERKRK---RGGELK 475
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
+E I E + +KK KE++E KE E K+ E K
Sbjct: 476 EELI---ETLKLVKKLKEEQESLAKELEATAHKSEIKKIAESEFKNAGAKT 523
>gnl|CDD|212735 cd11801, SH3_JIP1_like, Src homology 3 domain of JNK-interacting
proteins 1 and 2, and similar domains. JNK-interacting
proteins (JIPs) function as scaffolding proteins for
c-Jun N-terminal kinase (JNK) signaling pathways. They
bind to components of Mitogen-activated protein kinase
(MAPK) pathways such as JNK, MKK, and several MAP3Ks
such as MLK and DLK. There are four JIPs (JIP1-4); all
contain a JNK binding domain. JIP1 and JIP2 also contain
SH3 and Phosphotyrosine-binding (PTB) domains. Both are
highly expressed in the brain and pancreatic beta-cells.
JIP1 functions as an adaptor linking motor to cargo
during axonal transport and also is involved in
regulating insulin secretion. JIP2 form complexes with
fibroblast growth factor homologous factors (FHFs),
which facilitates activation of the p38delta MAPK. The
SH3 domain of JIP1 homodimerizes at the interface
usually involved in proline-rich ligand recognition,
despite the lack of this motif in the domain itself. 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 = 35.4 bits (82), Expect = 0.004
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYV 521
T AL+ + +DEI D D + + D+ W G GQ G+FPA YV
Sbjct: 1 THRALHKFIPRHEDEIELDIGDPVYVEQEADDLWCEGTNLRTGQRGIFPAAYV 53
>gnl|CDD|218517 pfam05236, TAF4, Transcription initiation factor TFIID component
TAF4 family. This region of similarity is found in
Transcription initiation factor TFIID component TAF4.
Length = 255
Score = 38.9 bits (91), Expect = 0.004
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 410 KEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTN 461
K++EE+ER+ + + L +Q + KA+E EQ+ EE R + N
Sbjct: 121 KQKEEEERRVERRRELGLEDPEQLRLKQKAKE-----EQKAESEETRHRAAN 167
>gnl|CDD|220716 pfam10359, Fmp27_WPPW, RNA pol II promoter Fmp27 protein domain.
Fmp27_WPPW is a conserved domain of a family of proteins
involved in RNA polymerase II transcription initiation.
It contains characteristic HQR and WPPW sequence motifs.
and is towards the C-terminal in members which contain
Fmp27_SW pfam10305.
Length = 470
Score = 39.2 bits (92), Expect = 0.004
Identities = 30/120 (25%), Positives = 54/120 (45%), Gaps = 11/120 (9%)
Query: 370 EKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK 429
K R VQ E+ ER ++LE+ +IK+ +E + + + +E + E + L
Sbjct: 154 GSNKPRRVQRELLE---ERLKQLEE---QIKKLEEKLDDLELNDTEELQSDLEELEEELS 207
Query: 430 KQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDEISFD 489
+E RL+ E+ LLE EE + ++ DTE + + +L +S + F
Sbjct: 208 VLKE--RLEFLEK--LLEDLERSEESSDRSSSTDTESSIADSLSSL-SNASSDESVSDFH 262
>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992). This
bacterial family of proteins has no known function.
However, the cis-regulatory yjdF motif, just upstream
from the gene encoding the proteins for this family, is
a small non-coding RNA, Rfam:RF01764. The yjdF motif is
found in many Firmicutes, including Bacillus subtilis.
In most cases, it resides in potential 5' UTRs of
homologues of the yjdF gene whose function is unknown.
However, in Streptococcus thermophilus, a yjdF RNA motif
is associated with an operon whose protein products
synthesise nicotinamide adenine dinucleotide (NAD+).
Also, the S. thermophilus yjdF RNA lacks typical yjdF
motif consensus features downstream of and including the
P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the
S. thermophilus RNAs might sense a distinct compound
that structurally resembles the ligand bound by other
yjdF RNAs. On the ohter hand, perhaps these RNAs have an
alternative solution forming a similar binding site, as
is observed with some SAM riboswitches.
Length = 132
Score = 37.2 bits (87), Expect = 0.005
Identities = 21/77 (27%), Positives = 42/77 (54%), Gaps = 6/77 (7%)
Query: 360 PIQNSNKEEEEKEKQRM-----VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEE 414
++ + + +KQ+ +Q + KE+++ K Q +K E E K++K++
Sbjct: 48 TLKFTEAVKVSIKKQKKINPKRLQRQA-AKEVKKPGISTKAQQALKLEHERNKQEKKKRS 106
Query: 415 KERKEQEENQKLLLKKQ 431
KE+KE+E+ +K LK+Q
Sbjct: 107 KEKKEEEKERKRQLKQQ 123
>gnl|CDD|212855 cd11922, SH3_Sorbs1_2, Second Src Homology 3 domain of Sorbin and
SH3 domain containing 1 (Sorbs1), also called ponsin.
Sorbs1 is also called ponsin, SH3P12, or CAP (c-Cbl
associated protein). It is an adaptor protein containing
one sorbin homology (SoHo) and three SH3 domains. It
binds Cbl and plays a major role in regulating the
insulin signaling pathway by enhancing insulin-induced
phosphorylation of Cbl. Sorbs1, like vinexin, localizes
at cell-ECM and cell-cell adhesion sites where it binds
vinculin, paxillin, and afadin. It may function in the
control of cell motility. Other interaction partners of
Sorbs1 include c-Abl, Sos, flotillin, Grb4, ataxin-7,
filamin C, 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 = 58
Score = 35.4 bits (81), Expect = 0.005
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG--QYGLFPANYVSL 523
A+A +++ E+SF + IT + +DE W+ G G + G+FP YV +
Sbjct: 3 AIAKFNFNGDTQVEMSFRKGERITLLRQVDENWYEGRIPGTSRQGIFPITYVDV 56
>gnl|CDD|191187 pfam05087, Rota_VP2, Rotavirus VP2 protein. Rotavirus particles
consist of three concentric proteinaceous capsid layers.
The innermost capsid (core) is made of VP2. The genomic
RNA and the two minor proteins VP1 and VP3 are
encapsidated within this layer. The N-terminus of
rotavirus VP2 is necessary for the encapsidation of VP1
and VP3.
Length = 887
Score = 39.5 bits (92), Expect = 0.005
Identities = 22/101 (21%), Positives = 42/101 (41%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
N N + +EK Q++ R EL+ K +KE++ +K++ QE + ++
Sbjct: 9 ANINNNDRMQEKDDEKQDQKNRMELKEKVLDKKEEVVTDNVDSPVKEQSSQENLKIADEV 68
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNE 462
+ KQ E EE + ++ E L + + E
Sbjct: 69 KKSTKEESKQLLEVLKTKEEHQKEIQYEILQKTIPSFEPKE 109
Score = 29.9 bits (67), Expect = 4.0
Identities = 37/171 (21%), Positives = 76/171 (44%), Gaps = 38/171 (22%)
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
+E +++K + +LK+++ K+EE+
Sbjct: 14 NDRMQEKDDEKQDQKNRMELKEKV----------------LDKKEEV------------- 44
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKE---ELEK 394
T+ PVK +Q + + + I + K+ ++E ++++ E +K KE +KE E+ +
Sbjct: 45 -VTDNVDSPVK---EQSSQENLKIADEVKKSTKEESKQLL-EVLKTKEEHQKEIQYEILQ 99
Query: 395 EQIRIKEEQENIKKKKEQEE-KERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
+ I E +E+I KK E + ++ K+Q + +L KQ R E++ R
Sbjct: 100 KTIPSFEPKESILKKLEDIKPEQAKKQTKLFRLFEPKQLPIYRANGEKELR 150
Score = 29.1 bits (65), Expect = 6.4
Identities = 25/139 (17%), Positives = 60/139 (43%), Gaps = 1/139 (0%)
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE-QEENQKLLLKKQQEEDRLKAE 440
+R+ + +E+ K++Q+N + KE+ +++E +N +K+Q ++ LK
Sbjct: 6 RREANINNNDRMQEKDDEKQDQKNRMELKEKVLDKKEEVVTDNVDSPVKEQSSQENLKIA 65
Query: 441 EQARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDEISFDPDDIITNIEMI 500
++ + +E + L T E+ ++++ Y + + I +DI
Sbjct: 66 DEVKKSTKEESKQLLEVLKTKEEHQKEIQYEILQKTIPSFEPKESILKKLEDIKPEQAKK 125
Query: 501 DEGWWRGYCHGQYGLFPAN 519
+R + Q ++ AN
Sbjct: 126 QTKLFRLFEPKQLPIYRAN 144
Score = 29.1 bits (65), Expect = 7.4
Identities = 19/113 (16%), Positives = 47/113 (41%), Gaps = 3/113 (2%)
Query: 219 KVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAK 278
+K ++D ++ KV D T+ +K + + ++K ++ K
Sbjct: 17 MQEKDDEKQDQKNRMELKEKVLDKKEEVVTDNVDSPVKEQSSQENLKIADEVKKSTKEES 76
Query: 279 QTEEESRKRSEEEK---EKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
+ E K EE + + L+ I + ++ ++L ++K ++ + + KL
Sbjct: 77 KQLLEVLKTKEEHQKEIQYEILQKTIPSFEPKESILKKLEDIKPEQAKKQTKL 129
>gnl|CDD|212998 cd12065, SH3_GRAF2, Src Homology 3 domain of GTPase Regulator
Associated with Focal adhesion kinase 2. GRAF2, also
called Rho GTPase activating protein 10 (ARHGAP10) or
PS-GAP, is a GAP with activity towards Cdc42 and RhoA.
It regulates caspase-activated p21-activated protein
kinase-2 (PAK-2p34). GRAF2 interacts with PAK-2p34,
leading to its stabilization and decrease of cell death.
It is highly expressed in skeletal muscle, and is
involved in alpha-catenin recruitment at cell-cell
junctions. GRAF2 contains an N-terminal BAR domain,
followed by a Pleckstrin homology (PH) domain, a Rho GAP
domain, and a C-terminal SH3 domain. The SH3 domain of
GRAF binds PKNbeta, a target of the small GTPase Rho.
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 = 35.0 bits (80), Expect = 0.005
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDE-GWWRGYCHGQYGLFPANYVSL 523
A A+Y +A E+SF+ I ++ + E GW G +G+ GL P NYV +
Sbjct: 2 AKAVYPCEAEHSSELSFEVGAIFEDVTLSREPGWLEGTLNGKRGLIPENYVEI 54
>gnl|CDD|212886 cd11953, SH3_ASPP2, Src Homology 3 (SH3) domain of Apoptosis
Stimulating of p53 protein 2. ASPP2 is the full length
form of the previously-identified tumor supressor,
p53-binding protein 2 (p53BP2). ASPP2 activates the
apoptotic function of the p53 family of tumor
suppressors (p53, p63, and p73). It plays a central role
in regulating apoptosis and cell growth; ASPP2-deficient
mice show postnatal death. Downregulated expression of
ASPP2 is frequently found in breast tumors, lung cancer,
and diffuse large B-cell lymphoma where it is correlated
with a poor clinical outcome. ASPP2 contains a
proline-rich region, four ankyrin (ANK) repeats, and an
SH3 domain at its C-terminal half. The SH3 domain and
the ANK repeats of ASPP2 contribute to the p53 binding
site; they bind to the DNA binding domain of p53. 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 = 34.9 bits (80), Expect = 0.006
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEG---WWRGYCHGQYGLFPANYVSL 523
AL+DY+ +DDE+SF D +T + DE WW + + G P N + L
Sbjct: 5 ALWDYEGESDDELSFKEGDCMTILRREDEDETEWWWARLNDKEGYVPRNLLGL 57
>gnl|CDD|212907 cd11974, SH3_ASEF2, Src homology 3 domain of APC-Stimulated guanine
nucleotide Exchange Factor 2. ASEF2, also called
Spermatogenesis-associated protein 13 (SPATA13), is a
GEF that localizes with actin at the leading edge of
cells and is important in cell migration and adhesion
dynamics. GEFs activate small GTPases by exchanging
bound GDP for free GTP. ASEF2 can activate both Rac 1
and Cdc42, but only Rac1 activation is necessary for
increased cell migration and adhesion turnover. Together
with APC (adenomatous polyposis coli) and Neurabin2, a
scaffold protein that binds F-actin, it is involved in
regulating HGF-induced cell migration. ASEF2 contains a
SH3 domain followed by RhoGEF (also called
Dbl-homologous or DH) and Pleckstrin Homology (PH)
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 = 54
Score = 34.7 bits (79), Expect = 0.006
Identities = 18/52 (34%), Positives = 29/52 (55%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A AL+D+ D E++F D+I +E ++ WW G + FPA++V L
Sbjct: 3 AEALWDHVTMDDQELAFKAGDVIRVLEASNKDWWWGRNEDREAWFPASFVRL 54
>gnl|CDD|212727 cd11793, SH3_ephexin1_like, Src homology 3 domain of ephexin-1-like
SH3 domain containing Rho guanine nucleotide exchange
factors. Members of this family contain RhoGEF (also
called Dbl-homologous or DH), Pleckstrin Homology (PH),
and C-terminal SH3 domains. They include the Rho guanine
nucleotide exchange factors ARHGEF5, ARHGEF16, ARHGEF19,
ARHGEF26, ARHGEF27 (also called ephexin-1), and similar
proteins, and are also called ephexins because they
interact directly with ephrin A receptors. GEFs interact
with Rho GTPases via their DH domains to catalyze
nucleotide exchange by stabilizing the nucleotide-free
GTPase intermediate. They play important roles in
neuronal development. The SH3 domains of ARHGEFs play an
autoinhibitory role through intramolecular interactions
with a proline-rich region N-terminal to the DH 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 = 55
Score = 34.6 bits (80), Expect = 0.006
Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRG--YCHGQYGLFPANYV 521
++ Y A DE++ + D++ + + +GW+ G G+ G FP++Y
Sbjct: 2 VQCVHAYTAQQPDELTLEEGDVVNVLRKMPDGWYEGERLRDGERGWFPSSYT 53
>gnl|CDD|212837 cd11904, SH3_Nck1_3, Third Src Homology 3 domain of Nck1 adaptor
protein. Nck1 (also called Nckalpha) plays a crucial
role in connecting signaling pathways of tyrosine kinase
receptors and important effectors in actin dynamics and
cytoskeletal remodeling. It binds and activates RasGAP,
resulting in the downregulation of Ras. It is also
involved in the signaling of endothilin-mediated
inhibition of cell migration. Nck adaptor proteins
regulate actin cytoskeleton dynamics by linking
proline-rich effector molecules to protein tyrosine
kinases and phosphorylated signaling intermediates. They
contain three SH3 domains and a C-terminal SH2 domain.
They function downstream of the PDGFbeta receptor and
are involved in Rho GTPase signaling and actin dynamics.
Vertebrates contain two Nck adaptor proteins: Nck1 (also
called Nckalpha) and Nck2, which show partly overlapping
functions but also bind distinct targets. The third SH3
domain of Nck appears to prefer ligands with a PxAPxR
motif. SH3 domains are protein interaction domains that
usually bind to proline-rich ligands with moderate
affinity and selectivity, preferentially a PxxP motif.
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 = 34.6 bits (79), Expect = 0.008
Identities = 20/57 (35%), Positives = 34/57 (59%), Gaps = 3/57 (5%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMI--DEGWWR-GYCHGQYGLFPANYVSL 523
+ ALY + +S D+E++F+ +++ IE D WW+ +GQ GL P NYV++
Sbjct: 1 HVVQALYPFSSSNDEELNFEKGEVMDVIEKPENDPEWWKCRKANGQVGLVPKNYVTV 57
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 38.5 bits (90), Expect = 0.008
Identities = 21/102 (20%), Positives = 42/102 (41%), Gaps = 3/102 (2%)
Query: 367 EEEEKEKQRMVQEEIKRK-ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
E+ QR E++R E+ERK L K + +IK+ +K + + ++ + +
Sbjct: 16 NEDVSAFQRKFVNEVRRCDEVERK--LRKLESKIKKLGIPLKDTGGKPDVPPSKEFLDLE 73
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
+ + E + E L ++ +EE E + D
Sbjct: 74 EEILDLEAEIKEVEENLESLEKEINELEEWLNVLDEEKSFLD 115
Score = 36.2 bits (84), Expect = 0.043
Identities = 41/228 (17%), Positives = 79/228 (34%), Gaps = 32/228 (14%)
Query: 250 ASKENIKPKPNIGHVKPSNLRAKFENLAKQTEE-ESRKRSEEEKEKRKLKDQIDL--EQA 306
K I K G + +F +L ++ + E+ + EE L+ +I+ E
Sbjct: 47 IKKLGIPLKDTGGKPDVPPSK-EFLDLEEEILDLEAEIKEVEEN-LESLEKEINELEEWL 104
Query: 307 QKLEERRLSELKIKEEEIE--------KKLNGHSDVPLSPSTET-PPVPVKSILKQPTSD 357
L+E + + EE E K L G + L +++ ++
Sbjct: 105 NVLDEEKSFLDENLEELSELSNLDIDFKYLRGAEGLKLGFVAGVINREKLEA-FERELWR 163
Query: 358 ---GIPIQNSNKEEEEKEKQRMV------QEEIKRKELERKEELEKEQIRIKE------E 402
G I+ + EE ++ ++ V +E K + + E + E E
Sbjct: 164 ACRGY-IRQAEIEEPLEDPKKTVFIIFFVGKEDLDKVKKILDSFGFELYDVPETEGERSE 222
Query: 403 QENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
+ K+ +E + EQ E L + D L A ++ E+
Sbjct: 223 LISKVNKRIEELQRVLEQTE-SHLEKVLVKIADELLAWDEQVSKEKAV 269
Score = 35.0 bits (81), Expect = 0.091
Identities = 43/174 (24%), Positives = 62/174 (35%), Gaps = 36/174 (20%)
Query: 309 LEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEE 368
E RR E++ K ++E K+ +PL + P VP EE
Sbjct: 28 NEVRRCDEVERKLRKLESKIKKL-GIPLKDTGGKPDVPPSKEFLD------------LEE 74
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLL 428
E + ++ EIK E E E LEKE I EE N+ +++ E E+ L
Sbjct: 75 EILD----LEAEIKEVE-ENLESLEKE-INELEEWLNVLDEEKSFLDENLEELSELSNLD 128
Query: 429 KK----QQEE-----------DRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
+ E +R K E R L R +Q E+ ED
Sbjct: 129 IDFKYLRGAEGLKLGFVAGVINREKLEAFEREL--WRACRGYIRQAEIEEPLED 180
>gnl|CDD|212830 cd11897, SH3_SNX18, Src Homology 3 domain of Sorting nexin 18.
SNX18 is localized to peripheral endosomal structures,
and acts in a trafficking pathway that is
clathrin-independent but relies on AP-1 and PACS1. It
binds FIP5 and is required for apical lumen formation.
It may also play a role in axonal elongation. SNXs are
Phox homology (PX) domain containing proteins that are
involved in regulating membrane traffic and protein
sorting in the endosomal system. SNX18 also contains BAR
and SH3 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 = 55
Score = 34.6 bits (79), Expect = 0.008
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMID-EGWWRGY-CHGQYGLFPANYVSL 523
A ALYD+++ EIS ++++ D EGW G G GLFPA+YV +
Sbjct: 2 ARALYDFRSENPGEISLREHEVLSLCSEQDIEGWLEGVNSRGDRGLFPASYVEV 55
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 38.5 bits (90), Expect = 0.009
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 359 IPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK 418
I I+N N+EE+E Q E K K+ + L ++ I+E+ KK + +K+ K
Sbjct: 1518 IEIENRNQEEKEPAGQGE-LESDKEKKGNLESVLSNQEKNIEEDYAESDIKKRKNKKQYK 1576
Query: 419 EQ-EENQKLLLKK 430
E LK+
Sbjct: 1577 SNTEAELDFFLKR 1589
Score = 32.8 bits (75), Expect = 0.64
Identities = 23/89 (25%), Positives = 44/89 (49%), Gaps = 8/89 (8%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI------RIKEEQENIKKKKEQEEKE 416
N NK+ +K+K + E K E+E + + EKE KE++ N++ +EK
Sbjct: 1497 NVNKKINQKKKGFIPSNEKKSIEIENRNQEEKEPAGQGELESDKEKKGNLESVLSNQEKN 1556
Query: 417 RKEQEENQKLLLKKQQEEDRLKAEEQARL 445
+E + +KK++ + + K+ +A L
Sbjct: 1557 IEEDYA--ESDIKKRKNKKQYKSNTEAEL 1583
>gnl|CDD|212800 cd11866, SH3_SKAP1-like, Src Homology 3 domain of Src
Kinase-Associated Phosphoprotein 1 and similar proteins.
This subfamily is composed of SKAP1, SKAP2, and similar
proteins. SKAP1 and SKAP2 are immune cell-specific
adaptor proteins that play roles in T- and B-cell
adhesion, respectively, and are thus important in the
migration of T- and B-cells to sites of inflammation and
for movement during T-cell conjugation with
antigen-presenting cells. Both SKAP1 and SKAP2 bind to
ADAP (adhesion and degranulation-promoting adaptor
protein), among many other binding partners. They
contain a pleckstrin homology (PH) domain, a C-terminal
SH3 domain, and several tyrosine phosphorylation sites.
The SH3 domain of SKAP1 is necessary for its ability to
regulate T-cell conjugation with antigen-presenting
cells and the formation of LFA-1 clusters. SKAP1 binds
primarily to a proline-rich region of ADAP through its
SH3 domain; its degradation is regulated by ADAP. A
secondary interaction occurs via the ADAP SH3 domain and
the RKxxYxxY motif in SKAP1. 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 = 34.3 bits (79), Expect = 0.009
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYV 521
L+D + DE+SF D+I I E GWW G +G+ GL P +Y+
Sbjct: 4 GLWDCSGNEPDELSFKRGDLIYIISKEYDSFGWWVGELNGKVGLVPKDYL 53
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 38.5 bits (90), Expect = 0.010
Identities = 42/201 (20%), Positives = 76/201 (37%), Gaps = 7/201 (3%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
S+L+ L + E + S + E + K ++ + L L E E
Sbjct: 895 SSLKLVNLELESEIIELKKSLSSDLIENLEFKTELIARLKKLLNNIDLEEGPSIEYVKLP 954
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE--KEKQRMVQEEIKRK 384
+LN +V + + +LK+ T I ++ NK E K+ + + +
Sbjct: 955 ELNKLHEVESKLKETSEEY--EDLLKKST---ILVREGNKANSELKNFKKELAELSKQYG 1009
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
L+ + KE E ++ K E E + QKL E ++L+A +A
Sbjct: 1010 ALQESTKQLKELPVEVAELQSASKIISSESTELSILKPLQKLKGLLLLENNQLQARYKAL 1069
Query: 445 LLEQERLMEELRQQGTNEDTE 465
L +E + + +Q E TE
Sbjct: 1070 KLRRENSLLDDKQLYQLESTE 1090
Score = 33.5 bits (77), Expect = 0.30
Identities = 36/175 (20%), Positives = 63/175 (36%), Gaps = 14/175 (8%)
Query: 287 RSEEEKEKRKL--KDQIDLEQAQKLE--ERRLSELKIKEEEIEKKLNGHSDVPLSPSTET 342
RS + K++ L K+ I L+ AQ++E ER+L ELKI + I
Sbjct: 853 RSLKAKKRFSLLKKETIYLQSAQRVELAERQLQELKIDVKSISS----------LKLVNL 902
Query: 343 PPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE 402
LK+ S + K E ++++ + + E ++ E
Sbjct: 903 ELESEIIELKKSLSSDLIENLEFKTELIARLKKLLNNIDLEEGPSIEYVKLPELNKLHEV 962
Query: 403 QENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+ +K+ E+ E K+ + K E K E + L E +Q
Sbjct: 963 ESKLKETSEEYEDLLKKSTILVREGNKANSELKNFKKELAELSKQYGALQESTKQ 1017
>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6. In yeast, 15 Apg proteins
coordinate the formation of autophagosomes. Autophagy is
a bulk degradation process induced by starvation in
eukaryotic cells. Apg6/Vps30p has two distinct functions
in the autophagic process, either associated with the
membrane or in a retrieval step of the carboxypeptidase
Y sorting pathway.
Length = 356
Score = 37.9 bits (88), Expect = 0.011
Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+++ N E E +E+K++E +ELE+ + + + + QEEKE+ E
Sbjct: 55 LESQNVEISNYEALDSELDELKKEEERLLDELEELEKEDDDLDGEL--VELQEEKEQLEN 112
Query: 421 EENQKLLLKKQQEEDRLKAEEQARLLEQE 449
EE Q L + + L+ E+ + LE +
Sbjct: 113 EELQYLREYNLFDRNNLQLEDNLQSLELQ 141
Score = 34.5 bits (79), Expect = 0.14
Identities = 23/83 (27%), Positives = 45/83 (54%), Gaps = 3/83 (3%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
++E + KQ + + E + E+ E L+ E +K+E+E + + E+ EKE +
Sbjct: 42 EKERDTYKQYLSKLESQNVEISNYEALDSELDELKKEEERLLDELEELEKEDDDL---DG 98
Query: 426 LLLKKQQEEDRLKAEEQARLLEQ 448
L++ Q+E+++L+ EE L E
Sbjct: 99 ELVELQEEKEQLENEELQYLREY 121
>gnl|CDD|233044 TIGR00600, rad2, DNA excision repair protein (rad2). All proteins
in this family for which functions are known are flap
endonucleases that generate the 3' incision next to DNA
damage as part of nucleotide excision repair. This
family is related to many other flap endonuclease
families including the fen1 family. This family is based
on the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 1034
Score = 38.0 bits (88), Expect = 0.013
Identities = 44/254 (17%), Positives = 89/254 (35%), Gaps = 25/254 (9%)
Query: 200 FGIESDRQDKSAV---------GWDHVEKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNA 250
FG+ S R+DK A+ G + + Q++ S + ++++
Sbjct: 527 FGLPSQREDKLAIPTEGTQNLQGISDHPEQFEFQNELSPLETKNNESNL----SSDAETE 582
Query: 251 SKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE 310
N + PS +E +E R +E + + + DL
Sbjct: 583 GSPNPEMPSWSSVTVPSEALDNYETTNPSNAKEVRNFAETGIQTTNVGESADLLLISNPM 642
Query: 311 ERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE 370
E E + +E E + +V ST VP KS + + + E
Sbjct: 643 EVEPMESEKEESESDGSFI---EVDSVSSTLELQVPSKSQPTDESEENAE---NKVASIE 696
Query: 371 KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
E ++ +++ L E E + + EE+++ K + + E+ E + L
Sbjct: 697 GEHRKEIED------LLFDESEEDNIVGMIEEEKDADDFKNEWQDISLEELEALEANLLA 750
Query: 431 QQEEDRLKAEEQAR 444
+Q + + ++Q R
Sbjct: 751 EQNSLKAQKQQQKR 764
>gnl|CDD|223683 COG0610, COG0610, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 962
Score = 38.2 bits (89), Expect = 0.013
Identities = 34/202 (16%), Positives = 71/202 (35%), Gaps = 15/202 (7%)
Query: 291 EKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSI 350
+ R LK L++ + E++ E+ ++ +L + +
Sbjct: 730 KLFGRFLKAFNALKKLYEFAYTLEEEIQYLEDLLKARLEKDYQSKYLDLIDNLNDARE-- 787
Query: 351 LKQPTSDGIPIQNSNKEEEEKEKQRMVQEEI-------KRKELERKEELEKEQIRIKEEQ 403
+K S I + + + E E KQ + + I K + E + IKE
Sbjct: 788 IKDKESKAIDLDDIDFELELIGKQEINIDYILELLQTFNDKNGAYESLKELIERIIKEWI 847
Query: 404 ENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNED 463
E++++KK+ E E K + D + E+ +L ++ + + +
Sbjct: 848 EDLRQKKKLIE----RLIEAINQYRAK--KLDTAEKLEELYILAKKEEEFKQFAEEEGLN 901
Query: 464 TEEDLGYTAVALYDYQASADDE 485
EE Y +AL + +
Sbjct: 902 EEELAFYDDLALNGGKLPENGT 923
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 38.1 bits (89), Expect = 0.013
Identities = 22/81 (27%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLL 446
ER EELE E ++EE E ++++ E+ E + ++ ++L +++ E+ + AE + +
Sbjct: 475 ERVEELEAELEDLEEEVEEVEERLERAEDLVEAEDRIERLEERREDLEELI-AERRETIE 533
Query: 447 EQERLMEELRQQGTNEDTEED 467
E+ EELR++ + E +
Sbjct: 534 EKRERAEELRERAAELEAEAE 554
>gnl|CDD|212792 cd11858, SH3_Myosin-I_fungi, Src homology 3 domain of Type I fungal
Myosins. 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.
Saccharomyces cerevisiae has two myosins-I, Myo3 and
Myo5, which are involved in endocytosis and the
polarization of the actin cytoskeleton. 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 = 55
Score = 33.9 bits (78), Expect = 0.013
Identities = 15/35 (42%), Positives = 21/35 (60%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWW 505
T ALYD+ S +E+S DDI+ ++ D GWW
Sbjct: 1 TYKALYDFAGSVANELSLKKDDIVYIVQKEDNGWW 35
>gnl|CDD|212839 cd11906, SH3_BTK, Src Homology 3 domain of Bruton's tyrosine
kinase. BTK is a cytoplasmic (or nonreceptor) tyr
kinase containing Src homology protein interaction
domains (SH3, SH2) N-terminal to the catalytic tyr
kinase domain. It also contains an N-terminal pleckstrin
homology (PH) domain, which binds the products of PI3K
and allows membrane recruitment and activation, and the
Tec homology (TH) domain with proline-rich and
zinc-binding regions. Btk is expressed in B-cells, and a
variety of myeloid cells including mast cells,
platelets, neutrophils, and dendrictic cells. It
interacts with a variety of partners, from cytosolic
proteins to nuclear transcription factors, suggesting a
diversity of functions. Stimulation of a diverse array
of cell surface receptors, including antigen engagement
of the B-cell receptor (BCR), leads to PH-mediated
membrane translocation of Btk and subsequent
phosphorylation by Src kinase and activation. Btk plays
an important role in the life cycle of B-cells including
their development, differentiation, proliferation,
survival, and apoptosis. Mutations in Btk cause the
primary immunodeficiency disease, X-linked
agammaglobulinaemia (XLA) in humans. 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 = 33.6 bits (77), Expect = 0.014
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYV 521
VALYDY ++ + +E + WWR +G+ G P+NYV
Sbjct: 2 KVVALYDYTPMNAQDLQLRKGEEYVILEESNLPWWRARDKNGREGYIPSNYV 53
>gnl|CDD|212728 cd11794, SH3_DNMBP_N1, First N-terminal Src homology 3 domain of
Dynamin Binding Protein, also called Tuba. DNMBP or
Tuba is a cdc42-specific guanine nucleotide exchange
factor (GEF) that contains four N-terminal SH3 domains,
a central RhoGEF [or Dbl homology (DH)] domain followed
by a Bin/Amphiphysin/Rvs (BAR) domain, and two
C-terminal SH3 domains. It provides a functional link
between dynamin and key regulatory proteins of the actin
cytoskeleton. It plays an important role in regulating
cell junction configuration. The four N-terminal SH3
domains of DNMBP binds the GTPase dynamin, which plays
an important role in the fission of endocytic vesicles.
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 = 33.6 bits (77), Expect = 0.016
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
A++D+ S +E+ D+I ++++DE W G G G FP+++V
Sbjct: 1 VVRAIFDFCPSVSEELPLFAGDVIEVLKVVDEFWLLGTKEGVTGQFPSSFV 51
>gnl|CDD|212856 cd11923, SH3_Sorbs2_2, Second Src Homology 3 domain of Sorbin and
SH3 domain containing 2 (Sorbs2), also called
Arg-binding protein 2 (ArgBP2). Sorbs2 or ArgBP2 is an
adaptor protein containing one sorbin homology (SoHo)
and three SH3 domains. It regulates actin-dependent
processes including cell adhesion, morphology, and
migration. It is expressed in many tissues and is
abundant in the heart. Like vinexin, it is found in
focal adhesion where it interacts with vinculin and
afadin. It also localizes in epithelial cell stress
fibers and in cardiac muscle cell Z-discs. Sorbs2 has
been implicated to play roles in the signaling of c-Arg,
Akt, and Pyk2. Other interaction partners of Sorbs2
include c-Abl, flotillin, spectrin, dynamin 1/2,
synaptojanin, PTP-PEST, 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 = 33.7 bits (77), Expect = 0.016
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG--QYGLFPANYVSL 523
AVA Y++ A + E+S D + ++ +D+ W+ G G + G+FP +YV +
Sbjct: 3 AVAKYNFNADTNVELSLRKGDRVVLLKQVDQNWYEGKIPGTNRQGIFPVSYVEV 56
>gnl|CDD|212865 cd11932, SH3_SH3RF2_2, Second Src Homology 3 domain of SH3 domain
containing ring finger 2. SH3RF2 is also called POSHER
(POSH-eliminating RING protein) or HEPP1 (heart protein
phosphatase 1-binding protein). It acts as an
anti-apoptotic regulator of the JNK pathway by binding
to and promoting the degradation of SH3RF1 (or POSH), a
scaffold protein that is required for pro-apoptotic JNK
activation. It may also play a role in cardiac functions
together with protein phosphatase 1. SH3RF2 contains an
N-terminal RING finger domain and three SH3 domains.
This model represents the second SH3 domain, located
C-terminal of the first SH3 domain at the N-terminal
half, of SH3RF2. 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 = 33.7 bits (77), Expect = 0.017
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
Query: 474 ALYDY------QASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
ALY++ + + D + F DDIIT I +DE W G Q G+FP +V
Sbjct: 4 ALYNFDLKEKNREESKDCLKFQKDDIITVISRVDENWAEGKLGDQVGIFPILFV 57
>gnl|CDD|212838 cd11905, SH3_Tec, Src Homology 3 domain of Tec (Tyrosine kinase
expressed in hepatocellular carcinoma). Tec is a
cytoplasmic (or nonreceptor) tyr kinase containing Src
homology protein interaction domains (SH3, SH2)
N-terminal to the catalytic tyr kinase domain. It also
contains an N-terminal pleckstrin homology (PH) domain,
which binds the products of PI3K and allows membrane
recruitment and activation, and the Tec homology (TH)
domain, which contains proline-rich and zinc-binding
regions. It is more widely-expressed than other Tec
subfamily kinases. Tec is found in endothelial cells,
both B- and T-cells, and a variety of myeloid cells
including mast cells, erythroid cells, platelets,
macrophages and neutrophils. Tec is a key component of
T-cell receptor (TCR) signaling, and is important in
TCR-stimulated proliferation, IL-2 production and
phospholipase C-gamma1 activation. 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 = 33.6 bits (77), Expect = 0.018
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYVS 522
VA+YD+Q + ++ + + +E D WW+ +G+ G P+NYV+
Sbjct: 2 IVVAMYDFQPTEPHDLRLETGEEYVILEKNDVHWWKARDKYGKEGYIPSNYVT 54
>gnl|CDD|212744 cd11810, SH3_RUSC1_like, Src homology 3 domain of RUN and SH3
domain-containing proteins 1 and 2. RUSC1 and RUSC2,
that were originally characterized in silico. They are
adaptor proteins consisting of RUN, leucine zipper, and
SH3 domains. RUSC1, also called NESCA (New molecule
containing SH3 at the carboxy-terminus), is highly
expressed in the brain and is translocated to the
nuclear membrane from the cytoplasm upon stimulation
with neurotrophin. It plays a role in facilitating
neurotrophin-dependent neurite outgrowth. It also
interacts with NEMO (or IKKgamma) and may function in
NEMO-mediated activation of NF-kB. RUSC2, also called
Iporin, is expressed ubiquitously with highest amounts
in the brain and testis. It interacts with the small
GTPase Rab1 and the Golgi matrix protein GM130, and may
function in linking GTPases to certain intracellular
signaling pathways. 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 = 50
Score = 33.2 bits (76), Expect = 0.019
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
AL + A+ ++SF DI+ I +D+ W GL P +Y
Sbjct: 4 ALCHHVATDSGQLSFRKGDILRVIARVDDDWLLCTRGSTKGLVPLSY 50
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 37.5 bits (88), Expect = 0.020
Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 2/100 (2%)
Query: 345 VPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQE 404
V K +L++ GI +++ + EE+E ++ +E + E E K E E+ EE+
Sbjct: 15 VSSKELLEKLKELGIEVKSHSSTVEEEEARK--EEAKREAEEEAKAEAEEAAAAEAEEEA 72
Query: 405 NIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
+ +E E + + ++E AE AR
Sbjct: 73 KAEAAAAAPAEEAAEAAAAAEAAARPAEDEAARPAEAAAR 112
Score = 35.2 bits (82), Expect = 0.085
Identities = 23/132 (17%), Positives = 48/132 (36%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLN 329
+ + E AK EE+ EE+ K + E+A + + + E+E +
Sbjct: 49 KREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEAAARPAEDEAARPAE 108
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERK 389
+ P + K K+P K + + ++R + K+K+ ++
Sbjct: 109 AAARRPKAKKAAKKKKGPKPKKKKPKRKAARGGKRGKGGKGRRRRRGRRRRRKKKKKQKP 168
Query: 390 EELEKEQIRIKE 401
E ++ I E
Sbjct: 169 TEKIPREVVIPE 180
Score = 31.7 bits (73), Expect = 1.2
Identities = 21/134 (15%), Positives = 54/134 (40%), Gaps = 1/134 (0%)
Query: 288 SEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVP-LSPSTETPPVP 346
EEE K + K + + E + EE +E + + + + + + E P
Sbjct: 39 EEEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEAAARP 98
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
+ +P + K ++K+ + +++ KRK + + + R +
Sbjct: 99 AEDEAARPAEAAARRPKAKKAAKKKKGPKPKKKKPKRKAARGGKRGKGGKGRRRRRGRRR 158
Query: 407 KKKKEQEEKERKEQ 420
++KK++++K ++
Sbjct: 159 RRKKKKKQKPTEKI 172
>gnl|CDD|212878 cd11945, SH3_Endophilin_B1, Src homology 3 domain of Endophilin-B1.
Endophilin-B1, also called Bax-interacting factor 1
(Bif-1) or SH3GLB1 (SH3-domain GRB2-like endophilin B1),
is localized mainly to the Golgi apparatus. It is
involved in the regulation of many biological events
including autophagy, tumorigenesis, nerve growth factor
(NGF) trafficking, neurite outgrowth, mitochondrial
outer membrane dynamics, and cell death. Endophilins
play roles in synaptic vesicle formation, virus budding,
mitochondrial morphology maintenance, receptor-mediated
endocytosis inhibition, and endosomal sorting. They
contain an N-terminal N-BAR domain (BAR domain with an
additional N-terminal amphipathic helix), followed by a
variable region containing proline clusters, and a
C-terminal SH3 domain. Endophilin-B1 forms homo- and
heterodimers (with endophilin-B2) through its BAR
domain. It interacts with amphiphysin 1 and dynamin 1
through its 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 = 33.5 bits (76), Expect = 0.022
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIIT--NIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A LYDY A+ E+S D++IT ++ +D W G Q G P Y+ L
Sbjct: 6 ARVLYDYDAANSTELSLLADEVITVYSVPGMDSDWLMGERGNQKGKVPITYLEL 59
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 37.0 bits (86), Expect = 0.023
Identities = 24/105 (22%), Positives = 46/105 (43%), Gaps = 13/105 (12%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIK-------EEQENIKKKKEQ-EEKERK 418
E KE + + +++ +EEL++E+ R+ E + + Q EE+E+
Sbjct: 54 LLEAKELLLRERNQQRQEARREREELQREEERLVQKEEQLDARAEKLDNLENQLEEREKA 113
Query: 419 EQEENQKLLLKKQQEEDRLK-----AEEQARLLEQERLMEELRQQ 458
+L ++Q ++ L EQAR L + L EL ++
Sbjct: 114 LSARELELEELEKQLDNELYRVAGLTPEQARKLLLKLLDAELEEE 158
>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
Length = 174
Score = 35.7 bits (83), Expect = 0.024
Identities = 20/93 (21%), Positives = 46/93 (49%), Gaps = 10/93 (10%)
Query: 372 EKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN-----QKL 426
E++ + + +K E E L + + E Q+ + + +++ E+ R + + ++
Sbjct: 50 ERREAILQALKEAE----ERLRQAAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEI 105
Query: 427 LLKKQQEEDRLKAEEQARL-LEQERLMEELRQQ 458
+ ++ RLK A L EQER++ +LR++
Sbjct: 106 EKQAIEDMARLKQTAAADLSAEQERVIAQLRRE 138
>gnl|CDD|212957 cd12024, SH3_NoxO1_2, Second or C-terminal Src homology 3 domain of
NADPH oxidase (Nox) Organizing protein 1. Nox
Organizing protein 1 (NoxO1) is a critical regulator of
enzyme kinetics of the nonphagocytic NADPH oxidase Nox1,
which catalyzes the transfer of electrons from NADPH to
molecular oxygen to form superoxide. Nox1 is expressed
in colon, stomach, uterus, prostate, and vascular smooth
muscle cells. NoxO1 is involved in targeting activator
subunits (such as NoxA1) to Nox1. It is co-localized
with Nox1 in the membranes of resting cells and directs
the subcellular localization of Nox1. NoxO1 contains an
N-terminal Phox homology (PX) domain, tandem SH3 domains
(N-SH3 and C-SH3), and a C-terminal proline-rich region
(PRR). This model characterizes the second SH3 domain
(or C-SH3) of NoxO1. The tandem SH3 domains of NoxO1
interact with the PRR of p22phox, which also complexes
with Nox1. 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 = 33.1 bits (76), Expect = 0.024
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
A Y+A +DE+S ++ ++ D GWW +G+ G P+ Y
Sbjct: 2 YYATRAYEAQKEDELSVPAGVVVEVLQKSDNGWWLIRYNGRAGYVPSMY 50
>gnl|CDD|212819 cd11886, SH3_BOI, Src Homology 3 domain of fungal BOI-like
proteins. This subfamily includes the Saccharomyces
cerevisiae proteins BOI1 and BOI2, and similar proteins.
They contain an N-terminal SH3 domain, a Sterile alpha
motif (SAM), and a Pleckstrin homology (PH) domain at
the C-terminus. BOI1 and BOI2 interact with the SH3
domain of Bem1p, a protein involved in bud formation.
They promote polarized cell growth and participates in
the NoCut signaling pathway, which is involved in the
control of cytokinesis. 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 = 33.1 bits (76), Expect = 0.025
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 5/53 (9%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDE---GWWRG--YCHGQYGLFPANY 520
+ ++D+ A ++DE++ P D I IE +E GW+ G G+ GLFP +
Sbjct: 3 IVIHDFNARSEDELTLKPGDKIELIEDDEEFGDGWYLGRNLRTGETGLFPVVF 55
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 36.9 bits (86), Expect = 0.026
Identities = 20/45 (44%), Positives = 32/45 (71%), Gaps = 2/45 (4%)
Query: 386 LERKEEL--EKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLL 428
L+ KEEL EKE+ +EQ+ ++K K+QEEK++KE E+ +K +
Sbjct: 547 LDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAKI 591
Score = 36.2 bits (84), Expect = 0.041
Identities = 16/40 (40%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKER 417
+EE++R E E KE L++++ K +++ KKKKE E+ E+
Sbjct: 550 KEELQR-EKEEKEALKEQKRLRKLKKQEEKKKKELEKLEK 588
Score = 34.2 bits (79), Expect = 0.17
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 5/66 (7%)
Query: 388 RKEELEKEQIRI--KEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
R E L IRI K + ++ K ++EE +R E+ +K LK+Q+ +LK +E+ +
Sbjct: 524 RDEWLPNLGIRIEDKPDGPSVWKLDDKEELQR---EKEEKEALKEQKRLRKLKKQEEKKK 580
Query: 446 LEQERL 451
E E+L
Sbjct: 581 KELEKL 586
Score = 29.6 bits (67), Expect = 5.3
Identities = 30/133 (22%), Positives = 55/133 (41%), Gaps = 31/133 (23%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
R + + AK K +K+K++L L+ KL + L L I+ E
Sbjct: 490 LRFRDEVRDAAKAEM----KLISLDKKKKQL-----LQLCDKLRDEWLPNLGIRIE---- 536
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL 386
D P PS K D +Q +E+E ++Q+ +++ K++E
Sbjct: 537 ------DKPDGPSV------WKLD------DKEELQREKEEKEALKEQKRLRKLKKQEEK 578
Query: 387 ERKEELEKEQIRI 399
++KE + E+ +I
Sbjct: 579 KKKELEKLEKAKI 591
Score = 29.2 bits (66), Expect = 6.8
Identities = 15/45 (33%), Positives = 30/45 (66%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKK 410
K ++++E QR +E+ KE +R +L+K++ + K+E E ++K K
Sbjct: 546 KLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAK 590
>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria
with the myosin-like domain [Function unknown].
Length = 499
Score = 36.9 bits (85), Expect = 0.027
Identities = 27/116 (23%), Positives = 39/116 (33%), Gaps = 9/116 (7%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ--KLLLKKQQEED 435
Q R EL + EK + E + +K ++E+E QE + L K QQE
Sbjct: 82 QLRALRTELGTAQG-EKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELA 140
Query: 436 RLKAEEQ------ARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDE 485
RL + Q L EQ R +E Q + T +
Sbjct: 141 RLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSA 196
Score = 30.8 bits (69), Expect = 2.2
Identities = 33/190 (17%), Positives = 78/190 (41%), Gaps = 5/190 (2%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLN 329
A+ E + E E+ ++ + K Q +L + K + + LK E+ ++L
Sbjct: 106 AARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLAEQ-RRQLE 164
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE-EIKRKELER 388
+ + + + LK D + ++++ E+E + + + +EL R
Sbjct: 165 AQAQSLQASQKQLQASA--TQLKSQVLD-LKLRSAQIEQEAQNLATRANAAQARTEELAR 221
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ ++ + ++++ +K Q+ R EQ ++ L++ + +E A+L
Sbjct: 222 RAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQLEAY 281
Query: 449 ERLMEELRQQ 458
+ LRQQ
Sbjct: 282 YQAYVRLRQQ 291
Score = 28.8 bits (64), Expect = 7.2
Identities = 25/190 (13%), Positives = 65/190 (34%), Gaps = 5/190 (2%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
LRA L E+ +E E + +L+ +A + E + K ++ +L
Sbjct: 83 LRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARL 142
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+ +T + +Q + +Q S K+ + Q Q + +
Sbjct: 143 TKQAQ-----DLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQ 197
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
E+ + + ++ + ++ + + + ++ + A ++ E+
Sbjct: 198 IEQEAQNLATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRER 257
Query: 449 ERLMEELRQQ 458
ER ++ L
Sbjct: 258 ERQLQRLETA 267
>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon.
Length = 431
Score = 36.6 bits (84), Expect = 0.028
Identities = 41/181 (22%), Positives = 79/181 (43%), Gaps = 7/181 (3%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSD 333
++ E+E + EE E+ + + + + + E E K E E E+K S
Sbjct: 108 NETVEEEEKEESREEREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEKPKRGSL 167
Query: 334 VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
+ T + + KE E+ ++++ QE E +K+ E
Sbjct: 168 EENNGEFMTHKLKHTENTFSRGGAEGAQVEAGKEFEKLKQKQ--QEAALELEELKKKREE 225
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
+ ++ +EEQ +QEE +RK +EE +K LK++ E R +A E+ + + ++ L E
Sbjct: 226 RRKVLEEEEQRR-----KQEEADRKSREEEEKRRLKEEIERRRAEAAEKRQKVPEDGLSE 280
Query: 454 E 454
+
Sbjct: 281 D 281
Score = 29.6 bits (66), Expect = 5.0
Identities = 44/192 (22%), Positives = 81/192 (42%), Gaps = 4/192 (2%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNG 330
A E LA++ E + SE + +++ K + + R + + E +E++
Sbjct: 58 ALLERLARREERRDERFSEALERQKEFKPTSTDQSLSEPSRRMQEDSGAENETVEEEEKE 117
Query: 331 HSDVPLSPSTETPPVP---VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
S ET V K+ + + EEEEK K+ ++E
Sbjct: 118 ESREEREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEKPKRGSLEENNGEFMTH 177
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL-LKKQQEEDRLKAEEQARLL 446
+ + E R E ++ KE E+ ++K+QE +L LKK++EE R EE+ +
Sbjct: 178 KLKHTENTFSRGGAEGAQVEAGKEFEKLKQKQQEAALELEELKKKREERRKVLEEEEQRR 237
Query: 447 EQERLMEELRQQ 458
+QE + R++
Sbjct: 238 KQEEADRKSREE 249
Score = 29.2 bits (65), Expect = 6.1
Identities = 24/100 (24%), Positives = 45/100 (45%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
E+ + V+EE K + E +EE+E+ + K EQ+N + E+ +KE KE E ++
Sbjct: 102 EDSGAENETVEEEEKEESREEREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEK 161
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
K+ E+ +L E +G + ++
Sbjct: 162 PKRGSLEENNGEFMTHKLKHTENTFSRGGAEGAQVEAGKE 201
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 37.0 bits (86), Expect = 0.029
Identities = 47/188 (25%), Positives = 92/188 (48%), Gaps = 23/188 (12%)
Query: 273 FENLAKQTEEESRKRSEEEKEKRKLKDQIDL--EQAQKLEE--RRLSELKIKEEEIEKKL 328
++NL + +E R+ EK ++ ++ +L E+ ++LEE R ++E+ + E+ ++L
Sbjct: 164 YKNLGEVIKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREEL 223
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE- 387
++ +K+ I+ KE E E + E K +ELE
Sbjct: 224 EK----------------LEKEVKELEELKEEIEELEKELESLEG-SKRKLEEKIRELEE 266
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
R EEL+KE ++E+ + +K+ KE+ E+ K E ++ L + ++ E RL E+ +
Sbjct: 267 RIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEE-EING 325
Query: 448 QERLMEEL 455
E ++EL
Sbjct: 326 IEERIKEL 333
Score = 35.4 bits (82), Expect = 0.091
Identities = 27/104 (25%), Positives = 52/104 (50%), Gaps = 6/104 (5%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I+ + E EK E I+ E+++ELE+ I E + + +E+ EK KE
Sbjct: 171 IKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEV 230
Query: 421 EENQKL------LLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
+E ++L L K+ + + K + + ++ E E +EEL+++
Sbjct: 231 KELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKE 274
Score = 34.7 bits (80), Expect = 0.13
Identities = 35/154 (22%), Positives = 76/154 (49%), Gaps = 26/154 (16%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
L ++ K+ E+E ++ E+E++ RK +++ ++ E +L EL + +E+E+K
Sbjct: 452 ELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKELEEK 511
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKR--KE 385
L ++ L + + + E+ KEK ++ EIK KE
Sbjct: 512 LKKYNLEELE------------------------KKAEEYEKLKEKLIKLKGEIKSLKKE 547
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
LE+ EEL+K+ ++++ + ++++ + KE +E
Sbjct: 548 LEKLEELKKKLAELEKKLDELEEELAELLKELEE 581
Score = 34.3 bits (79), Expect = 0.18
Identities = 54/195 (27%), Positives = 96/195 (49%), Gaps = 22/195 (11%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID--LEQAQKLEE--RRLSELKIKEEEI 324
L+ + E L K+ E + + E++ R+L+++I+ ++ ++LEE + L ELK K EE
Sbjct: 236 LKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEEY 295
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRK 384
K L+ + L E ++ L + + I+ KE EEKE++ EE+K+K
Sbjct: 296 IK-LSEFYEEYLDELRE-----IEKRLSRLEEEINGIEERIKELEEKEERL---EELKKK 346
Query: 385 ELERKEELEK---------EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEED 435
E ++ LE+ E KEE E +KK+ E+ E+E + K++ EE+
Sbjct: 347 LKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEE 406
Query: 436 RLKAEEQARLLEQER 450
K + L++E
Sbjct: 407 ISKITARIGELKKEI 421
Score = 29.3 bits (66), Expect = 6.5
Identities = 49/208 (23%), Positives = 100/208 (48%), Gaps = 21/208 (10%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEK-RKLKDQI-----DLEQAQKLEERRLSELKIKE 321
L K + + E+ + E+ KEK KLK +I +LE+ ++L+ ++L+EL+ K
Sbjct: 507 ELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELK-KKLAELEKKL 565
Query: 322 EEIEKKLNGHSDVPLSPSTETPPVPVKSI--LKQPTSDGIPIQNSNKEEEEKEKQR---- 375
+E+E++L E+ + + L+ ++ + ++++ KE E +EK+
Sbjct: 566 DELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKELKKLE 625
Query: 376 --------MVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
+ E KR E RKE E E+ +EE E ++++ + +E + L
Sbjct: 626 EELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRAELEEL 685
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEEL 455
K+++E + + + L E+E+ +EL
Sbjct: 686 EKRREEIKKTLEKLKEELEEREKAKKEL 713
Score = 28.5 bits (64), Expect = 9.9
Identities = 37/166 (22%), Positives = 79/166 (47%), Gaps = 30/166 (18%)
Query: 285 RKRSEEEKE---KRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTE 341
R+ +EE ++ + + +E+ K E + +L+ + E+EK L S++
Sbjct: 443 RELTEEHRKELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLKKESEL------- 495
Query: 342 TPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKE 401
+ +K + +Q +E E++ ++ EE+++K E E+L+++ I++K
Sbjct: 496 ---IKLKELAEQ------------LKELEEKLKKYNLEELEKKA-EEYEKLKEKLIKLKG 539
Query: 402 EQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
E +++KK E ++ +E ++ L KK E + AE L E
Sbjct: 540 EIKSLKK----ELEKLEELKKKLAELEKKLDELEEELAELLKELEE 581
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 35.8 bits (83), Expect = 0.031
Identities = 27/100 (27%), Positives = 52/100 (52%), Gaps = 5/100 (5%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
PI ++ E+K + + K++E E++ +E+ ++Q + K +EE
Sbjct: 29 PILDAMDAREKKIAGELADADTKKREAEQERREYEEKNEELDQQREVLLTKAKEEA---- 84
Query: 420 QEENQKLLLKKQQEEDRLKAEEQARLL-EQERLMEELRQQ 458
Q E Q+LL + ++E D ++ + Q L EQ L +ELR++
Sbjct: 85 QAERQRLLDEAREEADEIREKWQEALRREQAALSDELRRR 124
>gnl|CDD|212916 cd11983, SH3_Shank2, Src homology 3 domain of SH3 and multiple
ankyrin repeat domains protein 2. Shank2, also called
ProSAP1 (Proline-rich synapse-associated protein 1) or
CortBP1 (Cortactin-binding protein 1), is found in
neurons, glia, endocrine cells, liver, and kidney. It
plays a role in regulating dendritic spine volume and
branching and postsynaptic clustering. Mutations in the
Shank2 gene are associated with autism spectrum disorder
and mental retardation. Shank proteins carry scaffolding
functions through multiple sites of protein-protein
interaction in its domain architecture, including
ankyrin (ANK) repeats, a long proline rich region, as
well as SH3, PDZ, and SAM domains. The SH3 domain of
Shank binds GRIP, a scaffold protein that binds AMPA
receptors and Eph receptors/ligands. 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 = 32.6 bits (74), Expect = 0.032
Identities = 15/49 (30%), Positives = 22/49 (44%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
V + YQ + EI D + + + + G+W G G G FPA V
Sbjct: 4 VVVKSYQPQVEGEIPLHKGDRVKVLSIGEGGFWEGSARGHVGWFPAECV 52
>gnl|CDD|212887 cd11954, SH3_ASPP1, Src Homology 3 domain of Apoptosis Stimulating
of p53 protein 1. ASPP1, like ASPP2, activates the
apoptotic function of the p53 family of tumor
suppressors (p53, p63, and p73). In addition, it
functions in the cytoplasm to regulate the nuclear
localization of the transcriptional cofactors YAP and
TAZ by inihibiting their phosphorylation; YAP and TAZ
are important regulators of cell expansion,
differentiation, migration, and invasion. ASPP1 is
downregulated in breast tumors expressing wild-type p53.
It contains a proline-rich region, four ankyrin (ANK)
repeats, and an SH3 domain at its C-terminal half. The
SH3 domain and the ANK repeats of ASPP1 contribute to
the p53 binding site; they bind to the DNA binding
domain of p53. 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 = 32.7 bits (74), Expect = 0.032
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEG---WWRGYCHGQYGLFPANYVSL 523
AL+DY+A DE+SF D IT + D+ WW + + G P N + L
Sbjct: 3 VYALWDYEAQNADELSFQEGDAITILRRKDDSETEWWWARLNDKEGYVPKNLLGL 57
>gnl|CDD|213009 cd12076, SH3_Tks4_2, Second Src homology 3 domain of Tyrosine
kinase substrate with four SH3 domains. Tks4, also
called SH3 and PX domain-containing protein 2B
(SH3PXD2B) or HOFI, is a Src substrate and scaffolding
protein that plays an important role in the formation of
podosomes and invadopodia, the dynamic actin-rich
structures that are related to cell migration and cancer
cell invasion. It is required in the formation of
functional podosomes, EGF-induced membrane ruffling, and
lamellipodia generation. It plays an important role in
cellular attachment and cell spreading. Tks4 is
essential for the localization of MT1-MMP (membrane-type
1 matrix metalloproteinase) to invadopodia. It contains
an N-terminal Phox homology (PX) domain and four SH3
domains. This model characterizes the second SH3 domain
of Tks4. 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 = 32.7 bits (74), Expect = 0.033
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+Y Y A DEI+ + ++ I+ EGWW+ G+ G PA+Y+
Sbjct: 4 TVIYPYTARDQDEINLEKGAVVEVIQKNLEGWWKIRYQGKEGWAPASYL 52
>gnl|CDD|216249 pfam01025, GrpE, GrpE.
Length = 165
Score = 35.3 bits (82), Expect = 0.034
Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ +EEE ++++ ++EE++ E E EEL+ +R+ E EN +K+ E E+E ++
Sbjct: 1 EEKEEEEELEDEEEALEEELEELE-EEIEELKDRLLRLLAEFENYRKRTE-REREEAKKY 58
Query: 422 ENQKLLLK 429
+K
Sbjct: 59 AIEKFAKD 66
>gnl|CDD|221389 pfam12037, DUF3523, Domain of unknown function (DUF3523). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 257 to 277 amino acids in length. This domain is
found associated with pfam00004. This domain has a
conserved LER sequence motif.
Length = 276
Score = 35.9 bits (83), Expect = 0.037
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 6/84 (7%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
+QE+ ++ ELE K ++ ++ Q +++ + + E+ RK +E + ++ Q +D
Sbjct: 59 MQEKTRQAELEAK----IKEYEAQQAQAKLERARVEAEERRKTLQEQTQQEQQRAQYQDE 114
Query: 437 LKAEEQARLLEQERLMEE--LRQQ 458
L + + LEQ+R E L+ Q
Sbjct: 115 LARKRYQKELEQQRRQNEELLKMQ 138
Score = 35.5 bits (82), Expect = 0.046
Identities = 25/92 (27%), Positives = 49/92 (53%), Gaps = 5/92 (5%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
++E E+QR EE+ + + E L +E +R E+E ++ ++E E+E + + EN +
Sbjct: 121 QKELEQQRRQNEELLKMQEE--SVLRQEAMRRATEEEILEMRRETIEEEAELEREN---I 175
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEELRQQG 459
K + E R +A+E+ + R M +L+
Sbjct: 176 RAKIEAEARGRAKEERENEDINREMLKLKANE 207
Score = 33.2 bits (76), Expect = 0.27
Identities = 21/89 (23%), Positives = 50/89 (56%), Gaps = 3/89 (3%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
++E ++R Q+E++++ + EEL K Q QE +++ E+E E + + ++
Sbjct: 112 QDELARKRY-QKELEQQRR-QNEELLKMQEESVLRQEAMRRATEEEILEMRRETIEEEAE 169
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEELR 456
L+++ +++AE + R ++ER E++
Sbjct: 170 LERENIRAKIEAEARGR-AKEERENEDIN 197
Score = 29.3 bits (66), Expect = 4.7
Identities = 21/105 (20%), Positives = 53/105 (50%), Gaps = 13/105 (12%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQ------ENIKKKKEQ-- 412
++ + E EE+ K Q + +++ + ++EL +++ + + EQ E +K ++E
Sbjct: 84 LERARVEAEERRKTLQEQTQQEQQRAQYQDELARKRYQKELEQQRRQNEELLKMQEESVL 143
Query: 413 -EEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+E R+ EE + L ++++ E+ + E + + ++ E R
Sbjct: 144 RQEAMRRATEE-EILEMRRETIEEEAELEREN---IRAKIEAEAR 184
>gnl|CDD|212766 cd11832, SH3_Shank, Src homology 3 domain of SH3 and multiple
ankyrin repeat domains (Shank) proteins. Shank proteins
carry scaffolding functions through multiple sites of
protein-protein interaction in its domain architecture,
including ankyrin (ANK) repeats, a long proline rich
region, as well as SH3, PDZ, and SAM domains. They bind
a variety of membrane and cytosolic proteins, and exist
in alternatively spliced isoforms. They are highly
enriched in postsynaptic density (PSD) where they
interact with the cytoskeleton and with postsynaptic
membrane receptors including NMDA and glutamate
receptors. They are crucial in the construction and
organization of the PSD and dendritic spines of
excitatory synapses. There are three members of this
family (Shank1, Shank2, Shank3) which show distinct and
cell-type specific patterns of expression. Shank1 is
brain-specific; Shank2 is found in neurons, glia,
endocrine cells, liver, and kidney; Shank3 is widely
expressed. The SH3 domain of Shank binds GRIP, a
scaffold protein that binds AMPA receptors and Eph
receptors/ligands. 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 = 50
Score = 32.4 bits (74), Expect = 0.039
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPA 518
+A+ Y + EIS D + + + + G+W G G+ G FP+
Sbjct: 3 IAVKSYSPQEEGEISLHKGDRVKVLSIGEGGFWEGSVRGRTGWFPS 48
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 35.9 bits (83), Expect = 0.039
Identities = 18/99 (18%), Positives = 35/99 (35%), Gaps = 2/99 (2%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+E + +++M E KR E+ E + I E + + E E + +
Sbjct: 173 EEVQAAMEKQMAAERDKRAEILEAEGEAQAAILRAEGEAEAAIILAEAEAEAEVIARAEA 232
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDT 464
K L+ A +R +EEL + ++
Sbjct: 233 DAAKIIAAA--LREAPAAPQALAQRYLEELLEIALAGNS 269
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 36.5 bits (85), Expect = 0.039
Identities = 14/71 (19%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEK-ERKE 419
+ + EEE + + E K + E++ E++ EE+E+ K ++ ++ KE
Sbjct: 229 TSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDKLEILKE 288
Query: 420 QEENQKLLLKK 430
+++ + +K
Sbjct: 289 KKDEELFWFEK 299
Score = 30.7 bits (70), Expect = 2.1
Identities = 14/68 (20%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
KE E E++ + E K ++++ +E+ ++KE +K ++ ++ +
Sbjct: 227 KETSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDK-TEDLDKLEI 285
Query: 426 LLLKKQQE 433
L KK +E
Sbjct: 286 LKEKKDEE 293
Score = 30.0 bits (68), Expect = 4.4
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 7/76 (9%)
Query: 373 KQRMVQEEIKRKELERKEELEK--EQIRIKEEQENIKKK-----KEQEEKERKEQEENQK 425
K+ E + +E E E+E E K+EQE ++ E++E K ++ ++
Sbjct: 224 KKLKETSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDKL 283
Query: 426 LLLKKQQEEDRLKAEE 441
+LK++++E+ E+
Sbjct: 284 EILKEKKDEELFWFEK 299
>gnl|CDD|212977 cd12044, SH3_SKAP1, Src Homology 3 domain of Src Kinase-Associated
Phosphoprotein 1. SKAP1, also called SKAP55 (Src
kinase-associated protein of 55kDa), is an immune
cell-specific adaptor protein that plays an important
role in T-cell adhesion, migration, and integrin
clustering. It is expressed exclusively in
T-lymphocytes, mast cells, and macrophages. Binding
partners include ADAP (adhesion and
degranulation-promoting adaptor protein), Fyn, Riam,
RapL, and RasGRP. It contains a pleckstrin homology (PH)
domain, a C-terminal SH3 domain, and several tyrosine
phosphorylation sites. The SH3 domain of SKAP1 is
necessary for its ability to regulate T-cell conjugation
with antigen-presenting cells and the formation of LFA-1
clusters. SKAP1 binds primarily to a proline-rich region
of ADAP through its SH3 domain; its degradation is
regulated by ADAP. A secondary interaction occurs via
the ADAP SH3 domain and the RKxxYxxY motif in SKAP1. 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 = 32.5 bits (74), Expect = 0.041
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYV 521
L+D DE+SF D+I + E GWW G +G G+ P +Y+
Sbjct: 4 GLWDCFGDNPDELSFQRGDLIYILSKEYNMYGWWVGELNGIVGIVPKDYL 53
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 35.2 bits (81), Expect = 0.044
Identities = 32/92 (34%), Positives = 47/92 (51%), Gaps = 2/92 (2%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE--N 423
+ E E Q + E +K + L Q R++E + K+KKE+ E+ KE EE +
Sbjct: 112 EIVEIDELQEFIDELLKSDKEILPLLLYLGQERLEELKFKRKEKKERLEELEKELEELED 171
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
+K LL+K EE K E + E E L+EEL
Sbjct: 172 EKDLLEKLLEEKEKKKELEELKEELEELLEEL 203
Score = 29.1 bits (65), Expect = 4.2
Identities = 16/57 (28%), Positives = 38/57 (66%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
+ ++++ ER EELEKE +++E++ ++K E++EK+++ +E ++L ++ E
Sbjct: 148 LKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELEELKEELEELLEELE 204
Score = 28.3 bits (63), Expect = 7.2
Identities = 22/127 (17%), Positives = 49/127 (38%), Gaps = 1/127 (0%)
Query: 199 KFGIESDRQDKSAVGWDHVEKVDKHQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPK 258
F + + K + K ++V ++++ I + +
Sbjct: 79 TFENNKGKLKLRLIEESRELTKKKGKKVKKSILEIVEIDELQEFIDELLKSDKEILPLLL 138
Query: 259 PNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELK 318
+G + L+ K + ++ EE ++ E E EK L+ ++ ++ +K E EL+
Sbjct: 139 -YLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELEELKEELE 197
Query: 319 IKEEEIE 325
EE+E
Sbjct: 198 ELLEELE 204
Score = 27.9 bits (62), Expect = 9.5
Identities = 24/115 (20%), Positives = 59/115 (51%), Gaps = 7/115 (6%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK-- 418
I N + + K + E+ +K+ ++ ++ E + I E QE I + + +++
Sbjct: 78 ITFENNKGKLKLRLIEESRELTKKKGKKVKKSILEIVEIDELQEFIDELLKSDKEILPLL 137
Query: 419 ---EQEENQKLLLKKQQEEDRLKAEEQA--RLLEQERLMEELRQQGTNEDTEEDL 468
QE ++L K++++++RL+ E+ L +++ L+E+L ++ + E+L
Sbjct: 138 LYLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELEEL 192
>gnl|CDD|213001 cd12068, SH3_MYO15B, Src Homology 3 domain of Myosin XVb. Myosin
XVb, also called KIAA1783, was named based on its
similarity with myosin XVa. It is a transcribed and
unprocessed pseudogene whose predicted amino acid
sequence contains mutated or deleted amino acid residues
that are normally conserved and important for myosin
function. The related myosin XVa is important for normal
growth of mechanosensory stereocilia of inner ear hair
cells. Myosin XVa contains a unique N-terminal extension
followed by a motor domain, light chain-binding IQ
motifs, and a tail consisting of a pair of MyTH4-FERM
tandems separated by a SH3 domain, and a PDZ domain. SH3
domains bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs;
they play a role in the regulation of enzymes by
intramolecular interactions, changing the subcellular
localization of signal pathway components and mediate
multiprotein complex assemblies.
Length = 55
Score = 32.5 bits (74), Expect = 0.045
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEM--IDEGWWRGYCHGQYGLFPANYVSL 523
VAL Y +SF D+I + M ++ GW G G+ GLFPA+ V
Sbjct: 3 VALRSYITDDKSLLSFHRGDLIKLLPMAGLEPGWQFGSTGGRSGLFPADIVQP 55
>gnl|CDD|220623 pfam10186, Atg14, UV radiation resistance protein and
autophagy-related subunit 14. The Atg14 or Apg14
proteins are hydrophilic proteins with a predicted
molecular mass of 40.5 kDa, and have a coiled-coil motif
at the N terminus region. Yeast cells with mutant Atg14
are defective not only in autophagy but also in sorting
of carboxypeptidase Y (CPY), a vacuolar-soluble
hydrolase, to the vacuole. Subcellular fractionation
indicate that Apg14p and Apg6p are peripherally
associated with a membrane structure(s). Apg14p was
co-immunoprecipitated with Apg6p, suggesting that they
form a stable protein complex. These results imply that
Apg6/Vps30p has two distinct functions: in the
autophagic process and in the vacuolar protein sorting
pathway. Apg14p may be a component specifically required
for the function of Apg6/Vps30p through the autophagic
pathway. There are 17 auto-phagosomal component proteins
which are categorized into six functional units, one of
which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The
AS-PI3K complex and the Atg2-Atg18 complex are essential
for nucleation, and the specific function of the AS-PI3K
apparently is to produce phosphatidylinositol
3-phosphate (PtdIns(3)P) at the pre-autophagosomal
structure (PAS). The localisation of this complex at the
PAS is controlled by Atg14. Autophagy mediates the
cellular response to nutrient deprivation, protein
aggregation, and pathogen invasion in humans, and
malfunction of autophagy has been implicated in multiple
human diseases including cancer. This effect seems to be
mediated through direct interaction of the human Atg14
with Beclin 1 in the human phosphatidylinositol 3-kinase
class III complex.
Length = 307
Score = 35.8 bits (83), Expect = 0.045
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 1/93 (1%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIK-KKKEQEEKERKEQEENQK 425
E E ++ + +K + +KE L + + RI + +E I+ K++ EE +R +
Sbjct: 48 EGATNEDGKLAADLLKLEVARKKERLNQIRARISQLKEEIEQKRERIEELKRALAQRRSD 107
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
L Q E R ++ + E +R +L
Sbjct: 108 LSSASYQLEKRRASQLEKLQDEIKRTRSKLNAL 140
Score = 32.0 bits (73), Expect = 0.66
Identities = 26/135 (19%), Positives = 59/135 (43%), Gaps = 18/135 (13%)
Query: 347 VKSILKQPTSDGIPIQN---SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQ 403
V+ L+ T++ + + +KE+ ++ I + KEE+E+++ RI+E +
Sbjct: 43 VEEALEGATNEDGKLAADLLKLEVARKKERLNQIRARISQL----KEEIEQKRERIEELK 98
Query: 404 ENIKKKKE-------QEEKERKEQEENQKLLLKKQQEE----DRLKAEEQARLLEQERLM 452
+ +++ Q EK R Q E + +K+ + + L AE+++ L + +
Sbjct: 99 RALAQRRSDLSSASYQLEKRRASQLEKLQDEIKRTRSKLNALHSLLAEKRSFLCRELAKL 158
Query: 453 EELRQQGTNEDTEED 467
LR+ +
Sbjct: 159 FPLRRVIRGRKGDSS 173
Score = 30.0 bits (68), Expect = 3.0
Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 4/102 (3%)
Query: 369 EEKEKQRMVQEEIKRKELERK--EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
E + + E +EL++K E LE + ++ K + +KER Q +
Sbjct: 24 ELRLDLARLLLE--NEELKQKVEEALEGATNEDGKLAADLLKLEVARKKERLNQIRARIS 81
Query: 427 LLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
LK++ E+ R + EE R L Q R + L
Sbjct: 82 QLKEEIEQKRERIEELKRALAQRRSDLSSASYQLEKRRASQL 123
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 35.5 bits (82), Expect = 0.048
Identities = 21/85 (24%), Positives = 48/85 (56%)
Query: 372 EKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQ 431
E+ Q+E++ + + +E++ + Q ++E +E + +E+ ++E +E + +K + +
Sbjct: 1 EEAEREQQELEERMEQMEEDMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELE 60
Query: 432 QEEDRLKAEEQARLLEQERLMEELR 456
+E RL+ E A E+ERL E+
Sbjct: 61 EENRRLEEEAAASEEERERLEAEVD 85
Score = 30.9 bits (70), Expect = 1.2
Identities = 26/95 (27%), Positives = 50/95 (52%), Gaps = 3/95 (3%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
+ KE EE E+ + EE ++E E + LEK+ ++EE ++++ E+ER+ E
Sbjct: 24 AQKELEEYEETALELEEKLKQEEEEAQLLEKKADELEEENRRLEEEAAASEEERERLEAE 83
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
+ + E +L+ E + + E +L +ELR+
Sbjct: 84 ---VDEATAEVAKLEEEREKKEAETRQLQQELREA 115
Score = 30.9 bits (70), Expect = 1.3
Identities = 27/104 (25%), Positives = 49/104 (47%), Gaps = 5/104 (4%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ E +EK + +EE + E + E LE+E R++EE ++++E+ E E E
Sbjct: 30 EYEETALELEEKLKQEEEEAQLLEKKADE-LEEENRRLEEEAAASEEERERLEAEVDEAT 88
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTE 465
+ K +EE K E +L ++ R +E ++ E E
Sbjct: 89 A----EVAKLEEEREKKEAETRQLQQELREAQEAHERARQELLE 128
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 35.8 bits (83), Expect = 0.050
Identities = 34/159 (21%), Positives = 70/159 (44%), Gaps = 27/159 (16%)
Query: 276 LAKQTEEESRKRSEEEKEKRKLKDQIDL---------EQAQKLEERRLSELKIKEEEIEK 326
L ++ E+E + + ++ +R + +++ E ++ L E + + + ++
Sbjct: 199 LQEEYEKEVKAEKKRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDESA 258
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEE----IK 382
S+ E PV+ K+ T NKE+ KE +R +EE K
Sbjct: 259 WEGFESE------YEPINKPVRP--KRKTK-----AQRNKEKRRKELEREAKEEKQLKKK 305
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+L R +E+ KE + KE+ KK++ +E E+K+ +
Sbjct: 306 LAQLARLKEIAKEVAQ-KEKARARKKEQRKERGEKKKLK 343
>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207). This
family is found in eukaryotes; it has several conserved
tryptophan residues. The function is not known.
Length = 261
Score = 35.5 bits (82), Expect = 0.051
Identities = 24/126 (19%), Positives = 60/126 (47%), Gaps = 31/126 (24%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE--QENIKKKKEQEEKERKE-- 419
S K+ + ++K + + EE +++E E++ E + + R+ +E +E ++K +Q K+R
Sbjct: 94 SAKQAQRQKKLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKH 153
Query: 420 ---------------------------QEENQKLLLKKQQEEDRLKAEEQARLLEQERLM 452
++ Q+ LKK +++ + + EE+ + ++++
Sbjct: 154 KKEAAESASSSLSGSAKPERNVSQEEAKKRLQEWELKKLKQQQQKREEERRKQRKKQQEE 213
Query: 453 EELRQQ 458
EE +Q+
Sbjct: 214 EERKQK 219
Score = 31.6 bits (72), Expect = 0.78
Identities = 28/154 (18%), Positives = 67/154 (43%), Gaps = 34/154 (22%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSE-LKIKEEEIEKKL 328
+ K + L ++ +++ R++ EE E R Q+L + + E + K ++ K+
Sbjct: 101 QKKLQKLLEEKQKQEREKEREEAELR-----------QRLAKEKYEEWCRQKAQQAAKQ- 148
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
K+ + + + E Q ++ ++ EL++
Sbjct: 149 -----------------RTPKHKKEAAESASSSLSGSAKPERNVSQEEAKKRLQEWELKK 191
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
++ +++ +EE+ ++KK+QEE+ERK++ E
Sbjct: 192 LKQQQQK----REEERRKQRKKQQEEEERKQKAE 221
Score = 30.9 bits (70), Expect = 1.5
Identities = 18/80 (22%), Positives = 40/80 (50%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
Q + K+ K K+ + K E Q K+ + + KK +++++++E+E
Sbjct: 143 QQAAKQRTPKHKKEAAESASSSLSGSAKPERNVSQEEAKKRLQEWELKKLKQQQQKREEE 202
Query: 422 ENQKLLLKKQQEEDRLKAEE 441
++ ++++EE + KAEE
Sbjct: 203 RRKQRKKQQEEEERKQKAEE 222
Score = 28.5 bits (64), Expect = 8.0
Identities = 26/142 (18%), Positives = 62/142 (43%), Gaps = 17/142 (11%)
Query: 334 VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE---KEKQRMVQEEIKRKELERKE 390
VP + T S + + ++ +E E KQ Q+++++ E+++
Sbjct: 54 VPSLSLSSTASSLSDSSTYSRSLKEVKLERQAQEAYENWLSAKQAQRQKKLQKLLEEKQK 113
Query: 391 ELEKEQIRIKEEQENIKKKKEQEEKERKEQE--------------ENQKLLLKKQQEEDR 436
+ +++ E ++ + K+K +E +K Q+ E+ L + +R
Sbjct: 114 QEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKHKKEAAESASSSLSGSAKPER 173
Query: 437 LKAEEQARLLEQERLMEELRQQ 458
++E+A+ QE +++L+QQ
Sbjct: 174 NVSQEEAKKRLQEWELKKLKQQ 195
>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC. All proteins in this family for
which functions are known are part of an exonuclease
complex with sbcD homologs. This complex is involved in
the initiation of recombination to regulate the levels
of palindromic sequences in DNA. This family is based on
the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 1042
Score = 35.7 bits (82), Expect = 0.059
Identities = 33/200 (16%), Positives = 63/200 (31%), Gaps = 11/200 (5%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQK--LEERRLSELKIKEEEIEKKL--- 328
E L K +ES + +E +++ + K+QI L++ +K + RL EL+ + +
Sbjct: 454 EKLEKIHLQESAQSLKEREQQLQTKEQIHLQETRKKAVVLARLLELQEEPCPLCGSCIHP 513
Query: 329 NGHSDVPLSPSTETPPV------PVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIK 382
N +P T + + + + KE+ + +Q+
Sbjct: 514 NPARQDIDNPGPLTRRMQRGEQTYAQLETSEEDVYHQLTSERKQRASLKEQMQEIQQSFS 573
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQ 442
E ++ E E E LL K Q E+D
Sbjct: 574 ILTQCDNRSKEDIPNLQNITVRLQDLTEKLSEAEDMLACEQHALLRKLQPEQDLQDVRLH 633
Query: 443 ARLLEQERLMEELRQQGTNE 462
+ QE ++
Sbjct: 634 LQQCSQELALKLTALHALQL 653
Score = 34.2 bits (78), Expect = 0.19
Identities = 31/212 (14%), Positives = 69/212 (32%), Gaps = 10/212 (4%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEI 324
P + + L K+ + + ++ L + + ++ Q +++ L +L+ + EE+
Sbjct: 213 MPDTYHERKQVLEKELKHLREALQQTQQSHAYLTQKREAQEEQLKKQQLLKQLRARIEEL 272
Query: 325 EKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRK 384
+ + I Q E + K R + + ++
Sbjct: 273 RAQEAVLEE--TQERINRARKAAPLAAHIKAVTQIEQQAQRIHTELQSKMRSRAKLLMKR 330
Query: 385 ELERKEELEKEQIRIKEE----QENIKKKKEQEEKERKEQEENQKL----LLKKQQEEDR 436
K++ E+ R + QE + + +E Q + QQ++
Sbjct: 331 AAHVKQQSSIEEQRRLLQTLHSQEIHIRDAHEVATSIREISCQQHTLTQHIHTLQQQKTT 390
Query: 437 LKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
L + Q+ E + L E T DL
Sbjct: 391 LTQKLQSLCKELDILQREQATIDTRTSAFRDL 422
Score = 30.7 bits (69), Expect = 2.3
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 3/90 (3%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN- 423
+ + + ERK+ LEKE ++E + ++ ++R+ QEE
Sbjct: 197 ELLTLRSQLLTLCTPCMPDTYHERKQVLEKELKHLREALQQTQQSHAYLTQKREAQEEQL 256
Query: 424 --QKLLLKKQQEEDRLKAEEQARLLEQERL 451
Q+LL + + + L+A+E QER+
Sbjct: 257 KKQQLLKQLRARIEELRAQEAVLEETQERI 286
Score = 30.3 bits (68), Expect = 3.4
Identities = 21/181 (11%), Positives = 63/181 (34%), Gaps = 19/181 (10%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSD 333
E R E R++ Q Q + + L+ ++ + +KL
Sbjct: 347 LQTLHSQEIHIRDAHEVATSIREISCQ------QHTLTQHIHTLQQQKTTLTQKLQSLCK 400
Query: 334 VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
IL++ + ++ ++ + + Q+E++++ E
Sbjct: 401 E-------------LDILQREQATIDTRTSAFRDLQGQLAHAKKQQELQQRYAELCAAAI 447
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
+ ++ ++ ++ Q KER++Q + ++ + ++ + + L E+ +
Sbjct: 448 TCTAQCEKLEKIHLQESAQSLKEREQQLQTKEQIHLQETRKKAVVLARLLELQEEPCPLC 507
Query: 454 E 454
Sbjct: 508 G 508
Score = 29.6 bits (66), Expect = 5.9
Identities = 14/93 (15%), Positives = 32/93 (34%), Gaps = 6/93 (6%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIR-----IKEEQENIKKKKEQEEKERKEQEE 422
E+ E + M+ E + + E + + +R +E + ++
Sbjct: 601 EKLSEAEDMLACEQHALLRKLQPEQDLQDVRLHLQQCSQELALKLTALHALQLTLTQERV 660
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
+ L + + L A Q L + + E+L
Sbjct: 661 REHALSIRVLPK-ELLASRQLALQKMQSEKEQL 692
>gnl|CDD|116948 pfam08367, M16C_assoc, Peptidase M16C associated. This domain
appears in eukaryotes as well as bacteria and tends to
be found near the C-terminus of the metalloprotease M16C
(pfam05193).
Length = 248
Score = 34.9 bits (81), Expect = 0.061
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 393 EKEQIRIKEEQENIKKKKEQ-EEKERKEQEENQKLLLKKQQEEDRL 437
E+ +EE+E ++KKK E+++++ E L + Q + L
Sbjct: 6 TLEEKLNEEEREKLEKKKSSLSEEDKEKIIERGLELEELQSTPEDL 51
Score = 29.1 bits (66), Expect = 4.5
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 404 ENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEE 454
E +++K +EE+E+ E+ EED+ K E+ LE+ + E
Sbjct: 5 ETLEEKLNEEEREKLEK------KKSSLSEEDKEKIIERGLELEELQSTPE 49
>gnl|CDD|212915 cd11982, SH3_Shank1, Src homology 3 domain of SH3 and multiple
ankyrin repeat domains protein 1. Shank1, also called
SSTRIP (Somatostatin receptor-interacting protein), is a
brain-specific protein that plays a role in the
construction of postsynaptic density (PSD) and the
maturation of dendritic spines. Mice deficient in Shank1
show altered PSD composition, thinner PSDs, smaller
dendritic spines, and weaker basal synaptic
transmission, although synaptic plasticity is normal.
They show increased anxiety and impaired fear memory,
but also show better spatial learning. Shank proteins
carry scaffolding functions through multiple sites of
protein-protein interaction in its domain architecture,
including ankyrin (ANK) repeats, a long proline rich
region, as well as SH3, PDZ, and SAM domains. The SH3
domain of Shank binds GRIP, a scaffold protein that
binds AMPA receptors and Eph receptors/ligands. 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 = 31.9 bits (72), Expect = 0.061
Identities = 17/51 (33%), Positives = 29/51 (56%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
T +A+ YQ+ A+ EIS + I + + + G+W G G+ G FP++ V
Sbjct: 2 TFMAVKPYQSQAEGEISLSKGEKIKVLSVGEGGFWEGQVKGRVGWFPSDCV 52
>gnl|CDD|212736 cd11802, SH3_Endophilin_B, Src homology 3 domain of Endophilin-B.
Endophilins play roles in synaptic vesicle formation,
virus budding, mitochondrial morphology maintenance,
receptor-mediated endocytosis inhibition, and endosomal
sorting. They are classified into two types, A and B.
Vertebrates contain two endophilin-B isoforms.
Endophilin-B proteins are cytoplasmic proteins expressed
mainly in the heart, placenta, and skeletal muscle.
Endophilins contain an N-terminal N-BAR domain (BAR
domain with an additional N-terminal amphipathic helix),
followed by a variable region containing proline
clusters, 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 = 52
Score = 31.9 bits (73), Expect = 0.065
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMI--DEGWWRGYCHGQYGLFPANY 520
A LYDY A E+S D++IT E+ DE + G Q G P Y
Sbjct: 1 KARVLYDYDAEDSTELSLLADEVITVYELPGMDEDYMMGERGSQRGKVPVAY 52
>gnl|CDD|227515 COG5188, PRP9, Splicing factor 3a, subunit 3 [RNA processing and
modification].
Length = 470
Score = 35.4 bits (81), Expect = 0.066
Identities = 30/147 (20%), Positives = 50/147 (34%), Gaps = 10/147 (6%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
EE E + + + + +L R E + QIRI E E I + E ER
Sbjct: 12 EEMEIIENAIAERIQRNPKLPRDELRLERQIRIFENMERISNQIWLVEHERPTG------ 65
Query: 427 LLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDEI 486
K Q R+ L + + L +G + E G + Y+ A ++
Sbjct: 66 --LKDQMMKRINRSIDRDLYGFYKKLGALNVEGKLDGEIEVKGLRDLGYYESSAPKARDL 123
Query: 487 SFDPDDIITNIEMIDEGWWRGYCHGQY 513
D + E+ +G +Y
Sbjct: 124 --DVEAAFKGSELYGDGMELERIFRKY 148
>gnl|CDD|212978 cd12045, SH3_SKAP2, Src Homology 3 domain of Src Kinase-Associated
Phosphoprotein 2. SKAP2, also called SKAP55-Related
(SKAP55R) or SKAP55 homolog (SKAP-HOM or SKAP55-HOM), is
an immune cell-specific adaptor protein that plays an
important role in adhesion and migration of B-cells and
macrophages. Binding partners include ADAP (adhesion and
degranulation-promoting adaptor protein), YopH, SHPS1,
and HPK1. SKAP2 has also been identified as a substrate
for lymphoid-specific tyrosine phosphatase (Lyp), which
has been implicated in a wide variety of autoimmune
diseases. It contains a pleckstrin homology (PH) domain,
a C-terminal SH3 domain, and several tyrosine
phosphorylation sites. Like SKAP1, SKAP2 is expected to
bind primarily to a proline-rich region of ADAP through
its SH3 domain; its degradation may be regulated by
ADAP. 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 = 31.8 bits (72), Expect = 0.068
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 2/49 (4%)
Query: 475 LYDYQASADDEISFDPDDIITNI--EMIDEGWWRGYCHGQYGLFPANYV 521
L+D DE+SF D I + E GWW G G GL P Y+
Sbjct: 5 LWDCTGDQPDELSFKRGDTIYILSKEYNRFGWWVGEMKGTIGLVPKAYI 53
>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein. This entry is a highly
conserved protein present in eukaryotes.
Length = 680
Score = 35.7 bits (82), Expect = 0.071
Identities = 72/385 (18%), Positives = 125/385 (32%), Gaps = 92/385 (23%)
Query: 112 HESQSDYKTGFGGKFGVQNDRVDKSAVTWDHKEVIEKHASQKDYSSGFGGKFGVQKDRQD 171
+ G+ N + EVIE H+++ SS
Sbjct: 259 GKDHHHSHNHQHHSIGINNHHSKHADSKLQTIEVIENHSNKSRPSSSSTN----GSKETT 314
Query: 172 KSAVGWDHQEKIEKHESQKDYAKGFGGKFGIESDRQDKSAVGWDHVEKVDKHQSQKDDNR 231
++ K AK S + SA G V ++ R
Sbjct: 315 SNSSSAAAGSIGSKSSK---SAKHSNRNKSNSSPKSHSSANG--SVPSSSVSDNESKQKR 369
Query: 232 QVVTSSKVKDLIAANSTNASKENIKPK-PNIGHVKPSNLRAKFENLAKQTEEESRKRSEE 290
+SS +D S ++ ++ P PS + +++ K E + R E
Sbjct: 370 ASKSSSGARDSKKDASGMSANGTVENCIPENKISTPSAIERLEQDIKKLQAELQQARQNE 429
Query: 291 EKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSI 350
+ + ++ LE++ K + L +LK + + ++ KLN
Sbjct: 430 SELRNQISLLTSLERSLKSD---LGQLKKENDMLQTKLNSMV------------------ 468
Query: 351 LKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQE---NIK 407
++K+KQ M +EK R+K E + N +
Sbjct: 469 ----------------SAKQKDKQSMQS-------------MEK---RLKSEADSRVNAE 496
Query: 408 KKKEQEEKERKEQEENQK----------------LLLKKQQEEDRLK--------AEEQA 443
K+ +E+K +KE+EE L KQ E +K EE+
Sbjct: 497 KQLAEEKKRKKEEEETAARAAAQAAASREECAESLKQAKQDLEMEIKKLEHDLKLKEEEC 556
Query: 444 RLLEQERLMEELRQQGTNEDTEEDL 468
R+LE+E +ELR+ +E E L
Sbjct: 557 RMLEKE--AQELRKYQESEKETEVL 579
>gnl|CDD|212955 cd12022, SH3_p47phox_2, Second or C-terminal Src homology 3 domain
of the p47phox subunit of NADPH oxidase, also called
Neutrophil Cytosolic Factor 1. p47phox, or NCF1, is a
cytosolic subunit of the phagocytic NADPH oxidase
complex (also called Nox2 or gp91phox), which plays a
key role in the ability of phagocytes to defend against
bacterial infections. NADPH oxidase catalyzes the
transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p47phox is required for activation of NADH
oxidase and plays a role in translocation. It contains
an N-terminal Phox homology (PX) domain, tandem SH3
domains (N-SH3 and C-SH3), a polybasic/autoinhibitory
region, and a C-terminal proline-rich region (PRR). This
model characterizes the second SH3 domain (or C-SH3) of
p47phox. In its inactive state, the tandem SH3 domains
interact intramolecularly with the autoinhibitory
region; upon activation, the tandem SH3 domains are
exposed through a conformational change, resulting in
their binding to the PRR of p22phox and the activation
of NADPH oxidase. 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 = 31.7 bits (72), Expect = 0.071
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
+ + Y A +DE++ + I I + +GWW G FP+ Y+
Sbjct: 3 ITIKAYTAVEEDELTLLEGEAIEVIHKLLDGWWVVRKGEVTGYFPSMYL 51
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 35.4 bits (82), Expect = 0.072
Identities = 37/177 (20%), Positives = 66/177 (37%), Gaps = 14/177 (7%)
Query: 250 ASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQA--- 306
++ IK + K K EN ++ E+E E EK +L+ + +L A
Sbjct: 275 FERDKIKQLASELEKKLEKELKKLENKLEKQEDE---LEELEKAAEELRQKGELLYANLQ 331
Query: 307 --QKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSI-LKQPTSDGIPIQN 363
++ + EEI+ +L D +PS K LK + + Q
Sbjct: 332 LIEEGLKSVRLADFYGNEEIKIEL----DKSKTPSENAQRYFKKYKKLKGAKVN-LDRQL 386
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
S +E + K + + EE+ +E I + KK+K++E E+
Sbjct: 387 SELKEAIAYYESAKTALEKAEGKKAIEEIREELIEEGLLKSKKKKRKKKEWFEKFRW 443
Score = 34.7 bits (80), Expect = 0.14
Identities = 37/193 (19%), Positives = 68/193 (35%), Gaps = 38/193 (19%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-LEQAQKLEERRLSELKIKEEEIEKK 327
L KFE K + S + EKE +KL+++++ E + E+ EL+ K E +
Sbjct: 271 LDEKFERD-KIKQLASELEKKLEKELKKLENKLEKQEDELEELEKAAEELRQKGELLYAN 329
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
L +++ S + + EEIK + +
Sbjct: 330 LQ--------------------LIE-------EGLKSVRLADFYG-----NEEIKIELDK 357
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE--DRLKAEEQARL 445
K E Q K+ ++ K + + + +E K E + KA E+ R
Sbjct: 358 SKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEAIAYYESAKTALEKAEGKKAIEEIR- 416
Query: 446 LEQERLMEELRQQ 458
E+ L+ +
Sbjct: 417 -EELIEEGLLKSK 428
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 34.3 bits (79), Expect = 0.076
Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 9/97 (9%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
E+ K+ R +EE + E +EE EK + K E E +E K KE E
Sbjct: 1 LMELEKLIKKILREAEEEAEEILEEAREEAEKIKEEAKREAEEA--IEEILRKAEKEAE- 57
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLE-QERLMEELRQQ 458
++Q+ E + +LLE +E ++E + +
Sbjct: 58 -----RERQRIISSALLEARRKLLEAKEEILESVFEA 89
>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional.
Length = 211
Score = 34.7 bits (80), Expect = 0.077
Identities = 24/75 (32%), Positives = 44/75 (58%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
+ N EE+ ++ +E+ ++E EE+EKE+I E+ N K +E +++ K +EE
Sbjct: 10 HENMEEDCCKENENKEEDKGKEEDLEFEEIEKEEIIEDSEESNEVKIEELKDENNKLKEE 69
Query: 423 NQKLLLKKQQEEDRL 437
N+KL + + +DRL
Sbjct: 70 NKKLENELEALKDRL 84
Score = 32.0 bits (73), Expect = 0.54
Identities = 20/75 (26%), Positives = 39/75 (52%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+ + +EE+K K+ ++ E KE ++ E +++I+E ++ K KE+ +K E
Sbjct: 18 CKENENKEEDKGKEEDLEFEEIEKEEIIEDSEESNEVKIEELKDENNKLKEENKKLENEL 77
Query: 421 EENQKLLLKKQQEED 435
E + LL+ E D
Sbjct: 78 EALKDRLLRTVAEYD 92
>gnl|CDD|222613 pfam14235, DUF4337, Domain of unknown function (DUF4337). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 187 and 201 amino
acids in length. There is a single completely conserved
residue Q that may be functionally important.
Length = 158
Score = 34.1 bits (79), Expect = 0.078
Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 371 KEKQRMVQEEIKRKELER---KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
KQ + + ELE + EL+ + R K+E+ + + ++ E + KE E
Sbjct: 48 SIKQHLAELAADLLELEAAAPRAELQAKIARYKKEKARYRSEAKELEAKAKEAEAESDHA 107
Query: 428 LKK 430
L +
Sbjct: 108 LHQ 110
Score = 29.1 bits (66), Expect = 3.5
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 4/62 (6%)
Query: 391 ELEKEQIRI--KEEQENIKKKKEQEEKERKEQEENQKLLLK--KQQEEDRLKAEEQARLL 446
EL + + + + ++ K + +KE+ K L K+ E + A Q
Sbjct: 55 ELAADLLELEAAAPRAELQAKIARYKKEKARYRSEAKELEAKAKEAEAESDHALHQHHRF 114
Query: 447 EQ 448
Sbjct: 115 AL 116
>gnl|CDD|212799 cd11865, SH3_Nbp2-like, Src Homology 3 domain of Saccharomyces
cerevisiae Nap1-binding protein 2 and similar fungal
proteins. This subfamily includes Saccharomyces
cerevisiae Nbp2 (Nucleosome assembly protein 1
(Nap1)-binding protein 2), Schizosaccharomyces pombe
Skb5, and similar proteins. Nbp2 interacts with Nap1,
which is essential for maintaining proper nucleosome
structures in transcription and replication. It is also
the binding partner of the yeast type II protein
phosphatase Ptc1p and serves as a scaffolding protein
that brings seven kinases in close contact to Ptc1p.
Nbp2 plays a role many cell processes including
organelle inheritance, mating hormone response, cell
wall stress, mitotic cell growth at elevated
temperatures, and high osmolarity. Skb5 interacts with
the p21-activated kinase (PAK) homolog Shk1, which is
critical for fission yeast cell viability. Skb5
activates Shk1 and plays a role in regulating cell
morphology and growth under hypertonic conditions. Nbp2
and Skb5 contain an 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 = 55
Score = 31.7 bits (72), Expect = 0.079
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY--CHGQYGLFPANYVSL 523
AVALYD++ D+E+ F I+ + +GW G+ GL P +VS
Sbjct: 2 AVALYDFEPEHDNELGFAEGQILFILYKHGQGWLIAEDESGGKTGLVPEEFVSY 55
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 35.2 bits (81), Expect = 0.079
Identities = 23/98 (23%), Positives = 50/98 (51%)
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
K K P + P + E ++E++ Q + ++K+ + K + E + + KEE +
Sbjct: 81 EKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEK 140
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
+ KE+E+++ K+ EE + +K++E R K+ +
Sbjct: 141 RPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKP 178
Score = 31.8 bits (72), Expect = 0.90
Identities = 33/190 (17%), Positives = 76/190 (40%), Gaps = 15/190 (7%)
Query: 263 HVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEE 322
V+ + E ++ EEEKEK Q EE++ + K KEE
Sbjct: 79 RVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKE-----------QVKEEKKKKKEKPKEE 127
Query: 323 EIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIK 382
++K + P E K + + + + + + +K + K
Sbjct: 128 PKDRKPKEEAKEK-RPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNK 186
Query: 383 RKEL---ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKA 439
+KE E++ + +E ++ K E+ ++ +++E+EE + K++E + + + + +
Sbjct: 187 KKEPPEEEKQRQAAREAVKGKPEEPDVNEEREKEEDDGKDRETTTSPMEEDESRQSSEIS 246
Query: 440 EEQARLLEQE 449
+ L++
Sbjct: 247 RRSSSSLKKP 256
Score = 31.0 bits (70), Expect = 1.8
Identities = 40/214 (18%), Positives = 78/214 (36%), Gaps = 8/214 (3%)
Query: 248 TNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQ 307
+ S + + G K + K K + ++ +E+ ++ K K + ++
Sbjct: 69 SKLSSDEAVKRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEP 128
Query: 308 KLEERRL-----SELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQ 362
K + + K KE+E EKK+ D E V KS K+P P +
Sbjct: 129 KDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRER--VRAKSRPKKPPKKKPPNK 186
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
EEEK++Q +E +K K E E+E+ + +E++ R+ E
Sbjct: 187 KKEPPEEEKQRQA-AREAVKGKPEEPDVNEEREKEEDDGKDRETTTSPMEEDESRQSSEI 245
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+++ ++ + +R R
Sbjct: 246 SRRSSSSLKKPDPSPSMASPETRESSKRTETRPR 279
>gnl|CDD|212926 cd11993, SH3_Intersectin1_4, Fourth Src homology 3 domain (or SH3D)
of Intersectin-1. Intersectin-1 (ITSN1) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN1 localizes in membranous organelles, CCPs, the
Golgi complex, and may be involved in the cell membrane
trafficking system. It exists in alternatively spliced
short and long isoforms. The short isoform contains two
Eps15 homology domains (EH1 and EH2), a coiled-coil
region and five SH3 domains (SH3A-E), while the long
isoform, in addition, contains RhoGEF (also called
Dbl-homologous or DH), Pleckstrin homology (PH) and C2
domains. The fourth SH3 domain (or SH3D) of ITSN1 has
been shown to bind SHIP2, Numb, CdGAP, and N-WASP. 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 = 32.0 bits (72), Expect = 0.080
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG-----QYGLFPANYVSL 523
A + Y A+ ++++ P +I + GWW G Q G FPANYV L
Sbjct: 6 AQVIASYTATGPEQLTLAPGQLILIRKKNPGGWWEGELQARGKKRQIGWFPANYVKL 62
>gnl|CDD|212877 cd11944, SH3_Endophilin_B2, Src homology 3 domain of Endophilin-B2.
Endophilin-B2, also called SH3GLB2 (SH3-domain
GRB2-like endophilin B2), is a cytoplasmic protein that
interacts with the apoptosis inducer Bax. It is
overexpressed in prostate cancer metastasis and has been
identified as a cancer antigen with potential utility in
immunotherapy. Endophilins play roles in synaptic
vesicle formation, virus budding, mitochondrial
morphology maintenance, receptor-mediated endocytosis
inhibition, and endosomal sorting. They contain an
N-terminal N-BAR domain (BAR domain with an additional
N-terminal amphipathic helix), followed by a variable
region containing proline clusters, and a C-terminal SH3
domain. Endophilin-B2 forms homo- and heterodimers (with
endophilin-B1) through its BAR domain. The related
protein endophilin-B1 interacts with amphiphysin 1 and
dynamin 1 through its 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 = 55
Score = 31.5 bits (71), Expect = 0.082
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPDDIIT--NIEMIDEGWWRGYCHGQYGLFPANYVSL 523
A LYDY+A+ E++ D++IT ++ +D W G Q G P Y+ L
Sbjct: 2 ARVLYDYEAADSSELALLADELITVYSLPGMDPDWLIGERGNQKGKVPVTYLEL 55
>gnl|CDD|240439 PTZ00491, PTZ00491, major vault protein; Provisional.
Length = 850
Score = 35.4 bits (82), Expect = 0.082
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 404 ENIKKKKEQE---EKERKEQEENQKLLLKKQQEEDRLKAEEQAR-LLEQERLMEELRQQG 459
E K +E + E EQE + L++Q+ D+ KAEEQ LLE + + G
Sbjct: 658 EITTKSQEAAARHQAELLEQEA--RGRLERQKMHDKAKAEEQRTKLLELQAESAAVESSG 715
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 35.3 bits (81), Expect = 0.087
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 11/125 (8%)
Query: 352 KQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKE 411
+ S IQ N+ +++ + + Q E++RK E E+E R E + +K +E
Sbjct: 62 ELIRSKSKLIQLENELMQKELEHKRAQIELERKASTLAENYERELDRNLELEVRLKALEE 121
Query: 412 QE---EKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLM--------EELRQQGT 460
E E E E EE KLL K E E+ L++ + E++ +
Sbjct: 122 LEKKAENEAAEAEEEAKLLKDKLDAESLKLQNEKEDQLKEAKESISRIKNDLSEMQCRAQ 181
Query: 461 NEDTE 465
N DTE
Sbjct: 182 NADTE 186
Score = 33.4 bits (76), Expect = 0.34
Identities = 26/105 (24%), Positives = 48/105 (45%), Gaps = 9/105 (8%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
++ E E+E R ++ E++ K LE E+ + + EE+ + K K E + + E+
Sbjct: 96 STLAENYERELDRNLELEVRLKALEELEKKAENEAAEAEEEAKLLKDKLDAESLKLQNEK 155
Query: 423 NQKLL--------LKKQQEEDRLKAEEQ-ARLLEQERLMEELRQQ 458
+L +K E + +A+ L E +EELR+Q
Sbjct: 156 EDQLKEAKESISRIKNDLSEMQCRAQNADTELKLLESELEELREQ 200
Score = 33.4 bits (76), Expect = 0.37
Identities = 40/198 (20%), Positives = 87/198 (43%), Gaps = 21/198 (10%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-------LEQAQKLEERRLSELKIKE 321
L + + L + ++ + +E E+E + LKD++D E+ +L+E + S +IK
Sbjct: 112 LEVRLKALEELEKKAENEAAEAEEEAKLLKDKLDAESLKLQNEKEDQLKEAKESISRIKN 171
Query: 322 EEIEKKLNGHSDVPLSPSTETPPVPVKSILK----------QPTSDGIPIQNSNKEEEEK 371
+ E + + E+ ++ L+ + Q S+ + K
Sbjct: 172 DLSEMQCRAQNADTELKLLESELEELREQLEECQKELAEAEKKLQSLTSEQASSADNSVK 231
Query: 372 EKQRMVQEEIKRKELERK-EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
K ++EE+KR E + + + KEQ+ E E +E ++ + +E+ LLK+
Sbjct: 232 IKH--LEEELKRYEQDAEVVKSMKEQLLQIPELERELAALREENRKLRSMKED-NELLKE 288
Query: 431 QQEEDRLKAEEQARLLEQ 448
+ E+ + + E ++ E+
Sbjct: 289 ELEDLQSRLERFEKMREK 306
>gnl|CDD|212829 cd11896, SH3_SNX33, Src Homology 3 domain of Sorting Nexin 33.
SNX33 interacts with Wiskott-Aldrich syndrome protein
(WASP) and plays a role in the maintenance of cell shape
and cell cycle progression. It modulates the shedding
and endocytosis of cellular prion protein (PrP(c)) and
amyloid precursor protein (APP). SNXs are Phox homology
(PX) domain containing proteins that are involved in
regulating membrane traffic and protein sorting in the
endosomal system. SNX33 also contains BAR and SH3
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 = 55
Score = 31.5 bits (71), Expect = 0.087
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 472 AVALYDYQASADDEISFDPD-DIITNIEMIDEGWWRGY-CHGQYGLFPANYVSL 523
A ALY +Q+ +EI+ + +++ E +GW +G G+ GLFPA+YV +
Sbjct: 2 ARALYSFQSENKEEINIQENEELVIFSENSLDGWLQGQNSRGETGLFPASYVEI 55
>gnl|CDD|212954 cd12021, SH3_p47phox_1, First or N-terminal Src homology 3 domain
of the p47phox subunit of NADPH oxidase, also called
Neutrophil Cytosolic Factor 1. p47phox, or NCF1, is a
cytosolic subunit of the phagocytic NADPH oxidase
complex (also called Nox2 or gp91phox), which plays a
key role in the ability of phagocytes to defend against
bacterial infections. NADPH oxidase catalyzes the
transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p47phox is required for activation of NADH
oxidase and plays a role in translocation. It contains
an N-terminal Phox homology (PX) domain, tandem SH3
domains (N-SH3 and C-SH3), a polybasic/autoinhibitory
region, and a C-terminal proline-rich region (PRR). This
model characterizes the first SH3 domain (or N-SH3) of
p47phox. In its inactive state, the tandem SH3 domains
interact intramolecularly with the autoinhibitory
region; upon activation, the tandem SH3 domains are
exposed through a conformational change, resulting in
their binding to the PRR of p22phox and the activation
of NADPH oxidase. 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 = 31.5 bits (71), Expect = 0.089
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
Y A+A DY+ S+ E++ D++ +E + GWW + G PA+Y+
Sbjct: 2 YRAIA--DYEKSSKSEMALKTGDVVEVVEKSENGWWFCQLKAKRGWVPASYL 51
>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 = 31.2 bits (71), Expect = 0.095
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 470 YTAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANY 520
Y VA DY+ +EIS D++ IE + GWW + G PA Y
Sbjct: 2 YVVVA--DYKKQQPNEISLRAGDVVDVIEKNENGWWFVSLEDEQGWVPATY 50
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 35.3 bits (82), Expect = 0.097
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 18/119 (15%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKEL---------ERKEELEKEQIRIKEEQ----ENIKKKK 410
S EE ++ +R++Q EI+R+ L ER E+LEKE ++EE E K +K
Sbjct: 402 SKPEELDELDRRIIQLEIEREALKKEKDEASKERLEDLEKELAELEEEYADLEEQWKAEK 461
Query: 411 E--QEEKERKEQEENQKLLLKK-QQEEDRLKAEE--QARLLEQERLMEELRQQGTNEDT 464
Q ++ KE+ E +L L++ ++E D KA E +L E E+ ++ + E
Sbjct: 462 AAIQGIQQIKEEIEQVRLELEQAEREGDLAKAAELQYGKLPELEKRLQAAEAKLGEETK 520
>gnl|CDD|173502 PTZ00266, PTZ00266, NIMA-related protein kinase; Provisional.
Length = 1021
Score = 35.1 bits (80), Expect = 0.100
Identities = 25/90 (27%), Positives = 53/90 (58%), Gaps = 5/90 (5%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
E+E ++ + + +++K +ER E E+E++ +E E I++++ + E+ +E+ E +L
Sbjct: 441 EKENAHRKALEMKILEKKRIERLEREERERLE-RERMERIERERLERERLERERLERDRL 499
Query: 427 LLKKQQEEDRLKAEEQARLLEQERLMEELR 456
++ DRL+ E RL E++RL + R
Sbjct: 500 ---ERDRLDRLERERVDRL-ERDRLEKARR 525
>gnl|CDD|212938 cd12005, SH3_Lck, Src homology 3 domain of Lck Protein Tyrosine
Kinase. Lck is a member of the Src subfamily of
proteins, which are cytoplasmic (or non-receptor) PTKs.
Lck is expressed in T-cells and natural killer cells. It
plays a critical role in T-cell maturation, activation,
and T-cell receptor (TCR) signaling. Lck phosphorylates
ITAM (immunoreceptor tyr activation motif) sequences on
several subunits of TCRs, leading to the activation of
different second messenger cascades. Phosphorylated
ITAMs serve as binding sites for other signaling factor
such as Syk and ZAP-70, leading to their activation and
propagation of downstream events. In addition, Lck
regulates drug-induced apoptosis by interfering with the
mitochondrial death pathway. The apototic role of Lck is
independent of its primary function in T-cell signaling.
Src kinases 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). 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 = 54
Score = 31.3 bits (71), Expect = 0.10
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYVS 522
VALY Y+ S D ++ F+ + + +E E WW+ GQ G P N+V+
Sbjct: 3 VALYSYEPSHDGDLGFEKGEKLRILEQSGE-WWKAQSLTTGQEGFIPFNFVA 53
>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32. This family
consists of several mammalian specific proacrosin
binding protein sp32 sequences. sp32 is a sperm specific
protein which is known to bind with with 55- and 53-kDa
proacrosins and the 49-kDa acrosin intermediate. The
exact function of sp32 is unclear, it is thought however
that the binding of sp32 to proacrosin may be involved
in packaging the acrosin zymogen into the acrosomal
matrix.
Length = 243
Score = 34.2 bits (78), Expect = 0.11
Identities = 20/97 (20%), Positives = 43/97 (44%), Gaps = 5/97 (5%)
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
+ P +I + + P + N EE + + ++ K + K+E +
Sbjct: 146 PTTMTLPIAEHPTITENQSFQPWPERLHNNVEELLQSSLSLGGSVQVKAPKPKQEQLLSK 205
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
+ QE +++ K +E++ ++EQEE + KQ+E
Sbjct: 206 L-----QEYLQEHKTEEKQPQEEQEEEEVEEEAKQEE 237
>gnl|CDD|212734 cd11800, SH3_DNMBP_C2_like, Second C-terminal Src homology 3 domain
of Dynamin Binding Protein, also called Tuba, and
similar domains. DNMBP or Tuba is a cdc42-specific
guanine nucleotide exchange factor (GEF) that contains
four N-terminal SH3 domains, a central RhoGEF [or Dbl
homology (DH)] domain followed by a Bin/Amphiphysin/Rvs
(BAR) domain, and two C-terminal SH3 domains. It
provides a functional link between dynamin, Rho GTPase
signaling, and actin dynamics. It plays an important
role in regulating cell junction configuration. The
C-terminal SH3 domains of DNMBP bind to N-WASP and
Ena/VASP proteins, which are key regulatory proteins of
the actin cytoskeleton. Also included in this subfamily
is the second C-terminal SH3 domain of Rho guanine
nucleotide exchange factor 37 (ARHGEF37), whose function
is still unknown. 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 = 31.2 bits (71), Expect = 0.11
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEG----WWRGYCHGQYGLFPANY 520
ALY ++A + E+S ++T +E D WW G+ G P+NY
Sbjct: 3 YALYTFEARSPGELSVTEGQVVTVLEKHDLKGNPEWWLVEDRGKQGYVPSNY 54
>gnl|CDD|212899 cd11966, SH3_ASAP2, Src homology 3 domain of ArfGAP with SH3
domain, ankyrin repeat and PH domain containing protein
2. ASAP2 is also called DDEF2 (Development and
Differentiation Enhancing Factor 2), AMAP2, centaurin
beta-3, or PAG3. It mediates the functions of Arf
GTPases vial dual mechanisms: it exhibits GTPase
activating protein (GAP) activity towards class I (Arf1)
and II (Arf5) Arfs; and it binds class III Arfs
(GTP-Arf6) stably without GAP activity. It binds
paxillin and is implicated in Fcgamma receptor-mediated
phagocytosis in macrophages and in cell migration. ASAP2
contains an N-terminal BAR domain, followed by a
Pleckstrin homology (PH) domain, an Arf GAP domain,
ankyrin (ANK) repeats, 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 = 31.5 bits (71), Expect = 0.11
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQ---YGLFPANYV 521
ALY+ A DE++F +II D+ WW G+ G+ G FP ++V
Sbjct: 4 ALYNCVADNPDELTFSEGEIIIVDGEEDKEWWIGHIDGEPTRRGAFPVSFV 54
>gnl|CDD|233221 TIGR00985, 3a0801s04tom, mitochondrial import receptor subunit
translocase of outer membrane 20 kDa subunit.
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 148
Score = 33.4 bits (76), Expect = 0.11
Identities = 19/84 (22%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE-QARLLEQERLM 452
++++R + +++ +K+ + K+++ + + D E +A L++ +L
Sbjct: 38 RKKLRRRRKKQAGAEKQYGGLAKEKQRQRIRPAAAGLAKAPDPTDPSEKEAFFLQEVQLG 97
Query: 453 EELRQQGTNEDTEEDLGYTAVALY 476
EEL QGTN D Y A+ +Y
Sbjct: 98 EELMAQGTNVDEGAVHFYNALKVY 121
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 34.4 bits (79), Expect = 0.12
Identities = 26/148 (17%), Positives = 53/148 (35%), Gaps = 15/148 (10%)
Query: 223 HQSQKDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEE 282
Q + +Q + + L N + I P + N K A++ E
Sbjct: 289 EQRAQYREKQKEKKAFLWTL----RRNRLRMIITPW-RAPELHAENAEIKKTRTAEKNEA 343
Query: 283 ESRKRSEEEKEK---RKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPS 339
++RK+ +K + R++ + E+A + R + + +K + SP+
Sbjct: 344 KARKKEIAQKRRAAEREINREARQERAAAMARARA---RRAAVKAKK----KGLIDASPN 396
Query: 340 TETPPVPVKSILKQPTSDGIPIQNSNKE 367
+TP +S P + N+E
Sbjct: 397 EDTPSENEESKGSPPQVEATTTAEPNRE 424
Score = 33.7 bits (77), Expect = 0.21
Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 8/82 (9%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I+ + E+ + K R + KR+ ER+ E Q R + R
Sbjct: 332 IKKTRTAEKNEAKARKKEIAQKRRAAEREINREARQER--------AAAMARARARRAAV 383
Query: 421 EENQKLLLKKQQEEDRLKAEEQ 442
+ +K L+ ED E+
Sbjct: 384 KAKKKGLIDASPNEDTPSENEE 405
Score = 33.3 bits (76), Expect = 0.32
Identities = 17/96 (17%), Positives = 44/96 (45%)
Query: 371 KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
+ + RM+ + EL + K+ ++ + +KK+ +++ E+E N++ ++
Sbjct: 310 RNRLRMIITPWRAPELHAENAEIKKTRTAEKNEAKARKKEIAQKRRAAEREINREARQER 369
Query: 431 QQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
R +A A +++ L++ + T + EE
Sbjct: 370 AAAMARARARRAAVKAKKKGLIDASPNEDTPSENEE 405
Score = 29.4 bits (66), Expect = 5.1
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 1/69 (1%)
Query: 368 EEEKEKQRMVQEEIKR-KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+E +K+R + EI R ER + + + R + K + E E +
Sbjct: 348 KEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGLIDASPNEDTPSENEESK 407
Query: 427 LLKKQQEED 435
Q E
Sbjct: 408 GSPPQVEAT 416
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 34.9 bits (80), Expect = 0.12
Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 6/74 (8%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
E E EK+ + +EE++RK ++KEE KE KE ++ +KE + K + +Q + +
Sbjct: 5 ESEAEKKILTEEELERK--KKKEEKAKE----KELKKLKAAQKEAKAKLQAQQASDGTNV 58
Query: 428 LKKQQEEDRLKAEE 441
KK +++ R + E
Sbjct: 59 PKKSEKKSRKRDVE 72
Score = 34.5 bits (79), Expect = 0.15
Identities = 19/61 (31%), Positives = 40/61 (65%), Gaps = 5/61 (8%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKE-QIRIKEEQE----NIKKKKEQEEKERKEQEE 422
EEE E+++ +E+ K KEL++ + +KE + +++ +Q N+ KK E++ ++R ++E
Sbjct: 15 EEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRKRDVEDE 74
Query: 423 N 423
N
Sbjct: 75 N 75
Score = 32.6 bits (74), Expect = 0.58
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 3/71 (4%)
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
E E+K E+E R K+++E K KE+E K+ K ++ K L+ QQ D +++
Sbjct: 6 SEAEKKILTEEELERKKKKEE---KAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKS 62
Query: 444 RLLEQERLMEE 454
++R +E+
Sbjct: 63 EKKSRKRDVED 73
Score = 29.1 bits (65), Expect = 6.8
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQE--EKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
+ E E E+ + EE+ KKKKE++ EKE K+ + QK K Q + +
Sbjct: 2 SRTESEAEKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKK 61
Query: 446 LEQERLMEELRQQGTNEDTEED 467
E++ R++ ++ ED
Sbjct: 62 SEKKS-----RKRDVEDENPED 78
>gnl|CDD|234366 TIGR03825, FliH_bacil, flagellar assembly protein FliH. This
bacillus clade of FliH proteins is not found by the Pfam
FliH model pfam02108, but is closely related to the
sequences identified by that model. Sequences identified
by this model are observed in flagellar operons in an
analogous position relative to other flagellar operon
genes.
Length = 255
Score = 34.4 bits (79), Expect = 0.12
Identities = 26/79 (32%), Positives = 45/79 (56%), Gaps = 5/79 (6%)
Query: 381 IKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAE 440
I +++ E E+E ++E E I +K E E + EQ E Q +++Q E++R + E
Sbjct: 20 IPLRQVTDVPETEQELADEEQEFEQILEKAEAEAAQIIEQAEAQAAAIREQIEQERAQWE 79
Query: 441 EQARLLEQERLMEELRQQG 459
E E+ERL++E +Q+G
Sbjct: 80 E-----ERERLIQEAKQEG 93
>gnl|CDD|212869 cd11936, SH3_UBASH3B, Src homology 3 domain of Ubiquitin-associated
and SH3 domain-containing protein B. UBASH3B, also
called Suppressor of T cell receptor Signaling (STS)-1
or T cell Ubiquitin LigAnd (TULA)-2 is an active
phosphatase that is expressed ubiquitously. The
phosphatase activity of UBASH3B is essential for its
roles in the suppression of TCR signaling and the
regulation of EGFR. It also interacts with Syk and
functions as a negative regulator of platelet
glycoprotein VI signaling. TULA proteins contain an
N-terminal UBA domain, a central SH3 domain, and a
C-terminal histidine phosphatase domain. They bind c-Cbl
through the SH3 domain and to ubiquitin via UBA. 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 = 31.2 bits (70), Expect = 0.13
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEM----IDEGWWRG--YCHGQYGLFPANYVS 522
T +Y Y DDE+ P D I M EGW G G GL P NY++
Sbjct: 3 TLQVIYPYTPQNDDELELVPGDYIFMSPMEQTSTSEGWIYGTSLTTGCSGLLPENYIT 60
>gnl|CDD|236798 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 34.6 bits (80), Expect = 0.13
Identities = 41/204 (20%), Positives = 75/204 (36%), Gaps = 41/204 (20%)
Query: 251 SKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE 310
+ E +P+ ++ L + ++ Q E+SR+ +E+ R++ D + Q+ E
Sbjct: 89 NNERDEPRSVPPNMSTDALEQEILQVSSQLLEKSRQAQQEQDRAREISDSLSQLPQQQTE 148
Query: 311 ERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE 370
RR EIE++L + TP
Sbjct: 149 ARRQL------NEIERRLQT------LGTPNTP-------------------------LA 171
Query: 371 KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
+ + +Q E + +ELE Q+ QE + + E +K R +Q + L+
Sbjct: 172 QAQLTALQAESAALKA-LVDELELAQLSANNRQELARLRSELAKK-RSQQLDAYLQALRN 229
Query: 431 QQEEDRLKAEEQARLLEQERLMEE 454
Q R + E+A LE L+ E
Sbjct: 230 QLNSQRQREAERA--LESTELLAE 251
>gnl|CDD|227061 COG4717, COG4717, Uncharacterized conserved protein [Function
unknown].
Length = 984
Score = 34.8 bits (80), Expect = 0.14
Identities = 32/180 (17%), Positives = 57/180 (31%), Gaps = 23/180 (12%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNG 330
A + L + E + +E E R +D I + RL E K E+E+
Sbjct: 205 ATYHKLLESRRAEHARLAELRSELRADRDHIRALRDAVELWPRLQEWKQLEQELT----- 259
Query: 331 HSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKE 390
+ DG+ ++ +E ++ + + + L +
Sbjct: 260 -------------RRREELATFPR--DGV-LRLEKREAHLQKTEA--EIDALLVRLAELK 301
Query: 391 ELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
+L + I KE + Q+ E K L + + R K E E ER
Sbjct: 302 DLASQLIPAKEAVLQALVRLHQQLSEIKASAFELTETLAGIEADLRDKEEAAGNGFEAER 361
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 34.5 bits (80), Expect = 0.14
Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 10/77 (12%)
Query: 387 ERKEELEKEQIRIKEEQENIKK------KKEQEEKERKEQEENQKLLLKKQQEEDRLKAE 440
E +ELE+E ++EE E IKK KK + + +++E+ +KLL K++ + L+
Sbjct: 334 EELKELEEELKELEEELEKIKKLLKKLPKKARGQLPPEKREQLEKLLETKEKLSEELEEL 393
Query: 441 EQARLLEQERLMEELRQ 457
E+ E + L EEL
Sbjct: 394 EE----ELKELKEELES 406
Score = 33.0 bits (76), Expect = 0.41
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEK--EQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
E KE+ + ++EE+K E E E+++K +++ K + +K+EQ EK + +E+ +
Sbjct: 331 ELKEELKELEEELKELE-EELEKIKKLLKKLPKKARGQLPPEKREQLEKLLETKEKLSEE 389
Query: 427 LLKKQQEEDRLKAE 440
L + ++E LK E
Sbjct: 390 LEELEEELKELKEE 403
>gnl|CDD|212875 cd11942, SH3_JIP2, Src homology 3 domain of JNK-interacting protein
2. JNK-interacting protein 2 (JIP2) is also called
Mitogen-activated protein kinase 8-interacting protein 2
(MAPK8IP2) or Islet-brain-2 (IB2). It is widely
expressed in the brain, where it forms complexes with
fibroblast growth factor homologous factors (FHFs),
which facilitates activation of the p38delta MAPK. JIP2
is enriched in postsynaptic densities and may play a
role in motor and cognitive function. In addition to a
JNK binding domain, JIP2 also contains SH3 and
Phosphotyrosine-binding (PTB) domains. The SH3 domain of
the related protein JIP1 homodimerizes at the interface
usually involved in proline-rich ligand recognition,
despite the lack of this motif in the domain itself. 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 = 31.0 bits (70), Expect = 0.15
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH--GQYGLFPANY 520
T A++ + +DE+ D DD + D+ W+RGY G+ G+FPA Y
Sbjct: 1 THRAVFRFIPRHEDELELDVDDPLLVEAEEDDYWYRGYNMRTGERGIFPAFY 52
>gnl|CDD|227635 COG5325, COG5325, t-SNARE complex subunit, syntaxin [Intracellular
trafficking and secretion].
Length = 283
Score = 34.0 bits (78), Expect = 0.15
Identities = 32/154 (20%), Positives = 62/154 (40%), Gaps = 14/154 (9%)
Query: 267 SNLRAKFENLAKQTEEESRK----RSEEEKEKRKLKDQI--DLEQAQKLEERRLSELKIK 320
+ +R L K + + +SE+E E +L ++ DL++ +K+ + + L+
Sbjct: 48 TAVRRSISRLGKVYAKHTEPSFSDKSEKEDEIDELSKKVNQDLQRCEKILKTKYKNLQSS 107
Query: 321 --EEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQ 378
+ ++ + LN ++ +L+ EEEE E+
Sbjct: 108 FLQSKLLRDLNTECMEGQRIQQKSAQFRKYQVLQAKFLRNKNNDQHPLEEEEDEESL--S 165
Query: 379 EEIKRKELER----KEELEKEQIRIKEEQENIKK 408
++ L++ EELE +QI I E E IK
Sbjct: 166 SLGSQQTLQQQGLSNEELEYQQILITERDEEIKN 199
>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 373
Score = 33.8 bits (78), Expect = 0.17
Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 4/78 (5%)
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQE--EKERKEQEENQKLLLKKQQEEDRLKAE 440
K E + R+ EE+ +KKK ++ EKE++ +E Q L+ ++++ +L E
Sbjct: 295 LKNSGEPSLKEIHEARLNEEERELKKKFTEKIREKEKRLEELEQNLIEERKELNSKL--E 352
Query: 441 EQARLLEQERLMEELRQQ 458
E + LE E +
Sbjct: 353 EIQKKLEDLEKRLEKLKS 370
Score = 29.6 bits (67), Expect = 4.8
Identities = 14/68 (20%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
+ +E + R+ +EE + K+ ++ EKE+ R++E ++N+ +++++ + +E ++
Sbjct: 298 SGEPSLKEIHEARLNEEERELKKKFTEKIREKEK-RLEELEQNLIEERKELNSKLEEIQK 356
Query: 423 NQKLLLKK 430
+ L K+
Sbjct: 357 KLEDLEKR 364
Score = 29.2 bits (66), Expect = 4.9
Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK- 418
+ + EE+ + + E K +E E++ E ++ + +E + + EE ++K
Sbjct: 304 KEIHEARLNEEERELKKKFTE-KIREKEKRLEELEQNLI----EERKELNSKLEEIQKKL 358
Query: 419 EQEENQKLLLKK 430
E E + LK
Sbjct: 359 EDLEKRLEKLKS 370
>gnl|CDD|146486 pfam03879, Cgr1, Cgr1 family. Members of this family are
coiled-coil proteins that are involved in pre-rRNA
processing.
Length = 105
Score = 32.0 bits (73), Expect = 0.18
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKE-QIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
E++ ++R+ Q+ IK +E E K+E E E Q RI+ +E K+E+E E+ + + K +
Sbjct: 31 EKRMEKRLEQQAIKAREKELKDEKEAERQRRIQAIKERRAAKEEKERYEKMAAKMHAKKV 90
Query: 428 LKKQQEEDRLKA 439
+ ++ E R K
Sbjct: 91 ERLKRREKRNKL 102
>gnl|CDD|149180 pfam07960, CBP4, CBP4. The CBP4 in S. cerevisiae is essential for
the expression and activity of ubiquinol-cytochrome c
reductase. This family appears to be fungal specific.
Length = 128
Score = 32.4 bits (74), Expect = 0.19
Identities = 24/67 (35%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 350 ILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKK 409
ILK+ + PI + E EK+R V+E K K E ++E E RI+EE E + +
Sbjct: 65 ILKETSKSDKPIWKTGPIESPWEKKRNVREFQKTKAEEAQKE---ELERIREELEEARAQ 121
Query: 410 KEQEEKE 416
E+ KE
Sbjct: 122 SEEMRKE 128
>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family. This family of proteins includes
MND1 from S. cerevisiae. The mnd1 protein forms a
complex with hop2 to promote homologous chromosome
pairing and meiotic double-strand break repair.
Length = 188
Score = 33.0 bits (76), Expect = 0.19
Identities = 29/82 (35%), Positives = 49/82 (59%), Gaps = 10/82 (12%)
Query: 382 KRKELER-KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK---QQEEDRL 437
+ LE+ K+ELE+ + RI E Q I E+ +K R+E EE +LL + ++E +L
Sbjct: 67 LKTRLEKLKKELEELKQRIAELQAQI----EKLKKGREETEERTELLEELKQLEKELKKL 122
Query: 438 KAE-EQARLLEQERLMEELRQQ 458
KAE E+ + ER+ E+L+++
Sbjct: 123 KAELEKYEKNDPERI-EKLKEE 143
Score = 29.5 bits (67), Expect = 3.0
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I + E+ +K R EE + LE ++LEKE ++K E E +K + ++ KE+
Sbjct: 85 IAELQAQIEKLKKGREETEER-TELLEELKQLEKELKKLKAELEKYEKNDPERIEKLKEE 143
Query: 421 EENQK 425
+ K
Sbjct: 144 TKVAK 148
>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein. This domain is found in
cell division proteins which are required for
kinetochore-spindle association.
Length = 321
Score = 33.8 bits (78), Expect = 0.20
Identities = 24/146 (16%), Positives = 57/146 (39%), Gaps = 10/146 (6%)
Query: 311 ERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEE 370
E L +K EE + K LN + + P +K + ++ E
Sbjct: 153 EENLEGMKRDEELLNKDLNLINSI--KPKLRKKLQALKEEIAS-------LRQLADELNL 203
Query: 371 KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKK 430
+ + + + + L K +++Q+ +++ + +K + + +K
Sbjct: 204 CDPLELEKARQELRSLSVKISEKRKQLEELQQELQELTIAIEALTNKKSELLEEIAEAEK 263
Query: 431 QQEEDRL-KAEEQARLLEQERLMEEL 455
+EE R A+E ++L + L+++L
Sbjct: 264 IREECRGWSAKEISKLKAKVSLLQKL 289
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 34.3 bits (78), Expect = 0.21
Identities = 34/118 (28%), Positives = 62/118 (52%), Gaps = 9/118 (7%)
Query: 320 KEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE 379
EE +S +P ++ P + +SI +P+ +E+ E + R+V+E
Sbjct: 968 SEEMGYGAEEDYS-LPREIESKLP-LDKRSIAVVSRRIELPVPPECREKHEIKD-RIVKE 1024
Query: 380 EIK-RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
IK ++E ER E L++ + E+E KK+KE+E++ RK +N K + KK+ ++ R
Sbjct: 1025 RIKDQEEKERMESLQRAK-----EEEIGKKEKEREQRIRKTIHDNYKEMAKKRLKKKR 1077
Score = 29.3 bits (65), Expect = 6.5
Identities = 35/191 (18%), Positives = 75/191 (39%), Gaps = 8/191 (4%)
Query: 253 ENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEER 312
E++ P+ I K + ++ +L Q E E + + + E+ + E
Sbjct: 508 ESLSPEECIEEYKGESAKSSESDLVVQDEPEDFFDVSKVANE---SISSNHEKLMESEFE 564
Query: 313 RLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKE 372
L + +++ + + S E ++ K D +NS+ E E+
Sbjct: 565 ELKKKWSSLAQLKSRFQKDA---TLDSIEGEEELIQDDEKGNFEDLEDEENSSDNEMEES 621
Query: 373 KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
+ V E + E E E+E+ K+E+ ++ E EE+ E+++ +K++
Sbjct: 622 RGSSVTAENEESADEVDYETEREENARKKEE--LRGNFELEERGDPEKKDVDWYTEEKRK 679
Query: 433 EEDRLKAEEQA 443
E++LK
Sbjct: 680 IEEQLKINRSE 690
>gnl|CDD|212812 cd11879, SH3_Bem1p_2, Second 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 = 56
Score = 30.4 bits (69), Expect = 0.21
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEGWW----RGYCHGQYGLFPANYVSL 523
+ LYD++A DE+ D I + W+ G G GL P ++V +
Sbjct: 2 GIVLYDFKAERPDELDAKAGDAIIICAHSNYEWFVAKPIGRL-GGPGLIPVSFVEI 56
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 34.0 bits (78), Expect = 0.21
Identities = 27/96 (28%), Positives = 53/96 (55%), Gaps = 10/96 (10%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE-----RK 418
S E+E ++K +++ +K +E K+ELE+E +KE + N K + E+E +E +K
Sbjct: 521 SALEKELEQKNEHLEKLLKEQEKL-KKELEQEMEELKERERNKKLELEKEAQEALKALKK 579
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEE 454
E E ++++ +E+ KA+E + + +L E
Sbjct: 580 EVES----IIRELKEKKIHKAKEIKSIEDLVKLKET 611
Score = 33.6 bits (77), Expect = 0.29
Identities = 18/64 (28%), Positives = 37/64 (57%)
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
+E+ LEKE + E E + K++E+ +KE +++ E K + ++ E +A+E +
Sbjct: 517 IEKLSALEKELEQKNEHLEKLLKEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKA 576
Query: 446 LEQE 449
L++E
Sbjct: 577 LKKE 580
Score = 33.6 bits (77), Expect = 0.30
Identities = 27/78 (34%), Positives = 47/78 (60%), Gaps = 1/78 (1%)
Query: 357 DGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE 416
I Q E KE+ ++ E++ E E +++ E + ++ +EQE +KK+ EQE +E
Sbjct: 496 HFIIEQAKTFYGEFKEEINVLIEKLSALEKELEQKNEHLE-KLLKEQEKLKKELEQEMEE 554
Query: 417 RKEQEENQKLLLKKQQEE 434
KE+E N+KL L+K+ +E
Sbjct: 555 LKERERNKKLELEKEAQE 572
Score = 33.3 bits (76), Expect = 0.40
Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRI-KEEQENIKKKKEQEEKERKEQEENQ 424
K ++E E++ +E +R + E+ +E ++ K+E E+I ++ +E+K K +E
Sbjct: 543 KLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESIIREL-KEKKIHKAKEIKS 601
Query: 425 KLLLKKQQEEDRLKAE 440
L K +E + +
Sbjct: 602 IEDLVKLKETKQKIPQ 617
Score = 29.0 bits (65), Expect = 7.7
Identities = 31/166 (18%), Positives = 63/166 (37%), Gaps = 14/166 (8%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE------ERRLSELK 318
K +L + K +E ++ E ++ +R K +++ E + L+ E + ELK
Sbjct: 530 KNEHLEKLLKEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESIIRELK 589
Query: 319 IKEEEIEKKLNGHSDVPLSPSTET--PPVPVKSILKQPTSDGIPIQNSNKE----EEEKE 372
K+ K++ D+ T+ P P + D + I+ ++ +
Sbjct: 590 EKKIHKAKEIKSIEDLVKLKETKQKIPQKPTNFQADKI-GDKVRIRYFGQKGKIVQILGG 648
Query: 373 KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK 418
+ V R ++ ELEK ++ + K + E KE
Sbjct: 649 NKWNVTVGGMRMKVHGS-ELEKINKAPPPKKFKVPKTTKPEPKEAS 693
>gnl|CDD|212891 cd11958, SH3_RUSC1, Src homology 3 domain of RUN and SH3
domain-containing protein 1. RUSC1, also called NESCA
(New molecule containing SH3 at the carboxy-terminus),
is highly expressed in the brain and is translocated to
the nuclear membrane from the cytoplasm upon stimulation
with neurotrophin. It plays a role in facilitating
neurotrophin-dependent neurite outgrowth. It also
interacts with NEMO (or IKKgamma) and may function in
NEMO-mediated activation of NF-kB. RUSC proteins are
adaptor proteins consisting of RUN, leucine zipper, and
SH3 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 = 51
Score = 30.2 bits (68), Expect = 0.21
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVS 522
AL D A ++ ++SF + + + +DE W R + GL P Y S
Sbjct: 4 ALCD-HAGSESQLSFRKGEELQVLGTVDEDWIRCRRGDREGLVPVGYTS 51
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 34.0 bits (78), Expect = 0.21
Identities = 22/77 (28%), Positives = 41/77 (53%)
Query: 391 ELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
ELE E++++ E+ + + +KE+E E + QE+N +Q+++RL+ EE+ + QER
Sbjct: 2560 ELENEKLKLLEKAKIEESRKERERIESETQEDNTDEEQINRQQQERLQKEEEQKAYSQER 2619
Query: 451 LMEELRQQGTNEDTEED 467
L E+
Sbjct: 2620 LNREVSGTDDTNKNHNT 2636
>gnl|CDD|212709 cd11775, SH3_Sla1p_3, Third Src Homology 3 domain of the fungal
endocytic adaptor protein Sla1p. Sla1p facilitates
endocytosis by playing a role as an adaptor protein in
coupling components of the actin cytoskeleton to the
endocytic machinery. It interacts with Abp1p, Las17p and
Pan1p, which are activator proteins of actin-related
protein 2/3 (Arp2/3). Sla1p contains multiple domains
including three SH3 domains, a SAM (sterile alpha motif)
domain, and a Sla1 homology domain 1 (SHD1), which binds
to the NPFXD motif that is found in many integral
membrane proteins such as the Golgi-localized
Arf-binding protein Lsb5p and the P4-ATPases, Drs2p and
Dnf1p. The third SH3 domain of Sla1p can bind ubiquitin
while retaining the ability to bind proline-rich
ligands; monoubiquitination of target proteins signals
internalization and sorting through the endocytic
pathway. 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 = 30.4 bits (69), Expect = 0.21
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 471 TAVALYDYQASADDEISFDPDD--IITNIEMIDEGWW--RGYCHGQYGLFPANYVSL 523
LYD+ A +DDE++ D I + + + WW G+ G+ PA+Y+ +
Sbjct: 2 RGKVLYDFDAQSDDELTVKEGDVVYILDDKKSKD-WWMVENVSTGKEGVVPASYIEI 57
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 34.2 bits (79), Expect = 0.22
Identities = 26/115 (22%), Positives = 53/115 (46%), Gaps = 6/115 (5%)
Query: 393 EKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK---AEEQARLLEQE 449
E + + Q+ + K+Q E + +E+ ++Q L +QQE L+ AE + + E E
Sbjct: 138 EDPENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELE 197
Query: 450 RLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDEISFDPDDIITNIEMIDEGW 504
+E+L+++ E + QA+ E+S + I+ + ++ GW
Sbjct: 198 AQLEQLQEKAAETSQERKQKRKEITD---QAAKRLELSEEETRILIDQQLRKAGW 249
Score = 29.5 bits (67), Expect = 5.4
Identities = 21/119 (17%), Positives = 58/119 (48%), Gaps = 12/119 (10%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
P N +++ ++++++ + E+ + + + +E E EEK+++
Sbjct: 137 PEDPENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQEL 196
Query: 420 QEENQKLLLK-----KQQEEDRLKAEEQA----RLLEQE-RLM--EELRQQGTNEDTEE 466
+ + ++L K +++++ R + +QA L E+E R++ ++LR+ G D++
Sbjct: 197 EAQLEQLQEKAAETSQERKQKRKEITDQAAKRLELSEEETRILIDQQLRKAGWEADSKT 255
>gnl|CDD|212942 cd12009, SH3_Blk, Src homology 3 domain of Blk Protein Tyrosine
Kinase. Blk is a member of the Src subfamily of
proteins, which are cytoplasmic (or non-receptor) PTKs.
It is expressed specifically in B-cells and is involved
in pre-BCR (B-cell receptor) signaling. Src kinases
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). 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 = 54
Score = 30.2 bits (68), Expect = 0.23
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWW--RGYCHGQYGLFPANYVS 522
+A YD+ S + ++ + + ++ D WW + G+ G P+NYV+
Sbjct: 1 CVIAQYDFVPSNERDLQLKKGEKLQVLKS-DGEWWLAKSLTTGKEGYIPSNYVA 53
>gnl|CDD|212844 cd11911, SH3_CIP4-like, Src Homology 3 domain of Cdc42-Interacting
Protein 4. This subfamily is composed of
Cdc42-Interacting Protein 4 (CIP4), Formin Binding
Protein 17 (FBP17), FormiN Binding Protein 1-Like
(FNBP1L), and similar proteins. CIP4 and FNBP1L are
Cdc42 effectors that bind Wiskott-Aldrich syndrome
protein (WASP) and function in endocytosis. CIP4 and
FBP17 bind to the Fas ligand and may be implicated in
the inflammatory response. CIP4 may also play a role in
phagocytosis. It functions downstream of Cdc42 in
PDGF-dependent actin reorganization and cell migration,
and also regulates the activity of PDGFRbeta. It uses
Src as a substrate in regulating the invasiveness of
breast tumor cells. CIP4 may also play a role in the
pathogenesis of Huntington's disease. Members of this
subfamily typically contain an N-terminal F-BAR
(FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain, a
central Cdc42-binding HR1 domain, and a C-terminal SH3
domain. The SH3 domain of CIP4 associates with Gapex-5,
a Rab31 GEF. 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 = 30.3 bits (69), Expect = 0.23
Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMID-EGWWR-GYCHGQYGLFPANYVSL 523
T ALYD+ +++ +S + +I+ +E +GW R +G G P +Y+ +
Sbjct: 1 TCTALYDFDGTSEGTLSMEEGEILLVLEEDGGDGWTRVRKNNGDEGYVPTSYIEV 55
>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355). This
family of proteins is found in bacteria and viruses.
Proteins in this family are typically between 180 and
214 amino acids in length.
Length = 125
Score = 32.2 bits (74), Expect = 0.23
Identities = 18/78 (23%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE---RKEQEENQK 425
E +E++ +E+ + + K + EK+Q K E E + K +E+ E K ++E ++
Sbjct: 1 EPEEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEE 60
Query: 426 LLLKKQQEEDRLKAEEQA 443
L + + E + +A++
Sbjct: 61 LEAELARRELKAEAKKML 78
Score = 28.4 bits (64), Expect = 3.7
Identities = 16/78 (20%), Positives = 41/78 (52%)
Query: 391 ELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
E E+E+ +E + K++ + ++++E+++++ L K E++ + E + E E
Sbjct: 1 EPEEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEE 60
Query: 451 LMEELRQQGTNEDTEEDL 468
L EL ++ + ++ L
Sbjct: 61 LEAELARRELKAEAKKML 78
>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 = 30.4 bits (69), Expect = 0.23
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYV 521
AL D+QA + ++SF +++ I +GWW G GL P Y+
Sbjct: 3 EALSDFQAEQEGDLSFKKGEVLRIISKRADGWWLAENSKGNRGLVPKTYL 52
>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein. Hsp70 chaperones help to fold
many proteins. Hsp70 assisted folding involves repeated
cycles of substrate binding and release. Hsp70 activity
is ATP dependent. Hsp70 proteins are made up of two
regions: the amino terminus is the ATPase domain and the
carboxyl terminus is the substrate binding region.
Length = 598
Score = 33.7 bits (78), Expect = 0.24
Identities = 24/106 (22%), Positives = 49/106 (46%), Gaps = 10/106 (9%)
Query: 359 IPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI---KKKKEQEEK 415
I I S + E +RMV++ + +++ KE+I K E E +K +EE
Sbjct: 493 ITITAS-SGLSDDEIERMVKDAEEYAA---EDKKRKERIEAKNEAEEYVYSLEKSLKEEG 548
Query: 416 ERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTN 461
++ + + +K+ + ++ L+ E++ E E EEL++
Sbjct: 549 DKLPEADKKKVEEAIEWLKEELEGEDKE---EIEAKTEELQKVVQP 591
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 33.8 bits (78), Expect = 0.24
Identities = 38/178 (21%), Positives = 82/178 (46%), Gaps = 18/178 (10%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDL--EQAQKLEERRLSELKIKEEEI 324
L K+E+ ++ EE + EKE + K ++ + LEE L+ +++
Sbjct: 288 EELIDKYESHIEKALEELESILDTEKENSEFKLDVEELKALLEALEEI----LEKNLQKL 343
Query: 325 EKKL-NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKR 383
E+KL + + + L T+ ++SI + I+ N++ + +K+ + + K+
Sbjct: 344 EEKLKDPSTSIELESITD----LIESINDIIDAINELIREHNEKIDNLKKE---KNKAKK 396
Query: 384 K-ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAE 440
K L EL+++ ++E++ ++K EKE K+ E K ++E L+ +
Sbjct: 397 KLWLHLVAELKEDIDAYQKEKKGLEKAINSLEKEIKQLEAEIK---ALEKEIKELEKQ 451
Score = 31.9 bits (73), Expect = 0.94
Identities = 25/103 (24%), Positives = 50/103 (48%), Gaps = 10/103 (9%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE-QEENQKL 426
EE E + ++E K+EL+K + +I++ + I+KK+E+ EK + + ++ K
Sbjct: 88 EENIEIEAQIEE--------LKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKK 139
Query: 427 LLKKQQEEDRLKAE-EQARLLEQERLMEELRQQGTNEDTEEDL 468
L KK + + +E+L++EL+ N + L
Sbjct: 140 LAKKYDSNLSEALKGLNYKKNFKEKLLKELKSVILNASSLLSL 182
>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 438
Score = 33.6 bits (77), Expect = 0.24
Identities = 17/103 (16%), Positives = 48/103 (46%), Gaps = 3/103 (2%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K++E + + + + K ++ E++++ ++ +++E ++ + ++ KE E +K
Sbjct: 62 KKKELSQLEEQLINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEKDKELELLEK 121
Query: 426 LLLKKQQEEDRL---KAEEQARLLEQERLMEELRQQGTNEDTE 465
L + +E + AE + E + E L+ + + E
Sbjct: 122 ELDELSKELQKQLQNTAEIIEKKRENNKNEERLKFENEKKLEE 164
Score = 33.3 bits (76), Expect = 0.32
Identities = 43/205 (20%), Positives = 78/205 (38%), Gaps = 7/205 (3%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEE-KEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEK 326
N +FE A + + R ++E + + EQ E ++K E ++
Sbjct: 42 NTLEEFEKEANEKRAQYRSAKKKELSQLEEQLINQKKEQKNLFNE----QIKQFELALQD 97
Query: 327 KLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNK-EEEEKEKQRMVQEEIKRKE 385
++ + L + + + S + Q N E EK+++ EE + E
Sbjct: 98 EIAKLEALELLNLEKDKELELLEKELDELSKELQKQLQNTAEIIEKKRENNKNEERLKFE 157
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
E+K E E R K E++ + + E KE +EQ E++ +LKK + L +Q +
Sbjct: 158 NEKKLEESLELEREKFEEQLHEANLDLEFKENEEQRESKWAILKKLKRRAEL-GSQQVQG 216
Query: 446 LEQERLMEELRQQGTNEDTEEDLGY 470
E E + D E
Sbjct: 217 EALELPNESFIRSKFPSDINEKADK 241
Score = 32.9 bits (75), Expect = 0.39
Identities = 32/174 (18%), Positives = 69/174 (39%), Gaps = 5/174 (2%)
Query: 295 RKLKDQIDLEQA-QKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQ 353
K +D I EQA K E+ + E +K + + + + +Q
Sbjct: 16 PKCEDSIKGEQARYKQIEQEDQSRILNTLEEFEKEANEKRAQYRSAKKKE---LSQLEEQ 72
Query: 354 PTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQE 413
+ +N E+ ++ + + E K + LE + +++ + E++ + K+ Q+
Sbjct: 73 LINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEKDKELELLEKELDELSKELQK 132
Query: 414 EKERKEQEENQKLLLKKQQEEDRLKAEEQARL-LEQERLMEELRQQGTNEDTEE 466
+ + + +K K +E + + E++ LE ER E + N D E
Sbjct: 133 QLQNTAEIIEKKRENNKNEERLKFENEKKLEESLELEREKFEEQLHEANLDLEF 186
Score = 29.8 bits (67), Expect = 4.0
Identities = 22/114 (19%), Positives = 48/114 (42%), Gaps = 7/114 (6%)
Query: 357 DGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE 416
D I + + ++ E+E Q + ++ E E E+ + + K+E Q E++
Sbjct: 20 DSIKGEQARYKQIEQEDQSRILNTLEEFEKEANEKRAQYRSAKKKELS-------QLEEQ 72
Query: 417 RKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGY 470
Q++ QK L +Q ++ L +++ LE L+ + + +E
Sbjct: 73 LINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEKDKELELLEKELDEL 126
>gnl|CDD|225381 COG2825, HlpA, Outer membrane protein [Cell envelope biogenesis,
outer membrane].
Length = 170
Score = 32.8 bits (75), Expect = 0.25
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKEL--ERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
+ ++E K K+ +Q++ K + L K E E ++ + N K+++ +++ R+E
Sbjct: 59 ELQKMQKELKAKEAKLQDDGKMEALSDRAKAEAEIKKEK-LVNAFNKKQQEYEKDLNRRE 117
Query: 420 QEENQKLL 427
EE QKLL
Sbjct: 118 AEEEQKLL 125
Score = 30.1 bits (68), Expect = 1.6
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 370 EKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK 429
E E ++ Q+E+++ + E K + K Q K E + + K E E K+ K K +
Sbjct: 50 ESEFKK-RQKELQKMQKELKAKEAKLQDDGKMEALSDRAKAEAEIKKEKLVNAFNKKQQE 108
Query: 430 KQQEEDRLKAEEQARLLE 447
+++ +R +AEE+ +LLE
Sbjct: 109 YEKDLNRREAEEEQKLLE 126
Score = 28.9 bits (65), Expect = 4.7
Identities = 19/105 (18%), Positives = 46/105 (43%)
Query: 349 SILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKK 408
S + I I N + +E + + V +++ + +R++EL+K Q +K ++ ++
Sbjct: 17 SASAAQAAPKIAIVNLGRIFQESPQAKKVSADLESEFKKRQKELQKMQKELKAKEAKLQD 76
Query: 409 KKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
+ E + + E + K ++ + E + L +E E
Sbjct: 77 DGKMEALSDRAKAEAEIKKEKLVNAFNKKQQEYEKDLNRREAEEE 121
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 33.7 bits (77), Expect = 0.26
Identities = 23/134 (17%), Positives = 52/134 (38%), Gaps = 8/134 (5%)
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
+P P V+S K+ QN+ +E+ + K KEE++ +
Sbjct: 10 APRGFAPRTTVESSQKRI------QQNNGDKEDSSTSTSSLSVSAVEKTSNAKEEIQVDF 63
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE--DRLKAEEQARLLEQERLMEE 454
E + +++ E E+ + + + + K++ D ++ + + + E
Sbjct: 64 QHNSESAVEEVEAEDEIEVEQNQSDVLKSSSIVKEESISTDMDGIDDDSLDRKLKLEREN 123
Query: 455 LRQQGTNEDTEEDL 468
LR++ E EE+
Sbjct: 124 LRKREIEELAEENF 137
Score = 31.4 bits (71), Expect = 1.4
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 8/54 (14%)
Query: 380 EIKRKELER--KEELEKEQIRIKEEQENIKKKKEQEEKER----KEQEENQKLL 427
E KR+ELE+ KEE E+E R EEQ +++K E +R E E+ ++ L
Sbjct: 252 EEKRRELEKLAKEEAERE--RQAEEQRRREEEKAAMEADRAQAKAEVEKRREKL 303
Score = 31.4 bits (71), Expect = 1.4
Identities = 21/64 (32%), Positives = 39/64 (60%), Gaps = 6/64 (9%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
EE+ +E +++ +EE +R ER+ E EQ R +EE+ ++ + Q + E +++ E +
Sbjct: 252 EEKRRELEKLAKEEAER---ERQAE---EQRRREEEKAAMEADRAQAKAEVEKRREKLQN 305
Query: 427 LLKK 430
LLKK
Sbjct: 306 LLKK 309
Score = 29.8 bits (67), Expect = 4.6
Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 6/69 (8%)
Query: 390 EELEKEQIRIKEEQENIKK-KKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+E E ++E++ ++K KE+ E+ER+ +E+ ++ K E DR +A+ E
Sbjct: 242 DEHSFEDFLLEEKRRELEKLAKEEAERERQAEEQRRREEEKAAMEADRAQAK-----AEV 296
Query: 449 ERLMEELRQ 457
E+ E+L+
Sbjct: 297 EKRREKLQN 305
Score = 29.5 bits (66), Expect = 5.8
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 414 EKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNE 462
E++R+E E+ L K++ E +AEEQ R E++ ME R Q E
Sbjct: 252 EEKRRELEK-----LAKEEAERERQAEEQRRREEEKAAMEADRAQAKAE 295
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 33.9 bits (78), Expect = 0.26
Identities = 28/134 (20%), Positives = 60/134 (44%), Gaps = 19/134 (14%)
Query: 350 ILKQPTSDGIPIQNSNKEEEE-------KEKQRMVQEEIKRKELERKEELEKEQIRIKEE 402
I+ + SDGI + N +E E++R+ I+R+E+ + E + I EE
Sbjct: 786 IITEILSDGINNSDINDRPQELIDQIIESEEERLKALRIQREEMLMRPEELEL---INEE 842
Query: 403 QENIKKKKEQEEKERKEQEENQ-------KLLLKKQQEEDRLKAEEQARLLEQERL--ME 453
Q+N+K++ + E E +E EE ++ + + +L A+ + + + +
Sbjct: 843 QKNLKQEIKLELSEIQEAEEEIQNINENKNEFVEFKNDPKKLNKLIIAKDVLIKLVISSD 902
Query: 454 ELRQQGTNEDTEED 467
E++Q ++
Sbjct: 903 EIKQDEKTTKKKKK 916
Score = 32.3 bits (74), Expect = 0.71
Identities = 36/175 (20%), Positives = 67/175 (38%), Gaps = 26/175 (14%)
Query: 245 ANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLE 304
N+ NA K I + + S++ + + L Q E +R + + +R+ E
Sbjct: 776 FNNPNAEKILIITEILSDGINNSDINDRPQELIDQIIESEEERLKALRIQREEMLMRPEE 835
Query: 305 QAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNS 364
EE++ + +IK E E + Q + +N
Sbjct: 836 LELINEEQKNLKQEIKLELSEIQEA-------------------EEEIQNIN-----ENK 871
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
N+ E K + + + I K++ K L IK++++ KKKK+ EK +E
Sbjct: 872 NEFVEFKNDPKKLNKLIIAKDVLIK--LVISSDEIKQDEKTTKKKKKDLEKTDEE 924
Score = 30.4 bits (69), Expect = 2.6
Identities = 18/105 (17%), Positives = 45/105 (42%), Gaps = 2/105 (1%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
N N E+ + ++ + I ++ + + +QI I+ E+E +K + Q E+ EE
Sbjct: 778 NPNAEKILIITE-ILSDGINNSDINDRPQELIDQI-IESEEERLKALRIQREEMLMRPEE 835
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
+ + +++ + +K E +E + + + + D
Sbjct: 836 LELINEEQKNLKQEIKLELSEIQEAEEEIQNINENKNEFVEFKND 880
>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 197
Score = 32.7 bits (74), Expect = 0.28
Identities = 26/125 (20%), Positives = 64/125 (51%), Gaps = 8/125 (6%)
Query: 342 TPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKE 401
T PV I + G+P+ +++ K+ +++ K+ + R+E++EK + +E
Sbjct: 80 TTPVASHLINRAAYDTGVPLAIRIRDQLRSVKKDDIKK--KKSLIIRQEQIEKARQEREE 137
Query: 402 EQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTN 461
+E ++ ++ +E+ + +E +E Q ++E + EEQ+ E E + ++ + ++
Sbjct: 138 LEERMEWERREEKIDEREDQEEQ------EREREEQTIEEQSDDSEHEIIEQDESETESD 191
Query: 462 EDTEE 466
+D E
Sbjct: 192 DDKTE 196
Score = 28.5 bits (63), Expect = 7.6
Identities = 17/84 (20%), Positives = 46/84 (54%)
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
+ +++ + +K+ + I++EQ +++ +E +ER E E ++ + +++ +E++ + E+
Sbjct: 108 RSVKKDDIKKKKSLIIRQEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQ 167
Query: 444 RLLEQERLMEELRQQGTNEDTEED 467
+ EQ E + +TE D
Sbjct: 168 TIEEQSDDSEHEIIEQDESETESD 191
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 33.1 bits (76), Expect = 0.28
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
EE+E+EK ++ + +K L+ K E +++ R KEE+ + E++ E E +K
Sbjct: 42 DEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKG-----LRELEEDTPEDELAEK 96
Query: 426 LLLKKQQEEDRLKA 439
L L+K QEE L
Sbjct: 97 LRLRKLQEESDLNN 110
Score = 29.6 bits (67), Expect = 3.7
Identities = 15/74 (20%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK-KQQEEDRLKAEEQAR 444
++ K + E E +K+ + + ++++EEK + + K LK K +E+++ K E++ +
Sbjct: 20 VKDKWDDEDEDDDVKDSWDEEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEK 79
Query: 445 LLEQERLMEELRQQ 458
L + +
Sbjct: 80 GLRELEEDTPEDEL 93
>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 140
Score = 32.2 bits (74), Expect = 0.30
Identities = 20/83 (24%), Positives = 48/83 (57%), Gaps = 9/83 (10%)
Query: 375 RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKE---QEEKERKEQE------ENQK 425
+ Q++++++ +R+ ELEK + +++ +E ++K + +E+KE+E E Q+
Sbjct: 17 KAAQKQLEKEFKKRQAELEKLEKELQKLKEKLQKDAATLSEAAREKKEKELQKKVQEFQR 76
Query: 426 LLLKKQQEEDRLKAEEQARLLEQ 448
K QQ+ + + EE ++L++
Sbjct: 77 KQQKLQQDLQKRQQEELQKILDK 99
>gnl|CDD|109486 pfam00430, ATP-synt_B, ATP synthase B/B' CF(0). Part of the CF(0)
(base unit) of the ATP synthase. The base unit is
thought to translocate protons through membrane (inner
membrane in mitochondria, thylakoid membrane in plants,
cytoplasmic membrane in bacteria). The B subunits are
thought to interact with the stalk of the CF(1)
subunits. This domain should not be confused with the ab
CF(1) proteins (in the head of the ATP synthase) which
are found in pfam00006.
Length = 132
Score = 31.8 bits (73), Expect = 0.30
Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
EE ++ E E++ + + E I ++E ++ KE+ + Q++ +RL
Sbjct: 43 EERLKQAAALLAEAEQQLAQARAEASEIINNAKKEAQKLKEEILAE-----AQKDAERLL 97
Query: 439 AEEQARL-LEQERLMEELRQQ 458
+A + E+E+ + ELRQQ
Sbjct: 98 ESARAEIEQEKEQALAELRQQ 118
>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family.
This model family represents the major capsid protein
component of the heads (capsids) of bacteriophage HK97,
phi-105, P27, and related phage. This model represents
one of several analogous families lacking detectable
sequence similarity. The gene encoding this component is
typically located in an operon encoding the small and
large terminase subunits, the portal protein and the
prohead or maturation protease [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 384
Score = 33.1 bits (76), Expect = 0.31
Identities = 20/106 (18%), Positives = 44/106 (41%), Gaps = 6/106 (5%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+ ++++ EE K + KEE++K I +E + + + + +
Sbjct: 16 RKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGE--- 72
Query: 427 LLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTA 472
++++E AE +A L + + E R + + T+ D GY
Sbjct: 73 --EEEEEAKAEAAEFRAYLRGGDDALAEER-KALSTGTDSDGGYLV 115
>gnl|CDD|233459 TIGR01541, tape_meas_lam_C, phage tail tape measure protein, lambda
family. This model represents a relatively
well-conserved region near the C-terminus of the tape
measure protein of a lambda and related phage. This
protein, which controls phage tail length, is typically
about 1000 residues in length. Both low-complexity
sequence and insertion/deletion events appear common in
this family. Mutational studies suggest a ruler or
template role in the determination of phage tail length.
Similar behavior is attributed to proteins from
distantly related or unrelated families in other phage
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 332
Score = 32.9 bits (75), Expect = 0.33
Identities = 30/141 (21%), Positives = 53/141 (37%), Gaps = 17/141 (12%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE--------------QENI 406
+Q+ + E K + EE +RK LE ++L + I+ + +E +
Sbjct: 26 LQSRSDEIIALIKLEKLLEEAERKALEALKKLAEATASIRAQNKRQLDRFGLGDKQRERL 85
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQ-EEDRLKAEEQARLLEQERLMEELRQQGTNEDTE 465
+ + + RK+Q + K + K D K + A + EL ED
Sbjct: 86 DARLQIDRTFRKQQRDLNKAMTAKGLAGSDLYKEQLAAIKAALNEALAELHAYYAAEDAL 145
Query: 466 E-DLGYTAV-ALYDYQASADD 484
+ D A L DY +A +
Sbjct: 146 QGDWLAGARSGLADYGETATN 166
Score = 29.4 bits (66), Expect = 5.3
Identities = 14/75 (18%), Positives = 36/75 (48%)
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
K L+ + + I++++ E ++K + K+ E + + K+Q + L +++
Sbjct: 24 KSLQSRSDEIIALIKLEKLLEEAERKALEALKKLAEATASIRAQNKRQLDRFGLGDKQRE 83
Query: 444 RLLEQERLMEELRQQ 458
RL + ++ R+Q
Sbjct: 84 RLDARLQIDRTFRKQ 98
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 33.3 bits (76), Expect = 0.33
Identities = 37/186 (19%), Positives = 76/186 (40%), Gaps = 18/186 (9%)
Query: 256 KPKPNIGHVKPSNLRAKFENLAKQTEEESRKR---SEEEKEKRKLKDQIDLEQA------ 306
PK + K ++ +K+T E + + KR + ++ +
Sbjct: 167 PPKSIMSPEVKVKSAKKTQDTSKETTTEKTEGKTSVKAASLKRNPPKKSNIMSSFFKKKT 226
Query: 307 -QKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVK-SILKQPTSDGIPIQNS 364
+K E++ SE +KEE E+ G DV L + P + +P G +
Sbjct: 227 KEKKEKKEASESTVKEESEEES--GKRDVILEDESAEPTGLDEDEDEDEPKPSGERSDSE 284
Query: 365 -----NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
++E+ K ++M+++E + +E+E E E+ +E + KKE+E++E
Sbjct: 285 EETEEKEKEKRKRLKKMMEDEDEDEEMEIVPESPVEEEESEEPEPPPLPKKEEEKEEVTV 344
Query: 420 QEENQK 425
+ +
Sbjct: 345 SPDGGR 350
Score = 28.6 bits (64), Expect = 9.6
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 6/84 (7%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
+E EE+ +R V E + E +E E E K E ++E EEKE+++
Sbjct: 236 SESTVKEESEEESGKRDVILEDESAEPTGLDEDEDED-EPKPSGERSDSEEETEEKEKEK 294
Query: 420 QEENQKLLLKKQQEEDRLKAEEQA 443
++ LKK E++ E +
Sbjct: 295 RKR-----LKKMMEDEDEDEEMEI 313
>gnl|CDD|221514 pfam12297, EVC2_like, Ellis van Creveld protein 2 like protein.
This family of proteins is found in eukaryotes. Proteins
in this family are typically between 571 and 1310 amino
acids in length. There are two conserved sequence
motifs: LPA and ELH. EVC2 is implicated in Ellis van
Creveld chondrodysplastic dwarfism in humans. Mutations
in this protein can give rise to this congenital
condition. LIMBIN is a protein which shares around 80%
sequence homology with EVC2 and it is implicated in a
similar condition in bovine chondrodysplastic dwarfism.
Length = 429
Score = 33.3 bits (76), Expect = 0.33
Identities = 23/109 (21%), Positives = 44/109 (40%), Gaps = 19/109 (17%)
Query: 366 KEEEEKEKQRMVQEEIKRKE-------LERKEELEKEQIR----IKEEQENIKKKKEQEE 414
+E E E+ + + +E L+ LE+E ++ +++E++ K ++
Sbjct: 240 REMAEMEQAEELLKRAPEREAVECSSLLDTLHGLEQEHLQRSLLLQQEEDFAKAHRQLAV 299
Query: 415 KERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ--------ERLMEEL 455
+R E LK + LK EE LL++ E LM+
Sbjct: 300 FQRVELHSIFFTQLKSATFKGELKPEEAKSLLQEYSKIQETIEELMDFF 348
>gnl|CDD|220535 pfam10037, MRP-S27, Mitochondrial 28S ribosomal protein S27.
Members of this family of small ribosomal proteins
possess one of three conserved blocks of sequence found
in proteins that stimulate the dissociation of guanine
nucleotides from G-proteins, leaving open the
possibility that MRP-S27 might be a functional partner
of GTP-binding ribosomal proteins.
Length = 417
Score = 33.2 bits (76), Expect = 0.33
Identities = 25/136 (18%), Positives = 49/136 (36%), Gaps = 9/136 (6%)
Query: 303 LEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQ 362
L+ Q + E+ SEL E ++K S E + KQ +
Sbjct: 282 LDLLQSILEKLSSELD--EASLKKLQEAIDKSESSELDEDLLLEEVEKSKQKFEPLLAQY 339
Query: 363 -------NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEK 415
S + K + R + +R KE+LE + R + +K ++++K
Sbjct: 340 GESFQEWRSKLQALAKVESRSLLSVEERLPTIEKEDLELYEQRQQLWFFENRKLWQRKKK 399
Query: 416 ERKEQEENQKLLLKKQ 431
R++ +E + +
Sbjct: 400 LREQADEEYQQRHATR 415
Score = 30.5 bits (69), Expect = 2.5
Identities = 24/95 (25%), Positives = 42/95 (44%), Gaps = 13/95 (13%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEEL-EKEQIRIKEE---QENIKKKK---EQEEKERKEQ 420
EE EK + E + + E +E K Q K E +++++ E+E+ E EQ
Sbjct: 322 LEEVEKSKQKFEPLLAQYGESFQEWRSKLQALAKVESRSLLSVEERLPTIEKEDLELYEQ 381
Query: 421 E------ENQKLLLKKQQEEDRLKAEEQARLLEQE 449
EN+KL +K++ ++ E Q R +
Sbjct: 382 RQQLWFFENRKLWQRKKKLREQADEEYQQRHATRA 416
>gnl|CDD|215364 PLN02678, PLN02678, seryl-tRNA synthetase.
Length = 448
Score = 33.1 bits (76), Expect = 0.35
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 12/88 (13%)
Query: 371 KEKQR-------MVQEEIKRKELERKEELEKEQIR-----IKEEQENIKKKKEQEEKERK 418
+E QR +V E I + R+ + E + +R + +E +K KE +
Sbjct: 19 RESQRRRFASVELVDEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIA 78
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLL 446
E +E +K + +K+ E KA A+L
Sbjct: 79 ETKELKKEITEKEAEVQEAKAALDAKLK 106
>gnl|CDD|218896 pfam06098, Radial_spoke_3, Radial spoke protein 3. This family
consists of several radial spoke protein 3 (RSP3)
sequences. Eukaryotic cilia and flagella present in
diverse types of cells perform motile, sensory, and
developmental functions in organisms from protists to
humans. They are centred by precisely organised,
microtubule-based structures, the axonemes. The axoneme
consists of two central singlet microtubules, called the
central pair, and nine outer doublet microtubules. These
structures are well-conserved during evolution. The
outer doublet microtubules, each composed of A and B
sub-fibres, are connected to each other by nexin links,
while the central pair is held at the centre of the
axoneme by radial spokes. The radial spokes are T-shaped
structures extending from the A-tubule of each outer
doublet microtubule to the centre of the axoneme. Radial
spoke protein 3 (RSP3), is present at the proximal end
of the spoke stalk and helps in anchoring the radial
spoke to the outer doublet. It is thought that radial
spokes regulate the activity of inner arm dynein through
protein phosphorylation and dephosphorylation.
Length = 288
Score = 32.7 bits (75), Expect = 0.36
Identities = 21/63 (33%), Positives = 40/63 (63%), Gaps = 5/63 (7%)
Query: 367 EEEEKEKQRMVQEEI-KRKELERKE--ELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
EEEE + R Q + +R+ E E LE+ + R +EE+E ++KK+ +E++++E+E
Sbjct: 150 EEEELAELRQQQRQFEQRRNAELAETQRLEEAERRRREEKE--RRKKQDKERKQREKETA 207
Query: 424 QKL 426
+K+
Sbjct: 208 EKI 210
Score = 31.2 bits (71), Expect = 1.3
Identities = 15/56 (26%), Positives = 31/56 (55%), Gaps = 6/56 (10%)
Query: 401 EEQENIKKKKEQEEKERK-EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
EE +++++ Q E+ R E E Q+L +E +R + EE+ R +Q++ ++
Sbjct: 152 EELAELRQQQRQFEQRRNAELAETQRL-----EEAERRRREEKERRKKQDKERKQR 202
Score = 28.5 bits (64), Expect = 9.4
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 8/50 (16%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEK 415
+ E E QR+ + E +R+E EKE+ R K+++E +++KE EK
Sbjct: 168 RNAELAETQRLEEAERRRRE-------EKER-RKKQDKERKQREKETAEK 209
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 33.2 bits (76), Expect = 0.36
Identities = 29/192 (15%), Positives = 76/192 (39%), Gaps = 13/192 (6%)
Query: 280 TEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPS 339
+E+ + E+ EKR D D ++ ++ + +R+ E +K + KLN + +S
Sbjct: 246 PDEKDSEILEDTLEKR-SDDLHDYDEDEEYKFKRVREYDMKVKSKATKLNELALFFVSDE 304
Query: 340 TET---PPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMV-QEEIKRKELERKEELEKE 395
P+ + L++ + N ++ Q +K + KE ++
Sbjct: 305 NGVVYYKPLRSRVELRR--------RRVNDVIRPLVREHNNDQLNVKLRNPSTKESKMRD 356
Query: 396 QIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
+ R + + + ++ E E++E +++ + + + EE+ ++ E + +
Sbjct: 357 KRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDS 416
Query: 456 RQQGTNEDTEED 467
+ E +
Sbjct: 417 ESKADKESASDS 428
Score = 32.8 bits (75), Expect = 0.51
Identities = 17/121 (14%), Positives = 51/121 (42%), Gaps = 17/121 (14%)
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
++ ++++ +D + ++ N +E + + + + + E +E E E+ EEQ +
Sbjct: 328 IRPLVREHNNDQLNVKLRNPSTKESKMRDKRRARLDPIDFEEVDEDEDEE----EEQRSD 383
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
+ ++E+ E E+E +Q + + ++ E + + D++
Sbjct: 384 EHEEEEGEDS--EEEGSQSREDGSSESSSDVGSDS-----------ESKADKESASDSDS 430
Query: 467 D 467
+
Sbjct: 431 E 431
>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200). This
family is found in eukaryotes. It is a coiled-coil
domain of unknwon function.
Length = 126
Score = 31.4 bits (72), Expect = 0.37
Identities = 30/108 (27%), Positives = 58/108 (53%), Gaps = 15/108 (13%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKEL---ERKEELEKEQIRIKEE--------QENIKKK 409
++ + EE + +EE +R+E +R+EELEK++ ++E +EN K+
Sbjct: 3 LEKRREMEEVQLALDAKREEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKR 62
Query: 410 KEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+ E+K +E++ + +K++E LKAE + E E+L E+L +
Sbjct: 63 RRAEKKAEEEKKLRK----EKEEEIKELKAELEELKAEIEKLEEKLEE 106
Score = 30.3 bits (69), Expect = 0.87
Identities = 27/93 (29%), Positives = 57/93 (61%), Gaps = 3/93 (3%)
Query: 369 EEKEKQRMVQEEI--KRKELERKEELEKEQIR-IKEEQENIKKKKEQEEKERKEQEENQK 425
E++ + VQ + KR+E ER+EEL K++ +++++E +++ + +K KE E ++
Sbjct: 4 EKRREMEEVQLALDAKREEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKRR 63
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
KK +EE +L+ E++ + E + +EEL+ +
Sbjct: 64 RAEKKAEEEKKLRKEKEEEIKELKAELEELKAE 96
>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal
subunit [Translation, ribosomal structure and
biogenesis].
Length = 591
Score = 33.1 bits (75), Expect = 0.38
Identities = 20/62 (32%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ EEEE++K +M+ K+K+L +K ++ + +E+ EN+KKKK+Q K++K
Sbjct: 532 KRKVDEEEEEKKLKMIMMSNKQKKLYKK--MKYSNAKKEEQAENLKKKKKQIAKQKKLDS 589
Query: 422 EN 423
+
Sbjct: 590 KK 591
Score = 31.6 bits (71), Expect = 1.2
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQ--IRIKEEQENIKKKKEQEEKERKEQEENQ 424
E+ E +++ +EL+ ++ELE E I+ E E K + + K+RK EE +
Sbjct: 481 EDVRYEHVAGEEDDDDDEELQAQKELELEAQGIKYSETSEADKDVNKSKNKKRKVDEEEE 540
Query: 425 KLLLKK 430
+ LK
Sbjct: 541 EKKLKM 546
Score = 28.9 bits (64), Expect = 7.3
Identities = 20/75 (26%), Positives = 40/75 (53%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
E E +K + KRK E +EE + + I + +Q+ + KK + +++EQ EN K
Sbjct: 517 ETSEADKDVNKSKNKKRKVDEEEEEKKLKMIMMSNKQKKLYKKMKYSNAKKEEQAENLKK 576
Query: 427 LLKKQQEEDRLKAEE 441
K+ ++ +L +++
Sbjct: 577 KKKQIAKQKKLDSKK 591
>gnl|CDD|212870 cd11937, SH3_UBASH3A, Src homology 3 domain of Ubiquitin-associated
and SH3 domain-containing protein A. UBASH3A is also
called Cbl-Interacting Protein 4 (CLIP4), T cell
Ubiquitin LigAnd (TULA), or T cell receptor Signaling
(STS)-2. It is only found in lymphoid cells and exhibits
weak phosphatase activity. UBASH3A facilitates T
cell-induced apoptosis through interaction with the
apoptosis-inducing factor AIF. It is involved in
regulating the level of phosphorylation of the
zeta-associated protein (ZAP)-70 tyrosine kinase. TULA
proteins contain an N-terminal UBA domain, a central SH3
domain, and a C-terminal histidine phosphatase domain.
They bind c-Cbl through the SH3 domain and to ubiquitin
via UBA. 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 = 60
Score = 30.0 bits (67), Expect = 0.38
Identities = 20/56 (35%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 471 TAVALYDYQASADDEISFDPDDII----TNIEMIDEGWWRGYCH--GQYGLFPANY 520
T AL+ Y+ DE+ P D I T EGW G H G G P NY
Sbjct: 2 TLRALFQYKPQNIDELMLSPGDYIFVDPTQQSEASEGWVIGISHRTGCRGFLPENY 57
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 33.0 bits (76), Expect = 0.38
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 395 EQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK----KQQEEDRLKAEEQARLLEQER 450
E++ +E + E +E K ++ KLL K EE RL+AE E +R
Sbjct: 1 EELDALDEILGDLESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDR 60
Query: 451 LMEELRQQ 458
L EE+ +
Sbjct: 61 LREEIERL 68
>gnl|CDD|212693 cd11759, SH3_CRK_C, C-terminal Src Homology 3 domain of Ct10
Regulator of Kinase adaptor proteins. CRK adaptor
proteins consists of SH2 and SH3 domains, which bind
tyrosine-phosphorylated peptides and proline-rich
motifs, respectively. They function downstream of
protein tyrosine kinases in many signaling pathways
started by various extracellular signals, including
growth and differentiation factors. Cellular CRK (c-CRK)
contains a single SH2 domain, followed by N-terminal and
C-terminal SH3 domains. It is involved in the regulation
of many cellular processes including cell growth,
motility, adhesion, and apoptosis. CRK has been
implicated in the malignancy of various human cancers.
The C-terminal SH3 domain of CRK has not been shown to
bind any target protein; it acts as a negative regulator
of CRK function by stabilizing a structure that inhibits
the access by target proteins to the N-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 by intramolecular interactions,
changing the subcellular localization of signal pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 57
Score = 29.8 bits (67), Expect = 0.39
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 476 YDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYVSL 523
YD A ++ + D++ ++ G W G +G+ G FP +V L
Sbjct: 15 YDKTA-----LALEVGDLVKVTKINVSGQWEGELNGKVGHFPFTHVEL 57
>gnl|CDD|212937 cd12004, SH3_Lyn, Src homology 3 domain of Lyn Protein Tyrosine
Kinase. Lyn is a member of the Src subfamily of
proteins, which are cytoplasmic (or non-receptor) PTKs.
Lyn is expressed in B lymphocytes and myeloid cells. It
exhibits both positive and negative regulatory roles in
B cell receptor (BCR) signaling. Lyn, as well as Fyn and
Blk, promotes B cell activation by phosphorylating ITAMs
(immunoreceptor tyr activation motifs) in CD19 and in Ig
components of BCR. It negatively regulates signaling by
its unique ability to phosphorylate ITIMs
(immunoreceptor tyr inhibition motifs) in cell surface
receptors like CD22 and CD5. Lyn also plays an important
role in G-CSF receptor signaling by phosphorylating a
variety of adaptor molecules. Src kinases 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). 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 = 56
Score = 30.0 bits (67), Expect = 0.39
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWW--RGYCHGQYGLFPANYVS 522
VALY Y +D++SF + + IE E WW R + G P+NYV+
Sbjct: 3 VALYPYDGIHEDDLSFKKGEKLKVIEEHGE-WWKARSLTTKKEGFIPSNYVA 53
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.4 bits (76), Expect = 0.40
Identities = 34/201 (16%), Positives = 77/201 (38%), Gaps = 15/201 (7%)
Query: 273 FENLAKQTEEESRK--RSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIEKKLN 329
FE ++ EE + +S+EE E+ ++ + ++ K++ + + + EE +K +
Sbjct: 4067 FEENVQENEESTEDGVKSDEELEQGEVPEDQAIDNHPKMDAKSTFASAEADEENTDKGIV 4126
Query: 330 GHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE-EIKRKELER 388
G ++ + + + S +E E R Q +E ++
Sbjct: 4127 GENE-----ELGEEDGVRGNGTADGEFEQVQEDTSTPKEAMSEADRQYQSLGDHLREWQQ 4181
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ E + E Q E + E+E+ Q L E+D++K+ ++ Q
Sbjct: 4182 ANRI-HEWEDLTESQSQAFDDSEFMHVKEDEEEDLQAL---GNAEKDQIKSIDRDESANQ 4237
Query: 449 ERLMEELRQQGTNEDTEEDLG 469
+ + ED +++G
Sbjct: 4238 NP--DSMNSTNIAEDEADEVG 4256
Score = 32.3 bits (73), Expect = 0.87
Identities = 40/210 (19%), Positives = 77/210 (36%), Gaps = 39/210 (18%)
Query: 272 KFENLAKQTEEESRKRSEEEKEKRKLKDQID---LEQAQKLEERRLSELKI---KEEEIE 325
E +TE++S ++S E + + D LE + E+ E+ ++EI+
Sbjct: 3911 PNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQ 3970
Query: 326 KKLNGHSDVPLSPSTETPPVPVKSILKQPTSD----------GIPIQNSNKEEEEKEKQR 375
+ ++ P P E +P L + D + + NKEE + EK
Sbjct: 3971 PDIQENNSQPP-PENEDLDLPEDLKLDEKEGDVSKDSDLEDMDMEAADENKEEADAEKDE 4029
Query: 376 MVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEED 435
+Q+E LE L+++ +Q++ E +EK ++ E
Sbjct: 4030 PMQDE---DPLEENNTLDED-----IQQDDFSDLAEDDEKMNEDGFEEN----------- 4070
Query: 436 RLKAEEQARLLEQERLMEELRQQGTNEDTE 465
+E E +E +QG + +
Sbjct: 4071 ---VQENEESTEDGVKSDEELEQGEVPEDQ 4097
Score = 31.5 bits (71), Expect = 1.3
Identities = 67/336 (19%), Positives = 126/336 (37%), Gaps = 42/336 (12%)
Query: 165 VQKDRQDKSAVGWDHQEKIEKHESQKDYAKGFGGKFGIESDRQDKSAVGWDHVEKVDKHQ 224
V K+ +K+ D QEK ++ E D G I+ D Q+ ++ E +D +
Sbjct: 3936 VSKEDDNKALEDKDRQEKEDEEEMSDD----VGIDDEIQPDIQENNSQPPPENEDLDLPE 3991
Query: 225 SQKDDNRQVVTSSKVK----DLIAANSTN--ASKENIKPKPNIGHVKPSNLRAKFENLAK 278
K D ++ S D+ AA+ A E +P + ++ +N +
Sbjct: 3992 DLKLDEKEGDVSKDSDLEDMDMEAADENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDD 4051
Query: 279 QTE--EESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
++ E+ K +E+ E+ +++ E K +E EL+ E ++ ++ H
Sbjct: 4052 FSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDE----ELEQGEVPEDQAIDNH----- 4102
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
P D S + +EE + +V E + E +
Sbjct: 4103 -----------------PKMDAKSTFASAEADEENTDKGIVGENEELGEEDGVRGNGTAD 4145
Query: 397 IRIKEEQENIKKKKE-QEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
++ QE+ KE E +R+ Q L ++ Q+ +R+ E + Q + ++
Sbjct: 4146 GEFEQVQEDTSTPKEAMSEADRQYQSLGDHL--REWQQANRIH-EWEDLTESQSQAFDDS 4202
Query: 456 RQQGTNEDTEEDLGYTAVALYDYQASADDEISFDPD 491
ED EEDL A D S D + S + +
Sbjct: 4203 EFMHVKEDEEEDLQALGNAEKDQIKSIDRDESANQN 4238
Score = 31.1 bits (70), Expect = 2.0
Identities = 23/113 (20%), Positives = 46/113 (40%), Gaps = 2/113 (1%)
Query: 357 DGIPIQNSNKEEEE--KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEE 414
+ IP SN E+ E E ++K E+ + + KE+ + K+++E
Sbjct: 3893 NDIPEDLSNSLNEKLWDEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQE 3952
Query: 415 KERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
KE +E+ + + + Q + + + E L E+L+ D +D
Sbjct: 3953 KEDEEEMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDVSKD 4005
Score = 29.2 bits (65), Expect = 7.1
Identities = 26/130 (20%), Positives = 56/130 (43%), Gaps = 9/130 (6%)
Query: 320 KEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE 379
+++++E+ N S E+ ++S + T D + +N N + EE+ + + E
Sbjct: 3833 EDDDLEELANEEDTANQSDLDESEARELESDMNGVTKDSVVSENENSDSEEENQD--LDE 3890
Query: 380 EIK------RKELERKEELEKEQIRIKE-EQENIKKKKEQEEKERKEQEENQKLLLKKQQ 432
E+ L K E + + E EQ++ ++ E + +E++ K L K +
Sbjct: 3891 EVNDIPEDLSNSLNEKLWDEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDR 3950
Query: 433 EEDRLKAEEQ 442
+E + E
Sbjct: 3951 QEKEDEEEMS 3960
>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase. This model represents the
seryl-tRNA synthetase found in most organisms. This
protein is a class II tRNA synthetase, and is recognized
by the pfam model tRNA-synt_2b. The seryl-tRNA
synthetases of two archaeal species, Methanococcus
jannaschii and Methanobacterium thermoautotrophicum,
differ considerably and are included in a different
model [Protein synthesis, tRNA aminoacylation].
Length = 418
Score = 33.1 bits (76), Expect = 0.40
Identities = 13/80 (16%), Positives = 33/80 (41%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
+ +K R ++ + ++ + KK + E+ + ++ E K + K + ++
Sbjct: 12 DLVKESLKARGLSVDIDLEKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKI 71
Query: 439 AEEQARLLEQERLMEELRQQ 458
E + L E + + EL
Sbjct: 72 EEIKKELKELKEELTELSAA 91
Score = 31.2 bits (71), Expect = 1.5
Identities = 23/109 (21%), Positives = 55/109 (50%), Gaps = 2/109 (1%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERK-EELEKEQ-IRIKEEQENIKKKKEQEEKERKE 419
+ + + ++++ + +RK+L + EEL+ ++ K+ + +KK++ E+ +KE
Sbjct: 18 LKARGLSVDIDLEKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKE 77
Query: 420 QEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
+E ++ L + L+AE Q +LL + E G +E+ ++
Sbjct: 78 LKELKEELTELSAALKALEAELQDKLLSIPNIPHESVPVGKDEEDNLEV 126
Score = 30.8 bits (70), Expect = 1.7
Identities = 26/108 (24%), Positives = 40/108 (37%), Gaps = 15/108 (13%)
Query: 267 SNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEE-----RRLSELKIKE 321
L + + L + EE KR+E K+ K K Q + + +E L+EL
Sbjct: 33 IALDDERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAAL 92
Query: 322 EEIEKKLNG---------HSDVPLSPSTETPPVPVKSILKQPTSDGIP 360
+ +E +L H VP+ E + VK P D P
Sbjct: 93 KALEAELQDKLLSIPNIPHESVPVG-KDEEDNLEVKRWGTPPVFDFKP 139
>gnl|CDD|212981 cd12048, SH3_DOCK3_B, Src Homology 3 domain of Class B Dedicator of
Cytokinesis 3. Dock3, also called modifier of cell
adhesion (MOCA), and presenilin binding protein (PBP),
is a class B DOCK and is an atypical guanine nucleotide
exchange factor (GEF) that lacks the conventional Dbl
homology (DH) domain. It regulates N-cadherin dependent
cell-cell adhesion, cell polarity, and neuronal
morphology. It promotes axonal growth by stimulating
actin polymerization and microtubule assembly. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate while DHR-2
contains the catalytic activity for Rac and/or Cdc42.
Class B DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus;
Dock3 is a specific GEFs for Rac. The SH3 domain of
Dock3 binds to DHR-2 in an autoinhibitory manner;
binding of the scaffold protein Elmo to the SH3 domain
of Dock3 exposes the DHR-2 domain and promotes GEF
activity. 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 = 29.9 bits (67), Expect = 0.42
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 502 EGWWRGYCHGQ---YGLFPANYVSLQ 524
EGW+RG + G+FPANY+ L+
Sbjct: 31 EGWYRGVSIKKPNVKGIFPANYIHLK 56
>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family. The organisation of
microtubules varies with the cell type and is presumably
controlled by tissue-specific microtubule-associated
proteins (MAPs). The 115-kDa epithelial MAP
(E-MAP-115/MAP7) has been identified as a
microtubule-stabilising protein predominantly expressed
in cell lines of epithelial origin. The binding of this
microtubule associated protein is nucleotide
independent.
Length = 171
Score = 32.0 bits (72), Expect = 0.43
Identities = 31/100 (31%), Positives = 63/100 (63%), Gaps = 3/100 (3%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE---QENIKKKKEQEEKERK 418
Q + E++E+ R+ +EE+KR+ E + E+E R +EE ++ K K++ EE+E++
Sbjct: 41 QEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEEEEKQ 100
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
EQEE +++ +K++ E R + E + LE+E+ +++ Q+
Sbjct: 101 EQEEQERIQKQKEEAEARAREEAERMRLEREKHFQQIEQE 140
>gnl|CDD|221371 pfam12004, DUF3498, Domain of unknown function (DUF3498). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 433 to 538 amino acids in length. This domain is
found associated with pfam00616, pfam00168. This domain
has two conserved sequence motifs: DLQ and PLSFQNP.
Length = 489
Score = 32.8 bits (74), Expect = 0.44
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
EE +E + ++ ++ I + KE+ + EE ++ LL ++Q+ +L E QAR
Sbjct: 351 IEYETEENREEGTQAEKYEQEIARLKERLRVSVRRLEEYERRLLGQEQQMQKLLQEYQAR 410
Query: 445 LLEQERLMEELRQQGTNEDTE 465
L + E E LR+Q +D++
Sbjct: 411 LEDSE---ERLRRQQEEKDSQ 428
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota). DNA
Topoisomerase I (eukaryota), DNA topoisomerase V,
Vaccina virus topoisomerase, Variola virus
topoisomerase, Shope fibroma virus topoisomeras.
Length = 391
Score = 32.7 bits (75), Expect = 0.48
Identities = 19/93 (20%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
E+++ K K +L++ + I + K + + K + +N+KL + ++++ K
Sbjct: 280 EKLQEKIKALKYQLKRLKKMILLFEMISDLK---RKLKSKFERDNEKLDAEVKEKKKEKK 336
Query: 439 AEEQ-----ARLLEQERLMEELRQQGTNEDTEE 466
EE+ RL E+ +E Q E+ +
Sbjct: 337 KEEKKKKQIERLEERIEKLE--VQATDKEENKT 367
Score = 30.0 bits (68), Expect = 3.5
Identities = 17/75 (22%), Positives = 46/75 (61%), Gaps = 6/75 (8%)
Query: 366 KEEEEKEKQRMVQEEI---KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
K + ++ K+ ++ E+ +++L+ K E + E++ + +++ KK+K++EEK++K+ E
Sbjct: 290 KYQLKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEK--KKEKKKEEKKKKQIER 347
Query: 423 -NQKLLLKKQQEEDR 436
+++ + Q D+
Sbjct: 348 LEERIEKLEVQATDK 362
>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional.
Length = 567
Score = 32.9 bits (75), Expect = 0.48
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 11/78 (14%)
Query: 385 ELER-KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE--NQKLLLKKQQEEDRLKAEE 441
EL R +E+LE+EQ +E ++ K + E+ERK +EE Q+ ++ Q RL A E
Sbjct: 4 ELRRAREKLEREQ------RERKQRAKLKLERERKAKEEAAKQREAIEAAQRSRRLDAIE 57
Query: 442 QARLLEQERLMEELRQQG 459
++ ++ M+E Q G
Sbjct: 58 AQ--IKADQQMQESLQAG 73
Score = 29.5 bits (66), Expect = 4.6
Identities = 23/83 (27%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ---KLLLKKQQEEDRLKA 439
R++LER++ K++ ++K E+E +K KE+ K+R+ E Q +L + Q + +
Sbjct: 9 REKLEREQRERKQRAKLKLERE--RKAKEEAAKQREAIEAAQRSRRLDAIEAQIKADQQM 66
Query: 440 EEQ---ARLLEQERLMEELRQQG 459
+E R + R+ E + QG
Sbjct: 67 QESLQAGRGIVFSRIFEAVSFQG 89
>gnl|CDD|218771 pfam05835, Synaphin, Synaphin protein. This family consists of
several eukaryotic synaphin 1 and 2 proteins.
Synaphin/complexin is a cytosolic protein that
preferentially binds to syntaxin within the SNARE
complex. Synaphin promotes SNAREs to form precomplexes
that oligomerise into higher order structures. A peptide
from the central, syntaxin binding domain of synaphin
competitively inhibits these two proteins from
interacting and prevents SNARE complexes from
oligomerising. It is thought that oligomerisation of
SNARE complexes into a higher order structure creates a
SNARE scaffold for efficient, regulated fusion of
synaptic vesicles. Synaphin promotes neuronal exocytosis
by promoting interaction between the complementary
syntaxin and synaptobrevin transmembrane regions that
reside in opposing membranes prior to fusion.
Length = 139
Score = 31.4 bits (71), Expect = 0.48
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 2/88 (2%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIK-EEQENIKKKKEQEEKERKEQE 421
++ +E+EE ++ EE +RK RK E E+E +R ++ IKKK+E EE+ + E
Sbjct: 31 DAEEEDEEIQEALREAEE-ERKAKHRKMEEEREVMRQGIRDKYGIKKKEEDEEEPQAAAE 89
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQE 449
E + L +K++ + L AE E+E
Sbjct: 90 EEEGRLGRKKKTPEELAAEAGEEDEEEE 117
>gnl|CDD|220182 pfam09328, Phytochelatin_C, Domain of unknown function (DUF1984).
Members of this family of functionally uncharacterized
domains are found at the C-terminus of plant
phytochelatin synthases.
Length = 264
Score = 32.4 bits (74), Expect = 0.48
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 251 SKENIKPKPNIGHVKPSNLRAKFENLAK------QTEEESRKRSEEEKEKRKLKDQIDLE 304
EN+K + V +L A F + K + EE + S+EEKE+ LK+++ L+
Sbjct: 33 KSENLKDVQEVLSVVFKSLPANFGDFIKWVAEVRRQEEGNSSLSKEEKERLALKEEV-LQ 91
Query: 305 QAQ 307
Q +
Sbjct: 92 QVR 94
>gnl|CDD|212822 cd11889, SH3_Cyk3p-like, Src Homology 3 domain of Cytokinesis
protein 3 and similar proteins. Cytokinesis protein 3
(Cyk3 or Cyk3p) is a component of the actomyosin ring
independent cytokinesis pathway in yeast. It interacts
with Inn1 and facilitates its recruitment to the bud
neck, thereby promoting cytokinesis. Cyk3p contains an
N-terminal SH3 domain and a C-terminal
transglutaminase-like domain. The Cyk3p SH3 domain binds
to the C-terminal proline-rich region of Inn1. 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 = 53
Score = 29.4 bits (66), Expect = 0.49
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYC--HGQYGLFPANYV 521
A+Y + + ++ F D+I + + D WW G +G G+FP+N+V
Sbjct: 4 AVYSWAGETEGDLGFLEGDLIEVLSIGDGSWWSGKLRRNGAEGIFPSNFV 53
>gnl|CDD|213010 cd12077, SH3_Tks5_2, Second Src homology 3 domain of Tyrosine
kinase substrate with five SH3 domains. Tks5, also
called SH3 and PX domain-containing protein 2A
(SH3PXD2A) or Five SH (FISH), is a scaffolding protein
and Src substrate that is localized in podosomes, which
are electron-dense structures found in Src-transformed
fibroblasts, osteoclasts, macrophages, and some invasive
cancer cells. It binds and regulates some members of the
ADAMs family of transmembrane metalloproteases, which
function as sheddases and mediators of cell and matrix
interactions. It is required for podosome formation,
degradation of the extracellular matrix, and cancer cell
invasion. Tks5 contains an N-terminal Phox homology (PX)
domain and five SH3 domains. This model characterizes
the second SH3 domain of Tks5. 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 = 29.2 bits (65), Expect = 0.53
Identities = 16/49 (32%), Positives = 24/49 (48%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
V + Y + DEI F+ + I+ EGWW G+ G PA+Y+
Sbjct: 4 VTVQPYTSQGKDEIGFEKGVTVEVIQKNLEGWWYIRYLGKEGWAPASYL 52
>gnl|CDD|114015 pfam05266, DUF724, Protein of unknown function (DUF724). This
family contains several uncharacterized proteins found
in Arabidopsis thaliana and other plants. This region is
often found associated with Agenet domains and may
contain coiled-coil.
Length = 190
Score = 31.7 bits (72), Expect = 0.55
Identities = 23/84 (27%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Query: 366 KEEEEKEKQRMVQEEIKRKELE-RKEELEKEQIRIKEEQENIKKKKEQEEKE-RKEQEEN 423
EE + ++ + ++EI R+EL+ ELE++ + ++ + +K+KKE E+KE + + E
Sbjct: 109 LEERKGLEKEIAEKEISRQELDSEIAELERKILELQRQAALLKEKKEAEDKEIARLKSEA 168
Query: 424 QKLLLKKQQEEDRLKAEEQARLLE 447
K+ +QE + E Q
Sbjct: 169 SKI----KQELVDAELEFQTTAAA 188
Score = 29.0 bits (65), Expect = 4.6
Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 371 KEKQRMVQEEIKRKE---LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
K+ Q EE K E E++ ++ I E + I + + Q ++++E K +
Sbjct: 102 KDDQTKKLEERKGLEKEIAEKEISRQELDSEIAELERKILELQRQAALLKEKKEAEDKEI 161
Query: 428 LKKQQEEDRLKAE 440
+ + E ++K E
Sbjct: 162 ARLKSEASKIKQE 174
Score = 28.2 bits (63), Expect = 8.3
Identities = 18/67 (26%), Positives = 39/67 (58%), Gaps = 4/67 (5%)
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQE----ENQKLLLKKQQEEDRLKAEEQARLLE 447
L+ +Q + EE++ ++K+ ++E R+E + E ++ +L+ Q++ LK +++A E
Sbjct: 101 LKDDQTKKLEERKGLEKEIAEKEISRQELDSEIAELERKILELQRQAALLKEKKEAEDKE 160
Query: 448 QERLMEE 454
RL E
Sbjct: 161 IARLKSE 167
>gnl|CDD|129661 TIGR00570, cdk7, CDK-activating kinase assembly factor MAT1. All
proteins in this family for which functions are known
are cyclin dependent protein kinases that are components
of TFIIH, a complex that is involved in nucleotide
excision repair and transcription initiation. Also known
as MAT1 (menage a trois 1). This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 309
Score = 32.5 bits (74), Expect = 0.56
Identities = 19/67 (28%), Positives = 37/67 (55%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
E K+K Q+E K + KE+ +EQ ++E E K+++EQ +++EE Q++
Sbjct: 116 ENTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFEKEEEEQRRLLLQKEEEEQQMN 175
Query: 428 LKKQQEE 434
+K ++
Sbjct: 176 KRKNKQA 182
Score = 30.9 bits (70), Expect = 1.3
Identities = 23/101 (22%), Positives = 50/101 (49%), Gaps = 4/101 (3%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
Q NK+ +K K++ +E+ + +E E+ E+EQ R+ ++E ++EQ+ +RK ++
Sbjct: 126 QKENKDVIQKNKEKSTREQEELEEALEFEKEEEEQRRLLLQKE----EEEQQMNKRKNKQ 181
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNE 462
L L A+ + ++ E +E+ + + N
Sbjct: 182 ALLDELETSTLPAAELIAQHKKNSVKLEMQVEKPKPEKPNT 222
Score = 29.4 bits (66), Expect = 5.1
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 8/69 (11%)
Query: 404 ENIKKKKEQEEKERKEQEENQKLLLKKQQE--EDRLKAE----EQARLLEQERLMEELRQ 457
EN KKK E +KE K+ + K ++QE E+ L+ E EQ RLL Q+ EE +Q
Sbjct: 116 ENTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFEKEEEEQRRLLLQK--EEEEQQ 173
Query: 458 QGTNEDTEE 466
++ +
Sbjct: 174 MNKRKNKQA 182
>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex. This
entry is characterized by proteins with alternating
conserved and low-complexity regions. Bud13 together
with Snu17p and a newly identified factor,
Pml1p/Ylr016c, form a novel trimeric complex. called The
RES complex, pre-mRNA retention and splicing complex.
Subunits of this complex are not essential for viability
of yeasts but they are required for efficient splicing
in vitro and in vivo. Furthermore, inactivation of this
complex causes pre-mRNA leakage from the nucleus. Bud13
contains a unique, phylogenetically conserved C-terminal
region of unknown function.
Length = 141
Score = 31.1 bits (71), Expect = 0.61
Identities = 23/73 (31%), Positives = 47/73 (64%), Gaps = 6/73 (8%)
Query: 397 IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQ------ARLLEQER 450
I I+E++E +++KE++E++ ++++E K L++K++ E RL+ E+ AR + E
Sbjct: 12 IDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLARYADDED 71
Query: 451 LMEELRQQGTNED 463
EEL++Q +D
Sbjct: 72 YDEELKEQERWDD 84
Score = 29.6 bits (67), Expect = 1.8
Identities = 21/105 (20%), Positives = 51/105 (48%), Gaps = 1/105 (0%)
Query: 370 EKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLK 429
+K + + EE + ++ KEE E+++ + KE + + +K+E+E++ + ++ K L +
Sbjct: 6 DKSGRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLAR 65
Query: 430 KQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTAVA 474
+ED E + + + + + LR++ D + Y
Sbjct: 66 YADDED-YDEELKEQERWDDPMAQFLRKKKEKTDKKGKPLYKGPF 109
>gnl|CDD|216807 pfam01956, DUF106, Integral membrane protein DUF106. This
archaebacterial protein family has no known function.
Members are predicted to be integral membrane proteins.
Length = 168
Score = 31.5 bits (72), Expect = 0.64
Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 368 EEEKEKQRMVQEEIKRKEL------ERKEELEKEQIRIKEEQENIKKKK 410
+ EK ++R + + + +EL ++ EK Q + E+Q+ +
Sbjct: 41 KMEKYQKREKEIQKRARELRKNGDKLSPKKFEKRQEELMEDQKEMMMDM 89
Score = 28.8 bits (65), Expect = 4.4
Identities = 10/46 (21%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 399 IKEEQENIKKKKEQEEKERKE-QEENQKLLLKK-QQEEDRLKAEEQ 442
I + E +K++++ +K +E ++ KL KK ++ ++ L +++
Sbjct: 38 IDRKMEKYQKREKEIQKRARELRKNGDKLSPKKFEKRQEELMEDQK 83
>gnl|CDD|115307 pfam06637, PV-1, PV-1 protein (PLVAP). This family consists of
several PV-1 (PLVAP) proteins which seem to be specific
to mammals. PV-1 is a novel protein component of the
endothelial fenestral and stomatal diaphragms. The
function of this family is unknown.
Length = 442
Score = 32.3 bits (73), Expect = 0.65
Identities = 44/196 (22%), Positives = 82/196 (41%), Gaps = 16/196 (8%)
Query: 276 LAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVP 335
K+ EE + + +E + + Q+ E QK++ + K K E S +P
Sbjct: 188 AGKRQAEEQLEACGKARELQHQEQQLAEENLQKVQALCIPLDKDKFEADLLNAWRDSIIP 247
Query: 336 LSPST-----ETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE-RK 389
S P P + +++ D +P S+K EE R E + R+ + ++
Sbjct: 248 RSLDNLGYNLHHPLGPELASIRR-ACDHLPGIMSSKIEELARGLRADIERVARENADLQR 306
Query: 390 EELEKEQIRIKEEQENIKKKKEQEEKERKEQEE---------NQKLLLKKQQEEDRLKAE 440
++LE EQ ++ K +KE + +E K Q E +K L+ +++ + E
Sbjct: 307 QKLEAEQAAQAAQEAKAKAEKEAQAREAKLQAECARQTQLALEEKAALRAERDNLAKELE 366
Query: 441 EQARLLEQERLMEELR 456
+ R EQ R+ +R
Sbjct: 367 AKKREAEQLRMELAIR 382
>gnl|CDD|220366 pfam09728, Taxilin, Myosin-like coiled-coil protein. Taxilin
contains an extraordinarily long coiled-coil domain in
its C-terminal half and is ubiquitously expressed. It is
a novel binding partner of several syntaxin family
members and is possibly involved in Ca2+-dependent
exocytosis in neuroendocrine cells. Gamma-taxilin,
described as leucine zipper protein Factor Inhibiting
ATF4-mediated Transcription (FIAT), localises to the
nucleus in osteoblasts and dimerises with ATF4 to form
inactive dimers, thus inhibiting ATF4-mediated
transcription.
Length = 309
Score = 32.0 bits (73), Expect = 0.67
Identities = 34/132 (25%), Positives = 60/132 (45%), Gaps = 24/132 (18%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKE---- 416
+Q NK +E+ K R +EE KRKEL K + + I+ + E+ + K EE E
Sbjct: 83 LQKHNKTLKEENKARSDEEEEKRKELTEKFQSTLKDIQDQMEEHSNPNHKLCEENEELRE 142
Query: 417 --------------------RKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+ + E Q K +Q +++ + E++ E+E L++E
Sbjct: 143 KLKELIEQYELREQHFEKLLKTKDLEQQLNDAKLEQAQEQAEQEQEKHKREKEILLKEAA 202
Query: 457 QQGTNEDTEEDL 468
Q T ++TE++L
Sbjct: 203 QVSTLKETEKEL 214
>gnl|CDD|219176 pfam06785, UPF0242, Uncharacterized protein family (UPF0242).
Length = 401
Score = 32.2 bits (73), Expect = 0.67
Identities = 29/119 (24%), Positives = 50/119 (42%), Gaps = 13/119 (10%)
Query: 375 RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
+++Q +I RK E+ E L + I+E Q+ + K Q +K + + + +K +
Sbjct: 71 QLLQTKI-RKLTEQDEGLRNIRESIEERQKESDQLKLQNQKLVNQLGHARGVFIKTKGRY 129
Query: 435 DRLKA------EEQARL------LEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQAS 481
+L+ EE L L QE + Q N + E L Y +YQA+
Sbjct: 130 QKLEELSRHLKEENQCLQIQLDALVQECNEKIEENQELNRELAETLAYQQELNDEYQAT 188
Score = 30.3 bits (68), Expect = 3.0
Identities = 31/126 (24%), Positives = 56/126 (44%), Gaps = 14/126 (11%)
Query: 352 KQPTSDGIPIQNSNKEEEEKEKQRMVQ-EEIKRKELERKEELEKEQIRIKEEQENIKKKK 410
+Q SD + +QN +K ++ + K R ++LE+ +KEE + ++ +
Sbjct: 97 RQKESDQLKLQN------QKLVNQLGHARGVFIKTKGRYQKLEELSRHLKEENQCLQIQL 150
Query: 411 EQEEKERKEQEENQKLLLKKQQE----EDRLKAEEQARLLEQERLMEELRQQ--GTNEDT 464
+ +E E+ E + L ++ E + L E QA +EQ M + RQ G E
Sbjct: 151 DALVQECNEKIEENQELNRELAETLAYQQELNDEYQATFVEQ-HNMLDKRQAYIGKLEAK 209
Query: 465 EEDLGY 470
+DL
Sbjct: 210 VQDLMC 215
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 31.6 bits (72), Expect = 0.68
Identities = 20/71 (28%), Positives = 42/71 (59%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
E K+K+ E EE+EK + +E+Q+ KKK+ ++K+ K++++ K +++D +
Sbjct: 58 TEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKE 117
Query: 439 AEEQARLLEQE 449
AE++ L +
Sbjct: 118 AEDKLEDLTKS 128
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 32.3 bits (74), Expect = 0.71
Identities = 23/88 (26%), Positives = 50/88 (56%), Gaps = 3/88 (3%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKK-KEQEEKERKEQEENQKLL 427
E+ E Q +++ K L++ EL K+++ + + Q I KK +E+ EK ++E ++
Sbjct: 174 EKDELQEVLETVNIEKRLKKALELLKKELELLKLQNKITKKVEEKMEKTQREYYLREQ-- 231
Query: 428 LKKQQEEDRLKAEEQARLLEQERLMEEL 455
LK ++E ++ +++ L + + +EEL
Sbjct: 232 LKAIKKELGIEKDDKDELEKLKEKLEEL 259
>gnl|CDD|220410 pfam09798, LCD1, DNA damage checkpoint protein. This is a family
of proteins which regulate checkpoint kinases. In
Schizosaccharomyces pombe this protein is called Rad26
and in Saccharomyces cerevisiae it is called LCD1.
Length = 648
Score = 32.5 bits (74), Expect = 0.71
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 9/61 (14%)
Query: 391 ELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
L+++ K+E+ N +K + E KE+ +QE L K +QE L+ E + +LEQ
Sbjct: 8 MLQQQ----KQEERNKQKSRVNELKEKHDQE-----LQKLKQELQSLEDERKFLVLEQRG 58
Query: 451 L 451
L
Sbjct: 59 L 59
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 32.0 bits (73), Expect = 0.72
Identities = 15/54 (27%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 410 KEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE----RLMEELRQQG 459
+E + +E+ +N + K++++E+ EE+ +E E LMEEL+++G
Sbjct: 337 PNVQENDVEEKNDNSNVQQKEKKKEESKAKEEKQEDIEFEKRFKELMEELKEKG 390
>gnl|CDD|204935 pfam12474, PKK, Polo kinase kinase. This domain family is found in
eukaryotes, and is approximately 140 amino acids in
length. The family is found in association with
pfam00069. Polo-like kinase 1 (Plx1) is essential during
mitosis for the activation of Cdc25C, for spindle
assembly, and for cyclin B degradation. This family is
Polo kinase kinase (PKK) which phosphorylates Polo
kinase and Polo-like kinase to activate them. PKK is a
serine/threonine kinase.
Length = 142
Score = 30.8 bits (70), Expect = 0.73
Identities = 24/83 (28%), Positives = 44/83 (53%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+E + + ++ E K + KE L+ E+ +K+E E + + +EQE+K K ++E Q+
Sbjct: 47 TQELRRLPKRIRAEQKTRLKMFKESLKIEKKELKQEVEKLPRFQEQEKKRMKAEKEEQEQ 106
Query: 427 LLKKQQEEDRLKAEEQARLLEQE 449
+KQ+ E K EE Q+
Sbjct: 107 KHQKQEREFLAKQEENLEEALQQ 129
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 32.4 bits (75), Expect = 0.75
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 14/67 (20%)
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQE-----------EKERKEQEENQKLLLKKQQ 432
EL R LEKE ++++E E ++KK E EKER++ E ++ L K ++
Sbjct: 811 AELAR---LEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKE 867
Query: 433 EEDRLKA 439
RLKA
Sbjct: 868 RLARLKA 874
>gnl|CDD|212713 cd11779, SH3_Irsp53_BAIAP2L, Src Homology 3 domain of Insulin
Receptor tyrosine kinase Substrate p53, Brain-specific
Angiogenesis Inhibitor 1-Associated Protein 2
(BAIAP2)-Like proteins, and similar proteins. Proteins
in this family include IRSp53, BAIAP2L1, BAIAP2L2, and
similar proteins. They all contain an
Inverse-Bin/Amphiphysin/Rvs (I-BAR) or IMD domain in
addition to the SH3 domain. IRSp53, also known as
BAIAP2, is a scaffolding protein that takes part in many
signaling pathways including Cdc42-induced filopodia
formation, Rac-mediated lamellipodia extension, and
spine morphogenesis. IRSp53 exists as multiple splicing
variants that differ mainly at the C-termini. BAIAP2L1,
also called IRTKS (Insulin Receptor Tyrosine Kinase
Substrate), serves as a substrate for the insulin
receptor and binds the small GTPase Rac. It plays a role
in regulating the actin cytoskeleton and colocalizes
with F-actin, cortactin, VASP, and vinculin. IRSp53 and
IRTKS also mediate the recruitment of effector proteins
Tir and EspFu, which regulate host cell actin
reorganization, to bacterial attachment sites. BAIAP2L2
co-localizes with clathrin plaques but its function has
not been determined. The SH3 domains of IRSp53 and IRTKS
have been shown to bind the proline-rich C-terminus of
EspFu. 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 = 28.8 bits (65), Expect = 0.77
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDE---GWWRG--YCHGQYGLFPANYV 521
ALY + A + ++SF+ D+IT + E GW G G+ G FP Y
Sbjct: 5 ALYPHAAGGETQLSFEEGDVITLL--GPEPRDGWHYGENERSGRRGWFPIAYT 55
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 32.1 bits (74), Expect = 0.77
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKE-QEENQKLLLKKQQEEDRLK 438
ER E LE+ ++E+ ++ K E E ++ + E ++L + E ++LK
Sbjct: 1 ERLEALEERNSELEEQIRQLELKLRDLEAENEKLERELERL----KSELEKLK 49
>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3. This family of
proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). SH3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of SH3, AAPs are retained in the ER.
Length = 196
Score = 31.5 bits (72), Expect = 0.78
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
E K+ E+ EE E KE+E E +++E +K
Sbjct: 158 EWKDAKLLEEFA-AEEAEAAAAAKEEESAEGEKKESKKK 195
Score = 28.8 bits (65), Expect = 5.7
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 383 RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
K+ + EE E+ E K++E E E+KE
Sbjct: 159 WKDAKLLEEFAAEE----AEAAAAAKEEESAEGEKKES 192
>gnl|CDD|226513 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain,
potential nuclease [General function prediction only].
Length = 290
Score = 31.8 bits (72), Expect = 0.80
Identities = 26/106 (24%), Positives = 51/106 (48%), Gaps = 10/106 (9%)
Query: 355 TSDGIPIQNSNKEEEEKEKQRMVQEEIKRKE--LERKEELEKEQIRIKEEQENIKKKKEQ 412
T +P KE+ E+ K+++ +E K KE L+ EELE E ++E + ++ + +
Sbjct: 123 TLQRVPEYMDLKEDYEELKEKL-EELQKEKEELLKELEELEAEYEEVQERLKRLEVENSR 181
Query: 413 EEKERKEQEENQKLLLKKQQEEDRL-KAEEQARLLEQERLMEELRQ 457
E+ K KL + + R + E L E+E + + +++
Sbjct: 182 LEEMLK------KLPGEVYDLKKRWDELEPGVELPEEELISDLVKE 221
>gnl|CDD|236277 PRK08493, PRK08493, NADH dehydrogenase subunit G; Validated.
Length = 819
Score = 32.0 bits (73), Expect = 0.81
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 374 QRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL---LKK 430
++ ++EE K LE ++ ++ + +E +K EQ E+ + QEE +K + +KK
Sbjct: 440 KKFLEEEAILKSLEEFKQSIVKEAALSILEEIREKVLEQAEQGCENQEEVKKEVPKKVKK 499
Query: 431 QQEEDRLKAEEQARLLEQER-LMEELRQQGTN 461
E D E+ + E+ +E L + N
Sbjct: 500 IPEVDTYLLLEELGINEETYEKLEALLAKKNN 531
>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO. Bacillus
spores are protected by a protein shell consisting of
over 50 different polypeptides, known as the coat. This
family of proteins has an important morphogenetic role
in coat assembly, it is involved in the assembly of at
least 5 different coat proteins including CotB, CotG,
CotS, CotSA and CotW. It is likely to act at a late
stage of coat assembly.
Length = 185
Score = 31.3 bits (71), Expect = 0.81
Identities = 21/76 (27%), Positives = 46/76 (60%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I+ ++++EEEKE + + ++ EE EKE+ + E+E+I +++E+EE ++E+
Sbjct: 33 IKKADEKEEEKENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEE 92
Query: 421 EENQKLLLKKQQEEDR 436
+E + +K+Q+
Sbjct: 93 KEEEAEDVKQQEVFSF 108
>gnl|CDD|130214 TIGR01144, ATP_synt_b, ATP synthase, F0 subunit b. This model
describes the F1/F0 ATP synthase b subunit in bacteria
only. Scoring just below the trusted cutoff are the
N-terminal domains of Mycobacterial b/delta fusion
proteins and a subunit from an archaeon, Methanosarcina
barkeri, in which the ATP synthase homolog differs in
architecture and is not experimentally confirmed. This
model helps resolve b from the related b' subunit.
Within the family is an example from a
sodium-translocating rather than proton-translocating
ATP synthase [Energy metabolism, ATP-proton motive force
interconversion].
Length = 147
Score = 30.8 bits (70), Expect = 0.83
Identities = 19/96 (19%), Positives = 45/96 (46%), Gaps = 7/96 (7%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIR-IKEEQENI-----KKKKEQE 413
P+ + + ++K + E +KE ++ + ++ K+E + I K+ E
Sbjct: 19 PLAKAIETRQKKIADGLASAERAKKEAALAQKKAQVILKEAKDEAQEIIENANKRGSEIL 78
Query: 414 EKERKE-QEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
E+ + E +EE +K+ + + E + K + + L +Q
Sbjct: 79 EEAKAEAREEREKIKAQARAEIEAEKEQAREELRKQ 114
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 32.0 bits (73), Expect = 0.86
Identities = 22/107 (20%), Positives = 50/107 (46%), Gaps = 4/107 (3%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+ E K+++ + E R+ELE +EE ++E+ ++ ++K E E++ + + K
Sbjct: 381 RAEARKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLK 440
Query: 426 LLLKKQQEE----DRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
K + +E D + E + E++ +L ++ EE+
Sbjct: 441 KENKNEFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEE 487
Score = 30.0 bits (68), Expect = 3.6
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 11/95 (11%)
Query: 365 NKEEEEKEKQRMVQEEIK--RKELERKEELEKEQIRIKEEQENIKKKK----EQEEKERK 418
EE E +++ EE K R EL + EL + + + IK KK ++EK ++
Sbjct: 183 LTPFEELELKKLSPEEAKARRAELRKMRELLFREEAKAKRIKKIKSKKYHRVHKKEKLKE 242
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQARLLEQERLME 453
E +E ++L + D A E+ LE+ R E
Sbjct: 243 ELKEFEEL-----VKADPEAALEELEKLERRRAEE 272
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 30.9 bits (71), Expect = 0.87
Identities = 18/89 (20%), Positives = 29/89 (32%), Gaps = 11/89 (12%)
Query: 295 RKLKDQIDLEQAQKLEERRLSELKIKEEE----IEKKLNGHSDVPLSPSTETPPVPVKSI 350
RK+K I+L ++E +SE +IKE E I + + P +
Sbjct: 4 RKIKKLIEL-----VDESGISEFEIKEGEESVRISRAAAAPVAPVAQQAAAAPVAAAPAA 58
Query: 351 LKQPTSDGIPIQNSNKEEEEKEKQR--MV 377
+ + E E MV
Sbjct: 59 AAAAAAAPAAAPAAAAAEAEGHVVTSPMV 87
>gnl|CDD|226400 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 31.6 bits (72), Expect = 0.90
Identities = 14/69 (20%), Positives = 31/69 (44%)
Query: 390 EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
E+ ++++ ++E+Q ++ K E + E E L ++ E++ L A A+
Sbjct: 151 EQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIAALAAKEASAL 210
Query: 450 RLMEELRQQ 458
L +Q
Sbjct: 211 GEKAALEEQ 219
>gnl|CDD|205150 pfam12925, APP_E2, E2 domain of amyloid precursor protein. The E2
domain is the largest of the conserved domains of the
amyloid precursor protein. The structure of E2 consists
of two coiled-coil sub-structures connected through a
continuous helix, and bears an unexpected resemblance to
the spectrin family of protein structures.E 2 can
reversibly dimerise in solution, and the dimerisation
occurs along the longest dimension of the molecule in an
antiparallel orientation, which enables the N-terminal
substructure of one monomer to pack against the
C-terminal substructure of a second monomer. The high
degree of conservation of residues at the putative dimer
interface suggests that the E2 dimer observed in the
crystal could be physiologically relevant. Heparin
sulfate proteoglycans, the putative ligands for the
precursor present in extracellular matrix, bind to E2 at
a conserved and positively charged site near the dimer
interface.
Length = 193
Score = 31.2 bits (71), Expect = 0.91
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 11/113 (9%)
Query: 353 QPTSDGI-PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE----QIRIKEEQENIK 407
PTSD + P + KE+ E E+ + ++ ++ K ER ++ KE + + K +
Sbjct: 6 SPTSDAVDPYFSEPKEDNEHERYKEAKKRLEEKHRERMTQVMKEWEEAESQYKNLPKADP 65
Query: 408 KKKEQEEKERKE--QEENQKLLLKKQQEEDRLKAEEQAR----LLEQERLMEE 454
K + KE E QE Q L + E +L Q R L E+ R E
Sbjct: 66 KAAQLMRKELTERFQETVQTLEQEAAAERQQLVETHQQRVEAHLNERRRAALE 118
>gnl|CDD|221937 pfam13148, DUF3987, Protein of unknown function (DUF3987). A
family of uncharacterized proteins found by clustering
human gut metagenomic sequences.
Length = 379
Score = 31.9 bits (73), Expect = 0.92
Identities = 16/58 (27%), Positives = 35/58 (60%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEED 435
+EE++ + E +E E E+ + E++ ++KK ++ K+ K++E + LL+ + EE
Sbjct: 67 EEELREEYEEELKEYEAEKEIWEAEKKGLEKKAKKAIKKGKDEEALAEELLELEAEEP 124
>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 = 28.8 bits (65), Expect = 0.92
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEG--WWRGY--CHGQYGLFPANYV 521
+ A D++ E+SF D I I + G W+ G G+ G P N+
Sbjct: 1 SCTAKMDFEGVEPGELSFRQGDSIEIIGDLIPGLQWFVGRSKSSGRVGFVPTNHF 55
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 31.7 bits (72), Expect = 0.92
Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKE--QEEKERK 418
++++ +K ++ + + K ++ +K K++ EE E K+++ QEE E+K
Sbjct: 356 VKSNTDLSGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKK 415
Query: 419 EQEENQKLLLKKQQEEDR 436
++E+ + K+Q++E +
Sbjct: 416 QKEQADEDKEKRQKDERK 433
Score = 30.9 bits (70), Expect = 1.7
Identities = 14/61 (22%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ 424
NK+ ++ K+ ++ E + + ++E+++ +EE E +K++ E+KE+++++E +
Sbjct: 375 NKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLK-QEENEKKQKEQADEDKEKRQKDERK 433
Query: 425 K 425
K
Sbjct: 434 K 434
Score = 29.4 bits (66), Expect = 5.3
Identities = 14/57 (24%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
+R+E L++ ++++ + + + K++ + E+ E + K +QEE+ K +EQA
Sbjct: 366 KRQELLKEYNKKLQDYTKKLGEVKDETDAS--EEAEAKAKEEKLKQEENEKKQKEQA 420
>gnl|CDD|184287 PRK13735, PRK13735, conjugal transfer mating pair stabilization
protein TraG; Provisional.
Length = 942
Score = 32.0 bits (73), Expect = 0.93
Identities = 13/88 (14%), Positives = 33/88 (37%), Gaps = 5/88 (5%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKK-----KEQEEKE 416
Q+S + K + + E + + + + E+ +K + ++ Q K
Sbjct: 851 QDSGIRNDVKHQVDNMVTEYEGNIGDTQNSIRGEENTVKGQYSELQNHHKTEALSQNNKY 910
Query: 417 RKEQEENQKLLLKKQQEEDRLKAEEQAR 444
+E+ +++ EE +A+E
Sbjct: 911 NEEKSAQERMPGADSPEELMKRAKEYQD 938
>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal
domain. This domain is found in a number of different
types of plant proteins including NAM-like proteins.
Length = 147
Score = 30.4 bits (69), Expect = 0.96
Identities = 21/61 (34%), Positives = 35/61 (57%), Gaps = 4/61 (6%)
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
K KE R+++L+ + KEE E K+K+E+ K E E+ + L KK+ E +K E+
Sbjct: 67 KAKEKLRRDKLKAK----KEEAEKEKEKEERFMKALAEAEKERAELEKKKAEAKLMKEEK 122
Query: 442 Q 442
+
Sbjct: 123 K 123
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 31.2 bits (71), Expect = 0.98
Identities = 33/142 (23%), Positives = 65/142 (45%), Gaps = 11/142 (7%)
Query: 288 SEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVP-LSPSTETPPVP 346
+E+E KR L+ +LE+A++ + E K+ E+ +K N + E +
Sbjct: 50 TEDELRKRDLRA--ELEEAER-AHKSKKENKLAIEDADKSTNLDASNEGDEDDDEEDEIK 106
Query: 347 VKSILKQPTS-DGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQEN 405
K I + + D +S+ + + E + L R ELEK IK+E+
Sbjct: 107 RKRIEEDARNSDADDSDSSSDSDSSDDDSDDDDSEDETAALLR--ELEK----IKKERAE 160
Query: 406 IKKKKEQEEKERKEQEENQKLL 427
K+++E+E+ +E+ +++L
Sbjct: 161 EKEREEEEKAAEEEKAREEEIL 182
>gnl|CDD|212950 cd12017, SH3_Tks_3, Third 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 third 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 = 28.6 bits (64), Expect = 1.0
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 477 DYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
++QA+ D ISF + I+ GWW G+ G P++Y+
Sbjct: 7 EFQATIQDGISFQKGQKVEVIDKNPSGWWYVKIDGKEGWAPSSYI 51
>gnl|CDD|214354 CHL00074, rps14, ribosomal protein S14.
Length = 100
Score = 29.8 bits (68), Expect = 1.1
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 373 KQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEK 415
K+ ++Q E KR++L +K L++ ++ + IKK EK
Sbjct: 3 KKSLIQREKKRQKLVQKYHLKRRSLK-----KEIKKVSSLSEK 40
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 31.9 bits (73), Expect = 1.1
Identities = 29/149 (19%), Positives = 58/149 (38%), Gaps = 5/149 (3%)
Query: 277 AKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPL 336
+QT E + E EK + +D+ ++ + RR E + ++E K LN
Sbjct: 647 QQQTAETRESQQAEVTEKARTQDEQQQAPRRERQRRRNDEKRQAQQE-AKALNVEEQSVQ 705
Query: 337 SPSTETPPVPVKSILKQ-PTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE 395
E V+ KQ + + I+ S EE +V+E + + + ++ +
Sbjct: 706 ETEQEERVQQVQPRRKQRQLNQKVRIEQSVAEEAV---APVVEETVAAEPVVQEVPAPRT 762
Query: 396 QIRIKEEQENIKKKKEQEEKERKEQEENQ 424
++ + EQ+E+ E +N
Sbjct: 763 ELVKVPLPVVAQTAPEQDEENNAENRDNN 791
Score = 30.8 bits (70), Expect = 2.0
Identities = 25/97 (25%), Positives = 48/97 (49%), Gaps = 13/97 (13%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
N+EE + +++ Q+ + +E ++ E EK + + E +++ + E++R+ +
Sbjct: 632 GRENREENRRNRRQAQQQTAETRESQQAEVTEKA----RTQDE--QQQAPRRERQRRRND 685
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
E ++ QQE L EEQ+ QE EE QQ
Sbjct: 686 EKRQA----QQEAKALNVEEQS---VQETEQEERVQQ 715
Score = 29.6 bits (67), Expect = 4.9
Identities = 29/143 (20%), Positives = 57/143 (39%), Gaps = 13/143 (9%)
Query: 333 DVPLSPSTETPPVPVKSILKQPTSDGIPIQ------------NSNKEEEEKEKQRMVQEE 380
DVP +P+ P PV + + + P Q EE + Q +
Sbjct: 536 DVPPAPTPAEPAAPVVAAAPKAAAATPPAQPGLLSRFFGALKALFSGGEETKPQEQPAPK 595
Query: 381 IKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ-EENQKLLLKKQQEEDRLKA 439
+ K +++ + Q ++ E + + +E +E EEN++ + QQ+ +
Sbjct: 596 AEAKPERQQDRRKPRQNNRRDRNERRDTRDNRTRREGRENREENRRNRRQAQQQTAETRE 655
Query: 440 EEQARLLEQERLMEELRQQGTNE 462
+QA + E+ R +E +Q E
Sbjct: 656 SQQAEVTEKARTQDEQQQAPRRE 678
>gnl|CDD|179302 PRK01558, PRK01558, V-type ATP synthase subunit E; Provisional.
Length = 198
Score = 30.9 bits (70), Expect = 1.1
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 379 EEIKRKELERKEELEKEQIR-IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
+IK+ LE E L E I KEE E I K E+E KE K + E + K+ E
Sbjct: 10 NKIKKDGLEEAERLANEIILEAKEEAEEIIAKAEEEAKELKAKAEKEANDYKRHALE 66
>gnl|CDD|212788 cd11854, SH3_Fus1p, Src homology 3 domain of yeast cell fusion
protein Fus1p. Fus1p is required at the cell surface
for cell fusion during the mating response in yeast. It
requires Bch1p and Bud7p, which are Chs5p-Arf1p binding
proteins, for localization to the plasma membrane. It
acts as a scaffold protein to assemble a cell surface
complex which is involved in septum degradation and
inhibition of the NOG pathway to promote cell fusion.
The SH3 domain of Fus1p interacts with Bin1p, a formin
that controls the assembly of actin cables in response
to Cdc42 signaling. It has been shown to bind the motif,
R(S/T)(S/T)SL, instead of PxxP motifs. 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 = 56
Score = 28.4 bits (64), Expect = 1.1
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGW 504
+ ++ S DDE+ + + + D+GW
Sbjct: 1 LMTVISTFEPSLDDELLIKVGETVRVLAEYDDGW 34
>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
Length = 613
Score = 31.6 bits (73), Expect = 1.2
Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 18/87 (20%)
Query: 390 EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE-----------EDRLK 438
E K + ++ K+ E+E++E++E EE K LL++ +E RL
Sbjct: 460 EFDGKPFKSVARGDLDLGKEDEEEKEEKEEAEEEFKPLLERLKEALGDKVKDVRLSHRLT 519
Query: 439 -------AEEQARLLEQERLMEELRQQ 458
A+E + E+L++ Q+
Sbjct: 520 DSPACLVADEGDMSTQMEKLLKAAGQE 546
>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed.
Length = 158
Score = 30.5 bits (69), Expect = 1.2
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
EE +++Q+ V +E + KE + ++ +KE+ K+ E + KKK + + ++ +K
Sbjct: 92 PEESEKEQKEVSKETEEKEAIKAKKEKKEKKE-KKVAEKLAKKKSTKTTKNTTKKATKKT 150
Query: 427 LLKKQQEE 434
KK++ +
Sbjct: 151 TTKKEEGK 158
>gnl|CDD|153342 cd07658, F-BAR_NOSTRIN, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase
TRaffic INducer (NOSTRIN). F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Nitric Oxide Synthase TRaffic
INducer (NOSTRIN) is expressed in endothelial and
epithelial cells and is involved in the regulation,
trafficking and targeting of endothelial NOS (eNOS).
NOSTRIN facilitates the endocytosis of eNOS by
coordinating the functions of dynamin and the
Wiskott-Aldrich syndrome protein (WASP). Increased
expression of NOSTRIN may be correlated to preeclampsia.
NOSTRIN contains an N-terminal F-BAR domain and a
C-terminal SH3 domain. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
The F-BAR domain of NOSTRIN is necessary and sufficient
for its membrane association and is responsible for its
subcellular localization.
Length = 239
Score = 31.2 bits (71), Expect = 1.2
Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 9/95 (9%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ 424
+ E+ K K+++ +E E+ ++ ++ + +Q+ + K K+ E + KE E
Sbjct: 121 WRSEQIKVKKKLHG---LARENEKLQDQVEDNKQSCTKQKMLNKLKKSAEVQDKEDE--- 174
Query: 425 KLLLKKQQ-EEDRLKAEEQARLLEQERLMEELRQQ 458
KL K+++ EE RLKAE + +E LR +
Sbjct: 175 KLEAKRKKGEESRLKAENEYY--TCCVRLERLRLE 207
>gnl|CDD|227602 COG5277, COG5277, Actin and related proteins [Cytoskeleton].
Length = 444
Score = 31.2 bits (71), Expect = 1.2
Identities = 26/114 (22%), Positives = 42/114 (36%), Gaps = 13/114 (11%)
Query: 358 GIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEE--LEKEQIRIK-EEQENIKKKKEQEE 414
P + N + E E + EIK + E +E + EE+E +K E
Sbjct: 205 YPPSRGYNLKSELVEYSSEIVNEIKEEVCETDDESAYVSLDAEEEFEEEEEKPAEKSTES 264
Query: 415 KERKEQEENQK---LLLKKQQE-----EDRLKAEEQARLLEQERLMEELRQQGT 460
+ +E + L +E E+R KA E L + E + L + G
Sbjct: 265 TFQLSKETSIAKESKELPDGEEIEFGNEERFKAPEI--LFKPELPISGLEEAGK 316
>gnl|CDD|220600 pfam10147, CR6_interact, Growth arrest and DNA-damage-inducible
proteins-interacting protein 1. Members of this family
of proteins act as negative regulators of G1 to S cell
cycle phase progression by inhibiting cyclin-dependent
kinases. Inhibitory effects are additive with GADD45
proteins but occur also in the absence of GADD45
proteins. Furthermore, they act as a repressor of the
orphan nuclear receptor NR4A1 by inhibiting AB
domain-mediated transcriptional activity.
Length = 217
Score = 30.9 bits (70), Expect = 1.2
Identities = 22/121 (18%), Positives = 54/121 (44%), Gaps = 32/121 (26%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKK--------KKEQEEKERK 418
EEEE+E + + ++ ++KE+ + Q R E +N+ K + ++ ++E+K
Sbjct: 91 EEEEREWYPSLNQMLEENREQQKEKEARRQAREAEIAKNMAKMPQMIADWRAQKRKREQK 150
Query: 419 EQEENQKL------------------------LLKKQQEEDRLKAEEQARLLEQERLMEE 454
+ ++ +L+++++E++ K +E R ++E+ M
Sbjct: 151 ARAAKERKERLVAEAREHFGYWVDPRDPRFQEMLQQKEKEEKKKVKEAKRREKEEKRMAA 210
Query: 455 L 455
L
Sbjct: 211 L 211
Score = 29.4 bits (66), Expect = 4.2
Identities = 16/87 (18%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 387 ERKEELEKEQIRIKEEQENIKKK-KEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
E+ EELE+E+ + ++ +EQ++++ ++ + + K + ++ A+ +A+
Sbjct: 85 EKLEELEEEEREWYPSLNQMLEENREQQKEKEARRQAREAEIAKNMAKMPQMIADWRAQK 144
Query: 446 LEQERLM--EELRQQGTNEDTEEDLGY 470
++E+ + R++ + E GY
Sbjct: 145 RKREQKARAAKERKERLVAEAREHFGY 171
>gnl|CDD|212711 cd11777, SH3_CIP4_Bzz1_like, Src Homology 3 domain of
Cdc42-Interacting Protein 4, Bzz1 and similar domains.
This subfamily is composed of Cdc42-Interacting Protein
4 (CIP4) and similar proteins such as Formin Binding
Protein 17 (FBP17) and FormiN Binding Protein 1-Like
(FNBP1L), as well as yeast Bzz1 (or Bzz1p). CIP4 and
FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich
syndrome protein (WASP) and function in endocytosis.
CIP4 and FBP17 bind to the Fas ligand and may be
implicated in the inflammatory response. CIP4 may also
play a role in phagocytosis. Bzz1 is also a
WASP/Las17-interacting protein involved in endocytosis
and trafficking to the vacuole. It physically interacts
with type I myosins and functions in the early steps of
endocytosis. Members of this subfamily contain an
N-terminal F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain as well as at least one
C-terminal SH3 domain. Bzz1 contains a second SH3 domain
at the C-terminus. 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 = 28.3 bits (63), Expect = 1.2
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEM-IDEGWWR-GYCHGQYGLFPANYVSL 523
ALY + S++ IS + ++ +E +GW R G+ G P +Y+ +
Sbjct: 3 KALYAFVGSSEGTISMTEGEKLSLVEEDKGDGWTRVRRDTGEEGYVPTSYIRI 55
>gnl|CDD|218215 pfam04696, Pinin_SDK_memA, pinin/SDK/memA/ protein conserved
region. Members of this family have very varied
localisations within the eukaryotic cell. pinin is known
to localise at the desmosomes and is implicated in
anchoring intermediate filaments to the desmosomal
plaque. SDK2/3 is a dynamically localised nuclear
protein thought to be involved in modulation of
alternative pre-mRNA splicing. memA is a tumour marker
preferentially expressed in human melanoma cell lines. A
common feature of the members of this family is that
they may all participate in regulating protein-protein
interactions.
Length = 131
Score = 30.1 bits (68), Expect = 1.2
Identities = 21/84 (25%), Positives = 48/84 (57%), Gaps = 2/84 (2%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+Q ++EE + + EI++K LE +E+ E+E++R KE++E ++++ ++ + RK +
Sbjct: 20 LQKFSQEESRLTSKEKRRAEIEQK-LEEQEKQEREELR-KEKRELFEERRRKQLELRKLE 77
Query: 421 EENQKLLLKKQQEEDRLKAEEQAR 444
++ + L++ E L R
Sbjct: 78 QKMEDEKLQETWHEHNLALANFIR 101
>gnl|CDD|151935 pfam11498, Activator_LAG-3, Transcriptional activator LAG-3. The
C.elegans Notch pathway, involved in the control of
growth, differentiation and patterning in animal
development, relies on either of the receptors GLP-1 or
LIN-12. Both these receptors promote signalling by the
recruitment of LAG-3 to target promoters, where it then
acts as a transcriptional activator. LAG-3 works as a
ternary complex together with the DNA binding protein,
LAG-1.
Length = 476
Score = 31.5 bits (70), Expect = 1.2
Identities = 12/61 (19%), Positives = 41/61 (67%)
Query: 398 RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
++ ++Q ++ ++QE + ++ +++ Q+ ++ + Q++ + + ++Q LL+Q++ M +L+Q
Sbjct: 324 QLAQQQNKMRLLQQQEMEMQRIEQQRQQQIMHQHQQQQQQEHQQQQMLLQQQQQMHQLQQ 383
Query: 458 Q 458
Sbjct: 384 H 384
Score = 29.9 bits (66), Expect = 3.5
Identities = 20/97 (20%), Positives = 46/97 (47%), Gaps = 2/97 (2%)
Query: 346 PVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQEN 405
P K P G + Q + Q ++ ++ ++ E E RI EQ+
Sbjct: 292 PEGETKKSPMEAGGDRMPQSAPPPAMNPQHIAQLAQQQNKMRLLQQQEMEMQRI--EQQR 349
Query: 406 IKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQ 442
++ Q +++++++ + Q++LL++QQ+ +L+ Q
Sbjct: 350 QQQIMHQHQQQQQQEHQQQQMLLQQQQQMHQLQQHHQ 386
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 31.6 bits (71), Expect = 1.2
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQ 403
+ K EE EK + E+ R+E ER++E EKE+ R +E +
Sbjct: 578 AKKREEAVEKAKREAEQKAREEREREKEKEKERERERERE 617
Score = 31.2 bits (70), Expect = 1.6
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 2/44 (4%)
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
KK++E EK ++E E QK ++++E+++ K E+ R E ER
Sbjct: 579 KKREEAVEKAKREAE--QKAREEREREKEKEKEREREREREAER 620
Score = 30.8 bits (69), Expect = 2.3
Identities = 34/131 (25%), Positives = 60/131 (45%), Gaps = 13/131 (9%)
Query: 314 LSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEK 373
L ++IKEE +++ + E+PP P +S +PT P S K
Sbjct: 506 LPPIQIKEEPLDE----------AEEPESPPPPPRSPSPEPTVVNTPSHASQSARFYKHL 555
Query: 374 QRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
R R +L L ++ K E+ K K+E E+K R+E+E ++ ++++E
Sbjct: 556 DRGYNS-CARTDLYFTP-LASSKLAKKREEAVEKAKREAEQKAREEREREKEKEKERERE 613
Query: 434 EDRLKAEEQAR 444
+R +AE A+
Sbjct: 614 RER-EAERAAK 623
>gnl|CDD|212836 cd11903, SH3_Nck2_3, Third Src Homology 3 domain of Nck2 adaptor
protein. Nck2 (also called Nckbeta or Growth factor
receptor-bound protein 4, Grb4) plays a crucial role in
connecting signaling pathways of tyrosine kinase
receptors and important effectors in actin dynamics and
cytoskeletal remodeling. It binds neuronal signaling
proteins such as ephrinB and Disabled-1 (Dab-1)
exclusively. Nck adaptor proteins regulate actin
cytoskeleton dynamics by linking proline-rich effector
molecules to protein tyrosine kinases and phosphorylated
signaling intermediates. They contain three SH3 domains
and a C-terminal SH2 domain. They function downstream of
the PDGFbeta receptor and are involved in Rho GTPase
signaling and actin dynamics. Vertebrates contain two
Nck adaptor proteins: Nck1 (also called Nckalpha) and
Nck2, which show partly overlapping functions but also
bind distinct targets. The third SH3 domain of Nck
appears to prefer ligands with a PxAPxR motif. SH3
domains are protein interaction domains that usually
bind to proline-rich ligands with moderate affinity and
selectivity, preferentially a PxxP motif. 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 = 28.5 bits (63), Expect = 1.3
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 475 LYDYQASADDEISFDPDDIITNIEMI--DEGWWR-GYCHGQYGLFPANYV 521
LY + + ++E++F+ + + IE D WW+ GQ GL P NYV
Sbjct: 6 LYPFSSVTEEELNFEKGETMEVIEKPENDPEWWKCKNSRGQVGLVPKNYV 55
>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 486
Score = 31.3 bits (71), Expect = 1.3
Identities = 28/114 (24%), Positives = 58/114 (50%), Gaps = 13/114 (11%)
Query: 345 VPVKSILKQPTSDGIPIQNSNKEEEEKE--KQRMVQEEIKR---------KELERKEELE 393
VP+ +LK+ + Q KEEE++E +++ + IK K E KEE
Sbjct: 358 VPISELLKEGSKQETKEQPEKKEEEKEELDIDKIILQIIKNEGKIISAILKNAEIKEEEG 417
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
K I++++ +E+ + + K+ E ++ +KK++E+++ + E ++LE
Sbjct: 418 KITIKVEKSEEDTLDLEIKSIKKYFPFIEFEE--VKKEKEKEKERPEFVEKVLE 469
>gnl|CDD|224755 COG1842, PspA, Phage shock protein A (IM30), suppresses
sigma54-dependent transcription [Transcription / Signal
transduction mechanisms].
Length = 225
Score = 30.7 bits (70), Expect = 1.3
Identities = 20/102 (19%), Positives = 51/102 (50%), Gaps = 3/102 (2%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
+ ++ ++ ++M+++ I+ E E + + + Q+ +++K E+ + ++ EE
Sbjct: 16 NELLDKAEDPEKMLEQAIRDMESELAK-ARQALAQAIARQKQLERKLEEAQARAEKLEEK 74
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQ--ERLMEELRQQGTNED 463
+L L+ E+ +A E+ + LE + L EL+Q +
Sbjct: 75 AELALQAGNEDLAREALEEKQSLEDLAKALEAELQQAEEQVE 116
>gnl|CDD|114629 pfam05917, DUF874, Helicobacter pylori protein of unknown function
(DUF874). This family consists of several hypothetical
proteins specific to Helicobacter pylori. The function
of this family is unknown.
Length = 417
Score = 31.4 bits (70), Expect = 1.3
Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQE----EKERKEQE 421
K++ E+EKQ+ QE+ K + K +E EQ + K E E KEQ+ E E+ QE
Sbjct: 183 KQKTEQEKQKTEQEKQKTSNIANKNAIELEQEKQKTENEKQDLIKEQKDFIKEAEQNCQE 242
Query: 422 ENQKLLLKK 430
+ + +KK
Sbjct: 243 NHNQFFIKK 251
Score = 28.7 bits (63), Expect = 8.3
Identities = 27/96 (28%), Positives = 56/96 (58%), Gaps = 3/96 (3%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKER-KEQE 421
N + E E+E+Q+ QE K+K + EL QI+ ++E++ +++K++ E+E+ K
Sbjct: 145 NKSGIELEQEEQKTEQE--KQKTEKEGIELANSQIKAEQEKQKTEQEKQKTEQEKQKTSN 202
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
K ++ +QE+ + + E+Q + EQ+ ++E Q
Sbjct: 203 IANKNAIELEQEKQKTENEKQDLIKEQKDFIKEAEQ 238
>gnl|CDD|206063 pfam13892, DBINO, DNA-binding domain. DBINO is a DNA-binding
domain found on global transcription activator SNF2L1
proteins and chromatin re-modelling proteins.
Length = 140
Score = 29.9 bits (68), Expect = 1.3
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 398 RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLE 447
R+ E KK E+EE+E +++ E + L K++EE R +A+ Q R L
Sbjct: 69 RLMREMLLFWKKNEKEERELRKRAEKEALEQAKKEEELR-EAKRQQRKLN 117
>gnl|CDD|211344 cd02867, PseudoU_synth_TruB_4, Pseudouridine synthase homolog 4.
This group consists of Eukaryotic TruB proteins similar
to Saccharomyces cerevisiae Pus4. S. cerevisiae Pus4,
makes psi55 in the T loop of both cytoplasmic and
mitochondrial tRNAs. Psi55 is almost universally
conserved. Pseudouridine synthases catalyze the
isomerization of specific uridines in an RNA molecule to
pseudouridines (5-ribosyluracil, psi).
Length = 312
Score = 31.3 bits (71), Expect = 1.3
Identities = 28/124 (22%), Positives = 45/124 (36%), Gaps = 9/124 (7%)
Query: 335 PLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKEL---ERKEE 391
PL E V V +L + + P+ EEE K+ +R V + + ++ E E
Sbjct: 163 PLPRPIERRQVVVSELLVKDWIEPGPLFTRTVEEEGKQYERSVVKMLGKELKTFAEVTEL 222
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERL 451
+ EE E EE +RK + E + E L+++ R
Sbjct: 223 TATAEGDPVEEVEAT-----HEESKRKSEVEEEANEKSLGPEARSLESDA-GRGSFSPAA 276
Query: 452 MEEL 455
M L
Sbjct: 277 MVRL 280
>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional.
Length = 449
Score = 31.3 bits (71), Expect = 1.3
Identities = 19/86 (22%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 359 IPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK 418
I I++S + ++E E ++ + +R+E E + +E++ ++ + + + +E
Sbjct: 368 IDIKDSAEYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLP 427
Query: 419 EQEENQKLLLKKQQEEDRLKAEEQAR 444
E E + L++ Q E EE+AR
Sbjct: 428 EDEFEDEDELEEAQPE----EEEEAR 449
>gnl|CDD|180700 PRK06800, fliH, flagellar assembly protein H; Validated.
Length = 228
Score = 31.0 bits (70), Expect = 1.3
Identities = 16/72 (22%), Positives = 40/72 (55%), Gaps = 4/72 (5%)
Query: 367 EEEEKEKQRMVQEEIKRKELER-KEELEKEQIRIKEEQENIKKKKEQEEKERKEQE---E 422
E EE+ ++ + ++K L + +L +EQ +++ E++ + +EQ ++ ++Q E
Sbjct: 31 EVEEEIQKDHEELLAQQKSLHKELNQLRQEQQKLERERQQLLADREQFQEHVQQQMKEIE 90
Query: 423 NQKLLLKKQQEE 434
+ +K+Q+E
Sbjct: 91 AARQQFQKEQQE 102
Score = 30.2 bits (68), Expect = 2.0
Identities = 16/81 (19%), Positives = 44/81 (54%)
Query: 385 ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQAR 444
E+E +EE++K+ + +Q+++ K+ Q +E+++ E ++ LL +++ ++
Sbjct: 29 EVEVEEEIQKDHEELLAQQKSLHKELNQLRQEQQKLERERQQLLADREQFQEHVQQQMKE 88
Query: 445 LLEQERLMEELRQQGTNEDTE 465
+ + ++ +Q+ E TE
Sbjct: 89 IEAARQQFQKEQQETAYEWTE 109
>gnl|CDD|233242 TIGR01035, hemA, glutamyl-tRNA reductase. This enzyme, together
with glutamate-1-semialdehyde-2,1-aminomutase
(TIGR00713), leads to the production of
delta-amino-levulinic acid from Glu-tRNA [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 417
Score = 31.2 bits (71), Expect = 1.3
Identities = 26/111 (23%), Positives = 47/111 (42%), Gaps = 11/111 (9%)
Query: 358 GIPIQNSNKEEEEKEKQRM-VQEEIKR-KELERKEELEK---------EQIRIKEEQENI 406
+ +N + EE EK V+EE K+ R E+E E +R KE ++ +
Sbjct: 302 PVVEENLAERREEAEKAEEIVEEETAEFKQWLRSLEVEPTIKALRSLAEIVREKELEKAL 361
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
KK + + E+ + L+ K ++ ++ A E E +E L+
Sbjct: 362 KKLPGLSKDVEEVLEDLARKLINKLLHAPTVRLKQLADKEESEVCLEALKN 412
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 31.4 bits (71), Expect = 1.3
Identities = 28/98 (28%), Positives = 53/98 (54%), Gaps = 19/98 (19%)
Query: 375 RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE 434
RM Q + K +EL+R L++ I++K EQ+ + K+ ++ K+R + + L K+++
Sbjct: 402 RM-QIDSKPEELDR---LDRRIIQLKLEQQALMKESDEASKKRLDMLNEE--LSDKERQY 455
Query: 435 DRLKAE---EQARL---------LEQERL-MEELRQQG 459
L+ E E+A L LEQ ++ +E+ R+ G
Sbjct: 456 SELEEEWKAEKASLSGTQTIKAELEQAKIAIEQARRVG 493
>gnl|CDD|181435 PRK08457, motB, flagellar motor protein MotB; Reviewed.
Length = 257
Score = 30.8 bits (70), Expect = 1.4
Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 11/71 (15%)
Query: 387 ERKEELEKEQIRI---------KEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
+ E L+ E I+I K+ + I E+E E + + +Q+ +R
Sbjct: 43 AKVEALKTEFIKIFDYTAKPEVKQPVKVIPPDSGDAEEEMDELKSLKASQNTQQETIERR 102
Query: 438 KAEEQARLLEQ 448
K E A L+Q
Sbjct: 103 KGEGGA--LDQ 111
>gnl|CDD|234000 TIGR02760, TraI_TIGR, conjugative transfer relaxase protein TraI.
This protein is a component of the relaxosome complex. In
the process of conjugative plasmid transfer the
realaxosome binds to the plasmid at the oriT (origin of
transfer) site. The relaxase protein TraI mediates the
single-strand nicking and ATP-dependent unwinding
(relaxation, helicase activity) of the plasmid molecule.
These two activities reside in separate domains of the
protein.
Length = 1960
Score = 31.4 bits (71), Expect = 1.4
Identities = 33/155 (21%), Positives = 59/155 (38%), Gaps = 8/155 (5%)
Query: 245 ANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLE 304
AN + K N+ + P + + EE++ + EK K K D
Sbjct: 1794 ANPKATVVIAVGGKNNLSPIIPKFIPKNVVIVLDNDGEEAKSQRAIEKIINKFKQ--DNI 1851
Query: 305 QAQKLEERRLSELKIKEEEIEKKLN---GHSDVPLSPSTETPPVPVKSILKQPTSDGIPI 361
A+ + ++ I EEE++K+L + + S+LK P SD I I
Sbjct: 1852 SARIVFPDDWND--IGEEELQKQLMRAISSIEDKDIEIPKAIADFE-SVLKMPNSDIISI 1908
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
++ + E EK + + + + +L KE
Sbjct: 1909 IDNARTEREKSDLEQIVANEHKSQQALERDLNKEF 1943
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 31.2 bits (70), Expect = 1.4
Identities = 34/168 (20%), Positives = 64/168 (38%), Gaps = 16/168 (9%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
L+ KF A SRK+ E + D+ +K K EI +
Sbjct: 37 RLQNKFLLAAG-----SRKKIESALAVDEEPDENGAVSKKKPTRSVKRATKKTVVEISEP 91
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELE 387
L S++ K K P ++ + EE++ ++ V+ KR++++
Sbjct: 92 LEEGSEL----VVNEDAALDKESKKTPRRTRRKAAAASSDVEEEKTEKKVR---KRRKVK 144
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEED 435
+ +E ++Q + + +E E E E ++L L+K ED
Sbjct: 145 KMDEDVEDQ----GSESEVSDVEESEFVTSLENESEEELDLEKDDGED 188
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 31.1 bits (71), Expect = 1.4
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 22/114 (19%)
Query: 358 GIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI----------- 406
I I S+ EE E +RMV+E E ++K KE+I + +++
Sbjct: 489 SITITASSGLSEE-EIERMVKEAEANAEEDKKR---KEEIEARNNADSLAYQAEKTLKEA 544
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGT 460
K EEKE+ E+ + LK+ + + ++ + E L + L++
Sbjct: 545 GDKLPAEEKEKIEKAVAE---LKEALKGEDVEEIKAK----TEELQQALQKLAE 591
>gnl|CDD|212927 cd11994, SH3_Intersectin2_4, Fourth Src homology 3 domain (or SH3D)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The fourth SH3 domain (or
SH3D) of ITSN2 is expected to bind protein partners,
similar to ITSN1 which has been shown to bind SHIP2,
Numb, CdGAP, and N-WASP. 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 = 28.4 bits (63), Expect = 1.4
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 478 YQASADDEISFDPDDIITNIEMIDEGWWRGYCHG-----QYGLFPANYVSL 523
Y AS +++S P +I ++ GWW G Q G FPA++V L
Sbjct: 8 YVASGVEQLSLSPGQLILILKKNSSGWWLGELQARGKKRQKGWFPASHVKL 58
>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 = 28.4 bits (64), Expect = 1.5
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 474 ALYDYQASADD-----EISFDPDDIITNIEMIDEGWW 505
AL+DY S D +SF DI+ D+ WW
Sbjct: 4 ALFDYDPSRDSGLPSQGLSFKFGDILHVTNASDDEWW 40
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 31.0 bits (71), Expect = 1.5
Identities = 26/102 (25%), Positives = 40/102 (39%), Gaps = 16/102 (15%)
Query: 306 AQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTE------------TPPVPVKSILKQ 353
+ +L L + EE+E L SD + + P V K+
Sbjct: 1 MKPSLLEKLESLLERYEELEALL---SDPEVISDPDEYRKLSKEYAELEPIVEKYREYKK 57
Query: 354 PTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE 395
D + EE++ E + M +EEIK E + EELE+E
Sbjct: 58 AQEDLEDAKEMLAEEKDPEMREMAEEEIKELE-AKIEELEEE 98
>gnl|CDD|132150 TIGR03106, trio_M42_hydro, hydrolase, peptidase M42 family. This
model describes a subfamily of MEROPS peptidase family
M42, a glutamyl aminopeptidase family that also includes
the cellulase CelM from Clostridium thermocellum and
deblocking aminopeptidases that can remove acylated
amino acids. Members of this family occur in a three
gene cassette with an amidotransferase (TIGR03104)in the
asparagine synthase (glutamine-hydrolyzing) family, and
a probable acetyltransferase (TIGR03103) in the GNAT
family.
Length = 343
Score = 30.9 bits (70), Expect = 1.5
Identities = 16/37 (43%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 194 KGFGGKFGIESDRQDKSAVGWDHVE-KVDKHQSQKDD 229
K G F E D Q GWDHVE +VD S + D
Sbjct: 118 KASGHAFNEEIDSQ---PTGWDHVEVRVDARASCRAD 151
>gnl|CDD|239451 cd03335, TCP1_alpha, TCP-1 (CTT or eukaryotic type II) chaperonin
family, alpha subunit. Chaperonins are involved in
productive folding of proteins. They share a common
general morphology, a double toroid of 2 stacked rings.
In contrast to bacterial group I chaperonins (GroEL),
each ring of the eukaryotic cytosolic chaperonin (CTT)
consists of eight different, but homologous subunits.
Their common function is to sequester nonnative proteins
inside their central cavity and promote folding by using
energy derived from ATP hydrolysis. The best studied in
vivo substrates of CTT are actin and tubulin.
Length = 527
Score = 31.1 bits (71), Expect = 1.5
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 292 KEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
K K KL Q+ + +KLE+ R E I +E I+K L ++V L+
Sbjct: 235 KTKMKLGVQVVVTDPEKLEKIRQRESDITKERIKKILAAGANVVLT 280
>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 = 28.0 bits (63), Expect = 1.5
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 474 ALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCH---GQYGLFPANY 520
ALYDY+A E+SF D I D+G W + G+ GL P +Y
Sbjct: 4 ALYDYRAQTPGELSFSKGDFFHVIGEEDQGEWYEATNPVTGKRGLVPKSY 53
>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 193
Score = 30.4 bits (69), Expect = 1.6
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKE-ELEKEQIRIKEEQENIKKKKEQEEKERK 418
+ + EE E+ +EE +E +E ELE+EQ I E + +++ K++ + +
Sbjct: 5 EQKTEEPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRAQA 64
Query: 419 EQEENQKLLLKKQQE 433
E E +K ++++E
Sbjct: 65 EFENLRKRTEREREE 79
Score = 30.0 bits (68), Expect = 2.3
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 352 KQPTSDGIPIQNSNKEEEEKEKQRMVQEE-IKRKELERKEELEKE-------QIRIKEEQ 403
K D + + K EEE+ ++ +EE +E + ELE + +R + E
Sbjct: 7 KTEEPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRAQAEF 66
Query: 404 ENIKKKKEQEEKE 416
EN++K+ E+E +E
Sbjct: 67 ENLRKRTEREREE 79
>gnl|CDD|213000 cd12067, SH3_MYO15A, Src Homology 3 domain of Myosin XVa. Myosin
XVa is an unconventional myosin that is critical for the
normal growth of mechanosensory stereocilia of inner ear
hair cells. Mutations in the myosin XVa gene are
associated with nonsyndromic hearing loss. Myosin XVa
contains a unique N-terminal extension followed by a
motor domain, light chain-binding IQ motifs, and a tail
consisting of a pair of MyTH4-FERM tandems separated by
a SH3 domain, and a PDZ domain. SH3 domains bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs; they play a
role in the regulation of enzymes by intramolecular
interactions, changing the subcellular localization of
signal pathway components and mediate multiprotein
complex assemblies.
Length = 80
Score = 28.6 bits (64), Expect = 1.6
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 501 DEGWWRGYCHGQYGLFPANYV 521
D GW G HG+ G+FPA V
Sbjct: 58 DFGWKFGAIHGRSGVFPAELV 78
>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein. Members of this
protein family belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria). Proteins in this
family average over 1400 amino acids in length
[Hypothetical proteins, Conserved].
Length = 1353
Score = 31.3 bits (71), Expect = 1.6
Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 12/115 (10%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
++E E ++ + + + + LER+ + + ++ + + +E E + E
Sbjct: 285 LGRARDELETAREEERELDARTEALEREADALRTRLEALQGSPAYQDAEELERARA-DAE 343
Query: 422 ENQKLL---------LKKQQEEDRLKA-EEQARLLEQERLMEELRQQGTNEDTEE 466
Q + + EE+R + EE RL + ER + R+Q E
Sbjct: 344 ALQAAAADARQAIREAESRLEEERRRLDEEAGRLDDAERELRAAREQ-LARAAER 397
>gnl|CDD|200340 TIGR03927, T7SS_EssA_Firm, type VII secretion protein EssA.
Members of this family are associated with type VII
secretion of WXG100 family targets in the Firmicutes,
but not in the Actinobacteria. This highly divergent
protein family consists largely of a central region of
highly polar low-complexity sequence containing
occasional LF motifs in weak repeats about 17 residues
in length, flanked by hydrophobic N- and C-terminal
regions [Protein fate, Protein and peptide secretion and
trafficking].
Length = 150
Score = 30.0 bits (68), Expect = 1.7
Identities = 15/68 (22%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 380 EIKRKELERKEELEKEQ------IRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
++K++E + +E+ + EEQ+ I +K +E+ E++E + +L + E
Sbjct: 30 RYEKKDIEINTDYLQEETELDKELFTPEEQKKITFQKHKEKPEQEELK--NQLFSENATE 87
Query: 434 EDRLKAEE 441
+ +KA +
Sbjct: 88 NNTVKATK 95
>gnl|CDD|130706 TIGR01645, half-pint, poly-U binding splicing factor, half-pint
family. The proteins represented by this model contain
three RNA recognition motifs (rrm: pfam00076) and have
been characterized as poly-pyrimidine tract binding
proteins associated with RNA splicing factors. In the
case of PUF60 (GP|6176532), in complex with p54, and in
the presence of U2AF, facilitates association of U2
snRNP with pre-mRNA.
Length = 612
Score = 31.2 bits (70), Expect = 1.7
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 404 ENIKKKKEQEEKE-RKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEE-------L 455
E KKKKE+E +E + + N + QE ++ AR L ++LM L
Sbjct: 461 EPKKKKKEKEGEELQPKLVMNSEDASLASQEGMSIRGNS-ARHLVMQKLMRTNRSNVIVL 519
Query: 456 RQQGTNEDTEEDL 468
R T +D +E L
Sbjct: 520 RNMVTPQDIDEFL 532
>gnl|CDD|192910 pfam12001, DUF3496, Domain of unknown function (DUF3496). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 110
amino acids in length.
Length = 111
Score = 29.4 bits (66), Expect = 1.8
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 5/80 (6%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
E E K + QE+ ELE+ ++L E+++I++ N K + + E + KLL
Sbjct: 13 ESELSKMKTSQEDFNTTELEKYKQLYLEELKIRKSLSNKLTKTNE-----RLAEVSTKLL 67
Query: 428 LKKQQEEDRLKAEEQARLLE 447
L+K+Q L E +LE
Sbjct: 68 LEKEQSRSLLSTLETRPVLE 87
>gnl|CDD|212699 cd11765, SH3_Nck_1, First Src Homology 3 domain of Nck adaptor
proteins. Nck adaptor proteins regulate actin
cytoskeleton dynamics by linking proline-rich effector
molecules to protein tyrosine kinases and phosphorylated
signaling intermediates. They contain three SH3 domains
and a C-terminal SH2 domain. They function downstream of
the PDGFbeta receptor and are involved in Rho GTPase
signaling and actin dynamics. Vertebrates contain two
Nck adaptor proteins: Nck1 (also called Nckalpha) and
Nck2 (also called Nckbeta or Growth factor
receptor-bound protein 4, Grb4), which show partly
overlapping functions but also bind distinct targets.
Their SH3 domains are involved in recruiting downstream
effector molecules, such as the N-WASP/Arp2/3 complex,
which when activated induces actin polymerization that
results in the production of pedestals, or protrusions
of the plasma membrane. The first SH3 domain of Nck
proteins preferentially binds the PxxDY sequence, which
is present in the CD3e cytoplasmic tail. This binding
inhibits phosphorylation by Src kinases, resulting in
the downregulation of TCR surface expression. SH3
domains are protein interaction domains that usually
bind to proline-rich ligands with moderate affinity and
selectivity, preferentially a PxxP motif. 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 = 27.8 bits (62), Expect = 1.8
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 472 AVALYDYQASADDEISFDPDDIITNIEMIDEG--WWR-GYCHGQYGLFPANYV 521
VA YDY A D E+S ++ +T ++D+ WW+ Q G P+NYV
Sbjct: 2 VVAKYDYTAQGDQELSIKKNEKLT---LLDDSKHWWKVQNSSNQTGYVPSNYV 51
>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal
region. This family includes the N-terminal regions of
the junctin, junctate and aspartyl beta-hydroxylase
proteins. Junctate is an integral ER/SR membrane calcium
binding protein, which comes from an alternatively
spliced form of the same gene that generates aspartyl
beta-hydroxylase and junctin. Aspartyl beta-hydroxylase
catalyzes the post-translational hydroxylation of
aspartic acid or asparagine residues contained within
epidermal growth factor (EGF) domains of proteins.
Length = 240
Score = 30.7 bits (69), Expect = 1.8
Identities = 15/107 (14%), Positives = 49/107 (45%), Gaps = 2/107 (1%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
KE+ + +++V + + ++ +L++++ + E+ + +++ E + E+ E+
Sbjct: 106 KEQLQSLLEKIVVSKQEEDGPGKEPQLDEDKFLLAEDSD--DRQETLEAGKVHEETEDSY 163
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTA 472
+ + E+ + +E+A E E E + + + +D+
Sbjct: 164 HVEETASEQYKQDMKEKASEQENEDSKEPVEKAERTKAETDDVTEED 210
>gnl|CDD|223618 COG0544, Tig, FKBP-type peptidyl-prolyl cis-trans isomerase
(trigger factor) [Posttranslational modification,
protein turnover, chaperones].
Length = 441
Score = 30.7 bits (70), Expect = 1.8
Identities = 24/97 (24%), Positives = 49/97 (50%), Gaps = 4/97 (4%)
Query: 374 QRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQE 433
+ +V+ EI + ++L+++ I E +++ +E KE E+ LLL++ +
Sbjct: 303 ESLVEAEIDNLLKQALQQLQQQGIDSLEASGESEEELREEFKEEAEKRVKLGLLLEEIAK 362
Query: 434 EDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDLGY 470
E++L+ E+ E + +EEL +Q E EE +
Sbjct: 363 EEKLEVTEE----EIKAEIEELARQYGGEQPEEVIKL 395
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 30.0 bits (68), Expect = 1.8
Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 10/84 (11%)
Query: 371 KEKQRMVQEEIK-----RKEL-----ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
E+Q + +++ ++E E ++ELE+ + + E E KK+ EQ +E K +
Sbjct: 36 DERQAKIADDLAEAERLKEEAQALLAEYEQELEEAREQASEIIEQAKKEAEQIAEEIKAE 95
Query: 421 EENQKLLLKKQQEEDRLKAEEQAR 444
E + +K+ E + +E+A
Sbjct: 96 AEEELERIKEAAEAEIEAEKERAL 119
Score = 27.6 bits (62), Expect = 9.7
Identities = 19/91 (20%), Positives = 45/91 (49%), Gaps = 1/91 (1%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+EE + ++E++ + E +E+ + ++ E IK + E+E + KE E +
Sbjct: 52 LKEEAQALLAEYEQELEEAREQASEIIEQAKKEAEQIAEEIKAEAEEELERIKEAAEAEI 111
Query: 426 LLLKKQQEED-RLKAEEQARLLEQERLMEEL 455
K++ E+ R + E A + ++ L +++
Sbjct: 112 EAEKERALEELRAEVAELAVAIAEKLLGKKV 142
>gnl|CDD|178867 PRK00106, PRK00106, hypothetical protein; Provisional.
Length = 535
Score = 31.0 bits (70), Expect = 1.9
Identities = 29/116 (25%), Positives = 63/116 (54%), Gaps = 10/116 (8%)
Query: 363 NSNKEE---EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQ---EEK- 415
+ K+E E KE+ R +EEI+++ ++EL++ + R+ E ++ +K E +EK
Sbjct: 67 KALKKELLLEAKEEARKYREEIEQEFKSERQELKQIESRLTERATSLDRKDENLSSKEKT 126
Query: 416 -ERKEQE--ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
E KEQ + K + +++++ ++L+ +++A L L + ++ +TE L
Sbjct: 127 LESKEQSLTDKSKHIDEREEQVEKLEEQKKAELERVAALSQAEAREIILAETENKL 182
>gnl|CDD|173965 cd08045, TAF4, TATA Binding Protein (TBP) Associated Factor 4
(TAF4) is one of several TAFs that bind TBP and is
involved in forming Transcription Factor IID (TFIID)
complex. The TATA Binding Protein (TBP) Associated
Factor 4 (TAF4) is one of several TAFs that bind TBP and
are involved in forming the Transcription Factor IID
(TFIID) complex. TFIID is one of seven General
Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE,
TFIIF, and TFIID) that are involved in accurate
initiation of transcription by RNA polymerase II in
eukaryote. TFIID plays an important role in the
recognition of promoter DNA and assembly of the
pre-initiation complex. TFIID complex is composed of the
TBP and at least 13 TAFs. TAFs from various species were
originally named by their predicted molecular weight or
their electrophoretic mobility in polyacrylamide gels. A
new, unified nomenclature for the pol II TAFs has been
suggested to show the relationship between TAF orthologs
and paralogs. Several hypotheses are proposed for TAFs
functions such as serving as activator-binding sites,
core-promoter recognition or a role in essential
catalytic activity. Each TAF, with the help of a
specific activator, is required only for the expression
of subset of genes and is not universally involved for
transcription as are GTFs. In yeast and human cells,
TAFs have been found as components of other complexes
besides TFIID. Several TAFs interact via histone-fold
(HFD) motifs; HFD is the interaction motif involved in
heterodimerization of the core histones and their
assembly into nucleosome octamers. The minimal HFD
contains three alpha-helices linked by two loops and is
found in core histones, TAFS and many other
transcription factors. TFIID has a histone octamer-like
substructure. TAF4 domain interacts with TAF12 and makes
a novel histone-like heterodimer that binds DNA and has
a core promoter function of a subset of genes.
Length = 212
Score = 30.4 bits (69), Expect = 1.9
Identities = 14/53 (26%), Positives = 35/53 (66%), Gaps = 1/53 (1%)
Query: 409 KKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTN 461
+ E+EE+E++++EE ++LL + ++ + +++A+ + Q+ EE+R + N
Sbjct: 121 QLEREEEEKRDEEERERLLRAAKSRSEQSRLKQKAKEM-QKEEDEEMRHRAAN 172
Score = 29.2 bits (66), Expect = 4.5
Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKK------EQEEKERKEQE 421
+ EKE +R RK+L E+LE+E+ ++E+E + + EQ ++K +E
Sbjct: 98 DSEKEDERYEITSDVRKQLRFLEQLEREEEEKRDEEERERLLRAAKSRSEQSRLKQKAKE 157
Query: 422 ENQKLLLKKQQ 432
++ + +
Sbjct: 158 MQKEEDEEMRH 168
Score = 29.2 bits (66), Expect = 4.6
Identities = 14/67 (20%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 356 SDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKE--QE 413
D S+ ++ + +++ +EE ++++ E +E L + E+ +K KE +E
Sbjct: 102 EDERYEITSDVRKQLRFLEQLEREEEEKRDEEERERLLRAAKSRSEQSRLKQKAKEMQKE 161
Query: 414 EKERKEQ 420
E E
Sbjct: 162 EDEEMRH 168
>gnl|CDD|220818 pfam10595, UPF0564, Uncharacterized protein family UPF0564. This
family of proteins has no known function. However, one
of the members is annotated as an EF-hand family
protein.
Length = 349
Score = 30.5 bits (69), Expect = 2.0
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEK---------ERKEQEENQKLLL 428
+ +K ERKE+ KEQ KE ++ KKKKE K ++ +E +K L
Sbjct: 272 ESLVKFLRTERKEKEAKEQQEKKELEQRKKKKKEMAPKVKQRFEANDPAQKLQEERKEQL 331
Query: 429 KKQQEEDRLKAEEQARLL 446
K ++E++ + +E + L
Sbjct: 332 AKLRKEEKEREKEYEQEL 349
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 30.1 bits (68), Expect = 2.0
Identities = 29/102 (28%), Positives = 52/102 (50%), Gaps = 8/102 (7%)
Query: 332 SDVPLSPSTETPPVPVKSILKQ---PTSDGIPI-----QNSNKEEEEKEKQRMVQEEIKR 383
+ PPVP LK PT G P S E EKE V++E +
Sbjct: 90 PAIYDKVVVPRPPVPQPKGLKMRFFPTGYGAPDGPPSELGSESETSEKETTAKVEKEAEV 149
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
+E E+KE+ +K++++ +++++ KK+K E K K++++ +K
Sbjct: 150 EEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKK 191
>gnl|CDD|212710 cd11776, SH3_PI3K_p85, Src Homology 3 domain of the p85 regulatory
subunit of Class IA Phosphatidylinositol 3-kinases.
Class I PI3Ks convert PtdIns(4,5)P2 to the critical
second messenger PtdIns(3,4,5)P3. They are heterodimers
and exist in multiple isoforms consisting of one
catalytic subunit (out of four isoforms) and one of
several regulatory subunits. Class IA PI3Ks associate
with the p85 regulatory subunit family, which contains
SH3, RhoGAP, and SH2 domains. The p85 subunits recruit
the PI3K p110 catalytic subunit to the membrane, where
p110 phosphorylates inositol lipids. Vertebrates harbor
two p85 isoforms, called alpha and beta. 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 = 72
Score = 28.2 bits (63), Expect = 2.0
Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 17/67 (25%)
Query: 474 ALYDYQASADDEISFDPDDIIT--NIEMI-------------DEGWWRGYCH--GQYGLF 516
ALYDY+ D++I D++ N E++ EGW G G+ G F
Sbjct: 5 ALYDYEKERDEDIILKTGDVLVVENPELLALGVPDGKETVPKPEGWLEGKNERTGERGDF 64
Query: 517 PANYVSL 523
P YV
Sbjct: 65 PGTYVEF 71
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 30.7 bits (70), Expect = 2.2
Identities = 20/97 (20%), Positives = 44/97 (45%), Gaps = 8/97 (8%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRK-ELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
S EE + V + L +L E R+++E E ++K+ ++ EK+
Sbjct: 782 LSPDPEEPPVEVTAVVGGAELFLPLAGLIDLAAELARLEKELEKLEKEIDRIEKKL---- 837
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
N+ + K +E + +E+ +L E + + +L ++
Sbjct: 838 SNEGFVAKAPEE---VVEKEKEKLAEYQVKLAKLEER 871
Score = 30.3 bits (69), Expect = 3.0
Identities = 43/175 (24%), Positives = 72/175 (41%), Gaps = 36/175 (20%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKK 327
NLRA+ NL+ + EE E R ++ D++ LEE +
Sbjct: 736 NLRAEM-NLSPSAPLKVVLVGSEELEDRLEANEDDIKGLANLEELEI------------- 781
Query: 328 LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIP--IQNSNKEEEEKEKQRMVQEEIKRKE 385
LSP E PPV V ++ G + + + E R+ KE
Sbjct: 782 --------LSPDPEEPPVEVTAV-----VGGAELFLPLAGLIDLAAELARL------EKE 822
Query: 386 LER-KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKA 439
LE+ ++E+++ + ++ E K +E EKE+++ E Q L K ++ LKA
Sbjct: 823 LEKLEKEIDRIEKKLSNEGFVAKAPEEVVEKEKEKLAEYQVKLAKLEERLAVLKA 877
>gnl|CDD|215212 PLN02372, PLN02372, violaxanthin de-epoxidase.
Length = 455
Score = 30.6 bits (69), Expect = 2.3
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 8/86 (9%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEE--KERKEQEEN 423
K+ EE EK I ++ + +EELEKE ++ +E+E++ K+ EE KE ++ EEN
Sbjct: 368 KDVEEGEKT------IVKEARQIEEELEKEVEKLGKEEESLFKRVALEEGLKELEQDEEN 421
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQE 449
L K+++E K + +A +E+
Sbjct: 422 FLKELSKEEKELLEKLKMEASEVEKL 447
>gnl|CDD|227038 COG4694, COG4694, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 758
Score = 30.7 bits (69), Expect = 2.3
Identities = 28/103 (27%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 347 VKSIL--KQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQE 404
VK IL + T+D + S KE K+ ++ ++ E + ++EE E++ I +
Sbjct: 103 VKGILTLGKKTNDDLEKIESKKESINKKNEKKIKNEASLQVKTQREEKEEKDF-IADCWR 161
Query: 405 NIKKKKEQEEKERKEQEENQKL--LLKKQQEEDRLKAEEQARL 445
N+ KK E+ KE E + +K + K+ E ++ A E L
Sbjct: 162 NLYKKNEERFKEYLENFKRKKFKRKILKEFENAKINASEIVGL 204
>gnl|CDD|235850 PRK06669, fliH, flagellar assembly protein H; Validated.
Length = 281
Score = 30.4 bits (69), Expect = 2.3
Identities = 23/120 (19%), Positives = 47/120 (39%), Gaps = 8/120 (6%)
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
K + + + E+ +E +E I+ E + E +E + KEE
Sbjct: 27 FKVLSIKEKERLREEEEEQVEQLREEANDEAKEIIEEAEEDAFEIVEAAEEEAKEELLKK 86
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
+ ++ + Q E + +++ EE+ + E+A+ EE ++G E EE
Sbjct: 87 TDEASSIIEKLQMQIERE----QEEWEEELERLIEEAK----AEGYEEGYEKGREEGLEE 138
Score = 29.6 bits (67), Expect = 3.6
Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 7/97 (7%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQE-NIKKKKEQEEKERKEQ 420
+ + EE E+ E +EE ++E ++ +E I+K + Q E+E++E
Sbjct: 55 DEAKEIIEEAEEDAFEIVE------AAEEEAKEELLKKTDEASSIIEKLQMQIEREQEEW 108
Query: 421 EENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
EE + L+++ + E + E+ R E + E + Q
Sbjct: 109 EEELERLIEEAKAEGYEEGYEKGREEGLEEVRELIEQ 145
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 30.7 bits (70), Expect = 2.3
Identities = 19/96 (19%), Positives = 45/96 (46%), Gaps = 4/96 (4%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE--QENIKKKKEQEEKERKEQEENQ 424
E+ +++ Q ++ ELE++ ++ R+ E + K +++E E+ ++E
Sbjct: 506 REQRHLAEQLQQLRMRLSELEQRLRQQQRAERLLAEFCKRLGKNLDDEDELEQLQEELEA 565
Query: 425 KLL-LKKQQEEDRLKAEEQARLLEQ-ERLMEELRQQ 458
+L L + E R + + LEQ + ++ L +
Sbjct: 566 RLESLSESVSEARERRMALRQQLEQLQARIQRLAAR 601
Score = 29.2 bits (66), Expect = 6.5
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 368 EEEKEKQRMVQEEIK---RKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
+E+ R ++E+ R+ +LEK+ + E +N+ KK + E++ E E
Sbjct: 1052 SGAEERARARRDELHARLSANRSRRNQLEKQLTFCEAEMDNLTKKLRKLERDYHEMRE 1109
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 30.0 bits (68), Expect = 2.4
Identities = 11/45 (24%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 390 EELEKEQIRIKEEQENIKK-KKEQEEKERKEQEENQKLLLKKQQE 433
E++++ Q +KE Q+ ++ ++ + K+ K+ +E Q ++ Q+E
Sbjct: 72 EKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMDDQRE 116
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 30.7 bits (69), Expect = 2.4
Identities = 39/197 (19%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 262 GHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE---ERRLSELK 318
G + + + E A+ TE+E + EE E+ + + + + E ++E +R+ +E +
Sbjct: 708 GETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHE 767
Query: 319 IKEE----------EIEKKLNGH--SDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNK 366
+ E EI+ +G D E + + +
Sbjct: 768 GETEAEGKEDEDEGEIQAGEDGEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTE 827
Query: 367 EEEEKEKQRMV---QEEIKRKE--LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
++E +Q + Q E K+ E ++ + +EE+E ++++E+EE+E +E+E
Sbjct: 828 VKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEE 887
Query: 422 ENQKLLLKKQQEEDRLK 438
E + L + E R K
Sbjct: 888 EENEEPLSLEWPETRQK 904
>gnl|CDD|238252 cd00446, GrpE, GrpE is the adenine nucleotide exchange factor of
DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the
ATPase domain of Hsp70 catalyzing the dissociation of
ADP, which enables rebinding of ATP, one step in the
Hsp70 reaction cycle in protein folding. In eukaryotes,
only the mitochondrial Hsp70, not the cytosolic form, is
GrpE dependent.
Length = 137
Score = 29.4 bits (67), Expect = 2.4
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL 427
EEL+ + +R E EN +K+ E+E +E ++ +K
Sbjct: 1 LEELKDKLLRALAEFENYRKRTEREREEARKY-AIEKFA 38
>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer
membranes [Cell envelope biogenesis, outer membrane].
Length = 244
Score = 30.1 bits (68), Expect = 2.4
Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 12/92 (13%)
Query: 334 VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELE 393
V +P+ E P P + E E + + ++ + E+K +
Sbjct: 48 VLEAPTEEPQPEPEPPEEQPKP----------PTEPETPPEPTPPKPKEKPKPEKKPKKP 97
Query: 394 KEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
K + K + + K K Q + ++ + K
Sbjct: 98 KPK--PKPKPKPKPKVKPQPKPKKPPSKTAAK 127
>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding. This family
is found in mammals where it is localised at cell-cell
adherens junctions, and in Sch. pombe and other fungi
where it anchors spindle-pole bodies to spindle
microtubules. It is a coiled-coil structure, and in
pombe, it is required for anchoring the minus end of
spindle microtubules to the centrosome equivalent, the
spindle-pole body. The name ADIP derives from the family
being composed of Afadin- and alpha -Actinin-Binding
Proteins Localised at Cell-Cell Adherens Junctions.
Length = 149
Score = 29.6 bits (67), Expect = 2.5
Identities = 28/92 (30%), Positives = 47/92 (51%), Gaps = 9/92 (9%)
Query: 370 EKEKQRMVQE----EIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK 425
E E +R+ + + ++LER+ L + + E++ KK K E+K + E+EE Q+
Sbjct: 63 EAEIERLQNTIERLKTQLEDLERELALLQAK-----ERQLEKKLKTLEQKLKNEKEEVQR 117
Query: 426 LLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
L QQ + + E + R E E+L E L Q
Sbjct: 118 LKNIIQQRKTQYNHELKKRDREIEKLKERLLQ 149
>gnl|CDD|212797 cd11863, SH3_CACNB, Src Homology 3 domain of Voltage-dependent
L-type calcium channel subunit beta. Voltage-dependent
calcium channels (Ca(V)s) are multi-protein complexes
that regulate the entry of calcium into cells. They
impact muscle contraction, neuronal migration, hormone
and neurotransmitter release, and the activation of
calcium-dependent signaling pathways. They are composed
of four subunits: alpha1, alpha2delta, beta, and gamma.
The beta subunit is a soluble and intracellular protein
that interacts with the transmembrane alpha1 subunit. It
facilitates the trafficking and proper localization of
the alpha1 subunit to the cellular plasma membrane.
Vertebrates contain four different beta subunits from
distinct genes (beta1-4); each exists as multiple splice
variants. All are expressed in the brain while other
tissues show more specific expression patterns. The beta
subunits show similarity to MAGUK (membrane-associated
guanylate kinase) proteins in that they contain SH3 and
inactive guanylate kinase (GuK) domains; however, they
do not appear to contain a PDZ 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 = 62
Score = 27.6 bits (62), Expect = 2.5
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 7/45 (15%)
Query: 470 YTAVALYDYQASADD-------EISFDPDDIITNIEMIDEGWWRG 507
+ Y S DD +SF+ D + E + WW G
Sbjct: 1 FAVRTNVGYDGSLDDDSPVPGYAVSFEAKDFLHIKEKYNNDWWIG 45
>gnl|CDD|235551 PRK05667, dnaG, DNA primase; Validated.
Length = 580
Score = 30.6 bits (70), Expect = 2.5
Identities = 15/84 (17%), Positives = 38/84 (45%), Gaps = 4/84 (4%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+ +E +++ +E+ ++ KE ++ ++K ++Q +ER E+ ++
Sbjct: 500 DAGLEELAALLESLAVWEEISEEDIAA----LEKELKDALEKLRDQLLEERLEELIAKER 555
Query: 427 LLKKQQEEDRLKAEEQARLLEQER 450
LL+ + E L+E +R
Sbjct: 556 LLEGHGLSSEERLELLQLLIELKR 579
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 29.6 bits (67), Expect = 2.6
Identities = 18/82 (21%), Positives = 37/82 (45%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+ ++ E +++ ++ E L+KE RIK+ N + E+ + R+E
Sbjct: 82 LAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIELDEENRELREEL 141
Query: 421 EENQKLLLKKQQEEDRLKAEEQ 442
E ++ + E +RL+ EQ
Sbjct: 142 AELKQENEALEAENERLQENEQ 163
>gnl|CDD|212917 cd11984, SH3_Shank3, Src homology 3 domain of SH3 and multiple
ankyrin repeat domains protein 3. Shank3, also called
ProSAP2 (Proline-rich synapse-associated protein 2), is
widely expressed. It plays a role in the formation of
dendritic spines and synapses. Haploinsufficiency of the
Shank3 gene causes the 22q13 deletion/Phelan-McDermid
syndrome, and variants of Shank3 have been implicated in
autism spectrum disorder, schizophrenia, and
intellectual disability. Shank proteins carry
scaffolding functions through multiple sites of
protein-protein interaction in its domain architecture,
including ankyrin (ANK) repeats, a long proline rich
region, as well as SH3, PDZ, and SAM domains. The SH3
domain of Shank binds GRIP, a scaffold protein that
binds AMPA receptors and Eph receptors/ligands. 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 = 27.2 bits (60), Expect = 2.8
Identities = 14/51 (27%), Positives = 26/51 (50%)
Query: 471 TAVALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
T +A+ Y + EI + + + + + + G+W G G+ G FPA+ V
Sbjct: 2 TFIAVKAYSPQGEGEIQLNRGERVKVLSIGEGGFWEGTVKGRTGWFPADCV 52
>gnl|CDD|218806 pfam05911, DUF869, Plant protein of unknown function (DUF869).
This family consists of a number of sequences found in
Arabidopsis thaliana, Oryza sativa and Lycopersicon
esculentum (Tomato). The function of this family is
unknown.
Length = 767
Score = 30.3 bits (68), Expect = 2.9
Identities = 28/140 (20%), Positives = 65/140 (46%), Gaps = 2/140 (1%)
Query: 278 KQTEEESRKRSEEEKEKRKLKDQIDLEQAQ-KLEERRLSELKIKEEEIEKKLNGHSDVPL 336
++ E ++ + E K KD ++ + + + E++L ELK E + ++ N ++ L
Sbjct: 594 EELETLKSEKENLDGELSKCKDDLEESKNKLQETEKKLEELK-SELDASQESNSLAETQL 652
Query: 337 SPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQ 396
E+ + + E+E EK+R +E+ K E +E++E+ +
Sbjct: 653 KCMVESYESLELRAKDLEAEHKSLQEKISSLEDELEKERQNHQELIAKCRELEEKIERAE 712
Query: 397 IRIKEEQENIKKKKEQEEKE 416
++ + +++K ++EKE
Sbjct: 713 QEENMQKLDEEEQKIKQEKE 732
>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 = 27.5 bits (61), Expect = 2.9
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWW 505
AL+D++A D+E+SF D E + W
Sbjct: 3 KALWDFKARGDEELSFQAGDQFRIAERSGDWWT 35
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 29.6 bits (67), Expect = 2.9
Identities = 19/103 (18%), Positives = 50/103 (48%)
Query: 365 NKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ 424
+ E ++ ++R+ + E K ++ + EL I I+ +E I +++ + +E E+ +
Sbjct: 64 LESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLE 123
Query: 425 KLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
K + ++ +RL+ E + E+R++G ++ +
Sbjct: 124 KEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELSSKRE 166
Score = 28.9 bits (65), Expect = 6.0
Identities = 18/104 (17%), Positives = 47/104 (45%), Gaps = 11/104 (10%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE 422
N E E E + + + ++ + E E +E E+ + R +E+ +K ++E + Q
Sbjct: 44 NKALEALEIELEDL-ENQVSQLESEIQEIRERIK-RAEEKLSAVKDERELRALNIEIQIA 101
Query: 423 NQKL---------LLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+++ L+++ ++ ++ + + RL E+ + E
Sbjct: 102 KERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAEA 145
Score = 28.5 bits (64), Expect = 6.8
Identities = 34/181 (18%), Positives = 70/181 (38%), Gaps = 24/181 (13%)
Query: 272 KFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGH 331
+ L + + + E K +K K +++ + L L+I+ E++E +++
Sbjct: 11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALN------KALEALEIELEDLENQVSQL 64
Query: 332 SDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEE 391
++ I ++ + E E + +Q ER
Sbjct: 65 E------------SEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAK-----ERINS 107
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERL 451
LE E + EE E ++K+ E + KER E+ E + + EE+ + E+ + L +R
Sbjct: 108 LEDELAELMEEIEKLEKEIE-DLKERLERLEKNLAEAEARLEEEVAEIREEGQELSSKRE 166
Query: 452 M 452
Sbjct: 167 E 167
>gnl|CDD|212821 cd11888, SH3_ARHGAP9_like, Src Homology 3 domain of Rho
GTPase-activating protein 9 and similar proteins. This
subfamily is composed of Rho GTPase-activating proteins
including mammalian ARHGAP9, and vertebrate ARHGAPs 12
and 27. RhoGAPs (or ARHGAPs) bind to Rho proteins and
enhance the hydrolysis rates of bound GTP. ARHGAP9
functions as a GAP for Rac and Cdc42, but not for RhoA.
It negatively regulates cell migration and adhesion. It
also acts as a docking protein for the MAP kinases Erk2
and p38alpha, and may facilitate cross-talk between the
Rho GTPase and MAPK pathways to control actin
remodeling. ARHGAP27, also called CAMGAP1, shows GAP
activity towards Rac1 and Cdc42. It binds the adaptor
protein CIN85 and may play a role in clathrin-mediated
endocytosis. ARHGAP12 has been shown to display GAP
activity towards Rac1. It plays a role in regulating
HFG-driven cell growth and invasiveness. ARHGAPs in this
subfamily contain SH3, WW, Pleckstin homology (PH), and
RhoGAP domains. 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 = 27.3 bits (61), Expect = 3.1
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 4/54 (7%)
Query: 471 TAVALYD--YQASADDEISFDPDDIITNIEMIDEGWW--RGYCHGQYGLFPANY 520
V LY Y ++S + ++ ++ WW R + PA Y
Sbjct: 1 YVVVLYPFEYTGKDGRKVSIKEGERFLLLKKSNDDWWQVRRPGDSKPFYVPAQY 54
>gnl|CDD|176962 CHL00019, atpF, ATP synthase CF0 B subunit.
Length = 184
Score = 29.4 bits (67), Expect = 3.1
Identities = 25/101 (24%), Positives = 45/101 (44%), Gaps = 24/101 (23%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
I+NS EE+ ++ + + E R L + ++ E + N + E+E
Sbjct: 64 IRNS----EERREEAIEKLEKARARLR------QAELEADEIRVNGYSEIERE------- 106
Query: 421 EENQKLLLKKQQEED--RLKAEEQARL-LEQERLMEELRQQ 458
K L Q +ED RL+ + + EQ+R + ++RQQ
Sbjct: 107 ----KENLINQAKEDLERLENYKNETIRFEQQRAINQVRQQ 143
>gnl|CDD|222709 pfam14362, DUF4407, Domain of unknown function (DUF4407). This
family of proteins is found in bacteria. Proteins in
this family are typically between 366 and 597 amino
acids in length. There is a single completely conserved
residue R that may be functionally important.
Length = 297
Score = 29.9 bits (68), Expect = 3.2
Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 8/61 (13%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEE--------DRLK 438
E++E+L+ Q R++ + + Q E ++ E N++ + ++Q RL+
Sbjct: 186 EKREKLDAAQARLETLKARLDAAIAQLEAQKAALERNRQAAVAEKQARIEANDGLLARLE 245
Query: 439 A 439
A
Sbjct: 246 A 246
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 30.1 bits (68), Expect = 3.2
Identities = 12/63 (19%), Positives = 32/63 (50%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
+ NK++ K+K + ++++ + E + + Q ++ KKKK++++K++
Sbjct: 12 QQKQQNKQKGTKKKNKKSKKDVDDDDAFLAELISENQEAENKQNNKKKKKKKKKKKKKNL 71
Query: 420 QEE 422
E
Sbjct: 72 GEA 74
>gnl|CDD|236080 PRK07734, motB, flagellar motor protein MotB; Reviewed.
Length = 259
Score = 29.7 bits (67), Expect = 3.3
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQ--EEDRLKAEEQARLL 446
K E EKE E E KKK+E E K++KE EE + + K Q +E +L + Q +L
Sbjct: 73 KPEDEKELSASSLEAEQAKKKEEAEAKKKKEMEELKAVQKKIDQYIKEKQLSSSLQTKLT 132
Query: 447 EQ 448
E+
Sbjct: 133 EE 134
>gnl|CDD|234252 TIGR03545, TIGR03545, TIGR03545 family protein. This model
represents a relatively rare but broadly distributed
uncharacterized protein family, distributed in 1-2
percent of bacterial genomes, all of which have outer
membranes. In many of these genomes, it is part of a
two-gene pair.
Length = 555
Score = 30.1 bits (68), Expect = 3.3
Identities = 24/107 (22%), Positives = 49/107 (45%), Gaps = 15/107 (14%)
Query: 352 KQPTSDGIPIQNSNKEEEEKEKQRM--VQEEIKRKELERKEELEKEQIRIKEEQENIKKK 409
+ P S I+ E +K ++ + +K ++L+ E E+ + +K Q+ KK+
Sbjct: 124 ETPASAPSSIKEQKSSELKKVDSQLPDPRALLKGEDLKTVETAEEIEKSLKAMQQKWKKR 183
Query: 410 KEQEEKERKEQEENQKL-------------LLKKQQEEDRLKAEEQA 443
K+ ++ +E ++L L K ++E D+LK E +A
Sbjct: 184 KKDLPNKQDLEEYKKRLEAIKKKDIKNPLELQKIKEEFDKLKKEGKA 230
>gnl|CDD|227429 COG5098, COG5098, Chromosome condensation complex Condensin,
subunit D2 [Chromatin structure and dynamics / Cell
division and chromosome partitioning].
Length = 1128
Score = 30.3 bits (68), Expect = 3.3
Identities = 12/54 (22%), Positives = 21/54 (38%)
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
L ++ + E Q N K QE E+E Q + + E ++R+
Sbjct: 431 LWEKNLGSAENQLNSLKSGLQETLCDGEKEVEQDEGQCRTELEGSFNKSAESRI 484
>gnl|CDD|224234 COG1315, COG1315, Uncharacterized conserved protein [Function
unknown].
Length = 543
Score = 30.1 bits (68), Expect = 3.3
Identities = 20/87 (22%), Positives = 35/87 (40%), Gaps = 2/87 (2%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIK--KKKEQEEKERKEQEENQKLLLKKQQEE 434
+ EI + E EE+ + R+K+ + + K + E K+ + + LL +
Sbjct: 404 MDPEIVERLKELTEEISLHEERLKKLTKLLVALVKVKIESKKNILPPDKESLLTAVNNTK 463
Query: 435 DRLKAEEQARLLEQERLMEELRQQGTN 461
L+ + E E L EEL G
Sbjct: 464 ITLRNSIEKIKAELEGLQEELEVVGIE 490
>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein. This domain is found
in cell division proteins which are required for
kinetochore-spindle association.
Length = 312
Score = 30.0 bits (68), Expect = 3.3
Identities = 25/97 (25%), Positives = 44/97 (45%), Gaps = 12/97 (12%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELER-KEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+E + ++ E+ EL+R KE+L+K QE + K K+ EE E + Q
Sbjct: 182 DALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLL------QEIMIKVKKLEELEEELQ 235
Query: 421 EENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
E K+ ++ K+E + E E+ +E+ R
Sbjct: 236 ELESKI-----EDLTNKKSELNTEIAEAEKKLEQCRG 267
Score = 28.4 bits (64), Expect = 8.7
Identities = 13/60 (21%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 268 NLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLE-ERRLSELKIKEEEIEK 326
+ K + L ++ + +K E E+E ++L+ +I+ +K E ++E + K E+
Sbjct: 208 RAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRG 267
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 29.9 bits (68), Expect = 3.3
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 387 ERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
E KEEL K IKE+ KKK +E+K +K +++ ++ K++++ K
Sbjct: 363 ELKEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414
>gnl|CDD|218010 pfam04293, SpoVR, SpoVR like protein. Bacillus subtilis stage V
sporulation protein R is involved in spore cortex
formation. Little is known about cortex biosynthesis,
except that it depends on several sigma E controlled
genes, including spoVR.
Length = 427
Score = 29.9 bits (68), Expect = 3.4
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 15/81 (18%)
Query: 371 KEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERK----EQEENQKL 426
K ++ EE K ++ ER+E L+ + + ++K E+E RK E +E+
Sbjct: 170 KRPIKLSLEEEKARQEEREEYLQSQVNDLWRTIPPQREKLEEERARRKRFPEEPQEDILY 229
Query: 427 LLKKQQEEDRLKAEEQARLLE 447
L E+ A LLE
Sbjct: 230 FL-----------EKNAPLLE 239
>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 = 27.4 bits (61), Expect = 3.4
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 7/46 (15%)
Query: 474 ALYDYQASADDEI-------SFDPDDIITNIEMIDEGWWRGYCHGQ 512
A +DY D I SF DI+ I D WW+ Y G+
Sbjct: 4 AHFDYDPEDDPYIPCRELGLSFQKGDILHVISQEDPNWWQAYREGE 49
>gnl|CDD|237478 PRK13709, PRK13709, conjugal transfer nickase/helicase TraI;
Provisional.
Length = 1747
Score = 30.1 bits (68), Expect = 3.6
Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 11/149 (7%)
Query: 329 NGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEK-------QRMVQEEI 381
N S V + + E P +I IP + E QR +E I
Sbjct: 1594 NPDSGVVVRIAGEGRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAI 1653
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE----ENQKLLLKKQQEEDRL 437
+R+ R +E+ ++ K + + K ++ + +E++ ++ L + +
Sbjct: 1654 RRETERRADEIVRKMAENKPDLPDGKTEQAVRDIAGQERDRAAISEREAALPESVLREPQ 1713
Query: 438 KAEEQARLLEQERLMEELRQQGTNEDTEE 466
+ E R + +E L+ E QQ + +
Sbjct: 1714 REREAVREVARENLLRERLQQMERDMVRD 1742
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 29.3 bits (66), Expect = 3.6
Identities = 20/102 (19%), Positives = 47/102 (46%), Gaps = 12/102 (11%)
Query: 367 EEEEKEKQRMVQEEIKRKELER------------KEELEKEQIRIKEEQENIKKKKEQEE 414
E + KQ++ + + + ++LE KE+L+ + +K +E ++ +E +
Sbjct: 79 GELSELKQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIK 138
Query: 415 KERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+ KE E ++ L ++ +E Q L + ++EL+
Sbjct: 139 ELAKELRELRQDLREEVEELREELERLQENLQRLQEAIQELQ 180
Score = 29.0 bits (65), Expect = 4.4
Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLL-----LKKQQEEDR 436
+ R ++LE+ Q + E ++ + E +E+ +E +L LK+ + R
Sbjct: 64 APVQSVRPQKLEELQGELSELKQQLS---ELQEELEDLEERIAELESELEDLKEDLQLLR 120
Query: 437 -LKAEEQARLLEQERLMEELRQQ 458
L + RL E ++EL ++
Sbjct: 121 ELLKSLEERLESLEESIKELAKE 143
Score = 28.2 bits (63), Expect = 7.9
Identities = 19/109 (17%), Positives = 50/109 (45%), Gaps = 1/109 (0%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
P+Q+ ++ E+ + + + + + EL+ + E +E+I E + K+ Q +E +
Sbjct: 65 PVQSVRPQKLEELQGELSELKQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLK 124
Query: 420 QEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEEDL 468
E ++L ++ ++ K + R +E + E + ++ + L
Sbjct: 125 SLE-ERLESLEESIKELAKELRELRQDLREEVEELREELERLQENLQRL 172
>gnl|CDD|221049 pfam11262, Tho2, Transcription factor/nuclear export subunit
protein 2. THO and TREX form a eukaryotic complex which
functions in messenger ribonucleoprotein metabolism and
plays a role in preventing the transcription-associated
genetic instability. Tho2, along with four other
subunits forms THO.
Length = 296
Score = 29.6 bits (67), Expect = 3.7
Identities = 11/69 (15%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 393 EKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLM 452
+KE R++++ + + +K++KE++ + L+ +L+ E + + E+
Sbjct: 30 DKEIERLEKQIKELDSSSSGIDKKKKEKKRLKSLI-------KKLEEELKKHIEHNEKTK 82
Query: 453 EELRQQGTN 461
+ L ++ ++
Sbjct: 83 KRLSEEKSS 91
>gnl|CDD|224958 COG2047, COG2047, Uncharacterized protein (ATP-grasp superfamily)
[General function prediction only].
Length = 258
Score = 29.7 bits (67), Expect = 3.8
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 389 KEELEK--EQIRIKEEQENIKKKKEQEEK---ERKEQEENQKLLLKKQQEEDR 436
K LE + + I+ + E ++++ ++ E+ + KE EE Q+ K EED
Sbjct: 202 KAVLEVLCKMLGIEIDMEALEERAKEMEEIIEKLKEMEEMQEAQEPKPGEEDL 254
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 30.0 bits (67), Expect = 3.8
Identities = 29/162 (17%), Positives = 66/162 (40%), Gaps = 5/162 (3%)
Query: 287 RSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVP 346
R+ E + + D +E+ K +++ + K KE + +KK L + + P
Sbjct: 179 RNAETSKSPEKGDVPAVEKKSKKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALDDSPAS 238
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
S+ + + + + E ++ + + E +K + K++ ++ KE++E
Sbjct: 239 AASVAEADEASLANTVSGTAPDSEPDEPKDAEAEETKKSPKHKKKKQR-----KEKEEKK 293
Query: 407 KKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQ 448
KKKK + ++ + EE+ L +LL +
Sbjct: 294 KKKKHHHHRCHHSDGGAEQPVQNGAVEEEPLPPMSSYKLLAE 335
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 29.9 bits (68), Expect = 3.9
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 367 EEEEKEKQRMVQEEI-KRKEL-----ERKEELEKEQIRIKEEQENIKKK-KEQEEKERKE 419
+EE ++ R ++E +R EL + E + + E + +K+K KE E +
Sbjct: 35 DEERRKLLRELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAALDEL 94
Query: 420 QEENQKLLL 428
+ E LLL
Sbjct: 95 EAELDTLLL 103
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 28.9 bits (65), Expect = 3.9
Identities = 23/86 (26%), Positives = 54/86 (62%), Gaps = 3/86 (3%)
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
+R+E ER E ++++ K+E E+ + ++++EEK+RK++E+ K K+Q+++ + K ++
Sbjct: 45 RRREYERLELMDEK---WKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKKKKKK 101
Query: 442 QARLLEQERLMEELRQQGTNEDTEED 467
+A+ ++ E + + D EE+
Sbjct: 102 KAKKGNKKEEKEGSKSSEESSDEEEE 127
>gnl|CDD|217957 pfam04196, Bunya_RdRp, Bunyavirus RNA dependent RNA polymerase.
The bunyaviruses are enveloped viruses with a genome
consisting of 3 ssRNA segments (called L, M and S). The
nucleocapsid protein is encode on the small (S) genomic
RNA. The L segment codes for an RNA polymerase. This
family contains the RNA dependent RNA polymerase on the
L segment.
Length = 735
Score = 30.1 bits (68), Expect = 4.0
Identities = 36/201 (17%), Positives = 63/201 (31%), Gaps = 29/201 (14%)
Query: 258 KPNIGHVKPSNLRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEER----R 313
K H + + L L K+ E RK E+E + +D ++ + L
Sbjct: 165 KNKGLHGEVNVLAK----LLKKILEWERKFREKEPKYLGYEDPVNGDIKVHLLSESYLKD 220
Query: 314 LSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEK 373
L + +E + G ST K +L++ + SN + E
Sbjct: 221 LCRHALLRLRLEYQ-EGFCAPITELSTLESS---KLLLERIEKSAVLKALSNFSKHWYEP 276
Query: 374 Q----------RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
+ + + E+ + +E + + N K + KE E+
Sbjct: 277 KGSDLRNISELKEMSLEVGEDNYHLSKVIETIETIRFDNLYNFNKTLVLKLKEESEELIE 336
Query: 424 QK------LLLKKQQEE-DRL 437
L KKQQ DR
Sbjct: 337 MAKKCMHICLFKKQQTGGDRE 357
>gnl|CDD|212968 cd12035, SH3_MPP1-like, Src Homology 3 domain of Membrane Protein,
Palmitoylated 1 (or MAGUK p55 subfamily member 1)-like
proteins. This subfamily includes MPP1, CASK
(Calcium/calmodulin-dependent Serine protein Kinase),
Caenorhabditis elegans lin-2, and similar proteins. MPP1
and CASK are scaffolding proteins from 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). In
addition, they also have 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. CASK
and lin-2 also contain an N-terminal
calmodulin-dependent kinase (CaMK)-like domain and two
L27 domains. MPP1 is ubiquitously-expressed and plays
roles in regulating neutrophil polarity, cell shape,
hair cell development, and neural development and
patterning of the retina. CASK is highly expressed in
the mammalian nervous system and plays roles in synaptic
protein targeting, neural development, and gene
expression regulation. 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 = 27.0 bits (60), Expect = 4.0
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 474 ALYDYQASADDEI-------SFDPDDIITNIEMIDEGWWRG 507
A +DY S DD I +F DI+ I D WW+
Sbjct: 4 AQFDYDPSKDDLIPCQQAGIAFKTGDILQIISKDDHNWWQA 44
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 28.8 bits (65), Expect = 4.0
Identities = 19/87 (21%), Positives = 48/87 (55%), Gaps = 4/87 (4%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ + K+ E++ K+ + + K KEL+++E+ ++Q E+ K++E ++K+++ Q+
Sbjct: 34 KAAQKQLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKAKQQELQQKQQELQQ 93
Query: 422 ENQKLLLKKQQEEDRLKAEEQARLLEQ 448
+ Q QQE + + E + ++
Sbjct: 94 KQQAA----QQELQQKQQELLQPIYDK 116
>gnl|CDD|115072 pfam06391, MAT1, CDK-activating kinase assembly factor MAT1. MAT1
is an assembly/targeting factor for cyclin-dependent
kinase-activating kinase (CAK), which interacts with the
transcription factor TFIIH. The domain found to the
N-terminal side of this domain is a C3HC4 RING finger.
Length = 200
Score = 29.3 bits (66), Expect = 4.0
Identities = 27/102 (26%), Positives = 55/102 (53%), Gaps = 8/102 (7%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+ NK+ + K+R+ +E+ +ELE+ E EKE KEE+ +K+EQE+K KE++
Sbjct: 74 EKENKDSIMRNKRRLTREQ---EELEQALEEEKEM---KEEKRLHLQKEEQEQKMAKEKD 127
Query: 422 ENQKL--LLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTN 461
+ + + L + + A+ + + + E +E+L ++
Sbjct: 128 KQEIIDELETSNLPANVIIAQHKKQSKQLESQVEKLERKKRV 169
>gnl|CDD|191675 pfam07047, OPA3, Optic atrophy 3 protein (OPA3). This family
consists of several optic atrophy 3 (OPA3) proteins.
OPA3 deficiency causes type III 3-methylglutaconic
aciduria (MGA) in humans. This disease manifests with
early bilateral optic atrophy, spasticity,
extrapyramidal dysfunction, ataxia, and cognitive
deficits, but normal longevity.
Length = 134
Score = 28.4 bits (64), Expect = 4.1
Identities = 14/41 (34%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 372 EKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQ 412
E QR ++E +KE E ++ELE+ + R+ E + I+++K +
Sbjct: 95 EYQRQSRKE-AKKEEELQQELEELEARVGELELEIERQKAR 134
Score = 27.6 bits (62), Expect = 9.3
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 363 NSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEE 402
S KE +++E+ + EE++ R ELE E R K
Sbjct: 99 QSRKEAKKEEELQQELEELE----ARVGELELEIERQKAR 134
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 29.4 bits (66), Expect = 4.1
Identities = 13/73 (17%), Positives = 29/73 (39%), Gaps = 7/73 (9%)
Query: 362 QNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
N +K E + Q++ K + + R+K+ KK+++++ K++K
Sbjct: 23 ANKDKGNPEIYNKINSQDKAIEK--FKLLIKAQMAERVKKLHSQEKKEEKKKPKKKK--- 77
Query: 422 ENQKLLLKKQQEE 434
L + Q
Sbjct: 78 --VPLQVNPAQLF 88
>gnl|CDD|212841 cd11908, SH3_ITK, Src Homology 3 domain of Interleukin-2-inducible
T-cell Kinase. ITK (also known as Tsk or Emt) is a
cytoplasmic (or nonreceptor) tyr kinase containing Src
homology protein interaction domains (SH3, SH2)
N-terminal to the catalytic tyr kinase domain. It also
contains an N-terminal pleckstrin homology (PH) domain,
which binds the products of PI3K and allows membrane
recruitment and activation, and the Tec homology (TH)
domain, which contains proline-rich and zinc-binding
regions. ITK is expressed in T-cells and mast cells, and
is important in their development and differentiation.
Of the three Tec kinases expressed in T-cells, ITK plays
the predominant role in T-cell receptor (TCR) signaling.
It is activated by phosphorylation upon TCR crosslinking
and is involved in the pathway resulting in
phospholipase C-gamma1 activation and actin
polymerization. It also plays a role in the downstream
signaling of the T-cell costimulatory receptor CD28, the
T-cell surface receptor CD2, and the chemokine receptor
CXCR4. In addition, ITK is crucial for the development
of T-helper(Th)2 effector responses. 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 = 26.9 bits (59), Expect = 4.2
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGY-CHGQYGLFPANYV 521
+ALYDYQ + E++ ++ ++ + WWR +G G P++Y+
Sbjct: 4 IALYDYQTNDPQELALRYNEEYHLLDSSEIHWWRVQDKNGHEGYVPSSYL 53
>gnl|CDD|189762 pfam00901, Orbi_VP5, Orbivirus outer capsid protein VP5.
cryoelectron microscopy indicates that VP5 is a trimer
implying that there are 360 copies of VP5 per virion.
Length = 507
Score = 29.6 bits (67), Expect = 4.4
Identities = 25/97 (25%), Positives = 52/97 (53%), Gaps = 10/97 (10%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEK---EQIRIKEEQEN----IKKKKEQE 413
++ KEEE +EK ++I K E EE+ K + +++EE+E ++K +
Sbjct: 96 LEREQKEEEVREKH---NKKIIEKFGEDLEEVYKFMKGEAKVEEEEEKQMEILEKALKSY 152
Query: 414 EKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQER 450
K KE+ ++ + L K Q+E + +++ +++E+ R
Sbjct: 153 LKIVKEENKSLQRLAKALQKESEERTQDETKMIEEYR 189
Score = 29.6 bits (67), Expect = 4.9
Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 6/64 (9%)
Query: 385 ELERK-EELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
L+RK +ELE+EQ KEE+ K K+ EK ++ EE K + K + + + E+Q
Sbjct: 88 GLQRKLKELEREQ---KEEEVREKHNKKIIEKFGEDLEEVYKFM--KGEAKVEEEEEKQM 142
Query: 444 RLLE 447
+LE
Sbjct: 143 EILE 146
>gnl|CDD|225871 COG3334, COG3334, Uncharacterized conserved protein [Function
unknown].
Length = 192
Score = 29.0 bits (65), Expect = 4.4
Identities = 18/78 (23%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+ + + E EK + + +KE LEK + + E E +K ++++ + + +
Sbjct: 49 KKAAAQSEIEKFCANIADAAADQLYALQKELLEKLK-DLAEVNERLKALEKKKAELKDLE 107
Query: 421 EENQKLLLKKQQEEDRLK 438
EE + +L KQ E+ +L
Sbjct: 108 EEREGILRSKQAEDGKLV 125
>gnl|CDD|219358 pfam07271, Cytadhesin_P30, Cytadhesin P30/P32. This family
consists of several Mycoplasma species specific
Cytadhesin P32 and P30 proteins. P30 has been found to
be membrane associated and localised on the tip
organelle. It is thought that it is important in
cytadherence and virulence.
Length = 279
Score = 29.3 bits (65), Expect = 4.4
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 406 IKKKKEQ---EEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQE 449
I K+KE+ EEKER+EQ Q + +Q E+ ++ + + QE
Sbjct: 94 IVKRKEKRLLEEKERQEQMAEQLQRISEQNEQQAIEIDPTEEVNTQE 140
>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 29.9 bits (68), Expect = 4.4
Identities = 23/88 (26%), Positives = 46/88 (52%), Gaps = 19/88 (21%)
Query: 367 EEEEKEKQRMVQ--EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQ 424
EE + R+V EE++ ++LE +L ++NI + QE ER++ EE +
Sbjct: 81 EESRQRLSRLVAKLEEMRERDLELNVQL----------KDNIAQLN-QEIAEREKAEEAR 129
Query: 425 KLLLKK------QQEEDRLKAEEQARLL 446
+ ++ ++EE +++ E+Q+ LL
Sbjct: 130 QEAFEQLKNEIKEREETQIELEQQSSLL 157
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 29.6 bits (67), Expect = 4.4
Identities = 10/62 (16%), Positives = 26/62 (41%), Gaps = 7/62 (11%)
Query: 274 ENLAKQTEEE--SRKRSEEEKEKRKLKDQIDLEQ-----AQKLEERRLSELKIKEEEIEK 326
AK+ E S + ++ K ++ ++ + ++LEE + + ++EI+
Sbjct: 91 RKAAKKIERSTPSLIERKTQEVKDSGEEIAEMMRDEKVPIRELEEIPPEFVALYKQEIQS 150
Query: 327 KL 328
Sbjct: 151 PT 152
>gnl|CDD|227453 COG5124, COG5124, Protein predicted to be involved in meiotic
recombination [Cell division and chromosome partitioning
/ General function prediction only].
Length = 209
Score = 29.2 bits (65), Expect = 4.4
Identities = 23/102 (22%), Positives = 50/102 (49%), Gaps = 12/102 (11%)
Query: 347 VKSILKQPTSDGI----PIQNSNK----EEEEKEKQRMVQEEIKRKELERKEELEKEQIR 398
VK +L+Q DG+ SN + + +K E +K ++ +E++++
Sbjct: 45 VKDLLQQLVDDGVVSVEKCGTSNIYWSFKSQTLQKLYDSSELLK----KKIQEVKQDIAT 100
Query: 399 IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAE 440
KEE + K + ++ E ++ + LL K+++E+D +K +
Sbjct: 101 YKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKK 142
>gnl|CDD|233686 TIGR02016, BchX, chlorophyllide reductase iron protein subunit X.
This model represents the X subunit of the three-subunit
enzyme, (bacterio)chlorophyllide reductase. This enzyme
is responsible for the reduction of the chlorin B-ring
and is closely related to the protochlorophyllide
reductase complex which reduces the D-ring. Both of
these complexes in turn are homologous to nitrogenase.
This subunit is homologous to the nitrogenase component
II, or "iron" protein [Energy metabolism,
Photosynthesis].
Length = 296
Score = 29.4 bits (66), Expect = 4.5
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 7/53 (13%)
Query: 273 FENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELK-IKEEEI 324
FE LA + R R L L + L E R+ +L EE++
Sbjct: 241 FEELAGNVADAPPLR------PRPLSPDALLALFETLPETRVVDLVGATEEDL 287
>gnl|CDD|219951 pfam08644, SPT16, FACT complex subunit (SPT16/CDC68). Proteins in
this family are subunits the FACT complex. The FACT
complex plays a role in transcription initiation and
promotes binding of TATA-binding protein (TBP) to a TATA
box in chromatin.
Length = 152
Score = 28.7 bits (65), Expect = 4.7
Identities = 17/40 (42%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 399 IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
IKE Q+ +KK+ E E KE+ + E +KL+L + + RLK
Sbjct: 87 IKELQKRVKKR-ETERKEKADVVEQEKLILNRNKRPPRLK 125
>gnl|CDD|237561 PRK13923, PRK13923, putative spore coat protein regulator protein
YlbO; Provisional.
Length = 170
Score = 28.6 bits (64), Expect = 4.7
Identities = 24/102 (23%), Positives = 41/102 (40%), Gaps = 1/102 (0%)
Query: 320 KEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQE 379
KE + ++ G S L + +T + S + T + + + K +EE+EK +
Sbjct: 69 KERKELRRQLGFSPSNLPDNVKTGDEIITSGISDLTLEDVLSEQIGKLQEEEEKLSWENQ 128
Query: 380 EIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE 421
+K+ EL EE + I I + E E K E
Sbjct: 129 TLKQ-ELAITEEDYRALIVIMNRARRMAILVEDERKSLAAFE 169
>gnl|CDD|213013 cd12080, SH3_MPP1, Src Homology 3 domain of Membrane Protein,
Palmitoylated 1 (or MAGUK p55 subfamily member 1).
MPP1, also called 55 kDa erythrocyte membrane protein
(p55), is a ubiquitously-expressed scaffolding protein
that plays roles in regulating neutrophil polarity, cell
shape, hair cell development, and neural development and
patterning of the retina. It was originally identified
as an erythrocyte protein that stabilizes the actin
cytoskeleton to the plasma membrane by forming a complex
with 4.1R protein and glycophorin C. MPP1 is one of
seven vertebrate homologs of the Drosophila Stardust
protein, which is required in establishing cell
polarity, and it contains the 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 = 62
Score = 26.8 bits (59), Expect = 4.8
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 11/56 (19%)
Query: 474 ALYDYQASADDEI-------SFDPDDIITNIEMIDEGWWRGYCHGQ----YGLFPA 518
A +DY D+ I F DII I D WW+G G GL P+
Sbjct: 4 AQFDYDPKKDNLIPCKEAGLKFQTGDIIQIINKDDSNWWQGRVEGSGEESAGLIPS 59
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 29.4 bits (67), Expect = 4.9
Identities = 26/129 (20%), Positives = 51/129 (39%), Gaps = 30/129 (23%)
Query: 310 EERRLSELKIKEE----EIEKKLNGHSDVP------------------LSPSTETPPVPV 347
E R L+ LK E E+++ L +V + + P
Sbjct: 76 ERRLLNALKDGGEVSLDELKEALLDKKEVGIALGNLARKGWAKIEKGKVILKPDAYEDPE 135
Query: 348 KSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIK 407
+ LK + +KEE +E ++++E KRK +E KE E+ + + + +
Sbjct: 136 EKALKA-------LAEGDKEELSEEDLKVLKELKKRKLVEEKERTERS-VELTDAGLELL 187
Query: 408 KKKEQEEKE 416
K+ + ++E
Sbjct: 188 KEGIELKEE 196
>gnl|CDD|221756 pfam12757, DUF3812, Protein of unknown function (DUF3812). This is
a family of fungal proteins whose function is not known.
Length = 126
Score = 28.4 bits (64), Expect = 4.9
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 368 EEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQE 404
+E E QR EE K E E K + E+ + R +E+++
Sbjct: 90 DERAEAQRARDEEKKLDEEEAKRQHEEAKEREREKKK 126
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 29.6 bits (67), Expect = 5.0
Identities = 26/126 (20%), Positives = 59/126 (46%), Gaps = 19/126 (15%)
Query: 378 QEEIKRKELERKEELEKEQI-RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
+EE+ ++E ER ++LE E++ R++ E+E+ ++EE++ KE ++ +++
Sbjct: 260 EEELAKEEAERLKKLEAERLRRMRGEEED-----DEEEEDSKESADD--------LDDEF 306
Query: 437 LKAEEQARLLEQERLMEELRQQGTNEDTEEDLGYTAVALYDYQASADDEISFDPDDIITN 496
++ L Q EE + G +++ EED D ++S + +D
Sbjct: 307 EPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEE-----EEEDVDLSDEEEDEEDE 361
Query: 497 IEMIDE 502
++
Sbjct: 362 DSDDED 367
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 29.3 bits (67), Expect = 5.1
Identities = 16/34 (47%), Positives = 24/34 (70%), Gaps = 2/34 (5%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRI 399
+EE + E + M +EE+K E ER EELE E+++I
Sbjct: 69 EEESDPEMREMAKEELKELE-ERLEELE-EELKI 100
>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional.
Length = 393
Score = 29.2 bits (66), Expect = 5.1
Identities = 14/48 (29%), Positives = 29/48 (60%)
Query: 388 RKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEED 435
+ ELEK + R +E +E ++K E+ + E +++ + + + K+Q ED
Sbjct: 95 KSGELEKRRERREEAEEELEKAIEEGDDEEIKKQSKRTVRVTKEQNED 142
>gnl|CDD|213007 cd12074, SH3_Tks5_1, First Src homology 3 domain of Tyrosine kinase
substrate with five SH3 domains. Tks5, also called SH3
and PX domain-containing protein 2A (SH3PXD2A) or Five
SH (FISH), is a scaffolding protein and Src substrate
that is localized in podosomes, which are electron-dense
structures found in Src-transformed fibroblasts,
osteoclasts, macrophages, and some invasive cancer
cells. It binds and regulates some members of the ADAMs
family of transmembrane metalloproteases, which function
as sheddases and mediators of cell and matrix
interactions. It is required for podosome formation,
degradation of the extracellular matrix, and cancer cell
invasion. Tks5 contains an N-terminal Phox homology (PX)
domain and five SH3 domains. This model characterizes
the first SH3 domain of Tks5. SH3 domains are protein
interaction domains that bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs. They play versatile and diverse roles in
the cell including the regulation of enzymes, changing
the subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 53
Score = 26.6 bits (58), Expect = 5.2
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHGQYGLFPANYV 521
V + +Y+ + EIS +++ IE + GWW + G PA Y+
Sbjct: 3 VVVSNYEKQENSEISLQAGEVVDVIEKNESGWWFVSTAEEQGWVPATYL 51
>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947). Family of
eukaryotic proteins with unknown function.
Length = 168
Score = 28.8 bits (65), Expect = 5.3
Identities = 15/66 (22%), Positives = 37/66 (56%)
Query: 367 EEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKL 426
+ EKE + + + K K+ E KEEL++ +K + +K K + E ++ +++ ++L
Sbjct: 59 DYREKEIEELEKALKKTKDSEEKEELKRTLQSMKSRLKTLKNKDREREILKEHKKQEKEL 118
Query: 427 LLKKQQ 432
+ + ++
Sbjct: 119 IKEGKK 124
>gnl|CDD|212726 cd11792, SH3_Fut8, Src homology 3 domain of
Alpha1,6-fucosyltransferase (Fut8). Fut8 catalyzes the
alpha1,6-linkage of a fucose residue from a donor
substrate to N-linked oligosaccharides on glycoproteins
in a process called core fucosylation, which is crucial
for growth factor receptor-mediated biological
functions. Fut8-deficient mice show severe growth
retardation, early death, and a pulmonary emphysema-like
phenotype. Fut8 is also implicated to play roles in
aging and cancer metastasis. It contains an N-terminal
coiled-coil domain, a catalytic domain, and a C-terminal
SH3 domain. The SH3 domain of Fut8 is located in the
lumen and its role in glycosyl transfer is unclear. 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 = 26.4 bits (59), Expect = 5.4
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 473 VALYDYQASADDEISFDPDDIITNIEMIDEGWWRGYCHG------QYGLFPA 518
VA+Y ++ DEI DII + W GY G + GL+P+
Sbjct: 3 VAIYPHKPRNHDEIELRVGDIIG----VAGNHWDGYSKGRNRRTGKTGLYPS 50
>gnl|CDD|217689 pfam03717, PBP_dimer, Penicillin-binding Protein dimerisation
domain. This domain is found at the N terminus of Class
B High Molecular Weight Penicillin-Binding Proteins. Its
function has not been precisely defined, but is strongly
implicated in PBP polymerisation. The domain forms a
largely disordered 'sugar tongs' structure.
Length = 167
Score = 28.4 bits (64), Expect = 5.4
Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 11/72 (15%)
Query: 264 VKPSNLRAKFENLAKQ-------TEEESRKRSEEEKEKRK----LKDQIDLEQAQKLEER 312
V P + K A++ EE K+ +E+ K LK + E+A +++E
Sbjct: 27 VDPKEVEDKKAEEAEKLAKILGLDPEEILKKLKEKDAKSYEPVVLKRNLSPEEAARIKEL 86
Query: 313 RLSELKIKEEEI 324
+L + I+EE
Sbjct: 87 KLPGVSIEEEPK 98
>gnl|CDD|220297 pfam09581, Spore_III_AF, Stage III sporulation protein AF
(Spore_III_AF). This family represents the stage III
sporulation protein AF (Spore_III_AF) of the bacterial
endospore formation program, which exists in some but
not all members of the Firmicutes (formerly called
low-GC Gram-positives). The C-terminal region of these
proteins is poorly conserved.
Length = 185
Score = 28.8 bits (65), Expect = 5.8
Identities = 27/133 (20%), Positives = 60/133 (45%), Gaps = 14/133 (10%)
Query: 272 KFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGH 331
+ E+ K+ + R EE K+ L+ Q++ ++ ++ ++ +++++ +E + N
Sbjct: 64 EIESKKKEIQASQRAYILEEYAKQ-LEKQVE-KKLKEEYGVKVKDVEVEIDEDLESNNFD 121
Query: 332 ---SDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELER 388
+V L ++ + + I Q S +EEE+E + E+IK L
Sbjct: 122 IKEVNVTLKEESK------EKQKSKVEPVVIDTQTSKPKEEEEESE--EAEKIKN-FLAD 172
Query: 389 KEELEKEQIRIKE 401
+ + KEQI +
Sbjct: 173 EYNIPKEQIEVYI 185
>gnl|CDD|218769 pfam05833, FbpA, Fibronectin-binding protein A N-terminus (FbpA).
This family consists of the N-terminal region of the
prokaryotic fibronectin-binding protein. Fibronectin
binding is considered to be an important virulence
factor in streptococcal infections. Fibronectin is a
dimeric glycoprotein that is present in a soluble form
in plasma and extracellular fluids; it is also present
in a fibrillar form on cell surfaces. Both the soluble
and cellular forms of fibronectin may be incorporated
into the extracellular tissue matrix. While fibronectin
has critical roles in eukaryotic cellular processes,
such as adhesion, migration and differentiation, it is
also a substrate for the attachment of bacteria. The
binding of pathogenic Streptococcus pyogenes and
Staphylococcus aureus to epithelial cells via
fibronectin facilitates their internalisation and
systemic spread within the host.
Length = 447
Score = 29.1 bits (66), Expect = 5.8
Identities = 40/181 (22%), Positives = 78/181 (43%), Gaps = 50/181 (27%)
Query: 270 RAKFENLAKQTEEESRKRSEEEKEKRKLKDQID-LEQAQKLEERR---------LSELKI 319
R + + E+ R +E EK ++KL+ LE+A+ E R L +K
Sbjct: 287 RDRVKQKRSDLEK--RVENELEKLEKKLEKLEKELEEAENAENYRLYGELLTANLYAIKK 344
Query: 320 KEEEIEKK---LNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNS----NKEEEEKE 372
+E+E +PL P+ KS P +N+ K ++ K
Sbjct: 345 GMKEVELPNYYTGEEITIPLDPA--------KS----------PSENAQKYYKKYKKLKR 386
Query: 373 KQRMVQEEIK--RKELERKEELE-----------KEQIRIKEEQENIKKKKEQEEKERKE 419
V+E+I+ ++E+E E +E E+IR + ++ K+K++++K++K+
Sbjct: 387 AVEAVEEQIEETKEEIEYLESVEAQLENAESLEDLEEIREELIEQGYLKEKKRKKKKKKK 446
Query: 420 Q 420
+
Sbjct: 447 K 447
Score = 29.1 bits (66), Expect = 6.1
Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 6/86 (6%)
Query: 411 EQEEKERKEQEENQKL-LLKKQQEEDRLKAEEQARLLEQERLMEELRQQG----TNEDTE 465
++ E++R +Q+ + ++ + E+ K E+ + LE+ E R G N
Sbjct: 283 KKAERDRVKQKRSDLEKRVENELEKLEKKLEKLEKELEEAENAENYRLYGELLTANLYAI 342
Query: 466 EDLGYTAVALYDYQASADDEISFDPD 491
+ G V L +Y + I DP
Sbjct: 343 KK-GMKEVELPNYYTGEEITIPLDPA 367
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein. The YqfQ-like protein family
includes the B. subtilis YqfQ protein, also known as
VrrA, which is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 146 and 237 amino acids in
length. There are two conserved sequence motifs: QYGP
and PKLY.
Length = 155
Score = 28.2 bits (63), Expect = 6.0
Identities = 12/62 (19%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 350 ILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI-RIKEEQENIKK 408
I ++ +S + + +E ++ +Q E + ++K E+ K + + K + E K
Sbjct: 87 IFRELSSSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKP 146
Query: 409 KK 410
K
Sbjct: 147 KP 148
>gnl|CDD|236914 PRK11466, PRK11466, hybrid sensory histidine kinase TorS;
Provisional.
Length = 914
Score = 29.5 bits (66), Expect = 6.0
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 15/61 (24%)
Query: 283 ESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKE--------------EEIEKKL 328
E +R E +L D IDLE ++ E RLS L++++ +EK+L
Sbjct: 178 EQDQRQAAESALDRLID-IDLEYVNQMNELRLSALRVQQMVMNLGLEQIQKNAPTLEKQL 236
Query: 329 N 329
N
Sbjct: 237 N 237
>gnl|CDD|219293 pfam07093, SGT1, SGT1 protein. This family consists of several
eukaryotic SGT1 proteins. Human SGT1 or hSGT1 is known
to suppress GCR2 and is highly expressed in the muscle
and heart. The function of this family is unknown
although it has been speculated that SGT1 may be
functionally analogous to the Gcr2p protein of
Saccharomyces cerevisiae which is known to be a
regulatory factor of glycolytic gene expression.
Length = 557
Score = 29.3 bits (66), Expect = 6.0
Identities = 27/155 (17%), Positives = 54/155 (34%), Gaps = 10/155 (6%)
Query: 347 VKSILKQPTSDGI---PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQ 403
S+L+ G ++ S + +E EK E +L + + ++
Sbjct: 308 WSSLLESLKEKGYFKDNLEGSEEYKELLEKAEAYFSSTASSPGEEILDLLQLDLEELRDE 367
Query: 404 ENIKKKKEQEE-----KERKEQEENQKLLLKKQQEEDRLKAEEQARLLE-QERLMEELRQ 457
E ++ + + + E ++ KK + ++ A E L E + E L +
Sbjct: 368 EQDLPPEDDDSWLNISPDELDSELQERQGDKKDLKSNKEDANEVDDLEEVVSSMEEFLNK 427
Query: 458 QGTNEDTEEDLGYTAVALYDYQASADDEISFDPDD 492
+ E E S D ++SFD D+
Sbjct: 428 VSSFEGAEFADDEDEDDDEP-DDSEDKDVSFDEDE 461
>gnl|CDD|221232 pfam11802, CENP-K, Centromere-associated protein K. CENP-K is one
of seven new CENP-A-nucleosome distal (CAD) centromere
components (the others being CENP-L, CENP-O, CENP-P,
CENP-Q, CENP-R and CENP-S) that are identified as
assembling on the CENP-A nucleosome associated complex,
NAC. The CENP-A NAC is essential, as disruption of the
complex causes errors of chromosome alignment and
segregation that preclude cell survival despite
continued centromere-derived mitotic checkpoint
signalling. CENP-K is centromere-associated through its
interaction with one or more components of the CENP-A
NAC.
Length = 273
Score = 29.1 bits (65), Expect = 6.0
Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 366 KEEEEKEKQ--RMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
KEE +K +Q MV ++ K + KE+LE+EQ + +EQ+ I ER+ + +N
Sbjct: 96 KEELQKLRQDLEMVLSSVQSKNEKLKEDLEREQ-QWLDEQQQILDSL----NERQSELKN 150
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQERLMEEL 455
Q + + + LK + +E+L+ L
Sbjct: 151 QVVTFSESRIFQELKTKMLRIKEYKEKLLSAL 182
>gnl|CDD|219111 pfam06625, DUF1151, Protein of unknown function (DUF1151). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 122
Score = 27.8 bits (62), Expect = 6.0
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENI 406
KEEEE ++ + E K ++ E+LE E+ + EEQE I
Sbjct: 70 KEEEEAKRLQSELERELMKRAQKLEQLELEKAKEDEEQEQI 110
Score = 27.8 bits (62), Expect = 7.0
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 382 KRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEE 441
++ EL+R E K +KE++E + K+ Q E ER+ + QK L + + E+ + E+
Sbjct: 49 QKPELQRVLEKRKRDQVLKEQKEEEEAKRLQSELERELMKRAQK-LEQLELEKAKEDEEQ 107
Query: 442 QA 443
+
Sbjct: 108 EQ 109
Score = 27.4 bits (61), Expect = 9.2
Identities = 21/71 (29%), Positives = 46/71 (64%), Gaps = 2/71 (2%)
Query: 386 LERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARL 445
L +K EL++ + K +Q + K++++EE+ ++ Q E ++ L+K+ Q+ ++L+ E+
Sbjct: 47 LNQKPELQRVLEKRKRDQ--VLKEQKEEEEAKRLQSELERELMKRAQKLEQLELEKAKED 104
Query: 446 LEQERLMEELR 456
EQE++ E L+
Sbjct: 105 EEQEQIPEFLK 115
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 29.3 bits (66), Expect = 6.2
Identities = 40/183 (21%), Positives = 73/183 (39%), Gaps = 34/183 (18%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQID-LEQ--AQKLEERRLSELKIKE--------- 321
TEE+ K E E E L++QID LE + L E + KIK+
Sbjct: 254 PPAEMDTEEDRTK--EREAELEALQEQIDELESSIEEVLSEIKALASKIKQVNEELTTVR 311
Query: 322 ---EEIEKKLNGHSD-VPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMV 377
EE+E++ V L P E +++++ E+ +
Sbjct: 312 QENEELEEEYKIKKRTVELLPDAENNVAKLQALVVA--------------SSERLLELAQ 357
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
Q E R L +E + + + +++ +++ ++ +K R + EE + L K+Q +L
Sbjct: 358 QWEAHRTPL--IDEYRSLKEKNRNKEDETQRQLDEIKKLRNKIEELESELQTKEQLYKQL 415
Query: 438 KAE 440
E
Sbjct: 416 LDE 418
>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau;
Validated.
Length = 605
Score = 29.4 bits (66), Expect = 6.2
Identities = 20/113 (17%), Positives = 42/113 (37%), Gaps = 15/113 (13%)
Query: 360 PIQNSNKEE--EEKEKQRMVQEEIKRKELERKEELEKEQIRIKE-------------EQE 404
++N E + ++K + I K++ EE K + Q
Sbjct: 367 KLENKKIEISIKPEKKTINNSQIITTKKINIVEESNKNSVHFDTLYKTKIFYHKKKINQN 426
Query: 405 NIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
N ++ ++EE KE + + + K + D L+ +Q + L + + Q
Sbjct: 427 NKEQDIKKEELLEKEFVKKSEKIPKNDELLDNLELAKQKFFNKDIELSKNMLQ 479
>gnl|CDD|148750 pfam07321, YscO, Type III secretion protein YscO. This family
contains the bacterial type III secretion protein YscO,
which is approximately 150 residues long. YscO has been
shown to be required for high-level expression and
secretion of the anti-host proteins V antigen and Yops
in Yersinia pestis.
Length = 152
Score = 28.2 bits (63), Expect = 6.2
Identities = 24/87 (27%), Positives = 45/87 (51%), Gaps = 2/87 (2%)
Query: 380 EIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQE-ENQKLLLKKQQEEDRLK 438
E++ + KE LEK Q ++ +EN ++Q + ++ E E Q+L +QQ ++ K
Sbjct: 58 ELQGATVLLKE-LEKWQQQVGLLRENEASLEQQLAEAKQRLEAERQRLRQARQQLQEARK 116
Query: 439 AEEQARLLEQERLMEELRQQGTNEDTE 465
A+E+ L ++ E Q+ E+ E
Sbjct: 117 AQEKFAELARQEQAEAQAQRQYLEELE 143
>gnl|CDD|219925 pfam08598, Sds3, Sds3-like. Repression of gene transcription is
mediated by histone deacetylases containing
repressor-co-repressor complexes, which are recruited to
promoters of target genes via interactions with
sequence-specific transcription factors. The
co-repressor complex contains a core of at least seven
proteins. This family represents the conserved region
found in Sds3, Dep1 and BRMS1-homologue p40 proteins.
Length = 184
Score = 28.4 bits (64), Expect = 6.4
Identities = 21/78 (26%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRL 437
E +K E R + L+ ++R + + E I+++ E E + K++ E +K LL+++
Sbjct: 45 LEPLKDLEERRDDRLKVAELRREYKLECIEREYEAERQAAKQEFEKEKRLLRERL---LE 101
Query: 438 KAEEQARLLEQERLMEEL 455
+ EE+ LE+ER ++
Sbjct: 102 ELEEKIYRLEEERRSLDI 119
>gnl|CDD|224559 COG1645, COG1645, Uncharacterized Zn-finger containing protein
[General function prediction only].
Length = 131
Score = 27.8 bits (62), Expect = 6.5
Identities = 12/58 (20%), Positives = 27/58 (46%)
Query: 399 IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELR 456
+ EE+E + + QE+ R E K++ ++ +E+ ++E + +E R
Sbjct: 56 VVEEEEEEVEAEVQEQLRRSRPELPDDSDELKKEIDEDPASEKLLSVIETLKRIEARR 113
>gnl|CDD|198139 smart01071, CDC37_N, Cdc37 N terminal kinase binding. Cdc37 is a
molecular chaperone required for the activity of
numerous eukaryotic protein kinases. This domain
corresponds to the N terminal domain which binds
predominantly to protein kinases.and is found N terminal
to the Hsp (Heat shocked protein) 90-binding domain.
Expression of a construct consisting of only the
N-terminal domain of Saccharomyces pombe Cdc37 results
in cellular viability. This indicates that interactions
with the cochaperone Hsp90 may not be essential for
Cdc37 function.
Length = 154
Score = 28.2 bits (63), Expect = 6.9
Identities = 19/116 (16%), Positives = 51/116 (43%), Gaps = 11/116 (9%)
Query: 362 QNSNKEEEEKEKQRM----VQEEIKRKELERKEELEK--EQIRIKEEQENIKKK----KE 411
Q + + + + + + +R ++L K + + E + ++
Sbjct: 34 QRDIHQARVERMEEIKNLKYELIMNDHLNKRIDKLLKGLREEELSPETPTYNEMLAELQD 93
Query: 412 QEEKERKEQEENQKLLLKK-QQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
Q +KE +E + + LL++ ++ D+LK E++ + + L +E +++ + DT
Sbjct: 94 QLKKELEEANGDSEGLLEELKKHRDKLKKEQKELRKKLDELEKEEKKKIWSVDTHT 149
>gnl|CDD|232958 TIGR00399, metG_C_term, methionyl-tRNA synthetase C-terminal
region/beta chain. The methionyl-tRNA synthetase (metG)
is a class I amino acyl-tRNA ligase. This model
describes a region of the methionyl-tRNA synthetase that
is present at the C-terminus of MetG in some species (E.
coli, B. subtilis, Thermotoga maritima, Methanobacterium
thermoautotrophicum), and as a separate beta chain in
Aquifex aeolicus. It is absent in a number of other
species (e.g. Mycoplasma genitalium, Mycobacterium
tuberculosis), while Pyrococcus horikoshii has both a
full length MetG and a second protein homologous to the
beta chain only. Proteins hit by This model should
called methionyl-tRNA synthetase beta chain if and only
if the model metG hits a separate protein not also hit
by This model [Protein synthesis, tRNA aminoacylation].
Length = 137
Score = 27.8 bits (62), Expect = 6.9
Identities = 16/58 (27%), Positives = 27/58 (46%)
Query: 271 AKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKL 328
K E L + ++ K+ E EK K+ I ++ +K++ R LK + E KL
Sbjct: 2 KKIEELKLKGAKKKEKKDEGEKALEPQKETITIDDFEKVDLRVGKILKAERVEKSDKL 59
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 29.1 bits (66), Expect = 7.1
Identities = 24/92 (26%), Positives = 51/92 (55%), Gaps = 14/92 (15%)
Query: 369 EEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQK-LL 427
+ +EKQ +++ L+ KE LEK +++E + ++ +K +K +++ E++Q+
Sbjct: 177 KLEEKQEILET------LDVKERLEKLLDLLEKEIDLLQLEKRIRKKVKEQMEKSQREYY 230
Query: 428 LKKQQEEDRLKA--EEQARLLEQERLMEELRQ 457
L++Q LKA +E + + +EELR+
Sbjct: 231 LREQ-----LKAIQKELGEDDDDKDEVEELRE 257
>gnl|CDD|204811 pfam12026, DUF3513, Domain of unknown function (DUF3513). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 192 to 218 amino acids in length. This domain is
found associated with pfam00018, pfam08824. This domain
has a conserved QPP sequence motif.
Length = 208
Score = 28.6 bits (64), Expect = 7.3
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 386 LERKEELEKEQIRIKE-EQENIKKKKEQEEKERKEQEEN 423
L+ KEE ++ Q + E K+ E+ E+E + E
Sbjct: 23 LQGKEEFQRTQKELLEKGPITQLKQFERLEREVAKPAEA 61
>gnl|CDD|224581 COG1667, COG1667, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 254
Score = 28.7 bits (64), Expect = 7.3
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 7/81 (8%)
Query: 384 KELERKEELEKEQIRIKEEQENIKKKKE-------QEEKERKEQEENQKLLLKKQQEEDR 436
K ER+E LEK IR+ E +E + E EE E +EE K L K+ +E+
Sbjct: 131 KSSEREELLEKYGIRVPEIEEIERILDEAVGSDYFSEEIEEPSREELLKKLGIKEPDENW 190
Query: 437 LKAEEQARLLEQERLMEELRQ 457
++ + E L EE +
Sbjct: 191 VETILKVFRGVDEELEEEKER 211
>gnl|CDD|218661 pfam05622, HOOK, HOOK protein. This family consists of several
HOOK1, 2 and 3 proteins from different eukaryotic
organisms. The different members of the human gene
family are HOOK1, HOOK2 and HOOK3. Different domains
have been identified in the three human HOOK proteins,
and it was demonstrated that the highly conserved
NH2-domain mediates attachment to microtubules, whereas
the central coiled-coil motif mediates homodimerisation
and the more divergent C-terminal domains are involved
in binding to specific organelles (organelle-binding
domains). It has been demonstrated that endogenous HOOK3
binds to Golgi membranes, whereas both HOOK1 and HOOK2
are localised to discrete but unidentified cellular
structures. In mice the Hook1 gene is predominantly
expressed in the testis. Hook1 function is necessary for
the correct positioning of microtubular structures
within the haploid germ cell. Disruption of Hook1
function in mice causes abnormal sperm head shape and
fragile attachment of the flagellum to the sperm head.
Length = 713
Score = 29.0 bits (65), Expect = 7.5
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 399 IKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAE-----EQARLLEQ--ERL 451
I+ + EN + QE E + E Q+LL + + L+ + ++ L+Q E L
Sbjct: 462 IRLQHENKMLRLGQEGSENERITELQQLLEDANRRNNELETQLRLANQRILELQQQVEDL 521
Query: 452 MEELRQQGTNED 463
+ L++QG+ +
Sbjct: 522 QKALQEQGSKSE 533
Score = 28.6 bits (64), Expect = 9.6
Identities = 43/187 (22%), Positives = 70/187 (37%), Gaps = 31/187 (16%)
Query: 265 KPSNLRAKFENLAKQTEEESRKRSEEEK-------EKRKLKDQIDLEQAQKLEERRLSEL 317
K + R + E +Q +E K SEE K E ++L+++ LE QK +ER L+E
Sbjct: 357 KANAARGQLETYKRQVQELHAKLSEESKKADKLEFEYKRLEEK--LEALQKEKERLLAER 414
Query: 318 KIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMV 377
E E+ G + + N E E
Sbjct: 415 DSLRETNEELRCGQ-------------AQQDQLTQADAGTSPSGDNLAAELLPSE----Y 457
Query: 378 QEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEE-----NQKLLLKKQQ 432
+E++ R + E K ++ E +++ E + E E NQ++L +QQ
Sbjct: 458 REKLIRLQHENKMLRLGQEGSENERITELQQLLEDANRRNNELETQLRLANQRILELQQQ 517
Query: 433 EEDRLKA 439
ED KA
Sbjct: 518 VEDLQKA 524
>gnl|CDD|129694 TIGR00606, rad50, rad50. All proteins in this family for which
functions are known are involvedin recombination,
recombinational repair, and/or non-homologous end
joining.They are components of an exonuclease complex
with MRE11 homologs. This family is distantly related to
the SbcC family of bacterial proteins.This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University).
Length = 1311
Score = 29.2 bits (65), Expect = 7.6
Identities = 20/112 (17%), Positives = 53/112 (47%), Gaps = 7/112 (6%)
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
Q ++ +E + + ++ K K E ++++ ++ +++ +E +K + + + +
Sbjct: 195 RQTQGQKVQEHQMELKYLKQYKEKACEIRDQITSKEAQLESSREIVKSYENELDPLKNRL 254
Query: 421 EENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ------QGTNEDTEE 466
+E + L K + ++ +KA + R + E+ EL QGT+E +
Sbjct: 255 KEIEHNLSKIMKLDNEIKALKS-RKKQMEKDNSELELKMEKVFQGTDEQLND 305
>gnl|CDD|184536 PRK14145, PRK14145, heat shock protein GrpE; Provisional.
Length = 196
Score = 28.3 bits (63), Expect = 7.6
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 347 VKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI----RIKEE 402
V ++ +G P ++ + +++ EE+K+K L++KE +E + R+K E
Sbjct: 16 VNNLSSNEQMEGPPEDEQAQQNQPQQQTVDEIEELKQK-LQQKEVEAQEYLDIAQRLKAE 74
Query: 403 QENIKKKKEQEEKERKEQEENQKLL 427
EN +K+ E+E+ E E + Q +L
Sbjct: 75 FENYRKRTEKEKSEMVEYGKEQVIL 99
>gnl|CDD|227780 COG5493, COG5493, Uncharacterized conserved protein containing a
coiled-coil domain [Function unknown].
Length = 231
Score = 28.3 bits (63), Expect = 7.7
Identities = 18/95 (18%), Positives = 46/95 (48%), Gaps = 16/95 (16%)
Query: 379 EEIKRKELE-----------RKEELEKEQIRIKE-----EQENIKKKKEQEEKERKEQEE 422
EEIKR LE R E L + ++ ++++++ +++ E+ +KE +
Sbjct: 5 EEIKRVLLENPEILVDVLTQRPEILYEVLAKLTPWQQLATKQDVEELRKETEQRQKELAD 64
Query: 423 NQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+ + K++ ++ LK ++ + E E++++
Sbjct: 65 EKLEVRKQKATKEDLKLLQRFQEEEFRATKEDIKR 99
>gnl|CDD|213395 cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits with a stoichiometry of 3:3:1:1:1.
Alpha and beta subunit form the globular catalytic
moiety, a hexameric ring of alternating subunits. Gamma,
delta and epsilon subunits form a stalk, connecting F1
to F0, the integral membrane proton translocating
domain. In bacteria, which is lacking a eukaryotic
epsilon subunit homolog, this subunit is called the
epsilon subunit.
Length = 123
Score = 27.5 bits (62), Expect = 7.8
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 299 DQIDLEQAQKLEERRLSELKIKEEEIEKK 327
+ ID+E+A++ ER L ++E EK
Sbjct: 84 EDIDVERAEEALERAEERLAQAKDEREKA 112
>gnl|CDD|214697 smart00498, FH2, Formin Homology 2 Domain. FH proteins control
rearrangements of the actin cytoskeleton, especially in
the context of cytokinesis and cell polarisation.
Members of this family have been found to interact with
Rho-GTPases, profilin and other actin-assoziated
proteins. These interactions are mediated by the
proline-rich FH1 domain, usually located in front of FH2
(but not listed in SMART). Despite this cytosolic
function, vertebrate formins have been assigned
functions within the nucleus. A set of Formin-Binding
Proteins (FBPs) has been shown to bind FH1 with their WW
domain.
Length = 392
Score = 28.9 bits (65), Expect = 7.9
Identities = 20/93 (21%), Positives = 41/93 (44%), Gaps = 3/93 (3%)
Query: 379 EEIKRKELERKEELEKEQI--RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
E++ E ++ E+ E + K E+ K+ +E+EE +K L+K+ E ++
Sbjct: 301 EKLVEYYGEDPKDTSPEEFFKDFNEFLKEFSKAAEENIKKEEEEEERRKKLVKETTEYEQ 360
Query: 437 LKAEEQARLLEQERLMEELRQQGTNEDTEEDLG 469
+ ++ R + E G + E+LG
Sbjct: 361 SSSRQKERNPSMD-FEVERDFLGVLDSLLEELG 392
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 29.0 bits (65), Expect = 7.9
Identities = 23/142 (16%), Positives = 52/142 (36%), Gaps = 5/142 (3%)
Query: 301 IDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIP 360
IDL+ ++ + S KI+ E K + D+ E K K
Sbjct: 15 IDLKNPLFIKNLKHSSYKIRLESDIKDSLLNLDINKK-LHEKLDKKNKKFNKTDDLKDS- 72
Query: 361 IQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQ 420
+ K++++ +K+ + ++ + + +Q ++K K + EK +K+
Sbjct: 73 KKTKLKQKKKIKKKLHIDDD---YDNFFDSKNNSKQFAGPLAISLMRKPKPKTEKLKKKI 129
Query: 421 EENQKLLLKKQQEEDRLKAEEQ 442
N+ KK++ +
Sbjct: 130 TVNKSTNKKKKKVLSSKDELIK 151
>gnl|CDD|184059 PRK13450, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 132
Score = 27.8 bits (62), Expect = 7.9
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 274 ENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELKIKE 321
E + + E ++KR+EE K KD+ID+++A+ R ++ +K+KE
Sbjct: 87 EEIDIKRAENAKKRAEERLRK---KDEIDVKRAELALFRAIARIKLKE 131
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 28.9 bits (65), Expect = 8.1
Identities = 18/96 (18%), Positives = 39/96 (40%), Gaps = 9/96 (9%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKE--------QEEKERKEQEENQKLLLKK 430
+++KR+ + K +L KE ++EE + KK + E + +N+ +
Sbjct: 383 QQVKRELQDAKSQLLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEA 442
Query: 431 QQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEE 466
+ EE + E +E R + + + + E
Sbjct: 443 EIEELLRQLETLKEAIEALRKTLDEKTK-QKINAFE 477
Score = 28.9 bits (65), Expect = 8.8
Identities = 24/105 (22%), Positives = 39/105 (37%), Gaps = 7/105 (6%)
Query: 366 KEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEE---KERKEQEE 422
E E E + Q E + L E + E+++KK E E +EQ E
Sbjct: 209 SEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLE 268
Query: 423 NQKLLL----KKQQEEDRLKAEEQARLLEQERLMEELRQQGTNED 463
Q + K + + R A + LL L++ + Q E+
Sbjct: 269 RQLKEIEAARKANRAQLRELAADPLPLLLIPNLLDSTKAQLQKEE 313
>gnl|CDD|118696 pfam10168, Nup88, Nuclear pore component. Nup88 can be divided
into two structural domains; the N-terminal two-thirds
of the protein has no obvious structural motifs but is
the region for binding to Nup98, one of the components
of the nuclear pore. the C-terminal end is a predicted
coiled-coil domain. Nup88 is overexpressed in tumour
cells.
Length = 717
Score = 29.1 bits (65), Expect = 8.1
Identities = 30/142 (21%), Positives = 58/142 (40%), Gaps = 16/142 (11%)
Query: 292 KEKRKLKDQIDLEQ--------AQKLEERRLSELKIKEEEIEKKLNG-----HSDVP-LS 337
+++++L+D D + A+KL E + E K +E + + +S +P LS
Sbjct: 573 QKEKQLEDIQDCREERKSLSERAEKLAE-KFEEAKYNQELLVNRCKRLLQSANSQLPVLS 631
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKE-Q 396
S ++ I KQ I+ K++ + QE K+ E+ K
Sbjct: 632 DSERDMSKELQRINKQLQHLANGIKQVKKKKNYQRYHMASQESPKKSSYTLPEKQHKTIT 691
Query: 397 IRIKEEQENIKKKKEQEEKERK 418
+KE E+I + +Q ++
Sbjct: 692 EILKELGEHIDRMIKQIKRINN 713
>gnl|CDD|236335 PRK08724, fliD, flagellar capping protein; Validated.
Length = 673
Score = 29.1 bits (65), Expect = 8.1
Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 348 KSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIK 407
+I K P G S + + Q EI++K + K +L+ + + E K
Sbjct: 335 AAIAKAPDVPGWSNTASGTLTDSYVTPKEAQAEIEQKLAQEKAQLDAAVEKGELTPEQAK 394
Query: 408 ----KKKEQEEKERKEQEENQKLLLKKQQE 433
K E EE+ER E+ + + LK+ Q
Sbjct: 395 QIARAKLEPEERERLEKIDKAQAALKQAQS 424
>gnl|CDD|204831 pfam12137, RapA_C, RNA polymerase recycling family C-terminal.
This domain is found in bacteria. This domain is about
360 amino acids in length. This domain is found
associated with pfam00271, pfam00176. The function of
this domain is not known, but structurally it forms an
alpha-beta fold in nature with a central beta-sheet
flanked by helices and loops, the beta-sheet being
mainly antiparallel and flanked by four alpha helices,
among which the two longer helices exhibit a coiled-coil
arrangement.
Length = 362
Score = 28.7 bits (65), Expect = 8.2
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 9/62 (14%)
Query: 269 LRAKFENLAKQTEEESRKRSEEEKEKRKLKDQIDLEQAQKLEERRLSELK-----IKEEE 323
LR + E L ++ E K +EE+ E+ + + ++Q E RL LK I++EE
Sbjct: 276 LRPQIEQLLQKAE----KLAEEQLEEIIEQAKQQMQQQLSAELARLKALKAVNPNIRDEE 331
Query: 324 IE 325
IE
Sbjct: 332 IE 333
>gnl|CDD|220897 pfam10883, DUF2681, Protein of unknown function (DUF2681). This
family of proteins is found in bacteria. Proteins in
this family are typically between 81 and 117 amino acids
in length.
Length = 87
Score = 27.0 bits (60), Expect = 8.4
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 408 KKKEQEEKERKEQEENQKLLLKKQQEED-------RLKAEEQARLLEQERLMEELRQQG 459
K K+ + + RK Q EN++L +K E R K EE R L ++ + E+L+Q G
Sbjct: 24 KLKKAQRENRKLQAENEQLATEKAVAETEVKNAKVRQKNEENTRRLSRDDVDEQLQQHG 82
>gnl|CDD|212873 cd11940, SH3_ARHGEF5_19, Src homology 3 domain of the Rho guanine
nucleotide exchange factors ARHGEF5 and ARHGEF19.
ARHGEF5, also called ephexin-3 or TIM (Transforming
immortalized mammary oncogene), is a potent activator of
RhoA and it plays roles in regulating cell shape,
adhesion, and migration. It binds to the SH3 domain of
Src and is involved in regulating Src-induced podosome
formation. ARHGEF19, also called ephexin-2 or WGEF
(weak-similarity GEF), is highly expressed in the
intestine, liver, heart and kidney. It activates RhoA,
Cdc42, and Rac 1, and has been shown to activate RhoA in
the Wnt-PCP (planar cell polarity) pathway. It is
involved in the regulation of cell polarity and
cytoskeletal reorganization. ARHGEF5 and ARHGEF19
contain RhoGEF (also called Dbl-homologous or DH),
Pleckstrin Homology (PH), and SH3 domains. The SH3
domains of ARHGEFs play an autoinhibitory role through
intramolecular interactions with a proline-rich region
N-terminal to the DH 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 = 55
Score = 25.9 bits (57), Expect = 8.6
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 478 YQASADDEISFDPDDIITNIEMIDEGWWRG--YCHGQYGLFPANYV 521
Y+A +DE++ + DII + +GW G G+ G FP ++V
Sbjct: 8 YKAQENDELTLEKADIIMVRQQSSDGWLEGVRLSDGERGWFPQSHV 53
>gnl|CDD|132534 TIGR03495, phage_LysB, phage lysis regulatory protein, LysB family.
Members of this protein family are phage lysis
regulatory protein, including the well-studied protein
LysB (lysis protein B) of Enterobacteria phage P2. For
members of this family, genes are found in phage or in
prophage regions of bacterial genomes, typically near a
phage lysozyme or phage holin.
Length = 135
Score = 27.7 bits (62), Expect = 8.7
Identities = 12/55 (21%), Positives = 29/55 (52%)
Query: 389 KEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQA 443
+ EL + ++ K+ +E + + R++ + + LL +++Q +RLK E +
Sbjct: 39 QAELASKANQLIVLLALAKRNEEAQAQLRQQLAQARALLAQREQRIERLKRENED 93
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 28.7 bits (65), Expect = 8.8
Identities = 28/126 (22%), Positives = 56/126 (44%), Gaps = 18/126 (14%)
Query: 344 PVPVKSILKQPTSDGIPI--QNSNKEEEEKEKQRMV------QEEIKRKELERK----EE 391
PV + LK+ I I Q+ ++ + E QR + EE+ ++ + ++
Sbjct: 110 PVS-LAQLKELGQLLIDIHGQHEHQSLLKPELQRQLLDAFAGLEELAQEAYQEAYQAWKQ 168
Query: 392 LEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERL 451
+E ++E++ ++ + + + +E EE L Q ED EE+ RL E+L
Sbjct: 169 ARRELEDLQEKERERAQRADLLQFQLEELEE-----LNLQPGEDEELEEERKRLSNSEKL 223
Query: 452 MEELRQ 457
E ++
Sbjct: 224 AEAIQN 229
>gnl|CDD|227606 COG5281, COG5281, Phage-related minor tail protein [Function
unknown].
Length = 833
Score = 28.8 bits (64), Expect = 8.8
Identities = 49/332 (14%), Positives = 104/332 (31%), Gaps = 55/332 (16%)
Query: 169 RQDKSAVGWDHQEKIEKHESQKDYAKGFGGKFGIESDRQDKSAVGWDHVEKVDK------ 222
R+DK A + EK G QD + D+
Sbjct: 349 REDKQAALLAAKLAAEKLAR----VTAQGALNARLKLAQDDLTQAELNYAAADQAANQEG 404
Query: 223 HQSQKDDNRQVVTSSKVKDLIAANSTN--ASKENIKPKPNIGHVKPSNLRAKFENLAKQT 280
+ ++D +V+++ + + I N + + + N K L+A A Q
Sbjct: 405 ALNAREDEAEVLSTQEERRDILKNLLADAEKRTARQEELNKALAKAKILQADKAAKAYQE 464
Query: 281 EEESRKRSEEEKEKRKLKDQIDLEQAQK---LEERRLSELKIKEEEIEKKLNGHSDVPLS 337
+ R+ K + Q + A K ++++++L +E+ +
Sbjct: 465 DILQREAQSRGKTAAAERSQEQMTAALKALLAFQQQIADLSGAKEKASDQ---------- 514
Query: 338 PSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQI 397
S + +E+ KQR +QE+ E +++ Q+
Sbjct: 515 -----------------KSLLWKAEEQYALLKEEAKQRQLQEQKALLEHKKETLEYTSQL 557
Query: 398 RIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQ 457
+ +++ + + Q +K++ D + + + EL
Sbjct: 558 -----------AELLDQQADRFELSAQAAGSQKERGSDLYREALAQNAAALNKALNELAA 606
Query: 458 QGTNEDTEED--LGYTAVALYDYQASADDEIS 487
+ D + AL +Y+ SA D S
Sbjct: 607 YWSALDLLQGDWKAGALSALANYRDSATDVAS 638
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 28.7 bits (64), Expect = 9.0
Identities = 19/89 (21%), Positives = 41/89 (46%)
Query: 379 EEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDRLK 438
EE+ K ++++ E+E+ R ++E+E + + + + Q+ E+
Sbjct: 385 EEVISKYAMKQDDTEEEERRKRQERERQGTSSRSSDPSKASSTSGESPSMASQESEEEES 444
Query: 439 AEEQARLLEQERLMEELRQQGTNEDTEED 467
EE+ E+E E+ ++ ED EE+
Sbjct: 445 VEEEEEEEEEEEEEEQESEEEEGEDEEEE 473
>gnl|CDD|222430 pfam13874, Nup54, Nucleoporin complex subunit 54. This is the
human Nup54 subunit of the nucleoporin complex,
equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all
have similar affinities for importin-beta. It seems
likely that they are the only FG-repeat nucleoporins of
the central channel, and as such they would form a zone
of equal affinity spanning the central channel. The
diffusion of importin-beta import complexes through the
central channel may be a stochastic process as the
affinities are similar, whereas movement from
cytoplasmic fibrils to the central channel and from the
central channel to the nuclear basket would be
facilitated by the subtle differences in affinity
between them.
Length = 141
Score = 27.6 bits (62), Expect = 9.0
Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEENQKLLLKKQQEEDR 436
+E +R +L+R EE+++ + R+ E + +K+ +K E + + ++
Sbjct: 32 FEELKQRVKLQR-EEVKQLRERLHEINDKLKEL-------QKHDLETSARIEEAKRRHTE 83
Query: 437 LKAEEQARLLEQERLMEELRQQGTNEDTEED 467
L RLL+ +E LR +G EE+
Sbjct: 84 L----SHRLLKLAAKLEILRNKGYPLSPEEE 110
>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 424
Score = 28.7 bits (65), Expect = 9.2
Identities = 17/105 (16%), Positives = 42/105 (40%), Gaps = 8/105 (7%)
Query: 360 PIQNSNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKE 419
++ ++ + + + E ++ E ++ K E+ K +++ ++ R E
Sbjct: 80 LLEKRPSRTNSQDALLQAENALPEWKKELEKPSEPKEEEPKAAAES-KVVQKELDELRDE 138
Query: 420 QEENQKLL------LKKQQEEDRLKAEEQARLLEQERLMEELRQQ 458
+E + LL L++ + AE RL L E+ ++
Sbjct: 139 LKELKNLLEDQLSGLRQVERIPPEFAELYKRLKRSG-LSPEIAEK 182
>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
Length = 871
Score = 28.7 bits (65), Expect = 9.3
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 399 IKEEQENIKKKK-EQEEKERKEQEENQKLLLKKQQEED-RLKAEEQARLL 446
IK + K+K EQ +E E+EE LL + QQ D KA+E R++
Sbjct: 612 IKNFEPGASKRKFEQGRQEALEKEEE--LLSRLQQLPDGEQKAKETKRMI 659
>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein
(DUF2052). This entry is of sequences of two conserved
domains separated by a region of low complexity,
spanning some 200 residues. The function is unknown.
Length = 178
Score = 27.8 bits (62), Expect = 9.3
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 420 QEENQKLLLKKQQEEDRLKAEEQARLLEQERLMEELRQQGTNEDTEED 467
E +L L +QQEE+ EE+ E+ EE Q+G + EE+
Sbjct: 65 DREEARLELLEQQEEEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEE 112
>gnl|CDD|217843 pfam04012, PspA_IM30, PspA/IM30 family. This family includes PspA
a protein that suppresses sigma54-dependent
transcription. The PspA protein, a negative regulator of
the Escherichia coli phage shock psp operon, is produced
when virulence factors are exported through secretins in
many Gram-negative pathogenic bacteria and its homologue
in plants, VIPP1, plays a critical role in thylakoid
biogenesis, essential for photosynthesis. Activation of
transcription by the enhancer-dependent bacterial
sigma(54) containing RNA polymerase occurs through ATP
hydrolysis-driven protein conformational changes enabled
by activator proteins that belong to the large AAA(+)
mechanochemical protein family. It has been shown that
PspA directly and specifically acts upon and binds to
the AAA(+) domain of the PspF transcription activator.
Length = 220
Score = 28.1 bits (63), Expect = 9.6
Identities = 20/97 (20%), Positives = 50/97 (51%), Gaps = 3/97 (3%)
Query: 364 SNKEEEEKEKQRMVQEEIKRKELERKEELEKEQIRIKEEQENIKKKKEQEEKERKEQEEN 423
++ ++ ++M+++ I+ + E + + ++ Q+ +++K E+++++ K+ E
Sbjct: 15 HEGLDKAEDPEKMLEQAIRDMQSELGK-ARQALAQVIARQKQLERKLEEQKEQAKKLENK 73
Query: 424 QKLLLKKQQEEDRLKAEEQARLLEQ--ERLMEELRQQ 458
+ L K EE +A + LE+ E L +L QQ
Sbjct: 74 ARAALTKGNEELAREALAEIATLEKQAEALETQLTQQ 110
>gnl|CDD|131393 TIGR02340, chap_CCT_alpha, T-complex protein 1, alpha subunit.
Members of this family, all eukaryotic, are part of the
group II chaperonin complex called CCT (chaperonin
containing TCP-1) or TRiC. The archaeal equivalent group
II chaperonin is often called the thermosome. Both are
somewhat related to the group I chaperonin of bacterial,
GroEL/GroES. This family consists exclusively of the CCT
alpha chain (part of a paralogous family) from animals,
plants, fungi, and other eukaryotes.
Length = 536
Score = 28.5 bits (64), Expect = 9.6
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 291 EKEKRKLKDQIDLEQAQKLEERRLSELKIKEEEIEKKLNGHSDVPLS 337
+K K L QI ++ KLE+ R E I +E I+K L+ ++V L+
Sbjct: 238 QKAKMALGVQIVVDDPAKLEQIRQREADITKERIKKILDAGANVVLT 284
>gnl|CDD|146444 pfam03805, CLAG, Cytoadherence-linked asexual protein. Clag
(cytoadherence linked asexual gene) is a malaria surface
protein which has been shown to be involved in the
binding of Plasmodium falciparum infected erythrocytes
to host endothelial cells, a process termed
cytoadherence. The cytoadherence phenomenon is
associated with the sequestration of infected
erythrocytes in the blood vessels of the brain, cerebral
malaria. Clag is a multi-gene family in Plasmodium
falciparum with at least 9 members identified to date.
Orthologous proteins in the rodent malaria species
Plasmodium chabaudi (Lawson D Unpubl. obs.) suggest that
the gene family is found in other malaria species and
may play a more generic role in cytoadherence.
Length = 1282
Score = 28.9 bits (65), Expect = 9.7
Identities = 31/176 (17%), Positives = 51/176 (28%), Gaps = 37/176 (21%)
Query: 227 KDDNRQVVTSSKVKDLIAANSTNASKENIKPKPNIGHVKPSNLRAKFENLAKQTEEESRK 286
D ++ + SK K + + +E I P + K+E++ K+
Sbjct: 41 TSDTKEYLDISKFKIINKDITDGDDEEYIVPTEDST----FEDIIKYEHILKEQVILKYN 96
Query: 287 RSEEEKEKRKL-------------------KDQIDLEQA------------QKLEERRLS 315
+ KRK+ K DL++A + E + +
Sbjct: 97 PEISDLIKRKILIVRTLKIIKLMLIPMNAYKKTNDLKKALEELNKVFTNKNKSNNEDKDN 156
Query: 316 ELKIKEEEIEKKLNGHSDVPLSPSTETPPVPVKSILKQPTSDGIPIQNSNKEEEEK 371
LK+ EK L V S I +D N N E E
Sbjct: 157 TLKLSGRIFEKLLLSVKTVKRRNSIYNKGDDKIDI--IDYNDLFFTTNPNIEFMEN 210
>gnl|CDD|224400 COG1483, COG1483, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 774
Score = 28.6 bits (64), Expect = 9.8
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 7/76 (9%)
Query: 377 VQEEIKRKELERKEELEKEQIRIKEEQENIKKK--KEQEEKERKEQEENQKLLLKKQQEE 434
+ E + L EE + E + IK+K K E+ E + E +K+ K +
Sbjct: 604 LVEYEAEEILSILEEETARVLACDEVMKTIKEKYKKYGEDVEEISENEVRKIGEKAVE-- 661
Query: 435 DRLKAEEQARLLEQER 450
EEQ +
Sbjct: 662 ---DLEEQFKDSFGRV 674
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
0.306 0.127 0.352
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,876,277
Number of extensions: 2717661
Number of successful extensions: 15080
Number of sequences better than 10.0: 1
Number of HSP's gapped: 8278
Number of HSP's successfully gapped: 2434
Length of query: 525
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 424
Effective length of database: 6,457,848
Effective search space: 2738127552
Effective search space used: 2738127552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 61 (27.1 bits)