RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10868
(649 letters)
>gnl|CDD|153337 cd07653, F-BAR_CIP4-like, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein
4 and similar proteins. F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. 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. Members of this subfamily typically
contain an N-terminal F-BAR domain and a C-terminal SH3
domain. In addition, some members such as FNBP1L contain
a central Cdc42-binding HR1 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.
Length = 251
Score = 300 bits (771), Expect = 3e-98
Identities = 131/301 (43%), Positives = 186/301 (61%), Gaps = 54/301 (17%)
Query: 3 QDQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKK-EEEDYQYST 61
DQ+DNL HTQKGIDFLE+YG F+++R AIE EYA KLR+LVK Y PKK EE++Y +S+
Sbjct: 4 WDQFDNLEKHTQKGIDFLERYGKFVKERAAIEQEYAKKLRKLVKKYLPKKKEEDEYSFSS 63
Query: 62 CKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLEN 121
KAF+ +L+EV D+AGQHE+IAENL + KE+ + + ++ERKKHL +G+++ LE+
Sbjct: 64 VKAFRSILNEVNDIAGQHELIAENLNSNVCKELKTLISELRQERKKHLSEGSKLQQKLES 123
Query: 122 QVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALER 181
K +K+
Sbjct: 124 S-------IKQLEKSK-------------------------------------------- 132
Query: 182 ALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQR 241
K YEKAF++A+KA + Y++ADAD+ L++A+VEK + N +K+Q E+ K EYA QLQ+
Sbjct: 133 --KAYEKAFKEAEKAKQKYEKADADMNLTKADVEKAKANANLKTQAAEEAKNEYAAQLQK 190
Query: 242 ANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSANIEKKVFPIINQCLDGIIKAA 301
N+ QRQHY+ +P++F +LQELDEKR+ ++ +A IE+KV PII +CLDGI KA
Sbjct: 191 FNKEQRQHYSTDLPQIFDKLQELDEKRINRTVELLLQAAEIERKVIPIIAKCLDGIKKAG 250
Query: 302 D 302
D
Sbjct: 251 D 251
>gnl|CDD|153360 cd07676, F-BAR_FBP17, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Formin Binding Protein
17. F-BAR domains are dimerization modules that bind
and bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization. Formin
Binding Protein 17 (FBP17), also called FormiN Binding
Protein 1 (FNBP1), is involved in dynamin-mediated
endocytosis. It is recruited to clathrin-coated pits
late in the endocytosis process and may play a role in
the invagination and scission steps. FBP17 binds in vivo
to tankyrase, a protein involved in telomere maintenance
and mitogen activated protein kinase (MAPK) signaling.
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.
Length = 253
Score = 199 bits (508), Expect = 1e-59
Identities = 113/302 (37%), Positives = 172/302 (56%), Gaps = 56/302 (18%)
Query: 4 DQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKK---EEEDYQYS 60
DQ+DNL HTQ GI+ LEKY F+++R IE+ YA +LR L K YQPKK EEE+Y+Y+
Sbjct: 5 DQFDNLEKHTQWGIEVLEKYIKFVKERTEIELSYAKQLRNLSKKYQPKKNSKEEEEYKYT 64
Query: 61 TCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLE 120
+C+AF L+E+ D AGQHEVI+ENL II E+T +V++ K+ERK H DG + +E
Sbjct: 65 SCRAFLMTLNEMNDYAGQHEVISENLASQIIVELTRYVQELKQERKSHFHDGRKAQQHIE 124
Query: 121 NQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALE 180
K LE KR
Sbjct: 125 T------------------CWKQLESSKR------------------------------- 135
Query: 181 RALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQ 240
+E+ ++AD+A +++++ DAD+ +++A+VEK R I+ Q ED+K EY++ LQ
Sbjct: 136 ----RFERDCKEADRAQQYFEKMDADINVTKADVEKARQQAQIRHQMAEDSKAEYSSYLQ 191
Query: 241 RANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSANIEKKVFPIINQCLDGIIKA 300
+ N+ Q +HY +P +F ++QE++E+R+ + M A ++++V PII +CLDGI KA
Sbjct: 192 KFNKEQHEHYYTHIPNIFQKIQEMEERRIGRVGESMKTYAEVDRQVIPIIGKCLDGITKA 251
Query: 301 AD 302
A+
Sbjct: 252 AE 253
>gnl|CDD|153359 cd07675, F-BAR_FNBP1L, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Formin Binding Protein
1-Like. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
FormiN Binding Protein 1-Like (FNBP1L), also known as
Toca-1 (Transducer of Cdc42-dependent actin assembly),
forms a complex with neural Wiskott-Aldrich syndrome
protein (N-WASP). The FNBP1L/N-WASP complex induces the
formation of filopodia and endocytic vesicles. FNBP1L is
required for Cdc42-induced actin assembly and is
essential for autophagy of intracellular pathogens. It
contains an N-terminal F-BAR domain, a central
Cdc42-binding HR1 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.
Length = 252
Score = 169 bits (428), Expect = 4e-48
Identities = 98/300 (32%), Positives = 162/300 (54%), Gaps = 55/300 (18%)
Query: 4 DQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPK--KEEEDYQYST 61
DQ+DNL HTQ GIDFLE+Y F+++R IE YA +LR LVK Y PK ++E+ ++++
Sbjct: 5 DQFDNLDKHTQWGIDFLERYAKFVKERLEIEQNYAKQLRNLVKKYCPKRSSKDEEPRFTS 64
Query: 62 CKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLEN 121
C +F +L+E+ D AGQ EV+AE + + E+ + D K ERK HLQ+G
Sbjct: 65 CLSFYNILNELNDYAGQREVVAEEMGHRVYGELMRYSHDLKGERKMHLQEG--------- 115
Query: 122 QVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALER 181
+A++ D +++ D
Sbjct: 116 -----RKAQQYLDMCWKQMDN--------------------------------------- 131
Query: 182 ALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQR 241
+ K +E+ R+A+KA + Y+R D D ++++VEK + + +++ +++K EYA QLQ
Sbjct: 132 SKKKFERECREAEKAQQSYERLDNDTNATKSDVEKAKQQLNLRTHMADESKNEYAAQLQN 191
Query: 242 ANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSANIEKKVFPIINQCLDGIIKAA 301
N Q +H+ +P+++ QLQE+DE+R + A+ E+KV PII++CL+G++ AA
Sbjct: 192 FNGEQHKHFYIVIPQIYKQLQEMDERRTVKLSECYRGFADSERKVIPIISKCLEGMVLAA 251
>gnl|CDD|212009 cd11619, HR1_CIP4-like, Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of Cdc42-Interacting
Protein 4 and similar proteins. 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,
central HR1 domain, and a C-terminal SH3 domain. HR1
domains are anti-parallel coiled-coil (ACC) domains that
bind small GTPases from the Rho family; the HR1 domain
of CIP4 binds Cdc42 and TC10. Translocation of CIP4 is
facilitated by its binding to TC10 at the plasma
membrane.
Length = 77
Score = 102 bits (257), Expect = 2e-26
Identities = 46/77 (59%), Positives = 63/77 (81%)
Query: 389 PSQRKKKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLE 448
P QR+KKLQQ+I+E++ I++E+ +R+GL+KMKGVYE NP LGDP +EGQL+E +L+
Sbjct: 1 PEQRRKKLQQKIDELEKEIEKETKSRDGLMKMKGVYEQNPQLGDPASVEGQLAEYAKKLD 60
Query: 449 KLRGELQKYQTYMEESE 465
KLR ELQKYQ Y+ E+E
Sbjct: 61 KLREELQKYQGYLAEAE 77
>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 = 96.9 bits (242), Expect = 1e-24
Identities = 31/55 (56%), Positives = 42/55 (76%), Gaps = 1/55 (1%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
T ALY F+ TSEG++ M +GE L ++E D GDGWTRVR+ + +EG+VPTSYI+
Sbjct: 1 TCTALYDFDGTSEGTLSMEEGEILLVLEEDGGDGWTRVRKN-NGDEGYVPTSYIE 54
>gnl|CDD|212018 cd11628, HR1_CIP4_FNBP1L, Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of vertebrate
Cdc42-Interacting Protein 4 and FormiN Binding Protein
1-Like. CIP4 and FNBP1L are Cdc42 effectors that bind
Wiskott-Aldrich syndrome protein (WASP) and function in
endocytosis. FNBP1L, also called Toca-1 (Transducer of
Cdc42-dependent actin assembly 1), forms a complex with
neural WASP; the complex induces the formation of
filopodia and endocytic vesicles. FNBP1L is required for
Cdc42-induced actin assembly and is essential for
autophagy of intracellular pathogens. 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. CIP4
and FNBP1L contain an N-terminal F-BAR domain, a central
HR1 domain, and a C-terminal SH3 domain. HR1 domains are
anti-parallel coiled-coil (ACC) domains that bind small
GTPases from the Rho family; the HR1 domain of CIP4
binds Cdc42 and TC10. Translocation of CIP4 is
facilitated by its binding to TC10 at the plasma
membrane.
Length = 81
Score = 88.0 bits (218), Expect = 3e-21
Identities = 38/78 (48%), Positives = 58/78 (74%)
Query: 388 PPSQRKKKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRL 447
PP QR+K+LQQ+I+E+ +Q+E E L+KMK VYE NP +GDP ++ Q++ET S +
Sbjct: 1 PPEQRRKRLQQKIDELSRELQKEMDQSEALMKMKDVYEKNPQMGDPASLQPQIAETASNI 60
Query: 448 EKLRGELQKYQTYMEESE 465
++LRGEL KY+ ++ E+E
Sbjct: 61 DRLRGELHKYEAWLAEAE 78
>gnl|CDD|213004 cd12071, SH3_FBP17, Src Homology 3 domain of Formin Binding Protein
17. Formin Binding Protein 17 (FBP17), also called
FormiN Binding Protein 1 (FNBP1), is involved in
dynamin-mediated endocytosis. It is recruited to
clathrin-coated pits late in the endocytosis process and
may play a role in the invagination and scission steps.
FBP17 binds in vivo to tankyrase, a protein involved in
telomere maintenance and mitogen activated protein
kinase (MAPK) signaling. It contains an N-terminal F-BAR
(FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain, a
Cdc42-binding HR1 domain, and a C-terminal SH3 domain.
The SH3 domain of the related protein, 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 = 57
Score = 81.6 bits (201), Expect = 3e-19
Identities = 37/56 (66%), Positives = 46/56 (82%), Gaps = 1/56 (1%)
Query: 587 GTAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
GT KALYPFE +EG+I + +GE LY+IE D+GDGWTR+RR D EEG+VPTSYI+
Sbjct: 1 GTCKALYPFEGQNEGTISVAEGEMLYVIEEDKGDGWTRIRRNED-EEGYVPTSYIE 55
>gnl|CDD|213005 cd12072, SH3_FNBP1L, Src Homology 3 domain of Formin Binding
Protein 1-Like. FormiN Binding Protein 1-Like (FNBP1L),
also known as Toca-1 (Transducer of Cdc42-dependent
actin assembly), forms a complex with neural
Wiskott-Aldrich syndrome protein (N-WASP). The
FNBP1L/N-WASP complex induces the formation of filopodia
and endocytic vesicles. FNBP1L is required for
Cdc42-induced actin assembly and is essential for
autophagy of intracellular pathogens. It contains an
N-terminal F-BAR domain, a central Cdc42-binding HR1
domain, and a C-terminal SH3 domain. The SH3 domain of
the related protein, 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 = 57
Score = 77.3 bits (190), Expect = 8e-18
Identities = 35/56 (62%), Positives = 46/56 (82%), Gaps = 1/56 (1%)
Query: 587 GTAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
G KALYPF+ ++EG++ M +GE LYIIE D+GDGWTR R+Q + EEG+VPTSYI+
Sbjct: 1 GHCKALYPFDGSNEGTLAMKEGEVLYIIEEDKGDGWTRARKQ-NGEEGYVPTSYIE 55
>gnl|CDD|153294 cd07610, FCH_F-BAR, The Extended FES-CIP4 Homology (FCH) or F-BAR
(FCH and Bin/Amphiphysin/Rvs) domain, a dimerization
module that binds and bends membranes. F-BAR domains
are dimerization modules that bind and bend membranes
and are found in proteins involved in membrane dynamics
and actin reorganization. F-BAR domain containing
proteins, also known as Pombe Cdc15 homology (PCH)
family proteins, include Fes and Fer tyrosine kinases,
PACSINs/Syndapins, FCHO, PSTPIP, CIP4-like proteins and
srGAPs. Many members also contain an SH3 domain and play
roles in endocytosis. 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.
These tubules have diameters larger than those observed
with N-BARs. The F-BAR domains of some members such as
NOSTRIN and Rgd1 are important for the subcellular
localization of the protein.
Length = 191
Score = 78.2 bits (193), Expect = 1e-16
Identities = 48/195 (24%), Positives = 91/195 (46%), Gaps = 11/195 (5%)
Query: 5 QYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKA 64
++ L T+ G+D L+ F++ R AIE EYA L++L K + K E T +
Sbjct: 1 GFELLEKRTELGLDLLKDLREFLKKRAAIEEEYAKNLQKLAKKFSKKPESGKTSLGT--S 58
Query: 65 FKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVI 124
+ + +E A HE ++E L I + + +D ++ RKK L +G ++ L+
Sbjct: 59 WNSLREETESAATVHEELSEKLSQLIREPLEKVKEDKEQARKKELAEGEKLKKKLQELWA 118
Query: 125 ALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALK 184
L K D+ YRE + L + + +L++ + Q + +++ L+ LK
Sbjct: 119 KLA---KKADEEYREQVEKLNPAQSEYEEEKLNKIQAEQ------EREEERLEILKDNLK 169
Query: 185 NYEKAFRDADKALEH 199
NY A ++ + ++
Sbjct: 170 NYINAIKEIPQKIQQ 184
>gnl|CDD|216021 pfam00611, FCH, Fes/CIP4, and EFC/F-BAR homology domain.
Alignment extended from. Highly alpha-helical. The
cytosolic endocytic adaptor proteins in fungi carry
this domain at the N-terminus; several of these have
been referred to as muniscin proteins. These N-terminal
BAR, N-BAR, and EFC/F-BAR domains are found in proteins
that regulate membrane trafficking events by inducing
membrane tubulation. The domain dimerises into a curved
structure that binds to liposomes and either senses or
induces the curvature of the membrane bilayer to cause
biophysical changes to the shape of the bilayer; it
also thereby recruits other trafficking factors, such
as the GTPase dynamin. Most EFC/F-BAR domain-family
members localise to actin-rich structures.
Length = 91
Score = 73.5 bits (181), Expect = 4e-16
Identities = 36/83 (43%), Positives = 46/83 (55%)
Query: 4 DQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCK 63
D + L ++GI LE+ F+R+R IE EYA KLR+L K Y KKE S K
Sbjct: 9 DGFKVLLKRLKQGIKLLEELAKFLRERAEIEKEYAKKLRKLAKKYLKKKEGSSEYGSLSK 68
Query: 64 AFKCVLDEVTDLAGQHEVIAENL 86
A+ +L E LA QH +AENL
Sbjct: 69 AWDTLLSETEKLAKQHLKLAENL 91
>gnl|CDD|212019 cd11629, HR1_FBP17, Protein kinase C-related kinase homology region
1 (HR1) Rho-binding domain of Formin Binding Protein 17.
FBP17, also called FormiN Binding Protein 1 (FNBP1), is
involved in dynamin-mediated endocytosis. It is
recruited to clathrin-coated pits late in the
endocytosis process and may play a role in the
invagination and scission steps. FBP17 binds in vivo to
tankyrase, a protein involved in telomere maintenance
and mitogen activated protein kinase (MAPK) signaling.
It also binds to the Fas ligand and may be implicated in
the inflammatory response. FBP17 contains an N-terminal
F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs)
domain, central HR1 domain, and a C-terminal SH3 domain.
HR1 domains are anti-parallel coiled-coil (ACC) domains
that bind small GTPases from the Rho family; the HR1
domain of the related protein, CIP4, binds Cdc42 and
TC10. Translocation of CIP4 is facilitated by its
binding to TC10 at the plasma membrane.
Length = 77
Score = 73.1 bits (179), Expect = 5e-16
Identities = 35/77 (45%), Positives = 52/77 (67%)
Query: 389 PSQRKKKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLE 448
P QR+KKLQQ+++E+ IQ+E R+ L KMK VY NP +GDP ++ +L E +E
Sbjct: 1 PEQRRKKLQQKVDELNKDIQKEMDQRDALTKMKDVYIKNPQMGDPASVDHRLEEITQNIE 60
Query: 449 KLRGELQKYQTYMEESE 465
KLR E+QK++ ++ E E
Sbjct: 61 KLRVEVQKFEGWLAEVE 77
>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 = 67.2 bits (165), Expect = 2e-14
Identities = 26/56 (46%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
TAK LY + A+ + + + +GEE+ ++E D G GWT+V R EEG VPTSYI+
Sbjct: 1 TAKVLYDYTASGDDEVSISEGEEVTVLEPDDGSGWTKV-RNGSGEEGLVPTSYIEI 55
>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 = 67.2 bits (164), Expect = 3e-14
Identities = 34/53 (64%), Positives = 43/53 (81%), Gaps = 1/53 (1%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
KALY F +SEG+I M +GE+L ++E D+GDGWTRVRR T EEG+VPTSYI+
Sbjct: 3 KALYAFVGSSEGTISMTEGEKLSLVEEDKGDGWTRVRRDT-GEEGYVPTSYIR 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 = 56.0 bits (136), Expect = 2e-10
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 585 PLGTAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
+ALY + A + G+ + ++E DGW + R +EG P++Y++
Sbjct: 1 EGPQVRALYDYTAQDPDELSFKKGDIITVLE-KSDDGWWKGRLG-RGKEGLFPSNYVE 56
>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 = 54.7 bits (132), Expect = 7e-10
Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 586 LGTAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
T K LY +EA + + +GEEL +IE GDGW + R ++ E G+VP +Y+Q
Sbjct: 1 PVTCKVLYSYEAQRPDELTITEGEELEVIEDGDGDGWVKARNKS-GEVGYVPENYLQ 56
>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 = 51.6 bits (124), Expect = 8e-09
Identities = 16/55 (29%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
T KALY F + + + + +YI++ + +GW ++ +S+EG+VP +Y++
Sbjct: 1 TYKALYDFAGSVANELSLKKDDIVYIVQ-KEDNGWWLAKKLDESKEGWVPAAYLE 54
>gnl|CDD|212008 cd00089, HR1, Protein kinase C-related kinase homology region 1
(HR1) domain that binds Rho family small GTPases. The
HR1 domain, also called the ACC (anti-parallel
coiled-coil) finger domain or Rho-binding domain binds
small GTPases from the Rho family. It is found in Rho
effector proteins including PKC-related kinases such as
vertebrate PRK1 (or PKN) and yeast PKC1 protein kinases
C, as well as in rhophilins and Rho-associated kinase
(ROCK). Rho family members function as molecular
switches, cycling between inactive and active forms,
controlling a variety of cellular processes. HR1 domains
may occur in repeat arrangements (PKN contains three HR1
domains), separated by a short linker region.
Length = 68
Score = 50.8 bits (122), Expect = 2e-08
Identities = 18/66 (27%), Positives = 37/66 (56%)
Query: 394 KKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKLRGE 453
KLQQR+EE++ +++E REG + +Y + D ++ L E+ +++ L+ +
Sbjct: 1 SKLQQRLEELRRKLEKELKIREGAENLLKLYSNPKVKKDLAEVQLNLKESKEKIDLLKRQ 60
Query: 454 LQKYQT 459
L++Y
Sbjct: 61 LERYNA 66
>gnl|CDD|214492 smart00055, FCH, Fes/CIP4 homology domain. Alignment extended
from original report. Highly alpha-helical. Also known
as the RAEYL motif or the S. pombe Cdc15 N-terminal
domain.
Length = 87
Score = 50.0 bits (120), Expect = 8e-08
Identities = 27/78 (34%), Positives = 41/78 (52%)
Query: 3 QDQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTC 62
D ++ L + G+ LE F+R+R IE EYA KL++L K + ++ E S
Sbjct: 8 DDGFEALLSRLKNGLRLLEDLKKFMRERAKIEEEYAKKLQKLSKKLRAVRDTEPEYGSLS 67
Query: 63 KAFKCVLDEVTDLAGQHE 80
KA++ +L E LA QH
Sbjct: 68 KAWEVLLSETDALAKQHL 85
>gnl|CDD|153339 cd07655, F-BAR_PACSIN, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins.
F-BAR domains are dimerization modules that bind and
bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization. Protein
kinase C and Casein kinase Substrate in Neurons (PACSIN)
proteins, 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. 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.
Length = 258
Score = 53.1 bits (128), Expect = 1e-07
Identities = 55/246 (22%), Positives = 94/246 (38%), Gaps = 52/246 (21%)
Query: 26 FIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCK-AFKCVLDEVTDLAGQHEVIAE 84
+++R IE YA KL+ K ++ E+ +Y T + A+K +L E L+ H I +
Sbjct: 27 MVQERAEIEKAYAKKLKEWAKKWR-DLIEKGPEYGTLETAWKGLLSEAERLSELHLSIRD 85
Query: 85 NLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVI--ALERARKNYDKAYRESDK 142
L +++E VK +++E M E + +A+K + K ++ +K
Sbjct: 86 KLLNDVVEE----VKTWQKENYHKSM----MGGFKETKEAEDGFAKAQKPWAKLLKKVEK 137
Query: 143 ALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKR 202
A K A + A K A D + + K+
Sbjct: 138 A-------------------------KKAYHAACKAEKSAQKQENNAKSDTSLSPDQVKK 172
Query: 203 ADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQ 262
+E + EV K TK +Y L+ N+ Y + M +VF + Q
Sbjct: 173 LQDKVEKCKQEVSK--------------TKDKYEKALEDLNKYN-PRYMEDMEQVFDKCQ 217
Query: 263 ELDEKR 268
E +EKR
Sbjct: 218 EFEEKR 223
>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 = 48.3 bits (116), Expect = 1e-07
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPT 638
ALY + A + G+ + ++E DGW + R + +EG +P+
Sbjct: 1 VALYDYTAREPDELSFKKGDIIIVLE-KSDDGWWKGRLK-GGKEGLIPS 47
>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 = 48.2 bits (116), Expect = 1e-07
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSY 640
A+ALY +EA + + G+ + ++E DGW EG P +Y
Sbjct: 1 YARALYDYEAQDDDELSFKKGDIITVLE-KDDDGWWEGELN-GGREGLFPANY 51
>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 = 44.6 bits (106), Expect = 2e-06
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
K LY F+A S+ + + +G+ +YI++ + W V + +EG VP SYI+
Sbjct: 2 RGKVLYDFDAQSDDELTVKEGDVVYILDDKKSKDWWMVENVSTGKEGVVPASYIEI 57
>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 = 43.5 bits (103), Expect = 6e-06
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
+ALY F++ ++ +GE ++E W E G+VP +Y++
Sbjct: 3 RALYDFKSAEPNTLSFSEGETFLLLERSNAHWWLVTNH--SGETGYVPANYVK 53
>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 = 43.5 bits (103), Expect = 7e-06
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
+ALY F++ G + + GE L I D GDGW R + E G P+SY++
Sbjct: 2 VRALYDFDSQPSGELSLRAGEVLTITRQDVGDGWLE-GRNSRGEVGLFPSSYVEI 55
>gnl|CDD|153331 cd07647, F-BAR_PSTPIP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Vetebrates contain two
Proline-Serine-Threonine Phosphatase-Interacting
Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are
mainly expressed in hematopoietic cells and are involved
in the regulation of cell adhesion and motility.
Mutations in PSTPIPs have been shown to cause
autoinflammatory disorders. PSTPIP1 contains an
N-terminal F-BAR domain, PEST motifs, and a C-terminal
SH3 domain, while PSTPIP2 contains only the N-terminal
F-BAR 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.
Length = 239
Score = 47.1 bits (112), Expect = 8e-06
Identities = 37/145 (25%), Positives = 67/145 (46%), Gaps = 7/145 (4%)
Query: 6 YDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCK-A 64
+D L ++G ++ F++ R E +Y L +L K+ P E T K +
Sbjct: 7 FDTLLQRLKEGKKMCKELEDFLKQRAKAEEDYGKALLKLSKSAGPGDE-----IGTLKSS 61
Query: 65 FKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVI 124
+ + E ++A H +A++L+ K + F + KEERKK R +
Sbjct: 62 WDSLRKETENVANAHIQLAQSLREEAEK-LEEFREKQKEERKKTEDIMKRSQKNKKELYK 120
Query: 125 ALERARKNYDKAYRESDKALEHYKR 149
+A+K+Y++ RE DKA + Y++
Sbjct: 121 KTMKAKKSYEQKCREKDKAEQAYEK 145
>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 = 42.3 bits (100), Expect = 2e-05
Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
ALY F+ G +P+ GEE +++ D + W R R + + EG++P++Y+
Sbjct: 4 ALYDFQPIEPGDLPLEKGEEYVVLD-DSNEHWWRARDK-NGNEGYIPSNYVT 53
>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 = 42.2 bits (100), Expect = 2e-05
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSY 640
ALY +EA ++ + G+ L I++ GD W R + +EG++P++Y
Sbjct: 4 ALYDYEARTDDDLSFKKGDRLQILDDSDGD-WWLARHLSTGKEGYIPSNY 52
>gnl|CDD|153338 cd07654, F-BAR_FCHSD, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH and double SH3
domains proteins (FCHSD). F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. This subfamily is composed of FCH
and double SH3 domain (FCHSD) proteins, so named as they
contain an N-terminal F-BAR domain and two SH3 domains
at the C-terminus. Vertebrates harbor two subfamily
members, FCHSD1 and FCHSD2, which have been
characterized only in silico. Their biological function
is still unknown. 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.
Length = 264
Score = 46.0 bits (109), Expect = 3e-05
Identities = 43/226 (19%), Positives = 83/226 (36%), Gaps = 31/226 (13%)
Query: 1 VFQDQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQ-------PKKE 53
+Q L Q D LE + + + AIE EY L++L + + +
Sbjct: 2 RHLEQLSKLQAKHQTECDLLEDIRTYSQKKAAIEREYGQALQKLASQFLKREWPGSGELK 61
Query: 54 EEDYQ--YSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQD 111
ED + Y+ A+ LD V A + E + +I + K + +++ L+
Sbjct: 62 PEDDRSGYTVWGAWLEGLDAV---AQSRQNRCEAYRRYISEP----AKTGRSAKEQQLKK 114
Query: 112 GARMMNLLENQVIA----LERARKNYDKAYRESDKALEHYKRADADLELSRAEH------ 161
+ + +V L ++RK Y + + + A E K AD +R++
Sbjct: 115 CTEQLQRAQAEVQQTVRELSKSRKTYFEREQVAHLARE--KAADVQAREARSDLSIFQSR 172
Query: 162 --LQDGDHLMKILRNQVDALERALKN-YEKAFRDADKALEHYKRAD 204
LQ + + + + A +N Y + + Y + D
Sbjct: 173 TSLQKASVKLSARKAECSSKATAARNDYLLNLAATNAHQDRYYQTD 218
>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 = 41.1 bits (97), Expect = 4e-05
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
A+ +EA + I + +GE + ++E GW VR +EG+VP SY+
Sbjct: 4 AIADYEAQGDDEISLQEGEVVEVLE-KNDSGWWYVR--KGDKEGWVPASYL 51
>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 = 41.1 bits (97), Expect = 4e-05
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A Y F SE +P G+ L I+ + + W + + + D EG +P +Y+Q
Sbjct: 6 AKYNFNGASEEDLPFKKGDILTIVAVTKDPNWYKAKNK-DGREGMIPANYVQ 56
>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 = 41.0 bits (96), Expect = 5e-05
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 4/52 (7%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDG-WTRVRRQTDSEEGFVPTSYI 641
A Y F ++E + + GE+L ++ + DG W + T +EG++P++Y+
Sbjct: 4 AQYDFVPSNERDLQLKKGEKLQVL---KSDGEWWLAKSLTTGKEGYIPSNYV 52
>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 = 40.4 bits (94), Expect = 8e-05
Identities = 19/51 (37%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
ALYP++ E + GE+L +IE + G+ W + R T +EGF+P++Y+
Sbjct: 4 ALYPYDGIHEDDLSFKKGEKLKVIE-EHGE-WWKARSLTTKKEGFIPSNYV 52
>gnl|CDD|153333 cd07649, F-BAR_GAS7, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Growth Arrest Specific
protein 7. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
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. 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.
Length = 233
Score = 44.2 bits (104), Expect = 9e-05
Identities = 44/161 (27%), Positives = 78/161 (48%), Gaps = 9/161 (5%)
Query: 15 KGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKAFKCVLDEVTD 74
KG ++ FIR+R IE EYA L +L ++ +EE + + K + DE
Sbjct: 16 KGKQMQKEMAEFIRERIKIEEEYAKNLSKLSQSSLAAQEEGTLGEAWAQVKKSLADE--- 72
Query: 75 LAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVIALERARKNYD 134
A H + LQ + K + F ++FK++ KK A + L ++ A+E+ARK
Sbjct: 73 -AEVHLKFSSKLQSEVEKPLLNFRENFKKDMKKLDHHIADLRKQLASRYAAVEKARKALL 131
Query: 135 KAYRESD---KALEHYK--RADADLELSRAEHLQDGDHLMK 170
+ ++ + + LE + + D++ +R + Q GD LM+
Sbjct: 132 ERQKDLEGKTQQLEIKLSNKTEEDIKKARRKSTQAGDDLMR 172
>gnl|CDD|153336 cd07652, F-BAR_Rgd1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Saccharomyces cerevisiae
Rho GTPase activating protein Rgd1 and similar proteins.
F-BAR domains are dimerization modules that bind and
bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization.
Saccharomyces cerevisiae Rgd1 is a GTPase activating
protein (GAP) with activity towards Rho3p and Rho4p,
which are involved in bud growth and cytokinesis,
respectively. At low pH, S. cerevisiae Rgd1 is required
for cell survival and the activation of the protein
kinase C pathway, which is important in cell integrity
and the maintenance of cell shape. It contains an
N-terminal F-BAR domain and a C-terminal Rho GAP domain.
The F-BAR domain of S. cerevisiae Rgd1 binds to
phosphoinositides and plays an important role in the
localization of the protein to the bud tip/neck during
the cell cycle. 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.
Length = 234
Score = 43.9 bits (104), Expect = 1e-04
Identities = 28/127 (22%), Positives = 51/127 (40%), Gaps = 16/127 (12%)
Query: 26 FIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKA--FKCVLDEVTDLAGQHEVIA 83
F++ R AIE E+A L++L + + Y+ K F HE +A
Sbjct: 27 FLKKRAAIEEEHARGLKKLARTTL-----DTYKRPDHKQGSFSNAYHSS---LEFHEKLA 78
Query: 84 ENLQVFIIK------EVTIFVKDFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAY 137
+N F E++ K ++ RK + G R +++ A E+A+ YD
Sbjct: 79 DNGLRFAKALNEMSDELSSLAKTVEKSRKSIKETGKRAEKKVQDAEAAAEKAKARYDSLA 138
Query: 138 RESDKAL 144
+ ++
Sbjct: 139 DDLERVK 145
>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 = 39.3 bits (92), Expect = 2e-04
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
LY + A + + + G+ + +IE + DGW V R + ++G VP +Y++
Sbjct: 2 YSVLYDYTAQEDDELSISKGDVVAVIEKGE-DGWWTVER--NGQKGLVPGTYLE 52
>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 = 38.9 bits (90), Expect = 3e-04
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
ALY +EA +E + + GE+ I+ +GD W R T E G++P++Y+
Sbjct: 5 ALYDYEARTEDDLSFHKGEKFQILNSSEGD-WWEARSLTTGETGYIPSNYV 54
>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 = 37.8 bits (88), Expect = 6e-04
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQT----DSEEGFVPTSY 640
KALY +E +E + + + + LY++E D W + D G VP +Y
Sbjct: 2 YKALYDYEPQTEDELTIQEDDILYLLEKSDDDWWKVKLKVNSSDDDEPVGLVPATY 57
>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 = 37.7 bits (88), Expect = 8e-04
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYIQ 642
ALYPF ++ + GE L IIE + D W + R G VP +Y++
Sbjct: 4 ALYPFTGENDEELSFEKGERLEIIEKPEDDPDWWKARNA-LGTTGLVPRNYVE 55
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 42.4 bits (100), Expect = 8e-04
Identities = 39/231 (16%), Positives = 86/231 (37%), Gaps = 28/231 (12%)
Query: 71 EVTDLAGQHEVIAENLQVFIIKEVTI-FVKDFKEERKKHLQDGARMMNLLENQVIALERA 129
E+ L + E + E L+ + + + EE + L++ + L+ ++ LE
Sbjct: 731 ELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEE---ALAKLKEEIEELEEK 787
Query: 130 RKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHL----------MKILRNQVDAL 179
R+ + E ++ LE +R LE Q + L ++ L ++D L
Sbjct: 788 RQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDEL 847
Query: 180 ERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQL 239
E L+ EK + + LE + +LE E+E+++ + + + E E ++
Sbjct: 848 EEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEI 907
Query: 240 QRANEMQRQH--------------YTQAMPEVFAQLQELDEKRVRNIRNFM 276
++ E + + E L+ E+ + + +
Sbjct: 908 EKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEI 958
Score = 41.6 bits (98), Expect = 0.001
Identities = 31/171 (18%), Positives = 70/171 (40%), Gaps = 4/171 (2%)
Query: 103 EERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHL 162
EE K+ ++ + E + LE+ ++A E ++ L +L + E L
Sbjct: 326 EELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREEL 385
Query: 163 QDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMA 222
+ + + +RN+++ L+R +++ E+ + LE K +LE E++ + +
Sbjct: 386 AELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELN 445
Query: 223 IKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIR 273
+ + E+ E ++L+ + E+ +EL R R
Sbjct: 446 EELEELEEQLEELRDRLKELER----ELAELQEELQRLEKELSSLEARLDR 492
Score = 30.8 bits (70), Expect = 2.5
Identities = 33/207 (15%), Positives = 78/207 (37%), Gaps = 18/207 (8%)
Query: 118 LLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVD 177
+ ++ LE + + ++ L+ K LE E LR Q++
Sbjct: 664 AQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEE-----------LRRQLE 712
Query: 178 ALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYAN 237
LER L+ ++ ++ LE + +LE E+E++ + + + E+
Sbjct: 713 ELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEE 772
Query: 238 QLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSANIEKKVFPI------IN 291
L + + + + + + +L+EL+E+ R +E I
Sbjct: 773 ALAK-LKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIE 831
Query: 292 QCLDGIIKAADQINEKEDSALVIERYK 318
+ + I + ++++E E+ +E+
Sbjct: 832 ELEEEIEELEEKLDELEEELEELEKEL 858
>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 = 40.8 bits (96), Expect = 0.001
Identities = 59/278 (21%), Positives = 108/278 (38%), Gaps = 51/278 (18%)
Query: 6 YDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKAF 65
++ L + ++G DF ++ +++R +E+ YA L +L K + + A+
Sbjct: 7 FEELRRYVKQGGDFCKELATVLQERAELELNYAKGLSKLSGKLS--KASKSVSGTLSSAW 64
Query: 66 KCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVIA 125
CV +E+ A H + L IK + + + + RK +EN+V
Sbjct: 65 TCVAEEMESEADIHRNLGSALTEEAIKPLRQVLDEQHKTRKP-----------VENEV-- 111
Query: 126 LERARKNYDKAYRE-SDKALEHYKRADADLELSRA-EHLQDGDHLMKILRNQVDALERAL 183
DKA + +D E K L+R E LQD K + L +
Sbjct: 112 --------DKAAKLLTDWRSEQIKVKKKLHGLARENEKLQDQVEDNKQSCTKQKMLNKLK 163
Query: 184 KNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRAN 243
K+ E ++ +K LE R + E+ R+ + EY R
Sbjct: 164 KSAEVQDKEDEK-----------LEAKRKKGEESRL----------KAENEYYTCCVRL- 201
Query: 244 EMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSAN 281
E R + A+ + Q + L+E+R+++ + HS +
Sbjct: 202 ERLRLEWESALRKGLNQYESLEEERLQH----LKHSLS 235
>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 = 36.9 bits (86), Expect = 0.001
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSY 640
+ALY + A + G + G+ ++I + W + G VP SY
Sbjct: 3 RALYDYRAQTPGELSFSKGDFFHVIGEEDQGEWYEATNPVTGKRGLVPKSY 53
>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 = 41.2 bits (97), Expect = 0.002
Identities = 30/213 (14%), Positives = 72/213 (33%), Gaps = 11/213 (5%)
Query: 64 AFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQV 123
E+ +L Q E + E L+ + + + + + + + LE ++
Sbjct: 776 ELAEAEAEIEELEAQIEQLKEELKA-LREALDELRAELTLLNE-EAANLRERLESLERRI 833
Query: 124 IALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERAL 183
A ER ++ ++ E + +E +LE E + + L+ + +AL
Sbjct: 834 AATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLR 893
Query: 184 KNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRAN 243
E+ + + +LE R ++ + E + N +R +
Sbjct: 894 SELEELSEELRELESKRSELRRELEELREKLAQLE-------LRLEGLEVRIDNLQERLS 946
Query: 244 EMQRQHYTQAMPEVFAQLQELD--EKRVRNIRN 274
E +A + + +R++ + N
Sbjct: 947 EEYSLTLEEAEALENKIEDDEEEARRRLKRLEN 979
Score = 31.6 bits (72), Expect = 1.9
Identities = 38/176 (21%), Positives = 72/176 (40%), Gaps = 16/176 (9%)
Query: 98 VKDFKEERKKHLQDGARM-MNLLENQVIALERARKNYDKAYRESDKALEHYKRADADL-E 155
+ +KE RK+ + R NL + I E + R+++KA E YK A+L E
Sbjct: 167 ISKYKERRKETERKLERTRENLDRLEDILNEL-ERQLKSLERQAEKA-ERYKELKAELRE 224
Query: 156 LSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVE 215
L A + ++ LR +++ L+ LK E+ + L+ + +L L +E+E
Sbjct: 225 LELALLVLR----LEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELE 280
Query: 216 KQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRN 271
++ + E Q+Q + + + QL+EL+ +
Sbjct: 281 EE--------IEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEEL 328
>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 = 36.7 bits (85), Expect = 0.002
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSY 640
+ALY +EA + I + G+ + +I D G GWT + + +G PTSY
Sbjct: 1 YVEALYDYEAQGDDEISIRVGDRIAVIRGDDGSGWT--YGEINGVKGLFPTSY 51
>gnl|CDD|153280 cd07596, BAR_SNX, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexins. BAR domains are dimerization, lipid binding and
curvature sensing modules found in many different
proteins with diverse functions. 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. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 218
Score = 39.6 bits (93), Expect = 0.002
Identities = 38/197 (19%), Positives = 70/197 (35%), Gaps = 23/197 (11%)
Query: 104 ERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADL---ELSRAE 160
E + ++ + LE Q+ L + + K RE AL + +A L E
Sbjct: 1 EEDQEFEEAKDYILKLEEQLKKLSKQAQRLVKRRRELGSALGEFGKALIKLAKCEEEVGG 60
Query: 161 HLQD-----GDHLMKI-------LRNQVDALERALKNYEK-------AFRDADKALEHYK 201
L + G ++ ++ L LK Y + D AL +
Sbjct: 61 ELGEALSKLGKAAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQ 120
Query: 202 RADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQL 261
DL +A++EK + IK E+ + E E R+ Y + + +L
Sbjct: 121 SLKKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESALEEA-RKRYEEISERLKEEL 179
Query: 262 QELDEKRVRNIRNFMVH 278
+ E+R R+++ +
Sbjct: 180 KRFHEERARDLKAALKE 196
>gnl|CDD|212784 cd11850, SH3_Abl, Src homology 3 domain of the Protein Tyrosine
Kinase, Abelson kinase. Abl (or c-Abl) is a
ubiquitously-expressed cytoplasmic (or nonreceptor) PTK
that contains SH3, SH2, and tyr kinase domains in its
N-terminal region, as well as nuclear localization
motifs, a putative DNA-binding domain, and F- and
G-actin binding domains in its C-terminal tail. It also
contains a short autoinhibitory cap region in its
N-terminus. Abl function depends on its subcellular
localization. In the cytoplasm, Abl plays a role in cell
proliferation and survival. In response to DNA damage or
oxidative stress, Abl is transported to the nucleus
where it induces apoptosis. In chronic myelogenous
leukemia (CML) patients, an aberrant translocation
results in the replacement of the first exon of Abl with
the BCR (breakpoint cluster region) gene. The resulting
BCR-Abl fusion protein is constitutively active and
associates into tetramers, resulting in a hyperactive
kinase sending a continuous signal. This leads to
uncontrolled proliferation, morphological transformation
and anti-apoptotic effects. BCR-Abl is the target of
selective inhibitors, such as imatinib (Gleevec), used
in the treatment of CML. Abl2, also known as ARG
(Abelson-related gene), is thought to play a cooperative
role with Abl in the proper development of the nervous
system. The Tel-ARG fusion protein, resulting from
reciprocal translocation between chromosomes 1 and 12,
is associated with acute myeloid leukemia (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 = 56
Score = 36.2 bits (84), Expect = 0.002
Identities = 15/53 (28%), Positives = 29/53 (54%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
ALY F A+ E + + GE+L ++ ++ W ++ +G+VP++YI
Sbjct: 4 ALYDFVASGENQLSIKKGEQLRVLGYNKNGEWCEAESKSTGGQGWVPSNYITP 56
>gnl|CDD|153362 cd07678, F-BAR_FCHSD1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH and double SH3
domains 1 (FCHSD1). F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. FCH and double SH3 domains 1 (FCHSD1)
contains an N-terminal F-BAR domain and two SH3 domains
at the C-terminus. It has been characterized only in
silico, and its biological function is still unknown.
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.
Length = 263
Score = 39.2 bits (91), Expect = 0.005
Identities = 41/166 (24%), Positives = 65/166 (39%), Gaps = 9/166 (5%)
Query: 2 FQDQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNY-----QPKKEEED 56
F +Q L Q+ + LE + + R AIE EY L+RL + E +
Sbjct: 3 FLEQLSILQTKQQRDAELLEDIRSYSKQRAAIEREYGQALQRLASQFLKRDWHRGGNETE 62
Query: 57 YQYSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEER-KKHLQDGARM 115
S + E T GQ V + E + KE+ KK + +
Sbjct: 63 MDRSVRTVWGAWR-EGTAATGQGRVTRLEAYRRLRDEAGKTGRSAKEQVLKKSTEQLQKA 121
Query: 116 MNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEH 161
L V L +++K Y + R S+ A E K AD + L++++H
Sbjct: 122 QAELLETVKELSKSKKLYGQLERVSEVAKE--KAADVEARLNKSDH 165
>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 = 35.0 bits (81), Expect = 0.005
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
A A + F+AT+E + G L ++ ++ W + + D +EG +P +YI
Sbjct: 2 AVAKHDFKATAEDELSFKKGSILKVLNMEDDPNWYKA--ELDGKEGLIPKNYI 52
>gnl|CDD|216921 pfam02185, HR1, Hr1 repeat.
Length = 60
Score = 35.2 bits (82), Expect = 0.006
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 399 RIEEIQHSIQQESAAREGLIKMKGVYE-DNPNLGDPHMIEGQLSETDSRLEKLRGELQKY 457
R+E+++ I++E +EG M E DN + E +L E++ ++E L+ +L+K
Sbjct: 1 RLEQLRKKIEKELKIKEGAENMLRALETDNKKVLQE--AESELRESNQKIELLKEQLEKL 58
Query: 458 Q 458
Q
Sbjct: 59 Q 59
>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 = 34.7 bits (79), Expect = 0.009
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
ALY +E+ +E + GE L I+ +GD W T + G++P++Y+
Sbjct: 4 ALYDYESRTETDLSFKKGERLQIVNNTEGDWWL-AHSLTTGQTGYIPSNYV 53
>gnl|CDD|212780 cd11846, SH3_Srms, Src homology 3 domain of Srms Protein Tyrosine
Kinase. Src-related kinase lacking C-terminal
regulatory tyrosine and N-terminal myristoylation sites
(Srms) is a cytoplasmic (or non-receptor) PTK with
limited homology to Src kinases. 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, Srms 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. 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 = 55
Score = 34.4 bits (79), Expect = 0.010
Identities = 20/52 (38%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDS-EEGFVPTSYI 641
ALY F A S + + G++L +IE ++GD + R+ T + E G VP SY+
Sbjct: 4 ALYDFTARSTHELSVEQGDKLCVIE-EEGD-YIFARKLTGNPESGLVPASYV 53
>gnl|CDD|212944 cd12011, SH3_SLAP2, Src homology 3 domain of Src-Like Adaptor
Protein 2. SLAP2 plays a role in c-Cbl-dependent
regulation of CSF1R, a tyrosine kinase important for
myeloid cell growth and differentiation. It has been
shown to interact with CSF1R, c-Cbl, LAT, CD247, and
Zap70. SLAPs are adaptor proteins with limited
similarity to Src family tyrosine kinases. They contain
an N-terminal SH3 domain followed by an SH2 domain, and
a unique C-terminal sequence. They function in
regulating the signaling, ubiquitination, and
trafficking of T-cell receptor (TCR) and B-cell receptor
(BCR) components. The SH3 domain of SLAP forms a complex
with v-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 = 55
Score = 34.3 bits (79), Expect = 0.011
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
A AL F + + + GE+L I+ + GD W +V E ++P++Y+
Sbjct: 1 VAVALCNFPSGGPTELSIRMGEQLTILS-EDGD-WWKVSSAVTGRECYIPSNYV 52
>gnl|CDD|153361 cd07677, F-BAR_FCHSD2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH and double SH3
domains 2 (FCHSD2). F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. FCH and double SH3 domains 2 (FCHSD2)
contains an N-terminal F-BAR domain and two SH3 domains
at the C-terminus. It has been characterized only in
silico, and its biological function is still unknown.
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.
Length = 260
Score = 37.8 bits (87), Expect = 0.012
Identities = 40/160 (25%), Positives = 64/160 (40%), Gaps = 13/160 (8%)
Query: 3 QDQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQ------PKKEEED 56
+Q L Q LE F + AIE EYA K ++L Y K +E
Sbjct: 4 VEQMTKLQAKHQAECKLLEDEREFSQKIAAIESEYAQKEQKLASQYLKSDWRGMKADERA 63
Query: 57 YQYSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEER-KKHLQDGARM 115
S +K L+ +A I EN + I E V+ +KE++ K+ + ++
Sbjct: 64 DYRSMYTVWKSFLEGTMQVAQSRINICENYKNL-ISEPARTVRLYKEQQLKRCVDQLTKI 122
Query: 116 MNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLE 155
L+ V L + +K Y + + + H R AD+E
Sbjct: 123 QAELQETVKDLAKGKKKYFET-----EQMAHAVREKADIE 157
>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 = 34.2 bits (78), Expect = 0.012
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
ALY +EA + + GE II +GD W R + G++P++Y+
Sbjct: 5 ALYDYEARTTEDLSFKKGERFQIINNTEGD-WWEARSIATGKNGYIPSNYV 54
>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 = 34.0 bits (78), Expect = 0.013
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A ALY F+AT +P G+ L I+ ++ W + Q EG++P +YI+
Sbjct: 2 AVALYSFQATESDELPFQKGDILKILNMEDDQNWYKAELQ--GREGYIPKNYIK 53
>gnl|CDD|153357 cd07673, F-BAR_FCHO2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH domain Only 2
protein. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
The specific function of FCH domain Only 2 (FCHO2) is
still unknown. It contains an N-terminal F-BAR domain
and a C-terminal domain of unknown function named SAFF
which is also present in FCHO1 and endophilin
interacting protein 1. 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.
Length = 269
Score = 37.3 bits (86), Expect = 0.015
Identities = 64/261 (24%), Positives = 106/261 (40%), Gaps = 56/261 (21%)
Query: 26 FIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKAFKCVLD----EVTDLAGQHEV 81
FIR+R IE Y+ + +L K+ YS F V D LA H
Sbjct: 34 FIRERATIEEAYSRSMTKLAKSAS--------NYSQLGTFAPVWDVFKTSTEKLANCHLE 85
Query: 82 IAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLEN-QVI--ALERARKNYDKAYR 138
+ LQ +IKEV + ++ + KK ++ A + ++N Q I AL+++++NY+
Sbjct: 86 LVRKLQE-LIKEVQKYGEEQVKSHKKTKEEVAGTLEAVQNIQSITQALQKSKENYNAKCL 144
Query: 139 ESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALE 198
E E K+ A + EKA + KA E
Sbjct: 145 EQ----ERLKKEGA-----------------------------TQREIEKAAVKSKKATE 171
Query: 199 HYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVF 258
YK L++A+ E++ A K Q E+T L R E+ Y+ ++ E+
Sbjct: 172 SYKLYVEKYALAKADFEQKMTETAQKFQDIEET------HLIRIKEII-GSYSNSVKEIH 224
Query: 259 AQLQELDEKRVRNIRNFMVHS 279
Q+ ++ E+ + N+ N V S
Sbjct: 225 IQIGQVHEEFINNMANTTVES 245
>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 = 33.4 bits (77), Expect = 0.019
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWT-RVRRQTDSEEGFVPTSYI 641
+ALY +EA + +G+ LYI + + W +T G +P++Y+
Sbjct: 3 RALYDYEAQHPDELSFEEGDLLYISDKSDPNWWKATCGGKT----GLIPSNYV 51
>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 = 32.9 bits (75), Expect = 0.031
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
ALY +E + +G + GE+L I L+Q W + + T +EGF+P +++
Sbjct: 4 ALYSYEPSHDGDLGFEKGEKLRI--LEQSGEWWKAQSLTTGQEGFIPFNFV 52
>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 = 33.1 bits (76), Expect = 0.032
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 5/55 (9%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIE---LDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
ALY FEA S G + + +G+ + ++E L W V + ++G+VP++Y+
Sbjct: 4 ALYTFEARSPGELSVTEGQVVTVLEKHDLKGNPEWWLV--EDRGKQGYVPSNYLA 56
>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 = 33.1 bits (75), Expect = 0.032
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
ALYP+ ++ G + +GEE+ + + D G+ WT + G P++Y++
Sbjct: 4 ALYPYSSSEPGDLTFNEGEEILVTQKD-GEWWT---GSIEDRTGIFPSNYVRP 52
>gnl|CDD|153340 cd07656, F-BAR_srGAP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase
Activating Proteins. F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. 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, all of which are expressed
during embryonic and early development in the nervous
system but with different localization and timing.
srGAPs contain an N-terminal F-BAR domain, a Rho GAP
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.
Length = 241
Score = 35.8 bits (83), Expect = 0.043
Identities = 44/206 (21%), Positives = 80/206 (38%), Gaps = 13/206 (6%)
Query: 4 DQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPK------KEEEDY 57
+Q L L T+ + L + R R IE+EY+ L +L + K K E+
Sbjct: 5 EQLKCLDLRTEAQVQLLADLQDYFRRRAEIELEYSRSLEKLADRFSSKHKNEKSKREDWS 64
Query: 58 QYSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMN 117
S + +L + + H +++ +++ + +D + KK + G+++ +
Sbjct: 65 LLSPVNCWNTLLVQTKQESRDHSTLSDIYSNNLVQRLGQMSEDLQRISKKCREIGSQLHD 124
Query: 118 LLENQVIALERARKNYDKAYRESDKALEHYKRADADLEL---SRAEHLQDGDHLMKILRN 174
L + L+ A K Y + ES A K A+ E S + L+ KI +
Sbjct: 125 ELLRVLNELQTAMKTYHTYHAESKSAERKLKEAEKQEEKQEQSPEKKLERSRSSKKIEKE 184
Query: 175 QVDALERALKNYEKAFRDADKALEHY 200
E+ Y +A KA Y
Sbjct: 185 V----EKRQAKYSEAKLKCTKARNEY 206
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 36.6 bits (85), Expect = 0.045
Identities = 32/138 (23%), Positives = 52/138 (37%), Gaps = 18/138 (13%)
Query: 126 LERARKNYDKAYRESDKALEHYKRADADLELSR---AEHLQDGDHLMKILRNQVDA---- 178
LE A+K+Y++A ++L K A L L+ E D ++ VDA
Sbjct: 141 LELAQKSYEQALAIDPRSLYA-KLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLK 199
Query: 179 --LERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYA 236
L +L N E A KA+ A L + I++ E+ +
Sbjct: 200 GDLLLSLGNIELALAAYRKAIALRPNNIAVLLA--------LATILIEAGEFEEAEKHAD 251
Query: 237 NQLQRANEMQRQHYTQAM 254
L++A HY +A+
Sbjct: 252 ALLKKAPNSPLAHYLKAL 269
>gnl|CDD|128981 smart00742, Hr1, Rho effector or protein kinase C-related kinase
homology region 1 homologues. Alpha-helical domain
found in vertebrate PRK1 and yeast PKC1 protein kinases
C. The HR1 in rhophilin bind RhoGTP; those in PRK1 bind
RhoA and RhoB. Also called RBD - Rho-binding domain.
Length = 57
Score = 32.5 bits (75), Expect = 0.046
Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 398 QRIEEIQHSIQQESAAREGLIKMKGVY-EDNPNLGDPHMIEGQLSETDSRLEKLRGELQK 456
R+E+++ I++E +EG M+ + D L + + L E++ +L+ L+ EL+K
Sbjct: 1 LRLEDLRRKIEKELKVKEGAENMRKLTSNDRKVLSE---AQSMLRESNQKLDLLKEELEK 57
>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 = 32.7 bits (75), Expect = 0.047
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 587 GTAKALYPFEATSEGSIPMYDGEELYIIELDQGDG----WTRVRRQTDSEEGFVPTSYI 641
G AL+ +EA + + +G+EL ++ D W R+ + +EG+VP + +
Sbjct: 1 GVVYALFDYEAENGDELSFREGDELTVLRKGDDDETEWWWARL----NDKEGYVPRNLL 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 = 32.7 bits (74), Expect = 0.047
Identities = 14/54 (25%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A A Y F+AT++ + G+ L ++ + W + + + ++GF+P +YI+
Sbjct: 3 AIAKYDFKATADDELSFKRGDILKVLNEECDQNWYKA--ELNGKDGFIPKNYIE 54
>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 = 32.6 bits (74), Expect = 0.054
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A+ALY F++ ++ I + + EEL I + DGW + + + E G P SY++
Sbjct: 2 ARALYSFQSENKEEINIQENEELVIFSENSLDGWLQ-GQNSRGETGLFPASYVE 54
>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 = 32.4 bits (74), Expect = 0.057
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 595 FEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
F+AT + I G+++ +I+ GW V + D +EG+ P+SYI+
Sbjct: 8 FQATIQDGISFQKGQKVEVID-KNPSGWWYV--KIDGKEGWAPSSYIE 52
>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 = 32.5 bits (74), Expect = 0.059
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A ALY FE + + +G+ L+I+ G GW ++ + G VP ++
Sbjct: 2 AVALYDFEPEHDNELGFAEGQILFILY-KHGQGWLIAEDESGGKTGLVPEEFVS 54
>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 = 34.2 bits (79), Expect = 0.065
Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 10/108 (9%)
Query: 168 LMKILRNQVDALERALKNYEKAFRDADKALEHYK------RADADLELSRAEVEKQRINM 221
L KIL + + + +K E+ + A L + RA+A ++ A+ E Q++
Sbjct: 24 LGKILDERKEKIANNIKEAEERLKQAAALLAEAEQQLAQARAEASEIINNAKKEAQKLKE 83
Query: 222 AIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRV 269
I ++ + + L+ A Q QA+ E+ Q+ L +
Sbjct: 84 EILAE----AQKDAERLLESARAEIEQEKEQALAELRQQVAALAVQIA 127
>gnl|CDD|153363 cd07679, F-BAR_PACSIN2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons 2 (PACSIN2). F-BAR
domains are dimerization modules that bind and bend
membranes and are found in proteins involved in membrane
dynamics and actin reorganization. Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins,
also called Synaptic dynamin-associated proteins
(Syndapins), act as regulators of cytoskeletal and
membrane dynamics. Vetebrates harbor three isoforms with
distinct expression patterns and specific functions.
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. PACSIN 2
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.
Length = 258
Score = 35.4 bits (81), Expect = 0.067
Identities = 27/99 (27%), Positives = 48/99 (48%), Gaps = 1/99 (1%)
Query: 179 LERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQ 238
+E A K Y A ++ A + AD L+ +++K + + Q TK +Y
Sbjct: 135 VEAAKKAYHTACKEEKLATSREANSKADPALNPEQLKKLQDKVEKCKQDVLKTKEKYEKS 194
Query: 239 LQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMV 277
L+ ++ Q Y + M +VF Q Q+ +EKR+R R ++
Sbjct: 195 LKELDQTTPQ-YMENMEQVFEQCQQFEEKRLRFFREVLL 232
>gnl|CDD|153356 cd07672, F-BAR_PSTPIP2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Protein 2. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Proline-Serine-Threonine
Phosphatase-Interacting Protein 2 (PSTPIP2), also known
as Macrophage Actin-associated tYrosine Phosphorylated
protein (MAYP), is mostly expressed in hematopoietic
cells but is also expressed in the brain. It is involved
in regulating cell adhesion and motility. Mutations in
the gene encoding murine PSTPIP2 can cause
autoinflammatory disorders such as chronic multifocal
osteomyelitis and macrophage autoinflammatory disease.
PSTPIP2 contains an N-terminal F-BAR domain and lacks
the PEST motifs and SH3 domain that are found in
PSTPIP1. 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.
Length = 240
Score = 35.3 bits (81), Expect = 0.074
Identities = 42/201 (20%), Positives = 88/201 (43%), Gaps = 18/201 (8%)
Query: 6 YDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKAF 65
YD + H G +++ F+++R +IE +Y +L L K + E + + F
Sbjct: 7 YDCIIQHLNDGRKNCKEFEDFLKERASIEEKYGKELLNLSKKKPCGQTEINTLKRSLDVF 66
Query: 66 KCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVIA 125
K +D V H +A+ L ++ ++DF+E +K + +M+ + Q
Sbjct: 67 KQQIDNV---GQSHIQLAQTL-----RDEAKKMEDFRERQKLARKKIELIMDAIHKQRAM 118
Query: 126 LER----ARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALER 181
+ ++KNY++ R+ D+A + R + + + E L K+ +++ E
Sbjct: 119 QFKKTMESKKNYEQKCRDKDEAEQAVNRNANLVNVKQQEKL-----FAKLAQSKQ-NAED 172
Query: 182 ALKNYEKAFRDADKALEHYKR 202
A + Y + DK E +++
Sbjct: 173 ADRLYMQNISVLDKIREDWQK 193
>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 = 31.9 bits (72), Expect = 0.080
Identities = 16/55 (29%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYI 641
+ALYPF ++++ + GE + +IE + D W + R+ + + G VP +Y+
Sbjct: 2 VVQALYPFSSSNDEELNFEKGEVMDVIEKPENDPEWWKCRK-ANGQVGLVPKNYV 55
>gnl|CDD|236983 PRK11788, PRK11788, tetratricopeptide repeat protein; Provisional.
Length = 389
Score = 35.6 bits (83), Expect = 0.087
Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 16/114 (14%)
Query: 127 ERARKNYDKAYRESDKALEHYK---RAD---ADLELSRAEHLQDGDHLMKILRNQVD--- 177
AR + D A KAL RA DL L++ ++ + L ++ +
Sbjct: 190 ALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS 249
Query: 178 -ALERALKNYEKAFRDAD------KALEHYKRADADLELSRAEVEKQRINMAIK 224
L + ++ Y+ +A+ +ALE Y AD L L++ E++ A
Sbjct: 250 EVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQA 303
>gnl|CDD|212691 cd11757, SH3_SH3BP4, Src Homology 3 domain of SH3 domain-binding
protein 4. SH3 domain-binding protein 4 (SH3BP4) is
also called transferrin receptor trafficking protein
(TTP). SH3BP4 is an endocytic accessory protein that
interacts with endocytic proteins including clathrin and
dynamin, and regulates the internalization of the
transferrin receptor (TfR). SH3 domains are protein
interaction domains that bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs. They play versatile and diverse roles in
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 = 31.5 bits (71), Expect = 0.093
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 608 GEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
G+ LY+++ G+ W +E G++P+SY+Q
Sbjct: 21 GDHLYVLDTSGGEWWYA---HNTTEMGYIPSSYVQ 52
>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 = 31.6 bits (72), Expect = 0.098
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 591 ALYPFEATSEG--SIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSY 640
LYPFE T + + + +GE +++ D W +VRR DS+ +VP Y
Sbjct: 4 VLYPFEYTGKDGRKVSIKEGERFLLLKKSNDD-WWQVRRPGDSKPFYVPAQY 54
>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 = 31.5 bits (72), Expect = 0.099
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
AL F+A EG + GE L II DGW + + G VP +Y++
Sbjct: 4 ALSDFQAEQEGDLSFKKGEVLRIISKRA-DGWW-LAENSKGNRGLVPKTYLK 53
>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain
(CALCOCO1) like. Proteins found in this family are
similar to the coiled-coil transcriptional coactivator
protein coexpressed by Mus musculus (CoCoA/CALCOCO1).
This protein binds to a highly conserved N-terminal
domain of p160 coactivators, such as GRIP1, and thus
enhances transcriptional activation by a number of
nuclear receptors. CALCOCO1 has a central coiled-coil
region with three leucine zipper motifs, which is
required for its interaction with GRIP1 and may regulate
the autonomous transcriptional activation activity of
the C-terminal region.
Length = 546
Score = 35.4 bits (81), Expect = 0.11
Identities = 27/159 (16%), Positives = 66/159 (41%), Gaps = 13/159 (8%)
Query: 97 FVKDFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLEL 156
+++ E ++ D + LE V + + + A R S + E + + +
Sbjct: 140 ILQNQLEGCQRERNDLMKKFLALEGDVSDMRSRIEQLETALRHSTEKTEELEEQHKEAQS 199
Query: 157 SRAEHL--------QDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLE 208
S Q ++ +IL LE+ ++ + ++ D+ LE + +A+LE
Sbjct: 200 SSESMSAERNALLAQRAENQQRILE-----LEQDIQTLTQKKQENDRVLEGTQDIEAELE 254
Query: 209 LSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQR 247
+ E++++ M I+ + E + + + ++ +E R
Sbjct: 255 RMKGELKQRLKKMTIQRRDEETERIDLQLENEQLHEDLR 293
>gnl|CDD|153365 cd07681, F-BAR_PACSIN3, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR
domains are dimerization modules that bind and bend
membranes and are found in proteins involved in membrane
dynamics and actin reorganization. Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins,
also called Synaptic dynamin-associated proteins
(Syndapins), act as regulators of cytoskeletal and
membrane dynamics. Vetebrates harbor three isoforms with
distinct expression patterns and specific functions.
PACSIN 3 or Syndapin 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. PACSIN 3 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.
Length = 258
Score = 34.5 bits (79), Expect = 0.12
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 1/91 (1%)
Query: 179 LERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQ 238
+E + K Y A +D A A AD +S+ ++ K + + +Q E K +Y
Sbjct: 135 VESSKKGYHAARKDERTAQTRETHAKADSTVSQEQLRKLQDRVEKCTQEAEKAKEQYEKA 194
Query: 239 LQRANEMQRQHYTQAMPEVFAQLQELDEKRV 269
L+ N + Y + M + F QE + KR+
Sbjct: 195 LEELNRYNPR-YMEDMEQAFEICQEAERKRL 224
>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 = 31.6 bits (72), Expect = 0.12
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
TA ALYP+ A E + G+ + ++E Q + W + EEG+ P SY++
Sbjct: 1 TATALYPWRAKKENHLSFAKGDIITVLE--QQEMWWFGELE-GGEEGWFPKSYVKE 53
>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 = 31.5 bits (72), Expect = 0.12
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYII-ELDQGDGWT--RVRRQTDSEEGFVPTSYIQTI 644
+ALY FE +EG + +G+ + + ++D + W V Q+ GF P +Y++ +
Sbjct: 3 CRALYDFEPENEGELGFKEGDIITLTNQID--ENWYEGMVNGQS----GFFPVNYVEVL 55
>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 = 31.3 bits (71), Expect = 0.14
Identities = 17/53 (32%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYI 641
KAL+ +E T+E + +GE + II D G+ GW + + + +EG P +++
Sbjct: 5 KALFHYEGTNEDELDFKEGEIILIISKDTGEPGWW--KGELNGKEGVFPDNFV 55
>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 = 31.2 bits (71), Expect = 0.16
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
+AL+ F + +P GE L +I + W R ++ + G +P Y++
Sbjct: 4 RALFDFPGNDDEDLPFKKGEILTVIRKPEEQWWN--ARNSEGKTGMIPVPYVE 54
>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 = 30.7 bits (70), Expect = 0.18
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYII-ELDQGDGWTRVRRQTDSEEGFVPTSYI 641
+ A FE G + G+ + II +L G W R ++ GFVPT++
Sbjct: 1 SCTAKMDFEGVEPGELSFRQGDSIEIIGDLIPGLQWFVGRSKSSGRVGFVPTNHF 55
>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 = 30.8 bits (70), Expect = 0.20
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 5/56 (8%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYII-ELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A+ALYPF+A S + + G+ +YI ++D+ W G P SY++
Sbjct: 1 KARALYPFKAQSAKELSLKKGDIIYIRRQIDK--NWYEGEHN--GRVGIFPASYVE 52
>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 = 33.4 bits (77), Expect = 0.20
Identities = 19/74 (25%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 389 PSQRKKKLQQRIEEIQHSIQQESAAREGLI----KMKGVYEDNPNLGDPHMIEGQLSETD 444
PSQ KL+ R+E+++ +++ L K+K E+ + + +L + +
Sbjct: 60 PSQALNKLKTRLEKLKKELEELKQRIAELQAQIEKLKKGREET---EERTELLEELKQLE 116
Query: 445 SRLEKLRGELQKYQ 458
L+KL+ EL+KY+
Sbjct: 117 KELKKLKAELEKYE 130
>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 = 30.8 bits (70), Expect = 0.20
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQG---DGW 622
+ALY +EA S+ + +G + I+ D DGW
Sbjct: 2 VRALYDYEAQSDEELSFPEGAIIRILRKDDNGVDDGW 38
>gnl|CDD|153341 cd07657, F-BAR_Fes_Fer, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and
Fer (Fes related) tyrosine kinases. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Fes (feline sarcoma), also called
Fps (Fujinami poultry sarcoma), and Fer (Fes related)
are cytoplasmic (or nonreceptor) tyrosine kinases that
play roles in haematopoiesis, inflammation and immunity,
growth factor signaling, cytoskeletal regulation, cell
migration and adhesion, and the regulation of cell-cell
interactions. Although Fes and Fer show redundancy in
their biological functions, they show differences in
their expression patterns. Fer is ubiquitously expressed
while Fes is expressed predominantly in myeloid and
endothelial cells. Fes and Fer contain an N-terminal
F-BAR domain, an SH2 domain, and a C-terminal catalytic
kinase 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 Fes is critical in its role in
microtubule nucleation and bundling.
Length = 237
Score = 33.5 bits (77), Expect = 0.22
Identities = 28/139 (20%), Positives = 50/139 (35%), Gaps = 28/139 (20%)
Query: 128 RARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYE 187
+A+K Y + ++ D+ + L+ + L+D K ++ E A+
Sbjct: 105 KAKKAYQEERQQIDEQYKKLTDEVEKLKSEYQKLLED----YKAAKS---KFEEAVVKGG 157
Query: 188 KAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQR 247
+ R DKA + Y++A L L +Y L A E +
Sbjct: 158 RGGRKLDKARDKYQKACRKLHL---------------------CHNDYVLALLEAQEHEE 196
Query: 248 QHYTQAMPEVFAQLQELDE 266
+ T +P + LQ L E
Sbjct: 197 DYRTLLLPGLLNSLQSLQE 215
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 31.1 bits (71), Expect = 0.22
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 18/70 (25%)
Query: 129 ARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEK 188
+YD+A +KALE +A+ + A A + K+YE+
Sbjct: 15 KLGDYDEAIEAYEKALE-LDPDNAEAYYNLAL-----------------AYLKLGKDYEE 56
Query: 189 AFRDADKALE 198
A D +KALE
Sbjct: 57 ALEDLEKALE 66
>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 = 30.4 bits (69), Expect = 0.24
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIE-LDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
AKALY ++A + I +G+ + IE +D +GW ++G P +Y++
Sbjct: 1 RAKALYDYQAAEDNEISFVEGDIITQIEQID--EGWWL-GVNAKGQKGLFPANYVE 53
>gnl|CDD|222698 pfam14346, DUF4398, Domain of unknown function (DUF4398). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 127 and
269 amino acids in length.
Length = 105
Score = 32.0 bits (73), Expect = 0.24
Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 19/99 (19%)
Query: 134 DKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERAL--KNYEKAFR 191
D+ +++ ALE + A A+ L+ R ++ + AL YE+A R
Sbjct: 16 DEELADAEAALERAEAAGAEQYAPPYVELKLA-------REKLAQAKAALDEGKYEEARR 68
Query: 192 DADKALEHYKRADADLELSRAEVEK-----QRINMAIKS 225
A++A ADA L ++A K + +I+
Sbjct: 69 LAEQA-----EADARLAEAKARAAKAQAALEEAKDSIER 102
>gnl|CDD|112929 pfam04136, Sec34, Sec34-like family. Sec34 and Sec35 form a
sub-complex, in a seven protein complex that includes
Dor1 (pfam04124). This complex is thought to be
important for tether vesicles to the Golgi.
Length = 157
Score = 32.9 bits (75), Expect = 0.25
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 1/76 (1%)
Query: 391 QRKKKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPN-LGDPHMIEGQLSETDSRLEK 449
++ LQ + Q + A L+ +K YE + QLS RL +
Sbjct: 4 KKINYLQTFTNICDQILGQTNNAESTLLSLKEKYEFVSKKTSELSEACEQLSTEQMRLSE 63
Query: 450 LRGELQKYQTYMEESE 465
L +QK TY E
Sbjct: 64 LADGIQKGLTYFAPLE 79
>gnl|CDD|115660 pfam07020, Orthopox_C10L, Orthopoxvirus C10L protein. This family
consists of several Orthopoxvirus C10L proteins. C10L
viral protein can play an important role in vaccinia
virus evasion of the host immune system. It may consist
in the blockade of IL-1 receptors by the C10L protein, a
homologue of the IL-1 Ra.
Length = 83
Score = 31.2 bits (70), Expect = 0.28
Identities = 16/43 (37%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 469 PAGMRKNSGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVNGGSN 511
R GGG +SG GGVNG VNGG N
Sbjct: 43 GLEKRMCVGGGSGGFWGGSSGVKGGVNG--------GVNGGVN 77
>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 = 30.5 bits (69), Expect = 0.28
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
ALY ++ S + M G+ L ++ D W + + + +GFVP +Y++
Sbjct: 3 VALYDYQEKSPREVSMKKGDILTLLNSSNKDWW---KVEVNDRQGFVPAAYVK 52
>gnl|CDD|212012 cd11622, HR1_PKN_1, First Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of Protein Kinase N.
PKN, also called Protein-kinase C-related kinase (PRK),
is a serine/threonine protein kinase that can be
activated by the small GTPase Rho, and by fatty acids
such as arachidonic and linoleic acids. It is involved
in many biological processes including cytoskeletal
regulation, cell adhesion, vesicle transport, glucose
transport, regulation of meiotic maturation and
embryonic cell cycles, signaling to the nucleus, and
tumorigenesis. In some vertebrates, there are three PKN
isoforms from different genes (designated PKN1, PKN2,
and PKN3), which show different enzymatic properties,
tissue distribution, and varied functions. PKN proteins
contain three HR1 domains, a C2 domain, and a kinase
domain. This model characterizes the first HR1 domain of
PKN. HR1 domains are anti-parallel coiled-coil (ACC)
domains that bind small GTPases from the Rho family.
Length = 66
Score = 30.3 bits (69), Expect = 0.33
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 7/68 (10%)
Query: 397 QQRIEE----IQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKLRG 452
QQ++EE I+ I++E +EG ++ D +L +E L +++ +LE L
Sbjct: 1 QQKLEELKEQIRREIRKELKIKEGAENLRKATTDKKSLAH---VESILKKSNRKLEDLHQ 57
Query: 453 ELQKYQTY 460
ELQ+ + +
Sbjct: 58 ELQELEAH 65
>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 = 30.1 bits (68), Expect = 0.34
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIEL--DQGDGWT-RVRRQTDSEEGFVPTSYIQ 642
ALY FE + G+ + ++ Q D W R+R + G P +Y+
Sbjct: 1 EVTALYSFEGQQPCDLSFQAGDRITVLTRTDSQFDWWEGRLRGRV----GIFPANYVS 54
>gnl|CDD|212831 cd11898, SH3_SNX9, Src Homology 3 domain of Sorting nexin 9.
Sorting nexin 9 (SNX9), also known as SH3PX1, is a
cytosolic protein that interacts with proteins
associated with clathrin-coated pits such as
Cdc-42-associated tyrosine kinase 2 (ACK2). It binds
class I polyproline sequences found in dynamin 1/2 and
the WASP/N-WASP actin regulators. SNX9 is localized to
plasma membrane endocytic sites and acts primarily in
clathrin-mediated endocytosis. Its array of interacting
partners suggests that SNX9 functions at the interface
between endocytosis and actin cytoskeletal organization.
SNXs are Phox homology (PX) domain containing proteins
that are involved in regulating membrane traffic and
protein sorting in the endosomal system. SNX9 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 = 57
Score = 30.2 bits (68), Expect = 0.34
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 589 AKALYPFEATS-EGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQTI 644
A+ LY F A + + +GE + + + G GW + + E G VPT Y++ +
Sbjct: 2 ARVLYDFAAEPGNNELTVKEGEIITVTNPNVGGGWIEAK-NSQGERGLVPTDYVEIV 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 = 30.2 bits (68), Expect = 0.37
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYI 641
A+Y F+ T + + GEE I+E + W R +EG++P++Y+
Sbjct: 2 IVVAMYDFQPTEPHDLRLETGEEYVILEKNDVHWWK--ARDKYGKEGYIPSNYV 53
>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 = 33.5 bits (77), Expect = 0.40
Identities = 32/185 (17%), Positives = 66/185 (35%), Gaps = 35/185 (18%)
Query: 119 LENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHL---MKILRNQ 175
L + + R RK + LE E + + L + LRN+
Sbjct: 187 LAGDLTNVLRRRKK--------SELPSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNE 238
Query: 176 VDALERALKNYEKAFRDADKAL----EHYKRADADLELSRAEVEKQRINMA--------- 222
++ +R+L++ EK FR L E +R ++E +R Q +A
Sbjct: 239 LEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQLRELAADPLPLLLI 298
Query: 223 ------IKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFM 276
K+Q ++ +++ Q E + + +++P++ L + V+ I +
Sbjct: 299 PNLLDSTKAQLQKEEQSQQNQLTQEELEERDKELLESLPKL-----ALPAEHVKEIAAEL 353
Query: 277 VHSAN 281
Sbjct: 354 AEIDK 358
>gnl|CDD|219500 pfam07655, Secretin_N_2, Secretin N-terminal domain. This is a
short domain found in bacterial type II/III secretory
system proteins. The architecture of these proteins
suggest that this family may be functionally analogous
to pfam03958.
Length = 95
Score = 31.1 bits (71), Expect = 0.41
Identities = 5/33 (15%), Positives = 14/33 (42%)
Query: 475 NSGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVN 507
++ ++N ++ SS +G + R+
Sbjct: 31 SNSSSSSSNSSNGGSSSSSSSGDSSSGTRITTE 63
>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 = 30.1 bits (68), Expect = 0.41
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 588 TAKALYPFEATSE--GSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQT 643
A+ALYP++A+ + + GE L + D W + R+ + E G P++Y+Q
Sbjct: 1 RARALYPYDASPDDPNELSFEKGEILEVS--DTSGKWWQARKS-NGETGICPSNYLQL 55
>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 = 30.0 bits (67), Expect = 0.41
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQ-GDGWTRVRRQTDSEEGFVPTSYIQTI 644
+A+Y + A E + DG+ I+ + Q DGW + + G +P +Y++ I
Sbjct: 6 RAVYDYNAADEDEVSFQDGDT--IVNVQQIDDGWMYGTVERTGDTGMLPANYVEAI 59
>gnl|CDD|212010 cd11620, HR1_PKC-like_2_fungi, Second Protein kinase C-related
kinase homology region 1 (HR1) Rho-binding domain of
fungal Protein Kinase C-like proteins. This subfamily
is composed of fungal PKC-like proteins including Pkc1p
from Saccharomyces cerevisiae, and Pck1p and Pck2p from
Schizosaccharomyces pombe. The yeast PKC-like proteins
play a critical role in regulating cell wall
biosynthesis and maintaining cell wall integrity. They
contain two HR1 domains, C2 and C1 domains, and a kinase
domain. This model characterizes the second HR1 domain.
HR1 domains are anti-parallel coiled-coil (ACC) domains
that bind small GTPases from the Rho family. The HR1
domains of Pck1p and Pck2p interact with GTP-bound Rho1p
and Rho2p.
Length = 72
Score = 30.4 bits (69), Expect = 0.46
Identities = 15/64 (23%), Positives = 37/64 (57%)
Query: 395 KLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKLRGEL 454
K+Q+ +++++ +Q E +EG+ KM +Y+ + E + E++ +++ L+ L
Sbjct: 6 KIQRMLQQLEFKLQVEKQYKEGIEKMARLYQAEGDKRSIADAENKRVESEQKIQLLKKAL 65
Query: 455 QKYQ 458
++YQ
Sbjct: 66 KRYQ 69
>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 = 29.8 bits (67), Expect = 0.50
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 619 GDGWTRVRRQTDSEEGFVPTSYIQT 643
DGW R +D E G+ P S+++
Sbjct: 31 SDGWLEGVRLSDGERGWFPQSHVEE 55
>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 = 29.3 bits (66), Expect = 0.55
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWT-RVRRQTDSEEGFVPTSYIQ 642
ALYP+E+ G + G+ + + + D G+ WT + +T G P++Y++
Sbjct: 4 ALYPYESNEPGDLTFNAGDVILVTKKD-GEWWTGTIGDRT----GIFPSNYVR 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 = 33.1 bits (76), Expect = 0.64
Identities = 25/150 (16%), Positives = 67/150 (44%), Gaps = 9/150 (6%)
Query: 119 LENQVIALERARKNYDKAYRESDKALE--HYKRADADLELSRAEHLQDGDHLMKILRNQV 176
++ ++ LE + RE ++ L ++ + E+ + LQ+ L+ Q+
Sbjct: 796 IQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEI---QELQE---QRIDLKEQI 849
Query: 177 DALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYA 236
++E+ ++N + ++ LE + A DLE +++K+R + + + E E
Sbjct: 850 KSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELE 909
Query: 237 NQLQRANEMQRQHYTQAMPEVFAQLQELDE 266
Q+++ + + + + +L E+++
Sbjct: 910 AQIEKKRKRLSELKAKL-EALEEELSEIED 938
Score = 29.3 bits (66), Expect = 9.2
Identities = 24/121 (19%), Positives = 55/121 (45%), Gaps = 14/121 (11%)
Query: 97 FVKDFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLEL 156
K++ E+ + LQ+ L+ Q+ ++E+ +N + E ++ LE + A DLE
Sbjct: 826 LEKEYLEKEIQELQE---QRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLES 882
Query: 157 SRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEK 216
+ L+ + D LE L+ E+ + + +E ++ ++L+ +E+
Sbjct: 883 RLGD-----------LKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEE 931
Query: 217 Q 217
+
Sbjct: 932 E 932
>gnl|CDD|153370 cd07686, F-BAR_Fer, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Fer (Fes related)
tyrosine kinase. F-BAR domains are dimerization modules
that bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
Fer (Fes related) is a cytoplasmic (or nonreceptor)
tyrosine kinase expressed in a wide variety of tissues,
and is found to reside in both the cytoplasm and the
nucleus. It plays important roles in neuronal
polarization and neurite development, cytoskeletal
reorganization, cell migration, growth factor signaling,
and the regulation of cell-cell interactions mediated by
adherens junctions and focal adhesions. Fer kinase also
regulates cell cycle progression in malignant cells. It
contains an N-terminal F-BAR domain, an SH2 domain, and
a C-terminal catalytic kinase 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.
Length = 234
Score = 32.3 bits (73), Expect = 0.66
Identities = 23/104 (22%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 179 LERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQ 238
LE+ +Y + ++ + A E YK DA + E ++R + A H +Y
Sbjct: 129 LEKLKCSYRQLTKEVNSAKEKYK--DAVAKGKETEKARERYDKATMKLH--MLHNQYVLA 184
Query: 239 LQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMVHSANI 282
++ A Q Q+Y +P + LQ++ E+ ++ ++ + + I
Sbjct: 185 VKGAQLHQHQYYDFTLPLLLDSLQKMQEEMIKALKGILDEYSQI 228
Score = 31.2 bits (70), Expect = 1.6
Identities = 37/141 (26%), Positives = 64/141 (45%), Gaps = 12/141 (8%)
Query: 19 FLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEE---DYQYSTCKAFKCVLDEVTDL 75
LE F+ R + EYA L+ L Q KE DY + K++ ++ + L
Sbjct: 20 LLETVKKFMALRVKSDKEYASTLQNLCN--QVDKESTSQLDYVSNVSKSWLHMVQQTEQL 77
Query: 76 AGQHEVIAENLQVFIIKEVTIFVKDFKEERKK----HLQDGARMMNLLENQVIALERARK 131
+ + AE L + +T+ +KD ++ +K H Q A M + + + LE+ +
Sbjct: 78 SKIMKTHAEELNSGPLHRLTMMIKDKQQVKKSYIGVHQQIEAEMYKVTKTE---LEKLKC 134
Query: 132 NYDKAYRESDKALEHYKRADA 152
+Y + +E + A E YK A A
Sbjct: 135 SYRQLTKEVNSAKEKYKDAVA 155
>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 = 29.4 bits (66), Expect = 0.66
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 4/52 (7%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYI 641
ALY + + + + GEE Y+I L++ + W R R + + EG++P++Y+
Sbjct: 5 ALYDYTPMNAQDLQLRKGEE-YVI-LEESNLPWWRARDK-NGREGYIPSNYV 53
>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 = 29.0 bits (65), Expect = 0.69
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIE-LDQGDGWTRVRRQTDSEEGFVPTSY 640
A ALY F +E + G+ + + E LD W+R R EG P ++
Sbjct: 2 AVALYDFTGETEEDLSFQRGDRILVTEHLD--AEWSRGRLN--GREGIFPRAF 50
>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 = 29.3 bits (65), Expect = 0.77
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYIQTIA 645
+ LYPF + +E + GE + +IE + D W + + + + G VP +Y+ ++
Sbjct: 4 QTLYPFSSVTEEELNFEKGETMEVIEKPENDPEWWKC-KNSRGQVGLVPKNYVVVLS 59
>gnl|CDD|212698 cd11764, SH3_Eps8, Src Homology 3 domain of Epidermal growth factor
receptor kinase substrate 8 and similar proteins. This
group is composed of Eps8 and Eps8-like proteins
including Eps8-like 1-3, among others. These proteins
contain N-terminal Phosphotyrosine-binding (PTB),
central SH3, and C-terminal effector domains. Eps8 binds
either Abi1 (also called E3b1) or Rab5 GTPase activating
protein RN-tre through its SH3 domain. With Abi1 and
Sos1, it becomes part of a trimeric complex that is
required to activate Rac. Together with RN-tre, it
inhibits the internalization of EGFR. The SH3 domains of
Eps8 and similar proteins recognize peptides containing
a PxxDY motif, instead of the classical PxxP motif. SH3
domains are protein interaction domains that usually
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 = 54
Score = 29.2 bits (66), Expect = 0.87
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVP 637
+ LY F A + + + GE L + LD W +VR + G+VP
Sbjct: 2 VRVLYDFTARNSKELSVLKGEYLEV--LDDSRQWWKVRNSR-GQVGYVP 47
>gnl|CDD|153335 cd07651, F-BAR_PombeCdc15_like, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe
Cdc15, and similar proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. This subfamily is composed of
Schizosaccharomyces pombe Cdc15 and Imp2, and similar
proteins. These proteins contain an N-terminal F-BAR
domain and a C-terminal SH3 domain. S. pombe Cdc15 and
Imp2 play both distinct and overlapping roles in the
maintenance and strengthening of the contractile ring at
the division site, which is required in cell division.
Cdc15 is a component of the actomyosin ring and is
required in normal cytokinesis. Imp2 colocalizes with
the medial ring during septation and is required for
normal septation. 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.
Length = 236
Score = 31.9 bits (73), Expect = 0.89
Identities = 32/131 (24%), Positives = 63/131 (48%), Gaps = 10/131 (7%)
Query: 6 YDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPKKEEEDYQYSTCKAF 65
+D + + + LE+ F ++R +IE EYA +L +L + EE + +
Sbjct: 7 FDVIQTRIKDSLRTLEELRSFYKERASIEEEYAKRLEKLSRKSLGGSEEGGLK----NSL 62
Query: 66 KCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLE---NQ 122
+ E +A H A+ ++ + +++ F + ++RKK +Q + M LL+ +Q
Sbjct: 63 DTLRLETESMAKSHLKFAKQIRQDLEEKLAAFASSYTQKRKK-IQ--SHMEKLLKKKQDQ 119
Query: 123 VIALERARKNY 133
LE+AR+ Y
Sbjct: 120 EKYLEKAREKY 130
>gnl|CDD|153364 cd07680, F-BAR_PACSIN1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons 1 (PACSIN1). F-BAR
domains are dimerization modules that bind and bend
membranes and are found in proteins involved in membrane
dynamics and actin reorganization. Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins,
also called Synaptic dynamin-associated proteins
(Syndapins), act as regulators of cytoskeletal and
membrane dynamics. Vetebrates harbor three isoforms with
distinct expression patterns and specific functions.
PACSIN 1 or Syndapin 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. It 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.
Length = 258
Score = 31.9 bits (72), Expect = 0.89
Identities = 23/103 (22%), Positives = 49/103 (47%), Gaps = 1/103 (0%)
Query: 175 QVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTE 234
++ LE A K Y A ++ A+ + A+ ++ + +K + + Q + T+ +
Sbjct: 131 KMKELEAAKKAYHLACKEEKLAMTREANSKAEQSVTPEQQKKLQDKVDKCKQDVQKTQEK 190
Query: 235 YANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFMV 277
Y L + Q Y + M +VF Q Q+ +EKR+ ++ ++
Sbjct: 191 YEKVLDDVGKTTPQ-YMENMEQVFEQCQQFEEKRLVFLKEVLL 232
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 32.3 bits (74), Expect = 0.90
Identities = 18/96 (18%), Positives = 34/96 (35%), Gaps = 29/96 (30%)
Query: 125 ALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALK 184
ALE ++ D SD IL+ + L +K
Sbjct: 738 ALEYIQELEDLLRESSD-----------------------------ILKVPPEQLPETVK 768
Query: 185 NYEKAFRDADKALEHYKRADADLELSRAEVEKQRIN 220
+ + +++ K +E K+ A+L++ E +RI
Sbjct: 769 RFFEEWKEQRKEIERLKKKLAELKIYELISEAERIG 804
>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 = 29.2 bits (65), Expect = 0.92
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 589 AKALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A+ALY F + + G I + + E L + +GW + + G P SY++
Sbjct: 2 ARALYDFRSENPGEISLREHEVLSLCSEQDIEGWLE-GVNSRGDRGLFPASYVE 54
>gnl|CDD|212745 cd11811, SH3_CHK, Src Homology 3 domain of CSK homologous kinase.
CHK is also referred to as megakaryocyte-associated
tyrosine kinase (Matk). It inhibits Src kinases using a
noncatalytic mechanism by simply binding to them. As a
negative regulator of Src kinases, Chk may play
important roles in cell proliferation, survival, and
differentiation, and consequently, in cancer development
and progression. To inhibit Src kinases that are
anchored to the plasma membrane, CHK is translocated to
the membrane via binding to specific transmembrane
proteins, G-proteins, or adaptor proteins near the
membrane. CHK also plays a role in neural
differentiation in a manner independent of Src by
enhancing MAPK activation via Ras-mediated signaling. It
is a cytoplasmic (or nonreceptor) tyr kinase containing
the Src homology domains, SH3 and SH2, N-terminal to the
catalytic tyr kinase domain. SH3 domains are protein
interaction domains that bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs. They play versatile and diverse roles in
the cell including the regulation of enzymes, changing
the subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 59
Score = 29.0 bits (65), Expect = 0.94
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 601 GSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTS 639
G + + G+ + I+E + GW R R T EEG V
Sbjct: 16 GELAFHKGDIVTIVETCERKGWYRARHNTSGEEGLVAAG 54
>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 = 29.2 bits (66), Expect = 0.96
Identities = 11/63 (17%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 586 LGTAKALYPFEATSEGSIPMYDGEELYIIE----LDQGDGWTRVRRQTDSEEGFVPTSYI 641
L +A + + A + G+ + +I +Q +GW +++ G P ++
Sbjct: 2 LYKVRATHDYTAEDTDELTFEKGDVILVIPFDDPEEQDEGWLMGVKESTGCRGVFPENFT 61
Query: 642 QTI 644
+ I
Sbjct: 62 ERI 64
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 32.1 bits (74), Expect = 1.0
Identities = 30/144 (20%), Positives = 67/144 (46%), Gaps = 17/144 (11%)
Query: 126 LERARKNYDKAYRESDKALEHYKRADADLELS------RAEHLQDGDHLMKILRNQVDAL 179
++ A + + E+ K E K+ +A LE R E ++ ++ RN++ L
Sbjct: 33 IKEAEEEAKRILEEAKKEAEAIKK-EALLEAKEEIHKLRNEFEKE----LRERRNELQKL 87
Query: 180 ERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQL 239
E+ L E+ D+ LE ++ + +LE E+E+++ + K + E+ E +L
Sbjct: 88 EKRLLQKEENL---DRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQEL 144
Query: 240 QRANEMQRQHYTQAMPEVFAQLQE 263
+R + + + +A + +++E
Sbjct: 145 ERISGLTAE---EAKEILLEKVEE 165
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 29.3 bits (66), Expect = 1.1
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 5/62 (8%)
Query: 141 DKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHY 200
D+ALE ++A L A L + N + L AL +Y++A +KAL
Sbjct: 22 DEALELLEKA-----LELARELGEDHPETARALNNLARLYLALGDYDEALEYLEKALALR 76
Query: 201 KR 202
+
Sbjct: 77 EA 78
>gnl|CDD|212833 cd11900, SH3_Nck1_1, First 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 first SH3
domain of Nck1 binds the PxxDY sequence 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 = 59
Score = 28.9 bits (64), Expect = 1.2
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A + + A + + + E L++ LD W RVR + + GFVP++Y++
Sbjct: 7 AKFDYVAQQDQELDIKKNERLWL--LDDSKSWWRVRNAMN-KTGFVPSNYVE 55
>gnl|CDD|214019 cd12926, iSH2_PIK3R2, Inter-Src homology 2 (iSH2) helical domain of
Class IA Phosphoinositide 3-kinase Regulatory subunit 2,
PIK3R2, also called p85beta. PI3Ks catalyze the
transfer of the gamma-phosphoryl group from ATP to the
3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives.
They play an important role in a variety of fundamental
cellular processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, immune cell
activation, and apoptosis. They are classified according
to their substrate specificity, regulation, and domain
structure. Class IA PI3Ks are heterodimers of a p110
catalytic (C) subunit and a p85-related regulatory (R)
subunit. The R subunit down-regulates PI3K basal
activity, stabilizes the C subunit, and plays a role in
the activation downstream of tyrosine kinases. All R
subunits contain two SH2 domains that flank an
intervening helical domain (iSH2), which binds to the
N-terminal adaptor-binding domain (ABD) of the catalytic
subunit. p85beta, also called PIK3R2, contains
N-terminal SH3 and GAP domains. It is expressed
ubiquitously but at lower levels than p85alpha. Its
expression is increased in breast and colon cancer,
correlates with tumor progression, and enhanced
invasion. During viral infection, the viral
nonstructural (NS1) protein binds p85beta specifically,
which leads to PI3K activation and the promotion of
viral replication. Mice deficient with PIK3R2 develop
normally and exhibit moderate metabolic and
immunological defects.
Length = 161
Score = 30.8 bits (69), Expect = 1.3
Identities = 29/137 (21%), Positives = 57/137 (41%), Gaps = 11/137 (8%)
Query: 131 KNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAF 190
+ Y RE D+ E Y R +L++ R ++ + +KI Q E+ K Y
Sbjct: 15 QQYQDKSREYDQLYEEYTRTSQELQMKRTA-IEAFNETIKIFEEQGQTQEKCSKEY---- 69
Query: 191 RDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHY 250
LE ++R + E+ R + +R+ I H TK E + Q ++ +
Sbjct: 70 ------LERFRREGNEKEMQRILLNSERLKSRIAEIHESRTKLEQDLRAQASDNREIDKR 123
Query: 251 TQAMPEVFAQLQELDEK 267
++ QL+++ ++
Sbjct: 124 MNSLKPDLMQLRKIRDQ 140
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 32.0 bits (72), Expect = 1.5
Identities = 38/154 (24%), Positives = 58/154 (37%), Gaps = 9/154 (5%)
Query: 451 RGELQKYQTYMEESEANSPAGMRKNSGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVNGG- 509
RG + YQ Y SP S G N + + + G +N V R GG
Sbjct: 330 RGNEKTYQIY-GGFHDGSPNAA---SAGAPFNGLGNQADG-GHINQVH-PDARGAWAGGP 383
Query: 510 -SNNNRDERANSAGEEEESLSRSASDSSVHNNNHSKLNSSSTQLPNISLYQREEPDIGTS 568
SN + + A S + + +A S+ +N N PN + P+ T
Sbjct: 384 HSNASYNCAAYSNAAQSNAAQSNAGFSNAGYSNPGNSNPGYNNAPNSNTPYNNPPNSNTP 443
Query: 569 HTSLPESDPPEYFDLPPLGTAKALYPFEATSEGS 602
+++ P S+PP Y +LP T + P S
Sbjct: 444 YSNPPNSNPP-YSNLPYSNTPYSNAPLSNAPPSS 476
Score = 30.0 bits (67), Expect = 4.7
Identities = 22/105 (20%), Positives = 39/105 (37%), Gaps = 25/105 (23%)
Query: 457 YQTYMEESEANSPAGMRKNSGGGGNNNVNSTSGSSGGVNGVQ------------------ 498
Y + AN PA + NN + +G+S G
Sbjct: 484 YHAAYQHRAANQPAANLPTANQPAANNFHGAAGNSVGNPFASRPFGSAPYGGNAATTADP 543
Query: 499 --TQQQRVNVNGGSNNNRDERANSAGEEEESLSRSASDSSVHNNN 541
++ + GG+N + E++ +EES+ S+S++S N N
Sbjct: 544 NGIAKREDHPEGGTNRQKYEQS-----DEESVESSSSENSSENEN 583
>gnl|CDD|212776 cd11842, SH3_Ysc84p_like, Src homology 3 domain of Ysc84p and
similar fungal proteins. This family is composed of the
Saccharomyces cerevisiae proteins, Ysc84p (also called
LAS17-binding protein 4, Lsb4p) and Lsb3p, and similar
fungal proteins. They contain an N-terminal SYLF domain
(also called DUF500) and a C-terminal SH3 domain. Ysc84p
localizes to actin patches and plays an important in
actin polymerization during endocytosis. The N-terminal
domain of both Ysc84p and Lsb3p can bind and bundle
actin filaments. A study of the yeast SH3 domain
interactome predicts that the SH3 domains of Lsb3p and
Lsb4p may function as molecular hubs for the assembly of
endocytic complexes. SH3 domains are protein interaction
domains that bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP motifs.
They play versatile and diverse roles in the cell
including the regulation of enzymes, changing the
subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 55
Score = 28.5 bits (64), Expect = 1.5
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 5/57 (8%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIEL--DQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A ALY F G + G+ + I++ Q D WT + EG P +Y++
Sbjct: 1 KAVALYDFAGEQPGDLAFQKGDIITILKKSDSQNDWWT---GRIGGREGIFPANYVE 54
>gnl|CDD|221784 pfam12810, Gly_rich, Glycine rich protein. This family of proteins
is greatly expanded in Trichomonas vaginalis. The
proteins are composed of several glycine rich motifs
interspersed through the sequence. Although many
proteins have been annotated by similarity in the family
these annotations given the biased composition of the
sequences these are unlikely to be functionally
relevant.
Length = 248
Score = 31.0 bits (71), Expect = 1.5
Identities = 22/94 (23%), Positives = 31/94 (32%), Gaps = 22/94 (23%)
Query: 464 SEANSPAGMRKNSGGGG----NNNVNSTSGSSGGVNG-------VQTQQQRVNVN---GG 509
E NS M K GG N+N ++ SGG G + + R+ V GG
Sbjct: 59 GEDNSSNNMVKGGYNGGGDGGNDNSSNDGSGSGG--GATDIRLNENSLKSRIIVAGGGGG 116
Query: 510 SNNNRDERANSAGEEEESLSRSASDSSVHNNNHS 543
S N G + + NN +
Sbjct: 117 SGNYNGGSGGFGGGLV------GGGGTSNGNNST 144
Score = 29.1 bits (66), Expect = 6.2
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 476 SGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVNGGSNNNRDERANSAG 522
GGG N + G GG+ G N GG+ + E A+S G
Sbjct: 113 GGGGSGNYNGGSGGFGGGLVGGGGTSNGNNSTGGTQTSGGEGASSGG 159
>gnl|CDD|227606 COG5281, COG5281, Phage-related minor tail protein [Function
unknown].
Length = 833
Score = 31.5 bits (71), Expect = 1.5
Identities = 34/179 (18%), Positives = 67/179 (37%), Gaps = 15/179 (8%)
Query: 102 KEERKKHLQDGARMMNLLENQVIALE-RARKNYDKAYRESDKAL-------EHYKRADAD 153
+ Q+GA E +V++ + R +++K + +A
Sbjct: 394 AAADQAANQEGALNAREDEAEVLSTQEERRDILKNLLADAEKRTARQEELNKALAKAKIL 453
Query: 154 LELSRAEHLQ-DGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRA 212
A+ Q D R + A ER+ ++ A KAL +++ ADL ++
Sbjct: 454 QADKAAKAYQEDILQREAQSRGKTAAAERS----QEQMTAALKALLAFQQQIADLSGAKE 509
Query: 213 EVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQL-QELDEKRVR 270
+ Q+ + K++ E A Q Q + + + E +QL + LD++ R
Sbjct: 510 KASDQKSLLW-KAEEQYALLKEEAKQRQLQEQKALLEHKKETLEYTSQLAELLDQQADR 567
>gnl|CDD|153355 cd07671, F-BAR_PSTPIP1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Protein 1. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Proline-Serine-Threonine
Phosphatase-Interacting Protein 1 (PSTPIP1), also known
as 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. 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.
Length = 242
Score = 31.1 bits (70), Expect = 1.5
Identities = 39/147 (26%), Positives = 62/147 (42%), Gaps = 22/147 (14%)
Query: 136 AYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADK 195
RE K+LE ++ + R ++ + + K + + K YE+ R+AD+
Sbjct: 82 MLREELKSLEEFRERQKE---QRKKYEAVMERVQKSKVSLYKKTMESKKTYEQRCREADE 138
Query: 196 ALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYAN-------QLQRAN-EMQR 247
A + ++R S KQ K++ C D TE QL +A E +
Sbjct: 139 AEQTFER------SSSTGNPKQSEKSQNKAKQCRDAATEAERVYKQNIEQLDKARTEWET 192
Query: 248 QHYTQAMPEVFAQLQELDEKRVRNIRN 274
+H EVF QLQE D R+ +RN
Sbjct: 193 EHILTC--EVF-QLQEDD--RITILRN 214
>gnl|CDD|153286 cd07602, BAR_RhoGAP_OPHN1-like, The Bin/Amphiphysin/Rvs (BAR)
domain of Oligophrenin1-like Rho GTPase Activating
Proteins. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. This subfamily is
composed of Rho and Rac GTPase activating proteins
(GAPs) with similarity to oligophrenin1 (OPHN1). Members
contain an N-terminal BAR domain, followed by a
Pleckstrin homology (PH) domain, and a Rho GAP domain.
Some members contain a C-terminal SH3 domain.
Vertebrates harbor at least three Rho GAPs in this
subfamily including OPHN1, GTPase Regulator Associated
with Focal adhesion kinase (GRAF), GRAF2, and an
uncharacterized protein called GAP10-like. OPHN1, GRAF
and GRAF2 show GAP activity towards RhoA and Cdc42. In
addition, OPHN1 is active towards Rac. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions. The BAR domains of OPHN1
and GRAF directly interact with their Rho GAP domains
and inhibit their activity. The autoinhibited proteins
are able to bind membranes and tubulate liposomes,
showing that the membrane-tubulation and GAP-inhibitory
functions of the BAR domains can occur simultaneously.
Length = 207
Score = 30.7 bits (70), Expect = 1.5
Identities = 44/166 (26%), Positives = 75/166 (45%), Gaps = 28/166 (16%)
Query: 119 LENQVIALERARKNYDKAYRESDKALEHYK-----RADADLELSRAEHLQD--------G 165
L + L A KN KA R + L+++K D E+ AE L++
Sbjct: 21 LIKECKNLISATKNLSKAQRSFAQTLQNFKFECIGETQTDDEIEIAESLKEFGRLIETVE 80
Query: 166 DHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKS 225
D ++L N + L L+ + K K E K+ D + E + +EK +N++ K
Sbjct: 81 DERDRMLENAEEQLIEPLEKFRKEQIGGAK--EEKKKFDKETEKFCSSLEKH-LNLSTKK 137
Query: 226 QHCEDTKTEYANQLQRAN---EMQRQHYTQAMPEVFAQLQELDEKR 268
+ NQLQ A+ +M+R+++ QA E +LQE+ E++
Sbjct: 138 KE---------NQLQEADAQLDMERRNFHQASLEYVFKLQEVQERK 174
>gnl|CDD|153368 cd07684, F-BAR_srGAP3, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase
Activating Protein 3. F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. 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. 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. srGAP3 contains an N-terminal F-BAR
domain, a Rho GAP 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.
Length = 253
Score = 31.2 bits (70), Expect = 1.6
Identities = 32/160 (20%), Positives = 61/160 (38%), Gaps = 8/160 (5%)
Query: 4 DQYDNLSLHTQKGIDFLEKYGHFIRDRCAIEMEYAGKLRRLVKNYQPK--------KEEE 55
+Q+ L ++ + L+ F R + IE+EY+ L +L + + K +++
Sbjct: 5 EQFKCLEQQSESRLQLLQDLQEFFRRKAEIELEYSRSLEKLAERFSSKIRTSREHQFKKD 64
Query: 56 DYQYSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARM 115
S + VL++ + H + + +I ++ +D KK + G +M
Sbjct: 65 QQLLSPVNCWYLVLEQTRRESRDHATLNDIFNNNVIVRLSQISEDVIRLFKKSKEIGLQM 124
Query: 116 MNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLE 155
L L K Y + ES A K A+ E
Sbjct: 125 HEELLKVTNELYTVMKTYHMYHAESISAESKLKEAEKQEE 164
>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 = 31.6 bits (72), Expect = 1.6
Identities = 31/111 (27%), Positives = 59/111 (53%), Gaps = 7/111 (6%)
Query: 74 DLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKKHLQDGARMMNLLENQVIALERARKNY 133
+ + E + E II++ F +D EE K ++ A++ E Q+ LE+A K+Y
Sbjct: 97 EREQKEEEVREKHNKKIIEK---FGEDL-EEVYKFMKGEAKVEEEEEKQMEILEKALKSY 152
Query: 134 DKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALK 184
K +E +K+L+ +A L+ E QD +++ R+++DAL+ A++
Sbjct: 153 LKIVKEENKSLQRLAKA---LQKESEERTQDETKMIEEYRDKIDALKNAIE 200
Score = 28.9 bits (65), Expect = 9.7
Identities = 20/88 (22%), Positives = 43/88 (48%), Gaps = 6/88 (6%)
Query: 117 NLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILR-NQ 175
L+ ++ LER +K + + + K +E + +L G+ ++ Q
Sbjct: 87 QGLQRKLKELEREQKEEEVREKHNKKIIEKFGE-----DLEEVYKFMKGEAKVEEEEEKQ 141
Query: 176 VDALERALKNYEKAFRDADKALEHYKRA 203
++ LE+ALK+Y K ++ +K+L+ +A
Sbjct: 142 MEILEKALKSYLKIVKEENKSLQRLAKA 169
>gnl|CDD|221415 pfam12083, DUF3560, Domain of unknown function (DUF3560). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is about 120
amino acids in length. This domain has a conserved GHHSE
sequence motif.
Length = 127
Score = 30.0 bits (68), Expect = 1.7
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 6/76 (7%)
Query: 125 ALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALK 184
+ER KA DKA +RA A A D D ++ ++ L L+
Sbjct: 58 DIERIHNTMGKAVEAQDKAEYWEQRAAA--AARGAIARDDPDAVL----RRLKKLLADLR 111
Query: 185 NYEKAFRDADKALEHY 200
++ + A+K L +
Sbjct: 112 ASQRRMKAANKRLRTH 127
>gnl|CDD|227614 COG5295, Hia, Autotransporter adhesin [Intracellular trafficking
and secretion / Extracellular structures].
Length = 715
Score = 31.4 bits (71), Expect = 1.7
Identities = 21/83 (25%), Positives = 29/83 (34%), Gaps = 5/83 (6%)
Query: 470 AGMRKNSGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVNGGSNNNRDERANSAGE-EEESL 528
A K GGG + +SG V+ GS N NS G ++
Sbjct: 41 ALNAKALGGGKEVTALGGALNSGAVSLGTLSVVGDGGKDGSTNG----DNSLGLTQDTGA 96
Query: 529 SRSASDSSVHNNNHSKLNSSSTQ 551
+ SAS V N + L + T
Sbjct: 97 AVSASKGEVITNVAAGLKNVDTM 119
>gnl|CDD|206743 cd11383, YfjP, YfjP GTPase. The Era (E. coli Ras-like
protein)-like YfjP subfamily includes several
uncharacterized bacterial GTPases that are similar to
Era. They generally show sequence conservation in the
region between the Walker A and B motifs (G1 and G3 box
motifs), to the exclusion of other GTPases. Era is
characterized by a distinct derivative of the KH domain
(the pseudo-KH domain) which is located C-terminal to
the GTPase domain.
Length = 140
Score = 30.0 bits (68), Expect = 1.7
Identities = 19/81 (23%), Positives = 25/81 (30%), Gaps = 16/81 (19%)
Query: 109 LQDGARMMNLL------ENQVIALERARKNYDKAYRESD------KALEHYKRADADLEL 156
Q G + LL E E + Y + E+D A RA A
Sbjct: 40 WQTGGDGLVLLDLPGVGERGRRDRE-YEELYRRLLPEADLVLWLLDAD---DRALAADHD 95
Query: 157 SRAEHLQDGDHLMKILRNQVD 177
L D + + NQVD
Sbjct: 96 FYLLPLAGHDAPLLFVLNQVD 116
>gnl|CDD|214787 smart00721, BAR, BAR domain.
Length = 239
Score = 30.8 bits (70), Expect = 1.8
Identities = 20/102 (19%), Positives = 42/102 (41%), Gaps = 5/102 (4%)
Query: 159 AEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQR 218
+ LQ + L ++ R + L L F++ KA + +R D + +R +++K +
Sbjct: 105 KKLLQVEESLSQVKRTFILPL---LNFLLGEFKEIKKARKKLERKLLDYDSARHKLKKAK 161
Query: 219 INMAIKS-QHCEDTKTEYANQLQRANEMQRQHYTQAMPEVFA 259
+ K + + E Q E Q + +P++ A
Sbjct: 162 KSKEKKKDEKLAKAEEELRKAKQEFEESNAQ-LVEELPQLVA 202
>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail. The myosin molecule is a
multi-subunit complex made up of two heavy chains and
four light chains it is a fundamental contractile
protein found in all eukaryote cell types. This family
consists of the coiled-coil myosin heavy chain tail
region. The coiled-coil is composed of the tail from two
molecules of myosin. These can then assemble into the
macromolecular thick filament. The coiled-coil region
provides the structural backbone the thick filament.
Length = 859
Score = 31.6 bits (72), Expect = 1.8
Identities = 31/152 (20%), Positives = 59/152 (38%), Gaps = 17/152 (11%)
Query: 100 DFKEERKKHLQDGARMMNLLENQV---IALERARKNYDKAYRESDKALEHYKRADADLEL 156
+F+ RK H + + LE + R +K + E + AL+H +A+A+ +
Sbjct: 515 EFENTRKNHQRAIESLQATLEAEAKGKAEASRLKKKLEGDINELEIALDHANKANAEAQ- 573
Query: 157 SRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEK 216
K ++ ++ E+ R + A E A+ AE+E+
Sbjct: 574 -------------KNVKKYQQQVKELQTQVEEEQRAREDAREQLAVAERRATALEAELEE 620
Query: 217 QRINMAIKSQHCEDTKTEYANQLQRANEMQRQ 248
R + + + +TE A +R NE+ Q
Sbjct: 621 LRSALEQAERARKQAETELAEASERVNELTAQ 652
Score = 29.2 bits (66), Expect = 9.3
Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 5/100 (5%)
Query: 119 LENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDA 178
LE ++ AL+ + D+A E A E K+A AD E Q+ +H + R +
Sbjct: 663 LEGELAALQ---SDLDEAVNELKAAEERAKKAQADAARLAEELRQEQEHSQHLERLRK-Q 718
Query: 179 LERALKNYEKAFRDADK-ALEHYKRADADLELSRAEVEKQ 217
LE +K + +A+ AL+ K+ LE E+E +
Sbjct: 719 LESQVKELQVRLDEAEAAALKGGKKMIQKLEARVRELEAE 758
>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 = 28.0 bits (62), Expect = 1.9
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGD-GWTRVRRQTDSEEGFVPTSYIQ 642
+ALYPFEA S I + G+ + + E G+ GW + + + G+ P +Y +
Sbjct: 3 RALYPFEARSHDEITIQPGDIVMVDESQTGEPGW--LGGELKGKTGWFPANYAE 54
>gnl|CDD|220797 pfam10523, BEN, BEN domain. The BEN domain is found in diverse
animal proteins such as BANP/SMAR1, NAC1 and the
Drosophila mod(mdg4) isoform C, in the chordopoxvirus
virosomal protein E5R and in several proteins of
polydnaviruses. Computational analysis suggests that the
BEN domain mediates protein-DNA and protein-protein
interactions during chromatin organisation and
transcription.
Length = 78
Score = 28.9 bits (65), Expect = 1.9
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 262 QELDEKRVRNIRNFMVHSANIEKKVFPIINQCLD 295
LD ++ IRN++ +E KV+ Q ++
Sbjct: 35 PGLDPNKLNAIRNYVEERFPLEDKVWRECLQSIN 68
>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 = 28.0 bits (62), Expect = 2.1
Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
+ALY ++ + + G+EL +E + GW + R + + G P +Y++
Sbjct: 4 RALYDYDGQEQDELSFKAGDELTKLEDEDEQGWCKGRLDS-GQVGLYPANYVE 55
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 30.8 bits (70), Expect = 2.3
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 100 DFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKR 149
D K ER K Q + + LE ++ LE + + E +KA E ++
Sbjct: 272 DEKFERDKIKQLASELEKKLEKELKKLENKLEKQEDELEELEKAAEELRQ 321
>gnl|CDD|217305 pfam02970, TBCA, Tubulin binding cofactor A.
Length = 91
Score = 28.7 bits (65), Expect = 2.3
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 172 LRNQVDALERALKNYEKAFRDADKALE 198
L+ V LE L+ YE+ + ++A E
Sbjct: 64 LQKAVADLEEYLEEYEEGLEELEEAKE 90
>gnl|CDD|235782 PRK06341, PRK06341, single-stranded DNA-binding protein;
Provisional.
Length = 166
Score = 30.2 bits (68), Expect = 2.4
Identities = 30/104 (28%), Positives = 41/104 (39%), Gaps = 9/104 (8%)
Query: 415 EGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKLRGELQKYQTYMEESEANSPAGM-- 472
EGL K V E G IEGQL +R + +++Y T + NS M
Sbjct: 62 EGLCK---VAEQYLKKGAKVYIEGQLQ---TRKWTDQSGVERYSTEVVLQGFNSTLTMLD 115
Query: 473 -RKNSGGGGNNNVNSTSGSSGGVNGVQTQQQRVNVNGGSNNNRD 515
R GGGG + G G + + + GG N +RD
Sbjct: 116 GRGEGGGGGGGGDDGGGGDFGSSGPSRGGPRPASSGGGGNFSRD 159
>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 = 27.7 bits (62), Expect = 2.5
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGW 622
ALY + A + + +G+ +Y+ + DGW
Sbjct: 3 VALYDYTADKDDELSFQEGDIIYVTK-KNDDGW 34
>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 = 28.0 bits (62), Expect = 2.6
Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 8/55 (14%)
Query: 587 GTAKALYPFEATSEGSIPMYDGEELYIIELDQGDG----WTRVRRQTDSEEGFVP 637
G AL+ +E S+ + +G+ + I+ + D W R+ + +EG+VP
Sbjct: 1 GVVYALWDYEGESDDELSFKEGDCMTILRREDEDETEWWWARL----NDKEGYVP 51
>gnl|CDD|143413 cd07094, ALDH_F21_LactADH-like, ALDH subfamily: NAD+-dependent,
lactaldehyde dehydrogenase, ALDH family 21 A1, and
related proteins. ALDH subfamily which includes Tortula
ruralis aldehyde dehydrogenase ALDH21A1 (RNP123), and
NAD+-dependent, lactaldehyde dehydrogenase (EC=1.2.1.22)
and like sequences.
Length = 453
Score = 30.5 bits (69), Expect = 2.7
Identities = 23/101 (22%), Positives = 37/101 (36%), Gaps = 12/101 (11%)
Query: 164 DGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRAD-----ADLELSRAEVEKQR 218
DG+ + K+ + E AL +AL ++R ADL RAE +
Sbjct: 8 DGEVIGKVPADDRADAEEALATARAGAE-NRRALPPHERMAILERAADLLKKRAEEFAKI 66
Query: 219 INM----AIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMP 255
I IK E + + L+ A E + + +P
Sbjct: 67 IACEGGKPIKDARVEVDRA--IDTLRLAAEEAERIRGEEIP 105
>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 = 27.8 bits (62), Expect = 2.7
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQGDGWT-RVRRQTDSEEGFVPTSYIQ 642
KALY ++A + +G+ + I++ D WT R+R + EG P +Y++
Sbjct: 1 QCKALYAYDAQDTDELSFNEGDIIEILKEDPSGWWTGRLRGK----EGLFPGNYVE 52
>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 = 30.7 bits (70), Expect = 2.8
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 11/79 (13%)
Query: 132 NYDKAYRES-DKALEHY--KRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEK 188
Y+K ES +AL+ Y K+A+ D + L+ K + N+++ LE+ L+ EK
Sbjct: 264 GYEKRSFESLSEALDEYYSKKAERDRVKQKRSDLE------KRVENELEKLEKKLEKLEK 317
Query: 189 AFRDADKALEHYKRADADL 207
+A+ A E+Y+ +L
Sbjct: 318 ELEEAENA-ENYRLY-GEL 334
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 28.5 bits (64), Expect = 3.0
Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 15/95 (15%)
Query: 132 NYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFR 191
N + D+ALE+Y++A LEL D + A L YE+A
Sbjct: 8 NLYYKLGDYDEALEYYEKA---LEL---------DPDNADAYYNLAAAYYKLGKYEEALE 55
Query: 192 DADKALEHYKRADADLELSRAEVEKQ--RINMAIK 224
D +KALE +A + + + A++
Sbjct: 56 DYEKALE-LDPDNAKAYYNLGLAYYKLGKYEEALE 89
>gnl|CDD|215562 PLN03078, PLN03078, Putative tRNA pseudouridine synthase;
Provisional.
Length = 513
Score = 30.6 bits (69), Expect = 3.1
Identities = 31/137 (22%), Positives = 50/137 (36%), Gaps = 21/137 (15%)
Query: 436 IEGQLSETDSRLEKLRGELQKYQTYMEESEANSPAGMRKNSGGGGNNNVNSTSGSSGGVN 495
I+ +SE +S L GE + Y S+ + G + +S
Sbjct: 218 IDEHISEFNSILNGFEGE-HPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMS--- 273
Query: 496 GVQTQQQRVNVNGGSNNNRDERANSAGEEEESLSRSASDSSVHNNNHSKLNSSSTQLPNI 555
+ S N E + E+EE LS S+ S + N L S+Q+
Sbjct: 274 -----------SSESEENHGEISE---EDEEDLSFSSIPSGSSDENEDILKFQSSQVQIR 319
Query: 556 S--LYQREEPD-IGTSH 569
+ L++ +E D I SH
Sbjct: 320 ARWLHEPDETDRISASH 336
>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 = 27.7 bits (61), Expect = 3.1
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 588 TAKALYPFEATSEGSIPMYDGEELYIIELDQ-GDGWTRVRRQTDSEEGFVPTSYIQTI 644
T +A+Y + A E + DG+ YI+ + +GW Q G +P +YI+ +
Sbjct: 2 TYRAMYDYSAQDEDEVSFRDGD--YIVNVQPIDEGWMYGTVQRTGRTGMLPANYIEFV 57
>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 = 30.5 bits (69), Expect = 3.2
Identities = 21/122 (17%), Positives = 34/122 (27%), Gaps = 20/122 (16%)
Query: 103 EERKKHLQDGARMMNLLENQVIALERARKNYDK---------AYRESDKALEHYKRADAD 153
E ++ L AR R + A AL+ +
Sbjct: 803 ESAERELARAARKAAAAAAAWKQARRELERDAADLDLPTDPDALEAVGLALKRFGDHLHT 862
Query: 154 LELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAE 213
LE++ E LR+ +A DA +A E A A+ E +
Sbjct: 863 LEVAVRE-----------LRHAATRAAEQRARAARAESDAREAAEDAAEARAEAEEASLR 911
Query: 214 VE 215
+
Sbjct: 912 LR 913
Score = 30.5 bits (69), Expect = 3.7
Identities = 23/96 (23%), Positives = 38/96 (39%), Gaps = 8/96 (8%)
Query: 125 ALERARKNYDKAYRESDKALEHYKRADADLEL--SRAEHLQDGDHLMKI-----LRNQVD 177
L RAR + A E + + + + + +R E LQ R +
Sbjct: 284 DLGRARDELETAREEERELDARTEALEREADALRTRLEALQGSPAYQDAEELERARADAE 343
Query: 178 ALERALKNYEKAFRDADKALEHYKRADADLELSRAE 213
AL+ A + +A R+A+ LE +R D E R +
Sbjct: 344 ALQAAAADARQAIREAESRLEEERRR-LDEEAGRLD 378
>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 = 27.6 bits (61), Expect = 3.4
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
KALY +E G + G+ + I+ + W + + GF+P SYIQ
Sbjct: 4 KALYSYEGKEPGDLKFNKGD-IIILRRKVDENW--YHGELNGCHGFLPASYIQ 53
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 29.2 bits (66), Expect = 3.6
Identities = 16/107 (14%), Positives = 33/107 (30%), Gaps = 21/107 (19%)
Query: 168 LMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQH 227
++K L + + L E+ +A L Y++ EL A + I
Sbjct: 31 ILKALDERQAKIADDLAEAERLKEEAQALLAEYEQ-----ELEEAREQASEI-------- 77
Query: 228 CEDTKTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRN 274
Q ++ E + E +++E E + +
Sbjct: 78 --------IEQAKKEAEQIAEEIKAEAEEELERIKEAAEAEIEAEKE 116
>gnl|CDD|153311 cd07627, BAR_Vps5p, The Bin/Amphiphysin/Rvs (BAR) domain of yeast
Sorting Nexin Vps5p. BAR domains are dimerization,
lipid binding and curvature sensing modules found in
many different proteins with diverse functions. 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. A subset of SNXs also
contain BAR domains. The PX-BAR structural unit
determines the specific membrane targeting of SNXs.
Vsp5p is the yeast counterpart of human SNX1 and is part
of the retromer complex, which functions in the
endosome-to-Golgi retrieval of vacuolar protein sorting
receptor Vps10p, the Golgi-resident membrane protein
A-ALP, and endopeptidase Kex2. BAR domains form dimers
that bind to membranes, induce membrane bending and
curvature, and may also be involved in protein-protein
interactions.
Length = 216
Score = 29.6 bits (67), Expect = 3.7
Identities = 23/112 (20%), Positives = 57/112 (50%), Gaps = 5/112 (4%)
Query: 176 VDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEY 235
+D R++ + AF K ++++ A+++L +A++EK + + + +E
Sbjct: 93 LDEYIRSIGSVRAAFAQRQKLWQYWQSAESELSKKKAQLEKLKRQGKTQQEKLNSLLSEL 152
Query: 236 ANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFM---VHSANIEK 284
+RA+E++ + + + + ++L+ + +RV + RN + + SA IE
Sbjct: 153 EEAERRASELK-KEFEEVSELIKSELERFERERVEDFRNSVEIYLESA-IES 202
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 30.4 bits (69), Expect = 3.8
Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 11/92 (11%)
Query: 127 ERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNY 186
E R++ D +++ E +++LE +R ++D R +++ LE ++
Sbjct: 345 ESLREDADDLEERAEELREEAAELESELEEAREA-VEDR-------REEIEELEEEIEEL 396
Query: 187 EKAFRDADKALEHYKRADADLELSRAEVEKQR 218
+ F DA L A+ LE R E ++ R
Sbjct: 397 RERFGDAPVDLG---NAEDFLEELREERDELR 425
>gnl|CDD|217680 pfam03702, UPF0075, Uncharacterized protein family (UPF0075). The
proteins is this family are about 370 amino acids long
and have no known function.
Length = 365
Score = 30.0 bits (68), Expect = 3.8
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 309 DSALVIERYKSGFTPPGDIPFEDLSRGGESTPIAPAFPH-LMGMRPEAATVR---GTMSA 364
D L+ ER +G T D D++ GG+ P+ PAF L E V G +
Sbjct: 114 DPNLIAER--TGITVVADFRRRDVAAGGQGAPLVPAFHEALFAKANETRAVLNIGGIANV 171
Query: 365 GRLKRRNNVGGF 376
LK V GF
Sbjct: 172 SVLKPGAPVLGF 183
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 30.4 bits (69), Expect = 3.9
Identities = 32/151 (21%), Positives = 65/151 (43%), Gaps = 9/151 (5%)
Query: 74 DLAGQHEVIAENLQVFIIKEVTIFVKDFKEERKK---------HLQDGARMMNLLENQVI 124
+LA Q + + E L+ + ++E+ +++++ ++K L+ + L+ ++
Sbjct: 500 ELAEQLKELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLA 559
Query: 125 ALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALK 184
LE+ ++ E K LE + R + L+ + L++ LER K
Sbjct: 560 ELEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEK 619
Query: 185 NYEKAFRDADKALEHYKRADADLELSRAEVE 215
+K + DKA E + LE R E+E
Sbjct: 620 ELKKLEEELDKAFEELAETEKRLEELRKELE 650
>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 = 30.3 bits (68), Expect = 4.3
Identities = 28/189 (14%), Positives = 70/189 (37%), Gaps = 14/189 (7%)
Query: 100 DFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRAD-------- 151
K ++K+ L+ L +I LE + K ++ KALE+Y+ +
Sbjct: 167 REKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEEN 226
Query: 152 ---ADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLE 208
D E + L++ + ++++ ++ L+ E+ K + ++ E
Sbjct: 227 LLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQE 286
Query: 209 LSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQH---YTQAMPEVFAQLQELD 265
+ K+ + + E K + +L+ + + ++ + E+ +EL
Sbjct: 287 EELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELK 346
Query: 266 EKRVRNIRN 274
E ++
Sbjct: 347 ELEIKREAE 355
>gnl|CDD|153319 cd07635, BAR_GRAF2, The Bin/Amphiphysin/Rvs (BAR) domain of GTPase
Regulator Associated with Focal adhesion 2. BAR domains
are dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. 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 which 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 also interacts
with PKNbeta, which is a target of Rho. GRAF2 contains
an N-terminal BAR domain, followed by a Pleckstrin
homology (PH) domain, a Rho GAP domain, and a C-terminal
SH3 domain. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
The BAR domain of the related protein GRAF directly
interacts with its Rho GAP domain and inhibits its
activity. Autoinhibited GRAF is capable of binding
membranes and tubulating liposomes, showing that the
membrane-tubulation and GAP-inhibitory functions of the
BAR domain can occur simultaneously.
Length = 207
Score = 29.6 bits (66), Expect = 4.6
Identities = 41/174 (23%), Positives = 76/174 (43%), Gaps = 29/174 (16%)
Query: 106 KKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDG 165
K+ L+DG ++ ++ L A++ + + R D E A+ D E LQ+
Sbjct: 19 KELLKDGKNLIAATKS----LSAAQRKFAHSLR--DFKFEFIGDAETDDERCIDASLQEF 72
Query: 166 DHLMKILRNQVDALERA--------LKNYEKAFRDADKALEHYKRADADLELSRAEVEKQ 217
+ +K L Q + + L+ + K A K + K+ D + E + + +EK
Sbjct: 73 SNFLKNLEEQREIMALNVTETLIKPLERFRKEQLGAVKEEK--KKFDKETEKNYSLLEKH 130
Query: 218 RINMAIKSQHCEDTKTEYANQLQRAN---EMQRQHYTQAMPEVFAQLQELDEKR 268
+N++ K + QLQ A+ E RQH+ + E +LQE+ E++
Sbjct: 131 -LNLSAKKKE---------PQLQEADVQVEQNRQHFYELSLEYVCKLQEIQERK 174
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 30.1 bits (68), Expect = 4.6
Identities = 30/155 (19%), Positives = 66/155 (42%), Gaps = 16/155 (10%)
Query: 103 EERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALE--HYKRADADLELSRAE 160
+E KK L++ ++ LE + +LE +A E ++A E + +L+ E
Sbjct: 596 KELKKKLKELEERLSQLEELLQSLE-----LSEAENELEEAEEELESELEKLNLQAELEE 650
Query: 161 HLQDGDHLMKILRNQVDALERALKNYE---KAFRDADKALEHYKRADADLELSRAEVEKQ 217
LQ ++ L +V+ LE ++ + ++ LE ++ + +LE R E+E+
Sbjct: 651 LLQA---ALEELEEKVEELEAEIRRELQRIENEEQLEEKLEELEQLEEELEQLREELEEL 707
Query: 218 RINMAIKSQHCEDTK---TEYANQLQRANEMQRQH 249
+ Q E+ + E + ++++
Sbjct: 708 LKKLGEIEQLIEELESRKAELEELKKELEKLEKAL 742
>gnl|CDD|206638 cd00181, Tar_Tsr_LBD, ligand binding domain of Tar- and Tsr-related
chemoreceptors. E.coli Tar (taxis to aspartate and
repellents) and Tsr (taxis to serine and repellents) are
homologous chemoreceptors that have a high specificity
for aspartate and serine, respectively. Both are
homodimeric receptors and contain an N-terminal
periplasmic ligand binding domain, a transmembrane
region, a HAMP domain and a C-terminal cytosolic
signaling domain.
Length = 129
Score = 28.5 bits (64), Expect = 4.6
Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 3/95 (3%)
Query: 110 QDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLM 169
A LL+ +L A K + A++ K + A+LE S + L+
Sbjct: 35 DPDASAAELLDRAKASLAAADKAFA-AFKALPKLTGEERALAAELEASYQAYHDALQELI 93
Query: 170 KILRNQVDALERALKNY-EKAFRDADKALEHYKRA 203
L+ DA++ L + ++A + Y
Sbjct: 94 AALQKG-DAIDAFLDQPTQGLQDAFEEAYDAYLNY 127
>gnl|CDD|220614 pfam10174, Cast, RIM-binding protein of the cytomatrix active zone.
This is a family of proteins that form part of the CAZ
(cytomatrix at the active zone) complex which is
involved in determining the site of synaptic vesicle
fusion. The C-terminus is a PDZ-binding motif that binds
directly to RIM (a small G protein Rab-3A effector). The
family also contains four coiled-coil domains.
Length = 774
Score = 30.0 bits (67), Expect = 5.1
Identities = 37/193 (19%), Positives = 77/193 (39%), Gaps = 20/193 (10%)
Query: 93 EVTIFVKDFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADA 152
E + ++ KEE K + + + LE I LE+ R+ ++K +E + + + AD
Sbjct: 490 ERELQLELLKEEVSKLASNQLKQRSDLERAHIELEKIREKHEKLEKELKRLRANPESADR 549
Query: 153 D--LELSRAEHLQDG-------DHLMKILR---NQVDALERALKNYEKAFRDADKALEHY 200
++ + D D L+ L + D E K + +KA H
Sbjct: 550 GSAVDAGTSRSRADSAGARNEVDRLLDRLEKAEQERDDTEMEAGRLAK---ELEKAQRHL 606
Query: 201 KRADADLELSRAEVEKQRINMAIKSQHCEDTKTE-----YANQLQRANEMQRQHYTQAMP 255
+ E +R E E++ + +++ E ++ E + Q+ A H +
Sbjct: 607 TKQQEKTEATRIEFERKSAELLEEAERLEKSEAEEETLRQSTQIGHAQAAAHNHIEHHVQ 666
Query: 256 EVFAQLQELDEKR 268
++ + L++L +R
Sbjct: 667 KLESDLKQLRAER 679
>gnl|CDD|221006 pfam11157, DUF2937, Protein of unknown function (DUF2937). This
family of proteins with unknown function appears to be
restricted to Proteobacteria.
Length = 167
Score = 28.7 bits (65), Expect = 5.5
Identities = 10/53 (18%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 166 DHLMKILRNQVDALERALKNYEK-----AFRDADKALEHYKRADADLELSRAE 213
D + L +D L R++ ++ D + + HY+++ + + AE
Sbjct: 26 DQYGQRLGGHLDELRRSVAGFQATADAFFGGDREALIAHYRQSSDPVFRADAE 78
>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 = 26.6 bits (59), Expect = 5.6
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 590 KALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
+ALY +E + G+ L +E + GW + R D G P +Y++
Sbjct: 3 RALYDYEGQESDELSFKAGDILTKLEEEDEQGWCKGR--LDGRVGLYPANYVE 53
>gnl|CDD|212832 cd11899, SH3_Nck2_1, First 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 first SH3 domain of Nck2
binds the PxxDY sequence 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 = 58
Score = 27.0 bits (59), Expect = 6.0
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 591 ALYPFEATSEGSIPMYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQ 642
A + + A + + + E L++ LD W RVR + G+VP++Y++
Sbjct: 8 AKWDYTAQQDQELDIKKNERLWL--LDDSKTWWRVR-NAANRTGYVPSNYVE 56
>gnl|CDD|180714 PRK06827, PRK06827, phosphoribosylpyrophosphate synthetase;
Provisional.
Length = 382
Score = 29.5 bits (67), Expect = 6.5
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 7/61 (11%)
Query: 261 LQELDEKRVRNIRNFMVHSANIE----KKVFPIIN---QCLDGIIKAADQINEKEDSALV 313
LQEL+E V NI F H IE F + Q + ++K + +D +V
Sbjct: 152 LQELEELGVDNIITFDAHDPRIENAIPLMGFENLYPSYQIIKALLKNEKDLEIDKDHLMV 211
Query: 314 I 314
I
Sbjct: 212 I 212
>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 = 29.7 bits (67), Expect = 6.5
Identities = 25/129 (19%), Positives = 50/129 (38%), Gaps = 27/129 (20%)
Query: 151 DADLELSRAE---HLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADAD- 206
+ L+ +R E L + + R++++ LE +E D +E + AD D
Sbjct: 301 EDQLKEARDELNQELSAANAKLAADRSELELLEDQKGAFE------DADIEQLQ-ADLDQ 353
Query: 207 LELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYT--QAMPEVFAQLQEL 264
L R+E E+ + + ++QR++ Q + E + E
Sbjct: 354 LPSIRSE--------------LEEVEARLDALTGKHQDVQRKYERLKQKIKEQLERDLEK 399
Query: 265 DEKRVRNIR 273
+ +R+ IR
Sbjct: 400 NNERLAAIR 408
Score = 29.3 bits (66), Expect = 8.0
Identities = 28/131 (21%), Positives = 48/131 (36%), Gaps = 12/131 (9%)
Query: 119 LENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDA 178
LE Q A AR +A + + + LEL+ AE Q + ++ L Q+
Sbjct: 637 LEEQKRAEAEARTALKQARLDLQRLQNEQQSLKDKLELAIAERKQQAETQLRQLDAQLKQ 696
Query: 179 LERALKNYEKAFRDADKALEHYKRA---------DADLELSRAEVEKQRINMAIKSQHCE 229
L + + +A +D + L + A D L A +E R +
Sbjct: 697 LLEQQQAFLEALKDDFRELRTERLAKWQVVEGELDNQLAQLSAAIEAARTQAK---ARLK 753
Query: 230 DTKTEYANQLQ 240
+ K +Y +L
Sbjct: 754 ELKKQYDRELA 764
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PMID:8973346) and PilW in ref (PMID:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 28.8 bits (65), Expect = 6.7
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 12/61 (19%)
Query: 129 ARKNYDKAYRESDKALEHYKRADADLELSRAEHLQDGDHLMKILRNQVDALERALKNYEK 188
+ + + A DKALEH D L+ A + Q Q+ LE+A ++ +
Sbjct: 43 EQGDLEVAKENLDKALEH-DPDDYLAYLALALYYQ-----------QLGELEKAEDSFRR 90
Query: 189 A 189
A
Sbjct: 91 A 91
>gnl|CDD|205921 pfam13747, DUF4164, Domain of unknown function (DUF4164). This is
a family of short, approx 100 residue-long, bacterial
proteins of unknown function. There is several conserved
LE/LD sequence pairs.
Length = 89
Score = 27.6 bits (62), Expect = 6.8
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 177 DALERALKNYEKAFRDADKALEHYKRADADL-----ELSRAEVEKQRINMAIKSQHCEDT 231
LE AL+ + A + AL+ D D+ E+ R ++ R+ + D
Sbjct: 4 TELEAALQRLDAALDRLEAALDRRLERDRDIDELEAEIQRLGADRSRLAQEL------DQ 57
Query: 232 KTEYANQLQRANE 244
AN+L+ AN
Sbjct: 58 AEARANRLEEANR 70
>gnl|CDD|221119 pfam11471, Sugarporin_N, Maltoporin periplasmic N-terminal
extension. This domain would appear to be the
periplasmic, N-terminal extension of the outer membrane
maltoporins, pfam02264, LamB.
Length = 59
Score = 26.5 bits (59), Expect = 6.9
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 436 IEGQLSETDSRLEKLRGELQKYQT 459
+E +L E L+K + EL+KY+T
Sbjct: 36 LEKRLQENKQELQKTKDELKKYKT 59
>gnl|CDD|153369 cd07685, F-BAR_Fes, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma)
tyrosine kinase. F-BAR domains are dimerization modules
that bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
Fes (feline sarcoma), also called Fps (Fujinami poultry
sarcoma), is a cytoplasmic (or nonreceptor) tyrosine
kinase whose gene was first isolated from tumor-causing
retroviruses. It is expressed in myeloid, vascular
endothelial, epithelial, and neuronal cells, and plays
important roles in cell growth and differentiation,
angiogenesis, inflammation and immunity, and
cytoskeletal regulation. Fes kinase has also been
implicated as a tumor suppressor in colorectal cancer.
It contains an N-terminal F-BAR domain, an SH2 domain,
and a C-terminal catalytic kinase 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 Fes is
critical in its role in microtubule nucleation and
bundling.
Length = 237
Score = 28.8 bits (64), Expect = 7.4
Identities = 20/98 (20%), Positives = 43/98 (43%), Gaps = 5/98 (5%)
Query: 179 LERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDTKTEYANQ 238
+E+ Y +D+ +A Y+ A D + +A+ + + + + H EY
Sbjct: 133 IEKLKSQYRSLAKDSAQAKRKYQEASKDKDRDKAKEKYVKSLWKLYALH-----NEYVLA 187
Query: 239 LQRANEMQRQHYTQAMPEVFAQLQELDEKRVRNIRNFM 276
++ A + HY + +P + LQ L E+ V ++ +
Sbjct: 188 VRAAQLHHQHHYQRILPGLLESLQSLHEEMVLILKEIL 225
>gnl|CDD|153320 cd07636, BAR_GRAF, The Bin/Amphiphysin/Rvs (BAR) domain of GTPase
Regulator Associated with Focal adhesion kinase. BAR
domains are dimerization, lipid binding and curvature
sensing modules found in many different proteins with
diverse functions. GTPase Regulator Associated with
Focal adhesion kinase (GRAF), also called Rho GTPase
activating protein 26 (ARHGAP26), 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.
GRAF contains an N-terminal BAR domain, followed by a
Pleckstrin homology (PH) domain, a Rho GAP domain, and a
C-terminal SH3 domain. BAR domains form dimers that bind
to membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
The BAR domain of GRAF directly interacts with its Rho
GAP domain and inhibits its activity. Autoinhibited GRAF
is capable of binding membranes and tubulating
liposomes, showing that the membrane-tubulation and
GAP-inhibitory functions of the BAR domain can occur
simultaneously.
Length = 207
Score = 28.9 bits (64), Expect = 7.5
Identities = 39/158 (24%), Positives = 71/158 (44%), Gaps = 22/158 (13%)
Query: 125 ALERARKNYDKAYRESDKALEHYK-----RADADLELSRAEHLQD--------GDHLMKI 171
+L A KN A R+ +L +K A+ D E+ A LQ+ D ++
Sbjct: 27 SLIAALKNLSSAKRKFADSLNEFKFQCIGDAETDDEICIARSLQEFAAVLRNLEDERTRM 86
Query: 172 LRNQVDALERALKNYEKAFRDADKALEHYKRADADLELSRAEVEKQRINMAIKSQHCEDT 231
+ N + L L+ + K A K E K+ D + E A +EK ++ + S+ E
Sbjct: 87 IENASEVLITPLEKFRKEQIGAAK--EAKKKYDKETEKYCAVLEK---HLNLSSKKKESQ 141
Query: 232 KTEYANQLQRANEMQRQHYTQAMPEVFAQLQELDEKRV 269
E +Q+ ++ RQH+ + E ++QE+ E+++
Sbjct: 142 LHEADSQV----DLVRQHFYEVSLEYVFKVQEVQERKM 175
>gnl|CDD|184712 PRK14501, PRK14501, putative bifunctional trehalose-6-phosphate
synthase/HAD hydrolase subfamily IIB; Provisional.
Length = 726
Score = 29.1 bits (66), Expect = 7.9
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 146 HYKRADADLELSRAEHLQDGDHLMKILRNQ 175
HY+ AD +L +RA L L +L N
Sbjct: 611 HYRNADPELGEARANELI--LALSSLLSNA 638
>gnl|CDD|130727 TIGR01666, YCCS, TIGR01666 family membrane protein. This model
represents a clade of sequences from gamma and beta
proteobacteria. These proteins are >700 amino acids long
and many have been annotated as putative membrane
proteins. The gene from Salmonella has been annotated as
a putative efflux transporter. The gene from E. coli has
the name yccS [Cell envelope, Other].
Length = 704
Score = 29.4 bits (66), Expect = 7.9
Identities = 27/101 (26%), Positives = 41/101 (40%), Gaps = 19/101 (18%)
Query: 114 RMMNLLENQVIALE------RARKNY--DKAYRESDKALEHYKRADADLELSRAEHLQDG 165
R LLE Q A + R K Y DK ++AL L+L RA+HL D
Sbjct: 266 RFQRLLELQAQACKEITASIRLNKPYQHDKR---VERALLG---TLHSLDLYRAQHLNDQ 319
Query: 166 DHLMKI--LRNQVDALERALKNYEKAFRDADKALEHYKRAD 204
D L+ + L N + ++ L+ + D + + D
Sbjct: 320 DLLIDLGTLLNNLQSINWQLRQLAQ---DTTVTEQLAQLHD 357
>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 = 29.4 bits (66), Expect = 8.3
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 16/75 (21%)
Query: 391 QRKKKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKL 450
QR +LQQ++E++Q ++Q++ + E +K E+ H+ QL E +
Sbjct: 509 QRILELQQQVEDLQKALQEQGSKSEDSSLLKSKLEE-------HLE--QLHEANE----- 554
Query: 451 RGELQKYQTYMEESE 465
ELQK + +EE E
Sbjct: 555 --ELQKKREQIEELE 567
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 29.2 bits (66), Expect = 9.0
Identities = 34/187 (18%), Positives = 73/187 (39%), Gaps = 30/187 (16%)
Query: 98 VKDFKEERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLE-- 155
+D+ EE + Q+ + LE ++ + A +++AY+ K R++A
Sbjct: 440 AEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAGEVSRSEAWDVAR 499
Query: 156 --LSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFR--------------DADKALEH 199
L R + ++ LR ++ LE+ L+ ++A R D D+ +
Sbjct: 500 ELLRRLREQRHLAEQLQQLRMRLSELEQRLRQQQRAERLLAEFCKRLGKNLDDEDELEQL 559
Query: 200 YKRADA---DLELSRAEVEKQRINMAIKSQHCEDTKTEYANQLQRANEMQRQHYTQAMPE 256
+ +A L S +E ++R+ + Q E + + + + A
Sbjct: 560 QEELEARLESLSESVSEARERRMAL---RQQLEQLQARI-----QRLAARAPAWLAAQDA 611
Query: 257 VFAQLQE 263
+ A+L+E
Sbjct: 612 L-ARLRE 617
>gnl|CDD|101162 PRK03002, prsA, peptidylprolyl isomerase; Reviewed.
Length = 285
Score = 28.7 bits (64), Expect = 9.3
Identities = 49/208 (23%), Positives = 86/208 (41%), Gaps = 15/208 (7%)
Query: 36 EYAGKLRRLVKNYQPKKEEEDYQYSTCKAFKCVLDEVTDLAGQHEVIAENLQVFIIKEVT 95
+Y + + ++KN K+E D++ FK ++E + + + ++ + I K
Sbjct: 86 QYGDQFKNVLKNNG-LKDEADFKNQI--KFKLAMNEAIKKSVTEKDVKDHYKPEI-KASH 141
Query: 96 IFVKDFKE--ERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADAD 153
I V D E E KK L GA L + + L K D Y S + ++ A
Sbjct: 142 ILVSDENEAKEIKKKLDAGASFEELAKQESQDLLSKEKGGDLGYFNSGRMAPEFETAAYK 201
Query: 154 L---ELSRAEHLQDGDHLMKILRNQVDALERALKNYEKAFRDADKALEHYKRADADLELS 210
L ++S +G H++K+ ++ LK Y++ K LE + AD
Sbjct: 202 LKVGQISNPVKSPNGYHIIKLTD------KKDLKPYDEVKDSIRKNLEEERTADPIFGKK 255
Query: 211 RAEVEKQRINMAIKSQHCEDTKTEYANQ 238
+ E ++ N+ I EDT T + Q
Sbjct: 256 LLQSELKKANIKINDSELEDTFTIVSPQ 283
>gnl|CDD|176484 cd08366, APC10, APC10 subunit of the anaphase-promoting complex
(APC) that mediates substrate ubiquitination. This
model represents the single domain protein APC10, a
subunit of the anaphase-promoting complex (APC), which
is a multi-subunit E3 ubiquitin ligase. E3 ubiquitin
ligases mediate substrate ubiquitination (or
ubiquitylation), a vital component of the ubiquitin-26S
proteasome pathway for selective proteolytic
degradation. The APC (also known as the cyclosome), is a
cell cycle-regulated E3 ubiquitin ligase that controls
important transitions in mitosis and the G1 phase by
ubiquitinating regulatory proteins, thereby targeting
them for degradation. In mitosis, the APC initiates
sister chromatid separation by ubiquitinating the
anaphase inhibitor securin and triggers exit from
mitosis by ubiquitinating cyclin B. The C-terminus of
APC10 binds to CDC27/APC3, an APC subunit that contains
multiple tetratrico peptide repeats. APC10 domains are
homologous to the DOC1 domains present in the HECT
(Homologous to the E6-AP Carboxyl Terminus) E3 ubiquitin
ligase protein, and the Cullin-RING (Really Interesting
New Gene) E3 ubiquitin ligase complex. The APC10/DOC1
domain forms a beta-sandwich structure that is related
in architecture to the galactose-binding domain-like
fold; their sequences are quite dissimilar, however, and
are not included here.
Length = 139
Score = 27.9 bits (63), Expect = 9.4
Identities = 10/44 (22%), Positives = 24/44 (54%)
Query: 605 MYDGEELYIIELDQGDGWTRVRRQTDSEEGFVPTSYIQTIALDN 648
+D +E+ +EL++ +GW + + + + + T ++Q L N
Sbjct: 80 PHDLQEVRTVELEEPNGWVHIPLEDNRDGKPLRTFFLQIAILSN 123
>gnl|CDD|237110 PRK12472, PRK12472, hypothetical protein; Provisional.
Length = 508
Score = 29.1 bits (65), Expect = 9.5
Identities = 30/106 (28%), Positives = 42/106 (39%), Gaps = 11/106 (10%)
Query: 103 EERKKHLQDGARMMNLLENQVIALERARKNYDKAYRESDKALEHYKRADADLELSRAEHL 162
+E K AR L+ + LERA+ D + +DKAL K +A +RAE
Sbjct: 207 DEAKTAAAAAAREAAPLKASLRKLERAKARADAELKRADKALAAAKTDEAK---ARAEER 263
Query: 163 QDGDHLMKILRNQVDA---LERALKNYEKAFRDADKALEHYKRADA 205
Q K + +A L+ A + E A E K A A
Sbjct: 264 Q-----QKAAQQAAEAATQLDTAKADAEAKRAAAAATKEAAKAAAA 304
>gnl|CDD|238103 cd00176, SPEC, Spectrin repeats, found in several proteins involved
in cytoskeletal structure; family members include
spectrin, alpha-actinin and dystrophin; the spectrin
repeat forms a three helix bundle with the second helix
interrupted by proline in some sequences; the repeats
are independent folding units; tandem repeats are found
in differing numbers and arrange in an antiparallel
manner to form dimers; the repeats are defined by a
characteristic tryptophan (W) residue in helix A and a
leucine (L) at the carboxyl end of helix C and separated
by a linker of 5 residues; two copies of the repeat are
present here.
Length = 213
Score = 28.6 bits (64), Expect = 9.5
Identities = 13/71 (18%), Positives = 34/71 (47%)
Query: 394 KKLQQRIEEIQHSIQQESAAREGLIKMKGVYEDNPNLGDPHMIEGQLSETDSRLEKLRGE 453
++L ++ +E++ ++ + L ++ + + IE +L E + R E+L
Sbjct: 142 EELLKKHKELEEELEAHEPRLKSLNELAEELLEEGHPDADEEIEEKLEELNERWEELLEL 201
Query: 454 LQKYQTYMEES 464
++ Q +EE+
Sbjct: 202 AEERQKKLEEA 212
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
0.312 0.130 0.363
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,255,389
Number of extensions: 3334320
Number of successful extensions: 3843
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3672
Number of HSP's successfully gapped: 355
Length of query: 649
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 546
Effective length of database: 6,369,140
Effective search space: 3477550440
Effective search space used: 3477550440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 62 (27.5 bits)