RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9697
(128 letters)
>gnl|CDD|201115 pfam00253, Ribosomal_S14, Ribosomal protein S14p/S29e. This family
includes both ribosomal S14 from prokaryotes and S29
from eukaryotes.
Length = 53
Score = 57.6 bits (140), Expect = 1e-12
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 79 PRDSHPCRTQPRCVITSRPRGVVLRWRLSRIMFRHLADYNKLSGVQR 125
PR+S P R + RCV+T RPRGV+ ++ LSRI FR LA + GV++
Sbjct: 7 PRNSSPTRIRNRCVLTGRPRGVIRKFGLSRICFRELAHKGLIPGVKK 53
>gnl|CDD|214585 smart00252, SH2, Src homology 2 domains. Src homology 2 domains
bind phosphotyrosine-containing polypeptides via 2
surface pockets. Specificity is provided via
interaction with residues that are distinct from the
phosphotyrosine. Only a single occurrence of a SH2
domain has been found in S. cerevisiae.
Length = 84
Score = 56.1 bits (136), Expect = 1e-11
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 1 MAWFH-SVNRERAVQMVAAGGEGCFLVRPSSSSE-PLTLTLWYGGRAYNIFIRKRDDNKI 58
W+H ++RE A +++ G+G FLVR S SS L++ G+ + IR+ +D K
Sbjct: 1 QPWYHGFISREEAEKLLKNEGDGDFLVRDSESSPGDYVLSVRVKGKVKHYRIRRNEDGKF 60
Query: 59 GLG 61
L
Sbjct: 61 YLE 63
>gnl|CDD|181574 PRK08881, rpsN, 30S ribosomal protein S14; Reviewed.
Length = 101
Score = 54.4 bits (132), Expect = 8e-11
Identities = 27/68 (39%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 65 PNEVMAAREDATNH----PRDSHPCRTQPRCVITSRPRGVVLRWRLSRIMFRHLADYNKL 120
PN R +A PR+S P R + RC +T RPRG ++ LSRI R LA ++
Sbjct: 34 PNLSDEERYEARLKLQKLPRNSSPTRLRNRCELTGRPRGYYRKFGLSRIKLRELAHRGEI 93
Query: 121 SGVQRAMW 128
GV +A W
Sbjct: 94 PGVVKASW 101
>gnl|CDD|223277 COG0199, RpsN, Ribosomal protein S14 [Translation, ribosomal
structure and biogenesis].
Length = 61
Score = 48.4 bits (116), Expect = 6e-09
Identities = 23/58 (39%), Positives = 32/58 (55%)
Query: 71 AREDATNHPRDSHPCRTQPRCVITSRPRGVVLRWRLSRIMFRHLADYNKLSGVQRAMW 128
A+ PR P R + RC RPRGV+ ++ L RI FR LA ++ GV++A W
Sbjct: 4 AKLKLKALPRPKSPGRGRNRCRRCGRPRGVIRKFGLCRICFRELAHKGEIPGVKKASW 61
>gnl|CDD|198211 cd10348, SH2_Cterm_shark_like, C-terminal Src homology 2 (SH2)
domain found in SH2 domains, ANK, and kinase domain
(shark) proteins. These non-receptor protein-tyrosine
kinases contain two SH2 domains, five ankyrin
(ANK)-like repeats, and a potential tyrosine
phosphorylation site in its carboxyl-terminal tail
which resembles the phosphorylation site in members of
the src family. Like, mammalian non-receptor
protein-tyrosine kinases, ZAP-70 and syk proteins, they
do not have SH3 domains. However, the presence of ANK
makes these unique among protein-tyrosine kinases. Both
tyrosine kinases and ANK repeats have been shown to
transduce developmental signals, and SH2 domains are
known to participate intimately in tyrosine kinase
signaling. These tyrosine kinases are believed to be
involved in epithelial cell polarity. The members of
this family include the shark (SH2 domains, ANK, and
kinase domain) gene in Drosophila and yellow fever
mosquitos, as well as the hydra protein HTK16.
Drosophila Shark is proposed to transduce
intracellularly the Crumbs, a protein necessary for
proper organization of ectodermal epithelia,
intercellular signal. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 86
Score = 44.7 bits (106), Expect = 3e-07
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 3 WFH-SVNRERAVQMV--AAGGEGCFLVRPSSSSEP-LTLTLWYGGRAYNIFIRKRDDN 56
W H +++R AV+++ A +G FLVR S LTL Y Y+ I+ RDD
Sbjct: 2 WLHGALDRNEAVEILKQKADADGSFLVRYSRRRPGGYVLTLVYENHVYHFEIQNRDDK 59
>gnl|CDD|214354 CHL00074, rps14, ribosomal protein S14.
Length = 100
Score = 44.8 bits (107), Expect = 3e-07
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 79 PRDSHPCRTQPRCVITSRPRGVVLRWRLSRIMFRHLADYNKLSGVQRAMW 128
PR+S P R RC +T RPRG + LSR + R +A L GV ++ W
Sbjct: 51 PRNSAPTRLHNRCFLTGRPRGNYRDFGLSRHVLREMAHACLLPGVTKSSW 100
>gnl|CDD|198173 cd00173, SH2, Src homology 2 (SH2) domain. In general, SH2
domains are involved in signal transduction; they bind
pTyr-containing polypeptide ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites. They are present in a
wide array of proteins including: adaptor proteins
(Nck1, Crk, Grb2), scaffolds (Slp76, Shc, Dapp1),
kinases (Src, Syk, Fps, Tec), phosphatases (Shp-1,
Shp-2), transcription factors (STAT1), Ras signaling
molecules (Ras-Gap), ubiquitination factors (c-Cbl),
cytoskeleton regulators (Tensin), signal regulators
(SAP), and phospholipid second messengers (PLCgamma),
amongst others.
Length = 79
Score = 44.4 bits (105), Expect = 3e-07
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 3 WFH-SVNRERAVQMVAAGGEGCFLVRPSSSSE-PLTLTLWYG-GRAYNIFIRKRDDNKIG 59
WFH S++RE A +++ +G FLVR SSS L++ G G+ + I + +
Sbjct: 2 WFHGSISREEAERLLRGKPDGTFLVRESSSEPGDYVLSVRSGDGKVKHYLIERNEGGYYL 61
Query: 60 LG 61
LG
Sbjct: 62 LG 63
>gnl|CDD|215658 pfam00017, SH2, SH2 domain.
Length = 77
Score = 43.0 bits (102), Expect = 1e-06
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 3 WFH-SVNRERAVQMVAAGG-EGCFLVRPSSSSEP-LTLTLWYGGRAYNIFIRKRDDNK 57
W+H ++RE A +++ +G FLVR S S TL++ GR + I+ D+
Sbjct: 1 WYHGKISREEAERLLLNPKPDGTFLVRESESKPGDYTLSVRDDGRVKHYRIQSLDNGG 58
>gnl|CDD|198183 cd09929, SH2_BLNK_SLP-76, Src homology 2 (SH2) domain found in
B-cell linker (BLNK) protein and SH2 domain-containing
leukocyte protein of 76 kDa (SLP-76). BLNK (also known
as SLP-65 or BASH) is an important adaptor protein
expressed in B-lineage cells. BLNK consists of a
N-terminal sterile alpha motif (SAM) domain and a
C-terminal SH2 domain. BLNK is a cytoplasmic protein,
but a part of it is bound to the plasma membrane
through an N-terminal leucine zipper motif and
transiently bound to a cytoplasmic domain of Iga
through its C-terminal SH2 domain upon B cell antigen
receptor (BCR)-stimulation. A non-ITAM phosphotyrosine
in Iga is necessary for the binding with the BLNK SH2
domain and/or for normal BLNK function in signaling and
B cell activation. Upon phosphorylation BLNK binds Btk
and PLCgamma2 through their SH2 domains and mediates
PLCgamma2 activation by Btk. BLNK also binds other
signaling molecules such as Vav, Grb2, Syk, and HPK1.
BLNK has been shown to be necessary for BCR-mediated
Ca2+ mobilization, for the activation of
mitogen-activated protein kinases such as ERK, JNK, and
p38 in a chicken B cell line DT40, and for activation
of transcription factors such as NF-AT and NF-kappaB in
human or mouse B cells. BLNK is involved in B cell
development, B cell survival, activation,
proliferation, and T-independent immune responses. BLNK
is structurally homologous to SLP-76. SLP-76 and
(linker for activation of T cells) LAT are
adaptor/linker proteins in T cell antigen receptor
activation and T cell development. BLNK interacts with
many downstream signaling proteins that interact
directly with both SLP-76 and LAT. New data suggest
functional complementation of SLP-76 and LAT in T cell
antigen receptor function with BLNK in BCR function. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 121
Score = 43.1 bits (102), Expect = 2e-06
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 21 EGCFLVRPSS---SSEPLTLTLWYGGRAYNIFIRKRDDNKI-GLGT 62
+G FLVR SS SS+P TL + Y + YNI IR ++ + LGT
Sbjct: 33 DGTFLVRDSSGKDSSQPYTLMVLYNDKVYNIQIRFLENTRQYALGT 78
>gnl|CDD|199829 cd10341, SH2_N-SH2_PLC_gamma_like, N-terminal Src homology 2
(N-SH2) domain in Phospholipase C gamma. Phospholipase
C gamma is a signaling molecule that is recruited to
the C-terminal tail of the receptor upon
autophosphorylation of a highly conserved tyrosine.
PLCgamma is composed of a Pleckstrin homology (PH)
domain followed by an elongation factor (EF) domain, 2
catalytic regions of PLC domains that flank 2 tandem
SH2 domains (N-SH2, C-SH2), and ending with a SH3
domain and C2 domain. N-SH2 SH2 domain-mediated
interactions represent a crucial step in transmembrane
signaling by receptor tyrosine kinases. SH2 domains
recognize phosphotyrosine (pY) in the context of
particular sequence motifs in receptor phosphorylation
sites. Both N-SH2 and C-SH2 have a very similar binding
affinity to pY. But in growth factor stimulated cells
these domains bind to different target proteins. N-SH2
binds to pY containing sites in the C-terminal tails of
tyrosine kinases and other receptors. Recently it has
been shown that this interaction is mediated by
phosphorylation-independent interactions between a
secondary binding site found exclusively on the N-SH2
domain and a region of the FGFR1 tyrosine kinase
domain. This secondary site on the SH2 cooperates with
the canonical pY site to regulate selectivity in
mediating a specific cellular process. C-SH2 binds to
an intramolecular site on PLCgamma itself which allows
it to hydrolyze phosphatidylinositol-4,5-bisphosphate
into diacylglycerol and inositol triphosphate. These
then activate protein kinase C and release calcium. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 99
Score = 40.4 bits (95), Expect = 2e-05
Identities = 22/75 (29%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 3 WFHS------VNRERAVQMVAAGGEGCFLVRPSSS-SEPLTLTLWYGGRAYNIFIRKRDD 55
WFH E+ + GG+G FLVR S + TL+ W G+ + IR R +
Sbjct: 6 WFHGKLGDGRDEAEKLLLEYCEGGDGTFLVRESETFVGDYTLSFWRNGKVQHCRIRSRQE 65
Query: 56 NKIGLGTFKPNEVMA 70
N N V
Sbjct: 66 NGEKKYYLTDNLVFD 80
>gnl|CDD|198215 cd10352, SH2_a2chimerin_b2chimerin, Src homology 2 (SH2) domain
found in alpha2-chimerin and beta2-chimerin proteins.
Chimerins are a family of phorbol ester- and
diacylglycerol-responsive GTPase-activating proteins.
Alpha1-chimerin (formerly known as n-chimerin) and
alpha2-chimerin are alternatively spliced products of a
single gene, as are beta1- and beta2-chimerin. alpha1-
and beta1-chimerin have a relatively short N-terminal
region that does not encode any recognizable domains,
whereas alpha2- and beta2-chimerin both include a
functional SH2 domain that can bind to phosphotyrosine
motifs within receptors. All of the isoforms contain a
GAP domain with specificity in vitro for Rac1 and a
diacylglycerol (DAG)-binding C1 domain which allows
them to translocate to membranes in response to DAG
signaling and anchors them in close proximity to
activated Rac. Other C1 domain-containing
diacylglycerol receptors including: PKC, Munc-13
proteins, phorbol ester binding scaffolding proteins
involved in Ca2+-stimulated exocytosis, and RasGRPs,
diacylglycerol-activated guanine-nucleotide exchange
factors (GEFs) for Ras and Rap1. In general SH2 domains
are involved in signal transduction. They typically
bind pTyr-containing ligands via two surface pockets, a
pTyr and hydrophobic binding pocket, allowing proteins
with SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 91
Score = 39.3 bits (92), Expect = 4e-05
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 2/46 (4%)
Query: 4 FHS-VNRERAVQMVAAGGEGCFLVRPSSSSEPL-TLTLWYGGRAYN 47
+H ++RE A Q+++ +G +L+R SS + TL+L + G+ N
Sbjct: 9 YHGLISREEAEQLLSGASDGSYLIRESSRDDGYYTLSLRFNGKVKN 54
>gnl|CDD|198210 cd10347, SH2_Nterm_shark_like, N-terminal Src homology 2 (SH2)
domain found in SH2 domains, ANK, and kinase domain
(shark) proteins. These non-receptor protein-tyrosine
kinases contain two SH2 domains, five ankyrin
(ANK)-like repeats, and a potential tyrosine
phosphorylation site in the carboxyl-terminal tail
which resembles the phosphorylation site in members of
the src family. Like, mammalian non-receptor
protein-tyrosine kinases, ZAP-70 and syk proteins, they
do not have SH3 domains. However, the presence of ANK
makes these unique among protein-tyrosine kinases. Both
tyrosine kinases and ANK repeats have been shown to
transduce developmental signals, and SH2 domains are
known to participate intimately in tyrosine kinase
signaling. These tyrosine kinases are believed to be
involved in epithelial cell polarity. The members of
this family include the shark (SH2 domains, ANK, and
kinase domain) gene in Drosophila and yellow fever
mosquitos, as well as the hydra protein HTK16.
Drosophila Shark is proposed to transduce
intracellularly the Crumbs, a protein necessary for
proper organization of ectodermal epithelia,
intercellular signal. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 81
Score = 38.9 bits (91), Expect = 4e-05
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 1 MAWFH-SVNRERAVQMVA--AGGEGCFLVRPS-SSSEPLTLTLWYGGRAYNIFIRKRDDN 56
+ W+H ++RE A ++ G +G FLVR S S+ L+L G + IR+ ++
Sbjct: 1 LRWYHGKISREVAEALLLREGGRDGLFLVRESTSAPGDYVLSLLAQGEVLHYQIRRHGED 60
Query: 57 K 57
Sbjct: 61 A 61
>gnl|CDD|181216 PRK08061, rpsN, 30S ribosomal protein S14; Reviewed.
Length = 61
Score = 36.4 bits (85), Expect = 2e-04
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 90 RCVITSRPRGVVLRWRLSRIMFRHLADYNKLSGVQRAMW 128
RC RP V ++ L RI FR LA ++ GV++A W
Sbjct: 23 RCERCGRPHSVYRKFGLCRICFRELAYKGQIPGVKKASW 61
>gnl|CDD|198190 cd09937, SH2_csk_like, Src homology 2 (SH2) domain found in
Carboxyl-Terminal Src Kinase (Csk). Both the
C-terminal Src kinase (CSK) and CSK-homologous kinase
(CHK) are members of the CSK-family of protein tyrosine
kinases. These proteins suppress activity of Src-family
kinases (SFK) by selectively phosphorylating the
conserved C-terminal tail regulatory tyrosine by a
similar mechanism. CHK is also capable of inhibiting
SFKs by a non-catalytic mechanism that involves binding
of CHK to SFKs to form stable protein complexes. The
unphosphorylated form of SFKs is inhibited by CSK and
CHK by a two-step mechanism. The first step involves
the formation of a complex of SFKs with CSK/CHK with
the SFKs in the complex are inactive. The second step,
involves the phosphorylation of the C-terminal tail
tyrosine of SFKs, which then dissociates and adopt an
inactive conformation. The structural basis of how the
phosphorylated SFKs dissociate from CSK/CHK to adopt
the inactive conformation is not known. The inactive
conformation of SFKs is stabilized by two
intramolecular inhibitory interactions: (a) the pYT:SH2
interaction in which the phosphorylated C-terminal tail
tyrosine (YT) binds to the SH2 domain, and (b) the
linker:SH3 interaction of which the SH2-kinase domain
linker binds to the SH3 domain. SFKs are activated by
multiple mechanisms including binding of the ligands to
the SH2 and SH3 domains to displace the two inhibitory
intramolecular interactions, autophosphorylation, and
dephosphorylation of YT. By selective phosphorylation
and the non-catalytic inhibitory mechanism CSK and CHK
are able to inhibit the active forms of SFKs. CSK and
CHK are regulated by phosphorylation and inter-domain
interactions. They both contain SH3, SH2, and kinase
domains separated by the SH3-SH2 connector and SH2
kinase linker, intervening segments separating the
three domains. They lack a conserved tyrosine
phosphorylation site in the kinase domain and the
C-terminal tail regulatory tyrosine phosphorylation
site. The CSK SH2 domain is crucial for stabilizing the
kinase domain in the active conformation. A disulfide
bond here regulates CSK kinase activity. The
subcellular localization and activity of CSK are
regulated by its SH2 domain. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 98
Score = 36.1 bits (84), Expect = 7e-04
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 1 MAWFH-SVNRERAVQMVAAGGEGCFLVRPS 29
M WFH ++RE A +++ +G FLVR S
Sbjct: 3 MPWFHGKISREEAERLLQPPEDGLFLVRES 32
>gnl|CDD|198189 cd09935, SH2_ABL, Src homology 2 (SH2) domain found in Abelson
murine lymphosarcoma virus (ABL) proteins. ABL-family
proteins are highly conserved tyrosine kinases. Each
ABL protein contains an SH3-SH2-TK (Src homology 3-Src
homology 2-tyrosine kinase) domain cassette, which
confers autoregulated kinase activity and is common
among nonreceptor tyrosine kinases. Several types of
posttranslational modifications control ABL catalytic
activity, subcellular localization, and stability, with
consequences for both cytoplasmic and nuclear ABL
functions. Binding partners provide additional
regulation of ABL catalytic activity, substrate
specificity, and downstream signaling. By combining
this cassette with actin-binding and -bundling domain,
ABL proteins are capable of connecting
phosphoregulation with actin-filament reorganization.
Vertebrate paralogs, ABL1 and ABL2, have evolved to
perform specialized functions. ABL1 includes nuclear
localization signals and a DNA binding domain which is
used to mediate DNA damage-repair functions, while ABL2
has additional binding capacity for actin and for
microtubules to enhance its cytoskeletal remodeling
functions. SH2 is involved in several autoinhibitory
mechanism that constrain the enzymatic activity of the
ABL-family kinases. In one mechanism SH2 and SH3 cradle
the kinase domain while a cap sequence stabilizes the
inactive conformation resulting in a locked inactive
state. Another involves phosphatidylinositol
4,5-bisphosphate (PIP2) which binds the SH2 domain
through residues normally required for phosphotyrosine
binding in the linker segment between the SH2 and
kinase domains. The SH2 domain contributes to ABL
catalytic activity and target site specificity. It is
thought that the ABL catalytic site and SH2 pocket have
coevolved to recognize the same sequences. Recent work
now supports a hierarchical processivity model in which
the substrate target site most compatible with ABL
kinase domain preferences is phosphorylated with
greatest efficiency. If this site is compatible with
the ABL SH2 domain specificity, it will then reposition
and dock in the SH2 pocket. This mechanism also
explains how ABL kinases phosphorylates poor targets on
the same substrate if they are properly positioned and
how relatively poor substrate proteins might be
recruited to ABL through a complex with strong
substrates that can also dock with the SH2 pocket. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 94
Score = 35.1 bits (81), Expect = 0.002
Identities = 21/58 (36%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 3 WFHS-VNRERAVQMVAAGGEGCFLVRPSSSSE-PLTLTLWYGGRAYNIFIRKRDDNKI 58
W+H ++R A ++++G G FLVR S SS +++L Y GR Y+ I + D K+
Sbjct: 5 WYHGPISRNAAEYLLSSGINGSFLVRESESSPGQYSISLRYDGRVYHYRISEDSDGKV 62
>gnl|CDD|198265 cd10402, SH2_C-SH2_Zap70, C-terminal Src homology 2 (SH2) domain
found in Zeta-chain-associated protein kinase 70
(ZAP-70). ZAP-70 and Syk comprise a family of
hematopoietic cell specific protein tyrosine kinases
(PTKs) that are required for antigen and antibody
receptor function. ZAP-70 is expressed in T and natural
killer (NK) cells and Syk is expressed in B cells,
mast cells, polymorphonuclear leukocytes, platelets,
macrophages, and immature T cells. They are required
for the proper development of T and B cells, immune
receptors, and activating NK cells. They consist of two
N-terminal Src homology 2 (SH2) domains and a
C-terminal kinase domain separated from the SH2 domains
by a linker or hinge region. Phosphorylation of both
tyrosine residues within the Immunoreceptor
Tyrosine-based Activation Motifs (ITAM; consensus
sequence Yxx[LI]x(7,8)Yxx[LI]) by the Src-family PTKs
is required for efficient interaction of ZAP-70 and Syk
with the receptor subunits and for receptor function.
ZAP-70 forms two phosphotyrosine binding pockets, one
of which is shared by both SH2 domains. In Syk the two
SH2 domains do not form such a phosphotyrosine-binding
site. The SH2 domains here are believed to function
independently. In addition, the two SH2 domains of Syk
display flexibility in their relative orientation,
allowing Syk to accommodate a greater variety of
spacing sequences between the ITAM phosphotyrosines and
singly phosphorylated non-classical ITAM ligands. This
model contains the C-terminus SH2 domains of Zap70. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 105
Score = 34.9 bits (80), Expect = 0.003
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 1 MAWFH-SVNRERAVQMVAAGGE--GCFLVRPSSSSEPLTLTLWYGGRAYNIFIRKRDDNK 57
M W+H S+ R+ A + + +G + G FL+R S L+L YG Y+ I + K
Sbjct: 10 MPWYHGSIARDEAERRLYSGAQPDGKFLLRERKESGTYALSLVYGKTVYHYRIDQDKSGK 69
Query: 58 IGL 60
+
Sbjct: 70 YSI 72
>gnl|CDD|198217 cd10354, SH2_Cterm_RasGAP, C-terminal Src homology 2 (SH2) domain
found in Ras GTPase-activating protein 1 (GAP). RasGAP
is part of the GAP1 family of GTPase-activating
proteins. The protein is located in the cytoplasm and
stimulates the GTPase activity of normal RAS p21, but
not its oncogenic counterpart. Acting as a suppressor
of RAS function, the protein enhances the weak
intrinsic GTPase activity of RAS proteins resulting in
RAS inactivation, thereby allowing control of cellular
proliferation and differentiation. Mutations leading to
changes in the binding sites of either protein are
associated with basal cell carcinomas. Alternative
splicing results in two isoforms. The shorter isoform
which lacks the N-terminal hydrophobic region, has the
same activity, and is expressed in placental tissues.
In general longer isoform contains 2 SH2 domains, a SH3
domain, a pleckstrin homology (PH) domain, and a
calcium-dependent phospholipid-binding C2 domain. The
C-terminus contains the catalytic domain of RasGap
which catalyzes the activation of Ras by hydrolyzing
GTP-bound active Ras into an inactive GDP-bound form of
Ras. This model contains the C-terminal SH2 domain. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 77
Score = 33.6 bits (77), Expect = 0.004
Identities = 16/29 (55%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 3 WFH-SVNRERAVQM-VAAGGEGCFLVRPS 29
WFH ++RE A M V GG G FLVR S
Sbjct: 2 WFHGKISREEAYNMLVKVGGPGSFLVRES 30
>gnl|CDD|180742 PRK06911, rpsN, 30S ribosomal protein S14; Reviewed.
Length = 100
Score = 33.1 bits (75), Expect = 0.009
Identities = 16/61 (26%), Positives = 27/61 (44%)
Query: 68 VMAAREDATNHPRDSHPCRTQPRCVITSRPRGVVLRWRLSRIMFRHLADYNKLSGVQRAM 127
+M ++ P +S+P R RC RP V ++ L RI R + G +++
Sbjct: 40 IMESQAKLAKLPVNSNPVRYVTRCKQCGRPHAVYRKFNLCRICLRQQLMVGNIPGGRKSS 99
Query: 128 W 128
W
Sbjct: 100 W 100
>gnl|CDD|198208 cd10345, SH2_C-SH2_Zap70_Syk_like, C-terminal Src homology 2
(SH2) domain found in Zeta-chain-associated protein
kinase 70 (ZAP-70) and Spleen tyrosine kinase (Syk)
proteins. ZAP-70 and Syk comprise a family of
hematopoietic cell specific protein tyrosine kinases
(PTKs) that are required for antigen and antibody
receptor function. ZAP-70 is expressed in T and natural
killer (NK) cells and Syk is expressed in B cells, mast
cells, polymorphonuclear leukocytes, platelets,
macrophages, and immature T cells. They are required
for the proper development of T and B cells, immune
receptors, and activating NK cells. They consist of two
N-terminal Src homology 2 (SH2) domains and a
C-terminal kinase domain separated from the SH2 domains
by a linker or hinge region. Phosphorylation of both
tyrosine residues within the Immunoreceptor
Tyrosine-based Activation Motifs (ITAM; consensus
sequence Yxx[LI]x(7,8)Yxx[LI]) by the Src-family PTKs
is required for efficient interaction of ZAP-70 and Syk
with the receptor subunits and for receptor function.
ZAP-70 forms two phosphotyrosine binding pockets, one
of which is shared by both SH2 domains. In Syk the two
SH2 domains do not form such a phosphotyrosine-binding
site. The SH2 domains here are believed to function
independently. In addition, the two SH2 domains of Syk
display flexibility in their relative orientation,
allowing Syk to accommodate a greater variety of
spacing sequences between the ITAM phosphotyrosines and
singly phosphorylated non-classical ITAM ligands. This
model contains the C-terminus SH2 domains of both Syk
and Zap70. In general SH2 domains are involved in
signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 95
Score = 33.1 bits (75), Expect = 0.009
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 3 WFHS-VNRERAVQMVAAGGE--GCFLVRPSSSSEPLTLTLWYGGRAYNIFIRKRDDNK 57
WFH ++RE + Q+V G + G FL+R ++ L L + G+ + I K K
Sbjct: 2 WFHGKISREESEQIVLIGSKTNGKFLIRARDNNGSYALCLLHEGKVLHYRIDKDKTGK 59
>gnl|CDD|198174 cd09918, SH2_Nterm_SPT6_like, N-terminal Src homology 2 (SH2)
domain found in Spt6. N-terminal SH2 domain in Spt6.
Spt6 is an essential transcription elongation factor
and histone chaperone that binds the C-terminal repeat
domain (CTD) of RNA polymerase II. Spt6 contains a
tandem SH2 domain with a novel structure and
CTD-binding mode. The tandem SH2 domain binds to a
serine 2-phosphorylated CTD peptide in vitro, whereas
its N-terminal SH2 subdomain does not. CTD binding
requires a positively charged crevice in the C-terminal
SH2 subdomain, which lacks the canonical
phospho-binding pocket of SH2 domains. The tandem SH2
domain is apparently required for transcription
elongation in vivo as its deletion in cells is lethal
in the presence of 6-azauracil. In general SH2 domains
are involved in signal transduction. They typically
bind pTyr-containing ligands via two surface pockets, a
pTyr and hydrophobic binding pocket, allowing proteins
with SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 85
Score = 32.6 bits (75), Expect = 0.011
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 4 FHSVNRERAVQMVAAGGEGCFLVRPSSSSEP-LTLTL-WYGGRAYNIFIRKRD-DNKIGL 60
F +VN ++A + + G ++RPSS LT+T G +I I + + +N L
Sbjct: 5 FKNVNYKQAEAYLKSKDVGEVVIRPSSKGVDHLTVTWKVADGVYQHIDIEELNKENPFSL 64
Query: 61 G 61
G
Sbjct: 65 G 65
>gnl|CDD|198186 cd09932, SH2_C-SH2_PLC_gamma_like, C-terminal Src homology 2
(C-SH2) domain in Phospholipase C gamma. Phospholipase
C gamma is a signaling molecule that is recruited to
the C-terminal tail of the receptor upon
autophosphorylation of a highly conserved tyrosine.
PLCgamma is composed of a Pleckstrin homology (PH)
domain followed by an elongation factor (EF) domain, 2
catalytic regions of PLC domains that flank 2 tandem
SH2 domains (N-SH2, C-SH2), and ending with a SH3
domain and C2 domain. N-SH2 SH2 domain-mediated
interactions represent a crucial step in transmembrane
signaling by receptor tyrosine kinases. SH2 domains
recognize phosphotyrosine (pY) in the context of
particular sequence motifs in receptor phosphorylation
sites. Both N-SH2 and C-SH2 have a very similar binding
affinity to pY. But in growth factor stimulated cells
these domains bind to different target proteins. N-SH2
binds to pY containing sites in the C-terminal tails of
tyrosine kinases and other receptors. Recently it has
been shown that this interaction is mediated by
phosphorylation-independent interactions between a
secondary binding site found exclusively on the N-SH2
domain and a region of the FGFR1 tyrosine kinase
domain. This secondary site on the SH2 cooperates with
the canonical pY site to regulate selectivity in
mediating a specific cellular process. C-SH2 binds to
an intramolecular site on PLCgamma itself which allows
it to hydrolyze phosphatidylinositol-4,5-bisphosphate
into diacylglycerol and inositol triphosphate. These
then activate protein kinase C and release calcium. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 104
Score = 31.9 bits (73), Expect = 0.025
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 1 MAWFH-SVNRERAVQMVAAGGE-GCFLVRPSSSS 32
WFH ++ RE+A +M+ G FLVRPS +
Sbjct: 4 KEWFHANLTREQAEEMLMRVPRDGAFLVRPSETD 37
>gnl|CDD|198206 cd10343, SH2_SHIP, Src homology 2 (SH2) domain found in
SH2-containing inositol-5'-phosphatase (SHIP) and
SLAM-associated protein (SAP). The SH2-containing
inositol-5'-phosphatase, SHIP (also called
SHIP1/SHIP1a), is a hematopoietic-restricted
phosphatidylinositide phosphatase that translocates to
the plasma membrane after extracellular stimulation and
hydrolyzes the phosphatidylinositol-3-kinase
(PI3K)-generated second messenger PI-3,4,5-P3 (PIP3) to
PI-3,4-P2. As a result, SHIP dampens down PIP3 mediated
signaling and represses the proliferation,
differentiation, survival, activation, and migration of
hematopoietic cells. PIP3 recruits lipid-binding
pleckstrin homology(PH) domain-containing proteins to
the inner wall of the plasma membrane and activates
them. PH domain-containing downstream effectors include
the survival/proliferation enhancing serine/threonine
kinase, Akt (protein kinase B), the tyrosine kinase,
Btk, the regulator of protein translation, S6K, and the
Rac and cdc42 guanine nucleotide exchange factor, Vav.
SHIP is believed to act as a tumor suppressor during
leukemogenesis and lymphomagenesis, and may play a role
in activating the immune system to combat cancer. SHIP
contains an N-terminal SH2 domain, a centrally located
phosphatase domain that specifically hydrolyzes the
5'-phosphate from PIP3, PI-4,5-P2 and
inositol-1,3,4,5- tetrakisphosphate (IP4), a C2 domain,
that is an allosteric activating site when bound by
SHIP's enzymatic product, PI-3,4-P2; 2 NPXY motifs that
bind proteins with a phosphotyrosine binding (Shc, Dok
1, Dok 2) or an SH2 (p85a, SHIP2) domain; and a
proline-rich domain consisting of four PxxP motifs that
bind a subset of SH3-containing proteins including
Grb2, Src, Lyn, Hck, Abl, PLCg1, and PIAS1. The SH2
domain of SHIP binds to the tyrosine phosphorylated
forms of Shc, SHP-2, Doks, Gabs, CD150,
platelet-endothelial cell adhesion molecule, Cas,
c-Cbl, immunoreceptor tyrosine-based inhibitory motifs
(ITIMs), and immunoreceptor tyrosine-based activation
motifs (ITAMs). The X-linked lymphoproliferative
syndrome (XLP) gene encodes SAP (also called
SH2D1A/DSHP) a protein that consists of a 5 residue
N-terminus, a single SH2 domain, and a short 25 residue
C-terminal tail. XLP is characterized by an extreme
sensitivity to Epstein-Barr virus. Both T and natural
killer (NK) cell dysfunctions have been seen in XLP
patients. SAP binds the cytoplasmic tail of Signaling
lymphocytic activation molecule (SLAM), 2B4, Ly-9, and
CD84. SAP is believed to function as a signaling
inhibitor, by blocking or regulating binding of other
signaling proteins. SAP and the SAP-like protein EAT-2
recognize the sequence motif TIpYXX(V/I), which is
found in the cytoplasmic domains of a restricted number
of T, B, and NK cell surface receptors and are proposed
to be natural inhibitors or regulators of the
physiological role of a small family of receptors on
the surface of these cells. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 103
Score = 31.3 bits (71), Expect = 0.044
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 2 AWFH-SVNRERAVQMVA-AGGEGCFLVRPSSS-SEPLTLTLWYGGRAYNIFIRKRDDNKI 58
W+H ++ R +A ++++ AG +G FLVR S S S L + Y + I ++K+
Sbjct: 4 PWYHGNITRSKAEELLSKAGKDGSFLVRDSESVSGAYALCVLYQNCVHTYRILPNAEDKL 63
>gnl|CDD|198188 cd09934, SH2_Tec_family, Src homology 2 (SH2) domain found in
Tec-like proteins. The Tec protein tyrosine kinase is
the founding member of a family that includes Btk, Itk,
Bmx, and Txk. The members have a PH domain, a
zinc-binding motif, a SH3 domain, a SH2 domain, and a
protein kinase catalytic domain. Btk is involved in
B-cell receptor signaling with mutations in Btk
responsible for X-linked agammaglobulinemia (XLA) in
humans and X-linked immunodeficiency (xid) in mice. Itk
is involved in T-cell receptor signaling. Tec is
expressed in both T and B cells, and is thought to
function in activated and effector T lymphocytes to
induce the expression of genes regulated by NFAT
transcription factors. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 104
Score = 31.2 bits (71), Expect = 0.045
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 3 WFH-SVNRERAVQMVAAGG-EGCFLVRPSSSSEPLTLTL 39
W+ ++R+RA ++ EGCF+VR SS+ T++L
Sbjct: 8 WYVGDMSRQRAESLLKQEDKEGCFVVRNSSTKGLYTVSL 46
>gnl|CDD|198203 cd10340, SH2_N-SH2_SHP_like, N-terminal Src homology 2 (N-SH2)
domain found in SH2 domain Phosphatases (SHP) proteins.
The SH2 domain phosphatases (SHP-1, SHP-2/Syp,
Drosophila corkscrew (csw), and Caenorhabditis elegans
Protein Tyrosine Phosphatase (Ptp-2)) are cytoplasmic
signaling enzymes. They are both targeted and regulated
by interactions of their SH2 domains with
phosphotyrosine docking sites. These proteins contain
two SH2 domains (N-SH2, C-SH2) followed by a tyrosine
phosphatase (PTP) domain, and a C-terminal extension.
Shp1 and Shp2 have two tyrosyl phosphorylation sites in
their C-tails, which are phosphorylated differentially
by receptor and nonreceptor PTKs. Csw retains the
proximal tyrosine and Ptp-2 lacks both sites.
Shp-binding proteins include receptors, scaffolding
adapters, and inhibitory receptors. Some of these bind
both Shp1 and Shp2 while others bind only one. Most
proteins that bind a Shp SH2 domain contain one or more
immuno-receptor tyrosine-based inhibitory motifs
(ITIMs): [IVL]xpYxx[IVL]. Shp1 N-SH2 domain blocks the
catalytic domain and keeps the enzyme in the inactive
conformation, and is thus believed to regulate the
phosphatase activity of SHP-1. Its C-SH2 domain is
thought to be involved in searching for phosphotyrosine
activators. The SHP2 N-SH2 domain is a conformational
switch; it either binds and inhibits the phosphatase,
or it binds phosphoproteins and activates the enzyme.
The C-SH2 domain contributes binding energy and
specificity, but it does not have a direct role in
activation. Csw SH2 domain function is essential, but
either SH2 domain can fulfill this requirement. The
role of the csw SH2 domains during Sevenless receptor
tyrosine kinase (SEV) signaling is to bind Daughter of
Sevenless rather than activated SEV. Ptp-2 acts in
oocytes downstream of sheath/oocyte gap junctions to
promote major sperm protein (MSP)-induced MAP Kinase
(MPK-1) phosphorylation. Ptp-2 functions in the oocyte
cytoplasm, not at the cell surface to inhibit multiple
RasGAPs, resulting in sustained Ras activation. It is
thought that MSP triggers PTP-2/Ras activation and ROS
production to stimulate MPK-1 activity essential for
oocyte maturation and that secreted MSP domains and
Cu/Zn superoxide dismutases function antagonistically
to control ROS and MAPK signaling. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 99
Score = 30.4 bits (69), Expect = 0.096
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 3 WFHSVNR-ERAVQMVAA-GGEGCFLVRPSSSSEP-LTLTLWYGGRAYNIFIRKRDD 55
WFH V A ++ G +G FL RPS S+ TL++ G +I I+ D
Sbjct: 2 WFHPVISGIEAENLLKTRGVDGSFLARPSKSNPGDFTLSVRRGDEVTHIKIQNTGD 57
>gnl|CDD|198209 cd10346, SH2_SH2B_family, Src homology 2 (SH2) domain found in
SH2B adapter protein family. The SH2B adapter protein
family has 3 members: SH2B1 (SH2-B, PSM), SH2B2
(APS), and SH2B3 (Lnk). SH2B family members contain a
pleckstrin homology domain, at least one dimerization
domain, and a C-terminal SH2 domain which binds to
phosphorylated tyrosines in a variety of tyrosine
kinases. SH2B1 and SH2B2 function in signaling
pathways found downstream of growth hormone receptor
and receptor tyrosine kinases, including the insulin,
insulin-like growth factor-I (IGF-I), platelet-derived
growth factor (PDGF), nerve growth factor, hepatocyte
growth factor, and fibroblast growth factor receptors.
SH2B2beta, a new isoform of SH2B2, is an endogenous
inhibitor of SH2B1 and/or SH2B2 (SH2B2alpha),
negatively regulating insulin signaling and/or
JAK2-mediated cellular responses. SH2B3 negatively
regulates lymphopoiesis and early hematopoiesis. The
lnk-deficiency results in enhanced production of B
cells, and expansion as well as enhanced function of
hematopoietic stem cells (HSCs), demonstrating negative
regulatory functions of Sh2b3/Lnk in cytokine
signaling. Sh2b3/Lnk also functions in responses
controlled by cell adhesion and in crosstalk between
integrin- and cytokine-mediated signaling. In general
SH2 domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 97
Score = 30.1 bits (68), Expect = 0.13
Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 3 WFH-SVNRERAVQMV---AAGGEGCFLVRPSSSSE-PLTLTLWYGGRA 45
WFH +++R A Q+V A G G FLVR S + LT + GRA
Sbjct: 10 WFHGTLSRSDAAQLVLHSGADGHGVFLVRQSETRRGEFVLTFNFQGRA 57
>gnl|CDD|198274 cd10411, SH2_SH2B2, Src homology 2 (SH2) domain found in SH2B
adapter proteins (SH2B1, SH2B2, SH2B3). SH2B2 (APS),
like other members of the SH2B adapter protein family,
contains a pleckstrin homology domain, at least one
dimerization domain, and a C-terminal SH2 domain which
binds to phosphorylated tyrosines in a variety of
tyrosine kinases. SH2B1 and SH2B2 function in
signaling pathways found downstream of growth hormone
receptor and receptor tyrosine kinases, including the
insulin, insulin-like growth factor-I (IGF-I),
platelet-derived growth factor (PDGF), nerve growth
factor, hepatocyte growth factor, and fibroblast growth
factor receptors. SH2B2beta, a new isoform of SH2B2, is
an endogenous inhibitor of SH2B1 and/or SH2B2
(SH2B2alpha), negatively regulating insulin signaling
and/or JAK2-mediated cellular responses. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 97
Score = 29.6 bits (66), Expect = 0.20
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 3 WFH-SVNRERAVQMVAAGG---EGCFLVRPSSSSE-PLTLTLWYGGRA 45
WFH +++R +A Q+V AGG G F++R S + LT + G+A
Sbjct: 10 WFHGTLSRVKAAQLVLAGGPRSHGLFVIRQSETRPGEYVLTFNFQGKA 57
>gnl|CDD|198184 cd09930, SH2_cSH2_p85_like, C-terminal Src homology 2 (cSH2)
domain found in p85. Phosphoinositide 3-kinases
(PI3Ks) are essential for cell growth, migration, and
survival. p110, the catalytic subunit, is composed of
an adaptor-binding domain, a Ras-binding domain, a C2
domain, a helical domain, and a kinase domain. The
regulatory unit is called p85 and is composed of an SH3
domain, a RhoGap domain, a N-terminal SH2 (nSH2)
domain, a inter SH2 (iSH2) domain, and C-terminal
(cSH2) domain. There are 2 inhibitory interactions
between p110alpha and p85 of P13K: 1) p85 nSH2 domain
with the C2, helical, and kinase domains of p110alpha
and 2) p85 iSH2 domain with C2 domain of p110alpha.
There are 3 inhibitory interactions between p110beta
and p85 of P13K: 1) p85 nSH2 domain with the C2,
helical, and kinase domains of p110beta, 2) p85 iSH2
domain with C2 domain of p110alpha, and 3) p85 cSH2
domain with the kinase domain of p110alpha. It is
interesting to note that p110beta is oncogenic as a
wild type protein while p110alpha lacks this ability.
One explanation is the idea that the regulation of
p110beta by p85 is unique because of the addition of
inhibitory contacts from the cSH2 domain and the loss
of contacts in the iSH2 domain. In general SH2 domains
are involved in signal transduction. They typically
bind pTyr-containing ligands via two surface pockets, a
pTyr and hydrophobic binding pocket, allowing proteins
with SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 104
Score = 29.3 bits (66), Expect = 0.21
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 3 WF-HSVNRERAVQMVAAGGEGCFLVRPSSSSEPLTLTLWYGGRAYNIFIRK 52
W +NR +A +++ +G FL+R SS+ ++ G + I K
Sbjct: 8 WLVGDINRTQAEELLRGKPDGTFLIRESSTQGCYACSVVCNGEVKHCVIYK 58
>gnl|CDD|198199 cd09946, SH2_HSH2_like, Src homology 2 domain found in
hematopoietic SH2 (HSH2) protein. HSH2 is thought to
function as an adapter protein involved in tyrosine
kinase signaling. It may also be involved in regulating
cytokine signaling and cytoskeletal reorganization in
hematopoietic cells. HSH2 contains several putative
protein-binding motifs, SH3-binding proline-rich
regions, and phosphotyrosine sites, but lacks enzymatic
motifs. HSH2 was found to interact with
cytokine-regulated tyrosine kinase c-FES and an
activated Cdc42-associated tyrosine kinase ACK1. HSH2
binds c-FES through both its C-terminal region and its
N-terminal region including the SH2 domain and binds
ACK1 via its N-terminal proline-rich region. Both
kinases bound and tyrosine-phosphorylated HSH2 in
mammalian cells. In general SH2 domains are involved
in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 102
Score = 29.5 bits (66), Expect = 0.22
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 3 WFH-SVNRERAVQMVAAGGEGCFLVRPSSSSEPLTLTLWYGGRAYNIFIRKRDDN 56
WFH +++RE A M+ + G FL+R S S TL+ + ++ DD
Sbjct: 9 WFHGAISREAAENMLESQPLGSFLIRVSHSHVGYTLSYKAQSSCRHFMVKLLDDG 63
>gnl|CDD|198275 cd10412, SH2_SH2B3, Src homology 2 (SH2) domain found in SH2B
adapter proteins (SH2B1, SH2B2, SH2B3). SH2B3 (Lnk),
like other members of the SH2B adapter protein family,
contains a pleckstrin homology domain, at least one
dimerization domain, and a C-terminal SH2 domain which
binds to phosphorylated tyrosines in a variety of
tyrosine kinases. SH2B3 negatively regulates
lymphopoiesis and early hematopoiesis. The
lnk-deficiency results in enhanced production of B
cells, and expansion as well as enhanced function of
hematopoietic stem cells (HSCs), demonstrating negative
regulatory functions of Sh2b3/Lnk in cytokine
signaling. Sh2b3/Lnk also functions in responses
controlled by cell adhesion and in crosstalk between
integrin- and cytokine-mediated signaling. In general
SH2 domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 97
Score = 29.1 bits (65), Expect = 0.26
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 3 WFHS-VNRERAVQMVAAGG---EGCFLVRPSSSSE-PLTLTLWYGGRA 45
WFH ++R +A Q+V G G FLVR S + LT + GRA
Sbjct: 10 WFHGPISRVKAAQLVQLQGPDAHGVFLVRQSETRRGEYVLTFNFQGRA 57
>gnl|CDD|198213 cd10350, SH2_SH2D4A, Src homology 2 domain found in the SH2
domain containing protein 4A (SH2D4A). SH2D4A contains
a single SH2 domain. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 103
Score = 28.7 bits (64), Expect = 0.36
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 3 WFHSV-NRERAVQMVAAGGEGCFLVRPS 29
WFH + ++A +++ + G FL+R S
Sbjct: 9 WFHGILTLKKANELLLSTMPGSFLIRVS 36
>gnl|CDD|198279 cd10416, SH2_SH2D2A, Src homology 2 domain found in the SH2
domain containing protein 2A (SH2D2A). SH2D2A contains
a single SH2 domain. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 102
Score = 28.9 bits (64), Expect = 0.37
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 2 AWFHS-VNRERAVQMVAAGGEGCFLVRPSSSSEPLTLT 38
AWFH + R A +++ +GC+LVR S S+ LT
Sbjct: 8 AWFHGFITRREAERLLEPKPQGCYLVRFSESAVTFVLT 45
>gnl|CDD|198220 cd10357, SH2_ShkD_ShkE, Src homology 2 (SH2) domain found in SH2
domain-bearing protein kinases D and E (ShkD and ShkE).
SH2-bearing genes cloned from Dictyostelium include
two transcription factors, STATa and STATc, and a
signaling factor, SHK1 (shkA). A database search of the
Dictyostelium discoideum genome revealed two additional
putative STAT sequences, dd-STATb and dd-STATd, and
four additional putative SHK genes, dd-SHK2 (shkB),
dd-SHK3 (shkC), dd-SHK4 (shkD), and dd-SHK5 (shkE).
This model contains members of shkD and shkE. All of
the SHK members are most closely related to the protein
kinases found in plants. However these kinases in
plants are not conjugated to any SH2 or SH2-like
sequences. Alignment data indicates that the SHK SH2
domains carry some features of the STAT SH2 domains in
Dictyostelium. When STATc's linker domain was used for
a BLAST search, the sequence between the protein kinase
domain and the SH2 domain (the linker) of SHK was
recovered, suggesting a close relationship among these
molecules within this region. SHK's linker domain is
predicted to contain an alpha-helix which is indeed
homologous to that of STAT. Based on the phylogenetic
alignment, SH2 domains can be grouped into two
categories, STAT-type and Src-type. SHK family members
are in between, but are closer to the STAT-type which
indicates a close relationship between SHK and STAT
families in their SH2 domains and further supports the
notion that SHKs linker-SH2 domain evolved from STAT or
STATL (STAT-like Linker-SH2) domain found in plants. In
SHK, STAT, and SPT6, the linker-SH2 domains all reside
exclusively in the C-terminal regions. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 87
Score = 28.6 bits (64), Expect = 0.37
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 3 WFHSVNRERAVQMVAAGGEGCFLVRPSSS---SEPLTLTLWYGGRAYNIFIRKRDDN 56
+ ++R+ A + + EG FL+R SS+ P T++ + + I + D N
Sbjct: 13 FHGDISRDEAEKRLRGRPEGTFLIRLSSTDPKKTPFTISKKKKSKPVHKRISRIDVN 69
>gnl|CDD|199830 cd10349, SH2_SH2D2A_SH2D7, Src homology 2 domain found in the SH2
domain containing protein 2A and 7 (SH2D2A and SH2D7).
SH2D2A and SH7 both contain a single SH2 domain. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 77
Score = 28.3 bits (63), Expect = 0.42
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 2 AWFHS-VNRERAVQMVAAGGEGCFLVRPSSSSEPLTLTLWYGGR 44
AWFH + R A +++ +GC+LVR S S+ +T L Y R
Sbjct: 1 AWFHGFITRREAERLLEPKPQGCYLVRFSESA--VTFVLSYRSR 42
>gnl|CDD|198200 cd10337, SH2_BCAR3, Src homology 2 (SH2) domain in the Breast
Cancer Anti-estrogen Resistance protein 3. BCAR3 is
part of a growing family of guanine nucleotide exchange
factors is responsible for activation of Ras-family
GTPases, including Sos1 and 2, GRF1 and 2,
CalDAG-GEF/GRP1-4, C3G, cAMP-GEF/Epac 1 and 2,
PDZ-GEFs, MR-GEF, RalGDS family members, RalGPS,
RasGEF, Smg GDS, and phospholipase C(epsilon). 12102558
21262352 BCAR3 binds to the carboxy-terminus of
BCAR1/p130Cas, a focal adhesion adapter protein. Over
expression of BCAR1 (p130Cas) and BCAR3 induces
estrogen independent growth in normally
estrogen-dependent cell lines. They have been linked to
resistance to anti-estrogens in breast cancer, Rac
activation, and cell motility, though the BCAR3/p130Cas
complex is not required for this activity in BCAR3.
Many BCAR3-mediated signaling events in epithelial and
mesenchymal cells are independent of p130Cas
association. Structurally these proteins contain a
single SH2 domain upstream of their RasGEF domain,
which is responsible for the ability of BCAR3 to
enhance p130Cas over-expression-induced migration. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 136
Score = 28.5 bits (64), Expect = 0.63
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 2 AWFH-SVNRERAVQMVAAGGEGCFLVRPSSSSE 33
AW+H + R+ A +V EG FLVR S SS
Sbjct: 7 AWYHGRIPRQVAESLVQR--EGDFLVRDSLSSP 37
>gnl|CDD|198214 cd10351, SH2_SH2D4B, Src homology 2 domain found in the SH2
domain containing protein 4B (SH2D4B). SH2D4B contains
a single SH2 domain. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 103
Score = 27.5 bits (61), Expect = 0.92
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 3 WFHSV-NRERAVQMVAAGGEGCFLVRPS 29
WFH + +RE A ++ EG FLVR S
Sbjct: 9 WFHGIISREEAEALLMNATEGSFLVRVS 36
>gnl|CDD|198198 cd09945, SH2_SHB_SHD_SHE_SHF_like, Src homology 2 domain found in
SH2 domain-containing adapter proteins B, D, E, and F
(SHB, SHD, SHE, SHF). SHB, SHD, SHE, and SHF are SH2
domain-containing proteins that play various roles
throughout the cell. SHB functions in generating
signaling compounds in response to tyrosine kinase
activation. SHB contains proline-rich motifs, a
phosphotyrosine binding (PTB) domain, tyrosine
phosphorylation sites, and a SH2 domain. SHB mediates
certain aspects of platelet-derived growth factor
(PDGF) receptor-, fibroblast growth factor (FGF)
receptor-, neural growth factor (NGF) receptor TRKA-, T
cell receptor-, interleukin-2 (IL-2) receptor- and
focal adhesion kinase- (FAK) signaling. SRC-like
FYN-Related Kinase FRK/RAK (also named BSK/IYK or GTK)
and SHB regulate apoptosis, proliferation and
differentiation. SHB promotes apoptosis and is also
required for proper mitogenicity, spreading and tubular
morphogenesis in endothelial cells. SHB also plays a
role in preventing early cavitation of embryoid bodies
and reduces differentiation to cells expressing
albumin, amylase, insulin and glucagon. SHB is a
multifunctional protein that has difference responses
in different cells under various conditions. SHE is
expressed in heart, lung, brain, and skeletal muscle,
while expression of SHD is restricted to the brain. SHF
is mainly expressed in skeletal muscle, brain, liver,
prostate, testis, ovary, small intestine, and colon.
SHD may be a physiological substrate of c-Abl and may
function as an adapter protein in the central nervous
system. It is also thought to be involved in apoptotic
regulation. SHD contains five YXXP motifs, a substrate
sequence preferred by Abl tyrosine kinases, in addition
to a poly-proline rich region and a C-terminal SH2
domain. SHE contains two pTry protein binding domains,
protein interaction domain (PID) and a SH2 domain,
followed by a glycine-proline rich region, all of which
are N-terminal to the phosphotyrosine binding (PTB)
domain. SHF contains four putative tyrosine
phosphorylation sites and an SH2 domain. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 98
Score = 27.8 bits (62), Expect = 0.93
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 3 WFH-SVNRERAVQMVAAGGEGCFLVRPSSSS-EPLTLTLWYGGRAYNIFIRKRDDNKIGL 60
W+H ++ R A ++ EG +LVR S S+ + +L+L ++ I++ + + L
Sbjct: 3 WYHGAITRIEAESLLRPCKEGSYLVRNSESTKQDYSLSLKSAKGFMHMRIQRNETGQYIL 62
Query: 61 GTFKP 65
G F
Sbjct: 63 GQFSR 67
>gnl|CDD|198223 cd10360, SH2_Srm, Src homology 2 (SH2) domain found in
Src-related kinase lacking C-terminal regulatory
tyrosine and N-terminal myristoylation sites (srm).
Srm is a nonreceptor protein kinase that has two SH2
domains, a SH3 domain, and a kinase domain with a
tyrosine residue for autophosphorylation. However it
lacks an N-terminal glycine for myristoylation and a
C-terminal tyrosine which suppresses kinase activity
when phosphorylated. Srm is most similar to members of
the Tec family who other members include: Tec, Btk/Emb,
and Itk/Tsk/Emt. However Srm differs in its N-terminal
unique domain it being much smaller than in the Tec
family and is closer to Src. Srm is thought to be a new
family of nonreceptor tyrosine kinases that may be
redundant in function. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 79
Score = 26.8 bits (59), Expect = 1.6
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 3 WFHSVNRERAVQMV--AAGGEGCFLVRPSSSS 32
+F ++R +A Q++ G FL+RPS SS
Sbjct: 3 YFSGISRTQAQQLLLSPPNEPGAFLIRPSESS 34
>gnl|CDD|198260 cd10397, SH2_Tec_Btk, Src homology 2 (SH2) domain found in Tec
protein, Bruton's tyrosine kinase (Btk). A member of
the Tec protein tyrosine kinase Btk is expressed in
bone marrow, spleen, all hematopoietic cells except T
lymphocytes and plasma cells where it plays a crucial
role in B cell maturation and mast cell activation. Btk
has been shown to interact with GNAQ, PLCG2, protein
kinase D1, B-cell linker, SH3BP5, caveolin 1, ARID3A,
and GTF2I. Most of the Tec family members have a PH
domain (Txk and the short (type 1) splice variant of
Drosophila Btk29A are exceptions), a Tec homology (TH)
domain, a SH3 domain, a SH2 domain, and a protein
kinase catalytic domain. Btk is implicated in the
primary immunodeficiency disease X-linked
agammaglobulinemia (Bruton's agammaglobulinemia). The
TH domain consists of a Zn2+-binding Btk motif and a
proline-rich region. The Btk motif is found in Tec
kinases, Ras GAP, and IGBP. It is crucial for the
function of Tec PH domains and it's lack of presence in
Txk is not surprising since it lacks a PH domain. The
type 1 splice form of the Drosophila homolog also lacks
both the PH domain and the Btk motif. The proline-rich
regions are highly conserved for the most part with the
exception of Bmx whose residues surrounding the PXXP
motif are not conserved (TH-like) and Btk29A which is
entirely unique with large numbers of glycine residues
(TH-extended). Tec family members all lack a C-terminal
tyrosine having an autoinhibitory function in its
phosphorylated state. Two tyrosine phosphorylation (pY)
sites have been identified in Btk: one located in the
activation loop of the catalytic domain which regulates
the transition between open (active) and closed
(inactive) states and the other in its SH3 domain. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 106
Score = 26.7 bits (59), Expect = 2.2
Identities = 13/40 (32%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 3 WF-HSVNRERAVQMV-AAGGEGCFLVRPSSSSEPLTLTLW 40
W+ ++ R +A Q++ G EG F+VR SS + T++++
Sbjct: 8 WYSKNMTRSQAEQLLKQEGKEGGFIVRDSSKAGKYTVSVF 47
>gnl|CDD|176009 cd04044, C2A_Tricalbin-like, C2 domain first repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2 domain
are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane trafficking
and sorting. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-II topology.
Length = 124
Score = 26.0 bits (58), Expect = 3.7
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 24 FLVRPSSSSEPLTLTLWYGGRAYNIFIRKRDDNKIGLGTFKPNEVM--AAREDAT 76
LV +S +EPL LT+ Y+ F KR D IG F + ++ +E+ T
Sbjct: 58 ILV--NSLTEPLNLTV------YD-FNDKRKDKLIGTAEFDLSSLLQNPEQENLT 103
>gnl|CDD|199832 cd10417, SH2_SH2D7, Src homology 2 domain found in the SH2 domain
containing protein 7 (SH2D7). SH2D7 contains a single
SH2 domain. In general SH2 domains are involved in
signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 102
Score = 26.0 bits (57), Expect = 3.8
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 3 WFHS-VNRERAVQMVAAGGEGCFLVRPSSSS 32
WFH + R++ Q++ G FL+R S +
Sbjct: 9 WFHGFITRKQTEQLLRDKALGSFLIRLSDRA 39
>gnl|CDD|198185 cd09931, SH2_C-SH2_SHP_like, C-terminal Src homology 2 (C-SH2)
domain found in SH2 domain Phosphatases (SHP) proteins.
The SH2 domain phosphatases (SHP-1, SHP-2/Syp,
Drosophila corkscrew (csw), and Caenorhabditis elegans
Protein Tyrosine Phosphatase (Ptp-2)) are cytoplasmic
signaling enzymes. They are both targeted and regulated
by interactions of their SH2 domains with
phosphotyrosine docking sites. These proteins contain
two SH2 domains (N-SH2, C-SH2) followed by a tyrosine
phosphatase (PTP) domain, and a C-terminal extension.
Shp1 and Shp2 have two tyrosyl phosphorylation sites in
their C-tails, which are phosphorylated differentially
by receptor and nonreceptor PTKs. Csw retains the
proximal tyrosine and Ptp-2 lacks both sites.
Shp-binding proteins include receptors, scaffolding
adapters, and inhibitory receptors. Some of these bind
both Shp1 and Shp2 while others bind only one. Most
proteins that bind a Shp SH2 domain contain one or more
immuno-receptor tyrosine-based inhibitory motifs
(ITIMs): [SIVL]xpYxx[IVL]. Shp1 N-SH2 domain blocks
the catalytic domain and keeps the enzyme in the
inactive conformation, and is thus believed to regulate
the phosphatase activity of SHP-1. Its C-SH2 domain is
thought to be involved in searching for phosphotyrosine
activators. The SHP2 N-SH2 domain is a conformational
switch; it either binds and inhibits the phosphatase,
or it binds phosphoproteins and activates the enzyme.
The C-SH2 domain contributes binding energy and
specificity, but it does not have a direct role in
activation. Csw SH2 domain function is essential, but
either SH2 domain can fulfill this requirement. The
role of the csw SH2 domains during Sevenless receptor
tyrosine kinase (SEV) signaling is to bind Daughter of
Sevenless rather than activated SEV. Ptp-2 acts in
oocytes downstream of sheath/oocyte gap junctions to
promote major sperm protein (MSP)-induced MAP Kinase
(MPK-1) phosphorylation. Ptp-2 functions in the oocyte
cytoplasm, not at the cell surface to inhibit multiple
RasGAPs, resulting in sustained Ras activation. It is
thought that MSP triggers PTP-2/Ras activation and ROS
production to stimulate MPK-1 activity essential for
oocyte maturation and that secreted MSP domains and
Cu/Zn superoxide dismutases function antagonistically
to control ROS and MAPK signaling. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 99
Score = 25.7 bits (57), Expect = 4.5
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 3 WFH----SVNRERAVQMVAAGGEGCFLVRPSSSS 32
WFH E+ + G G FLVR S S
Sbjct: 2 WFHGHLSGKEAEKLLL--EKGKPGSFLVRESQSK 33
>gnl|CDD|198259 cd10396, SH2_Tec_Itk, Src homology 2 (SH2) domain found in Tec
protein, IL2-inducible T-cell kinase (Itk). A member
of the Tec protein tyrosine kinase Itk is expressed
thymus, spleen, lymph node, T lymphocytes, NK and mast
cells. It plays a role in T-cell proliferation and
differentiation, analogous to Tec family kinases Txk.
Itk has been shown to interact with Fyn,
Wiskott-Aldrich syndrome protein, KHDRBS1, PLCG1,
Lymphocyte cytosolic protein 2, Linker of activated T
cells, Karyopherin alpha 2, Grb2, and Peptidylprolyl
isomerase A. Most of the Tec family members have a PH
domain (Txk and the short (type 1) splice variant of
Drosophila Btk29A are exceptions), a Tec homology (TH)
domain, a SH3 domain, a SH2 domain, and a protein
kinase catalytic domain. The TH domain consists of a
Zn2+-binding Btk motif and a proline-rich region. The
Btk motif is found in Tec kinases, Ras GAP, and IGBP.
It is crucial for the function of Tec PH domains and
it's lack of presence in Txk is not surprising since it
lacks a PH domain. The type 1 splice form of the
Drosophila homolog also lacks both the PH domain and
the Btk motif. The proline-rich regions are highly
conserved for the most part with the exception of Bmx
whose residues surrounding the PXXP motif are not
conserved (TH-like) and Btk29A which is entirely
unique with large numbers of glycine residues
(TH-extended). Tec family members all lack a
C-terminal tyrosine having an autoinhibitory function
in its phosphorylated state. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 108
Score = 25.5 bits (56), Expect = 5.0
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 3 WFH-SVNRERAVQMV-AAGGEGCFLVRPSSSSEPLTLTLW 40
W++ ++NR +A +++ G EG F+VR SS T++L+
Sbjct: 8 WYNKNINRSKAEKLLRDEGKEGGFMVRDSSQPGLYTVSLY 47
>gnl|CDD|153310 cd07626, BAR_SNX9_like, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexin 9 and Similar Proteins. 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. This subfamily consists of 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. BAR domains form dimers that
bind to membranes, induce membrane bending and
curvature, and may also be involved in protein-protein
interactions.
Length = 199
Score = 26.1 bits (58), Expect = 5.2
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 23 CFLVRPSSSSEPLTLTLWYGGRAYN 47
F + + +S PLT + + G+AY
Sbjct: 55 AFELDETPTSVPLTQAIKHTGQAYE 79
>gnl|CDD|198181 cd09927, SH2_Tensin_like, Src homology 2 domain found in
Tensin-like proteins. SH2 domain found in Tensin-like
proteins. The Tensins are a family of intracellular
proteins that interact with receptor tyrosine kinases
(RTKs), integrins, and actin. They are thought act as
signaling bridges between the extracellular space and
the cytoskeleton. There are four homologues: Tensin1,
Tensin2 (TENC1, C1-TEN), Tensin3 and Tensin4 (cten),
all of which contain a C-terminal tandem SH2-PTB domain
pairing, as well as actin-binding regions that may
localize them to focal adhesions. The isoforms of
Tensin2 and Tensin3 contain N-terminal C1 domains,
which are atypical and not expected to bind to phorbol
esters. Tensins 1-3 contain a phosphatase (PTPase) and
C2 domain pairing which resembles PTEN (phosphatase and
tensin homologue deleted on chromosome 10) protein.
PTEN is a lipid phosphatase that dephosphorylates
phosphatidylinositol 3,4,5-trisphosphate
(PtdIns(3,4,5)P3) to yield phosphatidylinositol
4,5-bisphosphate (PtdIns(4,5)P2). As PtdIns(3,4,5)P3 is
the product of phosphatidylinositol 3-kinase (PI3K)
activity, PTEN is therefore a key negative regulator of
the PI3K pathway. Because of their PTEN-like domains,
the Tensins may also possess phosphoinositide-binding
or phosphatase capabilities. However, only Tensin2 and
Tensin3 have the potential to be phosphatases since
only their PTPase domains contain a cysteine residue
that is essential for catalytic activity. In general
SH2 domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 116
Score = 25.5 bits (56), Expect = 5.5
Identities = 8/25 (32%), Positives = 17/25 (68%)
Query: 7 VNRERAVQMVAAGGEGCFLVRPSSS 31
++R++A+ ++ G FLVR S++
Sbjct: 10 ISRDQAIALLKDKPPGTFLVRDSTT 34
>gnl|CDD|217096 pfam02547, Queuosine_synth, Queuosine biosynthesis protein.
Queuosine (Q) biosynthesis protein, or
S-adenosylmethionine:tRNA -ribosyltransferase-isomerase,
is required for the synthesis of the queuosine precursor
(oQ). It catalyzes the transfer and isomerisation of the
ribose moiety from AdoMet to the 7-aminomethyl group of
7-deazaguanine (preQ1-tRNA) to form epoxyqueuosine
(oQ-tRNA). Q is a hypermodified nucleoside usually found
at the first position of the anticodon of asparagine,
aspartate, histidine, and tyrosine tRNAs.
Length = 341
Score = 25.9 bits (58), Expect = 7.0
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 58 IGLGTFKPNEVMAAREDATNH 78
+G GTF P V ED H
Sbjct: 207 VGAGTFLPVRV----EDIEEH 223
>gnl|CDD|234666 PRK00147, queA, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase; Provisional.
Length = 342
Score = 25.8 bits (58), Expect = 7.3
Identities = 10/25 (40%), Positives = 12/25 (48%), Gaps = 4/25 (16%)
Query: 58 IGLGTFKPNEVMAAREDATNHPRDS 82
+G GTF+P V ED H S
Sbjct: 207 VGAGTFRPVRV----EDIEEHKMHS 227
>gnl|CDD|198253 cd10390, SH2_SHD, Src homology 2 domain found in SH2
domain-containing adapter proteins D (SHD). The
expression of SHD is restricted to the brain. SHD may
be a physiological substrate of c-Abl and may function
as an adapter protein in the central nervous system. It
is also thought to be involved in apoptotic regulation.
SHD contains five YXXP motifs, a substrate sequence
preferred by Abl tyrosine kinases, in addition to a
poly-proline rich region and a C-terminal SH2 domain.
In general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 98
Score = 25.0 bits (54), Expect = 7.7
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 3 WFHS-VNRERAVQMVAAGGEGCFLVRPSSSS 32
WFH ++R A +++ EG +LVR S +
Sbjct: 3 WFHGPLSRADAENLLSLCKEGSYLVRLSETR 33
>gnl|CDD|198258 cd10395, SH2_RIN3, Src homology 2 (SH2) domain found in Ras and
Rab interactor 3 (RIN3)-like proteins. RIN3, a member
of the RIN (AKA Ras interaction/interference) family,
have multifunctional domains including SH2 and
proline-rich (PR) domains in the N-terminal region, and
RIN-family homology (RH), VPS9 and Ras-association (RA)
domains in the C-terminal region. RIN proteins function
as Rab5-GEFs. RIN3 stimulated the formation of
GTP-bound Rab31, a Rab5-subfamily GTPase, and formed
enlarged vesicles and tubular structures, where it
colocalized with Rab31. Transferrin appeared to be
transported partly through the RIN3-positive vesicles
to early endosomes. RIN3 interacts via its Pro-rich
domain with amphiphysin II, which contains SH3 domain
and participates in receptor-mediated endocytosis.
RIN3, a Rab5 and Rab31 GEF, plays an important role in
the transport pathway from plasma membrane to early
endosomes. Mutations in the region between the SH2 and
RH domain of RIN3 specifically abolished its GEF action
on Rab31, but not Rab5. RIN3 was also found to
partially translocate the cation-dependent mannose
6-phosphate receptor from the trans-Golgi network to
peripheral vesicles and that this is dependent on its
Rab31-GEF activity. These data indicate that RIN3
specifically acts as a GEF for Rab31. In general SH2
domains are involved in signal transduction. They
typically bind pTyr-containing ligands via two surface
pockets, a pTyr and hydrophobic binding pocket,
allowing proteins with SH2 domains to localize to
tyrosine phosphorylated sites.
Length = 101
Score = 24.7 bits (54), Expect = 9.1
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 6 SVNRERAVQMVAAGGEGCFLVRPSSSSEPLTL 37
+N+ A +++ G FLVR S+S+ + L
Sbjct: 16 GMNQAEAARILHKEVAGMFLVRRDSNSKQMVL 47
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
0.325 0.136 0.445
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,523,741
Number of extensions: 552276
Number of successful extensions: 614
Number of sequences better than 10.0: 1
Number of HSP's gapped: 608
Number of HSP's successfully gapped: 56
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)