RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10618
(339 letters)
>gnl|CDD|241249 cd01213, PTB_tensin, Tensin Phosphotyrosine-binding (PTB) domain.
Tensin is a a focal adhesion protein, which contains a
C-terminal SH2 domain followed by a PTB domain. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 136
Score = 158 bits (402), Expect = 3e-48
Identities = 60/96 (62%), Positives = 71/96 (73%), Gaps = 5/96 (5%)
Query: 196 GAACNVLYLVSVDTESLTGPQAVTRAINSLFGTKPLPHAAVVHFKVSSQGITLTDNKRQL 255
GAACNVLYL SVDTESLTGPQAV +A++ PLP VVHFKVS QGITLTDN+R+L
Sbjct: 1 GAACNVLYLGSVDTESLTGPQAVRKAVSETLERDPLPTPTVVHFKVSEQGITLTDNQRKL 60
Query: 256 FFRRHYPVASISYCGLDPEDSRCLTRPWCISKSHCS 291
FFRRHYPV ++S+CG+DPE+ R W + S
Sbjct: 61 FFRRHYPVNTVSFCGMDPEN-----RKWQKRELRGS 91
>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 = 106 bits (267), Expect = 1e-28
Identities = 41/55 (74%), Positives = 49/55 (89%)
Query: 120 NNELVRHFLIEPTPRGVRLKGCSNEPVFSSLSALVYQHSVLPLALPCRLSLPDSE 174
+ELVRHFLIEP+P+GV+LKGC NEPVF SLSALVYQHS+ PLALPC+L +PD +
Sbjct: 62 ESELVRHFLIEPSPKGVKLKGCPNEPVFGSLSALVYQHSITPLALPCKLRIPDRD 116
>gnl|CDD|219831 pfam08416, PTB, Phosphotyrosine-binding domain. The
phosphotyrosine-binding domain (PTB, also
phosphotyrosine-interaction or PI domain) in the protein
tensin tends to be found at the C-terminus. Tensin is a
multi-domain protein that binds to actin filaments and
functions as a focal-adhesion molecule (focal adhesions
are regions of plasma membrane through which cells
attach to the extracellular matrix). Human tensin has
actin-binding sites, an SH2 (pfam00017) domain and a
region similar to the tumour suppressor PTEN. The PTB
domain interacts with the cytoplasmic tails of beta
integrin by binding to an NPXY motif.
Length = 131
Score = 97.8 bits (244), Expect = 4e-25
Identities = 31/82 (37%), Positives = 44/82 (53%), Gaps = 3/82 (3%)
Query: 198 ACNVLYLVSVDTESLTGPQAVTRAINSL--FGTKPLPHAAVVHFKVSSQGITLTDNKRQL 255
V +L + D +SLTG QAV AI L + A + +VS+QGITLTDN+ +
Sbjct: 1 QYRVEHLTTFDLDSLTGVQAVEDAIAKLQLLDAQGRVWAQDMLLQVSAQGITLTDNETKE 60
Query: 256 FFRRHYPVASISYCGLDPEDSR 277
HYP+ SI++C + R
Sbjct: 61 EL-EHYPLNSITHCDAVLNERR 81
>gnl|CDD|153093 cd04704, PLA2_bee_venom_like, PLA2_bee_venom_like: A sub-family of
Phospholipase A2, similar to bee venom PLA2. PLA2 is a
super-family of secretory and cytosolic enzymes; the
latter are either Ca dependent or Ca independent.
Enzymatically active PLA2 cleaves the sn-2 position of
the glycerol backbone of phospholipids; secreted PLA2s
have also been found to specifically bind to a variety
of soluble and membrane proteins in mammals, including
receptors. As a toxin, PLA2 is a potent presynaptic
neurotoxin which blocks nerve terminals by binding to
the nerve membrane and hydrolyzing stable membrane
lipids. The products of the hydrolysis cannot form
bilayers leading to a change in membrane conformation
and ultimately to a block in the release of
neurotransmitters. PLA2 may form dimers or oligomers.
Bee venom PLA2 has fewer conserved disulfide bridges
than most canonical PLA2s.
Length = 97
Score = 94.3 bits (235), Expect = 3e-24
Identities = 30/56 (53%), Positives = 38/56 (67%)
Query: 64 IIPGTKWCGTGDIADTYFDLGSEIKLDKCCRTHDLCPSKIRAHTNRYNITNDSMYT 119
I+PGTKWCG G+IA Y DLG+ + DKCCR HD CP I A +Y +TN ++T
Sbjct: 2 IVPGTKWCGPGNIATNYSDLGAFRETDKCCREHDHCPDIISAGEYKYGLTNTRLFT 57
Score = 52.7 bits (127), Expect = 4e-09
Identities = 16/38 (42%), Positives = 27/38 (71%)
Query: 286 SKSHCSCDKNFKSCLKSTKSAAADVMGEFYFNIFRVPC 323
++SHC CD F+ CLK+ + ++ +G+ YFN+ +VPC
Sbjct: 57 TRSHCDCDNRFRQCLKNVNDSTSNQVGKIYFNVLQVPC 94
>gnl|CDD|147789 pfam05826, Phospholip_A2_2, Phospholipase A2. This family consists
of several phospholipase A2 like proteins mostly from
insects.
Length = 99
Score = 92.0 bits (229), Expect = 3e-23
Identities = 32/56 (57%), Positives = 39/56 (69%)
Query: 64 IIPGTKWCGTGDIADTYFDLGSEIKLDKCCRTHDLCPSKIRAHTNRYNITNDSMYT 119
I PGTKWCGTG+IA+ Y DLG K D+CCRTHD CP KI + +Y +TN +T
Sbjct: 1 ITPGTKWCGTGNIAEDYGDLGEFDKTDRCCRTHDNCPDKIESGETKYGLTNFGPFT 56
Score = 48.8 bits (117), Expect = 1e-07
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 287 KSHCSCDKNFKSCLKSTKSAAADVMGEFYFNIFRVPC 323
SHC CD+ F+ CLK+T + + +G+ YFN+ +VPC
Sbjct: 57 ISHCDCDQRFRRCLKNTNTNKSGNVGKTYFNVLQVPC 93
>gnl|CDD|214675 smart00462, PTB, Phosphotyrosine-binding domain,
phosphotyrosine-interaction (PI) domain. PTB/PI domain
structure similar to those of pleckstrin homology (PH)
and IRS-1-like PTB domains.
Length = 134
Score = 72.7 bits (179), Expect = 7e-16
Identities = 24/87 (27%), Positives = 35/87 (40%), Gaps = 3/87 (3%)
Query: 195 QGAACNVLYLVSVDTESLTGPQAVTRAINSL--FGTKPLPHAAVVHFKVSSQGITLTDNK 252
G + V YL SV+ G Q V AI L V +SS+G+ L D
Sbjct: 2 SGVSFRVKYLGSVEVPEARGLQVVQEAIRKLRAAQGSEKKEPQKVILSISSRGVKLIDED 61
Query: 253 RQLFFRRHYPVASISYCGLDPEDSRCL 279
+ +P+ IS+C + P+D
Sbjct: 62 TK-AVLHEHPLRRISFCAVGPDDLDVF 87
>gnl|CDD|241236 cd00934, PTB, Phosphotyrosine-binding (PTB) PH-like fold. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to bind peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 119
Score = 52.5 bits (126), Expect = 8e-09
Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 199 CNVLYLVSVDTESLTGPQAVTRAINSLFGTK--PLPHAAVVHFKVSSQGITLTDNKRQLF 256
V YL SV+ S G + + A+ L V +VS +G+ L D +
Sbjct: 3 FQVKYLGSVEVGSPRGVKVIEEALKLLALLLKSSKRKPGPVLLEVSPEGVKLLDLDTKEL 62
Query: 257 FRRHYPVASISYCGLDPEDSRCL 279
RH P++ ISYCG DP++ +
Sbjct: 63 LLRH-PLSRISYCGRDPDNPKVF 84
>gnl|CDD|153092 cd00618, PLA2_like, PLA2_like: Phospholipase A2, a super-family of
secretory and cytosolic enzymes; the latter are either
Ca dependent or Ca independent. PLA2 cleaves the sn-2
position of the glycerol backbone of phospholipids (PC
or phosphatidylethanolamine), usually in a
metal-dependent reaction, to generate lysophospholipid
(LysoPL) and a free fatty acid (FA). The resulting
products are either dietary or used in synthetic
pathways for leukotrienes and prostaglandins. Often,
arachidonic acid is released as a free fatty acid and
acts as second messenger in signaling networks. Secreted
PLA2s have also been found to specifically bind to a
variety of soluble and membrane proteins in mammals,
including receptors. As a toxin, PLA2 is a potent
presynaptic neurotoxin which blocks nerve terminals by
binding to the nerve membrane and hydrolyzing stable
membrane lipids. The products of the hydrolysis (LysoPL
and FA) cannot form bilayers leading to a change in
membrane conformation and ultimately to a block in the
release of neurotransmitters. PLA2 may form dimers or
oligomers.
Length = 83
Score = 46.4 bits (110), Expect = 6e-07
Identities = 15/62 (24%), Positives = 20/62 (32%), Gaps = 2/62 (3%)
Query: 65 IPGTKWCGTGDIADTYFDLGSEIKLDKCCRTHDLCPSKIRAHTNRYNITNDSMYTNNELV 124
+P +CG G A E D+CCR HD C +I + S
Sbjct: 1 LPYGCYCGPGGSACPSGQPVDE--TDRCCRKHDCCYDQISDGGCCDGCLSYSFSEGGVTC 58
Query: 125 RH 126
Sbjct: 59 LT 60
Score = 27.9 bits (62), Expect = 2.0
Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 278 CLTRPWCISKSHCSCDKNFKSCLKS 302
C ++SHC CD+ CL
Sbjct: 59 LTNSDLC-TRSHCDCDRRLAICLAR 82
>gnl|CDD|241248 cd01212, PTB_JIP, JNK-interacting protein-like (JIP)
Phosphotyrosine-binding (PTB) domain. JIP is a
mitogen-activated protein kinase scaffold protein. JIP
consists of a C-terminal SH3 domain, followed by a PTB
domain. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 149
Score = 33.8 bits (78), Expect = 0.047
Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 199 CNVLYLVSVDTESLTGPQAVTRAINSLFG----TKPLPHAAVVHFKVSSQGITLTDNKRQ 254
+ +L SV+ G + +A+ + T L A ++S +G+ + D +
Sbjct: 5 FLLKFLGSVEVPYHKGNDVLCQAMQKIATARRLTVHLRPPASCILEISDRGLKMVDQSKP 64
Query: 255 LFFRR----HY--PVASISYCGLDPEDSR 277
H+ + +IS+CG P +SR
Sbjct: 65 NKKEGKPCSHFFQSLKNISFCGFHPRNSR 93
>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 = 32.4 bits (74), Expect = 0.054
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 119 TNNELVRHFLIEPTPRGVRLKGCSNEPVFSSLSALVYQH 157
+ + V+H+LIE G L G S F SL LV +
Sbjct: 42 SGDGKVKHYLIERNEGGYYLLGGSGRT-FPSLPELVEHY 79
>gnl|CDD|241251 cd01215, PTB_Dab, Disabled (Dab) Phosphotyrosine-binding domain.
Dab is a cystosolic adaptor protein, which binds to the
cytoplasmic tails of lipoprotein receptors, such as
ApoER2 and VLDLR, via its PTB domain. The dab PTB domain
has a preference for unphosphorylated tyrosine within an
NPxY motif. Additionally, the Dab PTB domain, which is
structurally similar to PH domains, binds to
phosphatidlyinositol phosphate 4,5 bisphosphate in a
manner characteristic of phosphoinositide binding PH
domains. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 150
Score = 32.2 bits (74), Expect = 0.18
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 233 HAAVVHFKVSSQGITLTDNK-RQLFFRRHYPVASISYCGLDPEDSR 277
H + +S +GI + D K L H+PV IS+ D D+R
Sbjct: 57 HKQRIWLNISLEGIKILDEKTGALLH--HHPVHKISFIARDSTDNR 100
>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 = 30.7 bits (70), Expect = 0.25
Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 5/48 (10%)
Query: 116 SMYTNNELVRHFLIEPTPRGVRLKGCSNEPVFSSLSALV--YQHSVLP 161
S+ + V+H+ I G F SL LV YQ + L
Sbjct: 40 SVRVKGK-VKHYRIRRNEDGKF--YLEGGRKFPSLVELVEHYQKNSLG 84
>gnl|CDD|153095 cd04706, PLA2_plant, PLA2_plant: Plant-specific sub-family of
Phospholipase A2, a super-family of secretory and
cytosolic enzymes; the latter are either Ca dependent or
Ca independent. Enzymatically active PLA2 cleaves the
sn-2 position of the glycerol backbone of phospholipids;
secreted PLA2s have also been found to specifically bind
to a variety of soluble and membrane proteins in
mammals, including receptors. As a toxin, PLA2 is a
potent presynaptic neurotoxin which blocks nerve
terminals by binding to the nerve membrane and
hydrolyzing stable membrane lipids. The products of the
hydrolysis cannot form bilayers leading to a change in
membrane conformation and ultimately to a block in the
release of neurotransmitters. PLA2 may form dimers or
oligomers. This sub-family does not appear to have a
conserved active site and metal-binding loop.
Length = 117
Score = 30.5 bits (69), Expect = 0.40
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 3/23 (13%)
Query: 89 LDKCCRTHDLCPSKIRAHTNRYN 111
LD CC THD C ++A N Y
Sbjct: 44 LDACCMTHDAC---VQAKKNDYL 63
>gnl|CDD|214508 smart00085, PA2c, Phospholipase A2.
Length = 117
Score = 30.6 bits (70), Expect = 0.42
Identities = 16/67 (23%), Positives = 19/67 (28%), Gaps = 14/67 (20%)
Query: 51 ITQTTSAYPLFNGIIPGTKWCGTGDIA-DTYFDLGSEIKLDKCCRTHDLCPSKIRAH--- 106
I T + G C G T D D+CC HD C K
Sbjct: 9 IQCATGKRAWLS---YGDYGCYCGWGGSGTPVD-----ATDRCCFVHDCCYGKAEKEGCN 60
Query: 107 --TNRYN 111
T Y+
Sbjct: 61 PKTTTYS 67
>gnl|CDD|241303 cd01273, PTB_CED-6, Cell death protein 6 homolog (CED-6/GULP1)
Phosphotyrosine-binding (PTB) domain. CED6 (also known
as GULP1: engulfment adaptor PTB domain containing 1) is
an adaptor protein involved in the specific recognition
and engulfment of apoptotic cells. CED6 has been shown
to interact with the cytoplasmic tail of another protein
involved in the engulfment of apoptotic cells, CED1.
CED6 has a C-terminal PTB domain, which can bind to NPXY
motifs. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 144
Score = 29.9 bits (68), Expect = 0.96
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 6/97 (6%)
Query: 186 ITSAQLLLAQGAACNVLYLVSVDTESLTGPQAVTRAINSLFGTKPLPHA-----AVVHFK 240
I + L+ V +L + + G + V AI L + + + V +
Sbjct: 1 IHPPEALIKGHVVYLVKFLGCTEVDQPKGTEVVKEAIRKLKFARQIKKSEGAKLPKVELQ 60
Query: 241 VSSQGITLTDNKRQLFFRRHYPVASISYCGLDPEDSR 277
+S G+ + D K + + +P+ IS+C D D R
Sbjct: 61 ISIDGVKIQDPKTKEIMHQ-FPLHRISFCADDKTDKR 96
>gnl|CDD|241313 cd13159, PTB_LDLRAP-mammal-like, Low Density Lipoprotein Receptor
Adaptor Protein 1 (LDLRAP1) in mammals and similar
proteins Phosphotyrosine-binding (PTB) PH-like fold.
The null mutations in the LDL receptor adaptor protein 1
(LDLRAP1) gene, which serves as an adaptor for LDLR
endocytosis in the liver, causes autosomal recessive
hypercholesterolemia (ARH). LDLRAP1 contains a single
PTB domain. PTB domains have a common PH-like fold and
are found in various eukaryotic signaling molecules.
This domain was initially shown to binds peptides with a
NPXY motif with differing requirements for
phosphorylation of the tyrosine, although more recent
studies have found that some types of PTB domains can
bind to peptides lack tyrosine residues altogether. In
contrast to SH2 domains, which recognize phosphotyrosine
and adjacent carboxy-terminal residues, PTB-domain
binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd contains mammals, insects, and sponges.
Length = 123
Score = 29.2 bits (66), Expect = 1.4
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 7/44 (15%)
Query: 237 VHFKVSSQGITLTD---NKRQLFFRRHYPVASISYCGLDPEDSR 277
V VS +GI +TD N+ L + ISYC D +
Sbjct: 45 VTLTVSPKGIKVTDSATNETIL----EVSIYRISYCTADANHDK 84
>gnl|CDD|241316 cd13162, PTB_RGS12, Regulator of G-protein signaling 12
Phosphotyrosine-binding (PTB) PH-like fold. RGS12
functions as a GTPase-activating protein and a
transcriptional repressor. It is thought to play a role
in tumorigenesis. RGS12 specifically interacts with
guanine nucleotide-binding protein G(i), alpha-1 subunit
and guanine nucleotide-binding protein G(k) subunit
alpha. RGS proteins are multi-functional,
GTPase-accelerating proteins that promote GTP hydrolysis
by the alpha subunit of heterotrimeric G proteins,
thereby inactivating the G protein and rapidly switching
off G protein-coupled receptor signalling pathways. Upon
activation by GPCRs, heterotrimeric G proteins exchange
GDP for GTP, are released from the receptor, and
dissociate into free, active GTP-bound alpha subunit and
beta-gamma dimer, both of which activate downstream
effectors. The response is terminated upon GTP
hydrolysis by the alpha subunit, which can then bind the
beta-gamma dimer and the receptor. RGS proteins markedly
reduce the lifespan of GTP-bound alpha subunits by
stabilizing the G protein transition state. PTB domains
have a common PH-like fold and are found in various
eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 130
Score = 28.1 bits (63), Expect = 3.6
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 233 HAAVVHFKVSSQGITLTDNKRQLFFRRHYPVASISYCGLDPEDSR 277
H+ V+ KV + L D++ + YP +++ G+ P+D R
Sbjct: 41 HSLVL-MKVMHDSVQLCDDRGGVLAT--YPAEKLAFSGVCPDDRR 82
>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 = 27.0 bits (60), Expect = 4.6
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 142 SNEPVFSSLSALVYQHSVLPLALPCRLSLP 171
+ E F++L+ LV+ HS L L P
Sbjct: 65 TQEHRFNTLAELVHHHSKNADGLITTLRYP 94
>gnl|CDD|153091 cd00125, PLA2c, PLA2c: Phospholipase A2, a family of secretory and
cytosolic enzymes; the latter are either Ca dependent or
Ca independent. PLA2 cleaves the sn-2 position of the
glycerol backbone of phospholipids (PC or
phosphatidylethanolamine), usually in a metal-dependent
reaction, to generate lysophospholipid (LysoPL) and a
free fatty acid (FA). The resulting products are either
dietary or used in synthetic pathways for leukotrienes
and prostaglandins. Often, arachidonic acid is released
as a free fatty acid and acts as second messenger in
signaling networks. Secreted PLA2s have also been found
to specifically bind to a variety of soluble and
membrane proteins in mammals, including receptors. As a
toxin, PLA2 is a potent presynaptic neurotoxin which
blocks nerve terminals by binding to the nerve membrane
and hydrolyzing stable membrane lipids. The products of
the hydrolysis (LysoPL and FA) cannot form bilayers
leading to a change in membrane conformation and
ultimately to a block in the release of
neurotransmitters. PLA2 may form dimers or oligomers.
Length = 115
Score = 27.2 bits (61), Expect = 5.1
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 89 LDKCCRTHDLCPSKIRAHT 107
D+CC+ HD C +
Sbjct: 39 TDRCCQVHDCCYDRAEKGG 57
>gnl|CDD|218387 pfam05023, Phytochelatin, Phytochelatin synthase. Phytochelatin
synthase is the enzyme responsible for the synthesis of
heavy-metal-binding peptides (phytochelatins) from
glutathione and related thiols. The crystal structure of
a member of this family shows it to possess a papain
fold. The enzyme catalyzes the deglycination of a GSH
donor molecule. The enzyme contains a catalytic triad of
cysteine, histidine and aspartate residues.
Length = 208
Score = 27.6 bits (62), Expect = 7.3
Identities = 19/118 (16%), Positives = 36/118 (30%), Gaps = 24/118 (20%)
Query: 175 PSLPPDAVSPSITSAQLLLAQGAACNVL-----YLVSVDTESLTGPQAVTRAINSLF--- 226
LP + ++ S + + LL + V+ + G ++ +N+L
Sbjct: 3 RPLPSNLIAFSSSEGKKLLLEAGTMEDYFPLASQFVTQSNPAFCGLASLAMVLNALGIDR 62
Query: 227 -GTKPLP----------HAAVVHFKVSSQGITLTDNKRQLFF-RRHYPVASISYCGLD 272
G + KV QGITL +L + ++ D
Sbjct: 63 PGRLWKGPWRWFTQDNLDCCIPLEKVKKQGITL----DELSCLAKCNGAVVKTFHASD 116
>gnl|CDD|218111 pfam04493, Endonuclease_5, Endonuclease V. Endonuclease V is
specific for single-stranded DNA or for duplex DNA that
contains uracil or that is damaged by a variety of
agents.
Length = 205
Score = 27.7 bits (62), Expect = 7.7
Identities = 13/58 (22%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 48 NPQITQTTSAYPLFNGIIPGTKWCGTGDIADTYFDLGSEIKLDKCCR-THDLCPSKIR 104
P+ + L NG + G D + G++I LD + L IR
Sbjct: 136 EPESERGAGTPILINGEVSGGALRTKEDAKPIFVSPGNKISLDSALKLAKKLSKGYIR 193
>gnl|CDD|145453 pfam02306, Phage_G, Major spike protein (G protein). This is a
family of proteins from single-stranded DNA
bacteriophages. Five G proteins, each a tight beta
barrel, from twelve surface spikes.
Length = 179
Score = 27.5 bits (61), Expect = 7.8
Identities = 19/88 (21%), Positives = 32/88 (36%), Gaps = 6/88 (6%)
Query: 179 PDAVSPSITSAQLLLAQGAACN-VLYLVSVDTESLTGPQAVTRAINSLFGTKPLPHAAVV 237
P+ S S L + +++ VDT + T Q ++ A + F A +V
Sbjct: 35 PEITSRSTIFLYLTTTAATTHSGFAHVIRVDTSNPTDNQVLSVAASLSFDVDSKYIACLV 94
Query: 238 HFKVSSQGITLTDNKRQLFFRRHYPVAS 265
F+ +S T YP+ S
Sbjct: 95 RFESASTVPTALPALYD-----VYPIES 117
>gnl|CDD|223403 COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational
modification, protein turnover, chaperones].
Length = 623
Score = 28.0 bits (63), Expect = 8.7
Identities = 14/32 (43%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 167 RLS--LPDSEPSLPPDAVSPSITSAQLLLAQG 196
RLS L DS L D S +LL AQG
Sbjct: 523 RLSHRLTDSPACLTTDGADLSTQMERLLKAQG 554
>gnl|CDD|213360 cd12826, EcCorA_ZntB-like_u1, uncharacterized bacterial subfamily
of the Escherichia coli CorA-Salmonella typhimurium ZntB
family. A uncharacterized subfamily of the Escherichia
coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like)
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes. The
EcCorA-ZntB_like family includes the Mg2+ transporters
Escherichia coli and Salmonella typhimurium CorAs, which
can also transport Co2+, and Ni2+. Structures of the
intracellular domain of EcCorA-ZntB_like family members,
Vibrio parahaemolyticus and Salmonella typhimurium ZntB,
form funnel-shaped homopentamers, the tip of the funnel
is formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA. Natural
variants such as GVN and GIN, as in some ZntB family
proteins, may be associated with the transport of
different divalent cations, such as zinc and cadmium.
The functional diversity of MIT transporters may also be
due to minor structural differences regulating gating,
substrate selection, and transport.
Length = 281
Score = 27.5 bits (62), Expect = 9.2
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 293 DKNFKSCLKSTKSAAADVMGEFYFNIFRVPCIIDTPSGKKFKFPGVY 339
K L+S + A+V + F +P +D GK+ +F G Y
Sbjct: 19 KKELLESLESIRFCKAEVFEDCLGGTFGIPDKLD-VLGKRDRF-GFY 63
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
0.321 0.135 0.419
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,457,350
Number of extensions: 1500571
Number of successful extensions: 1102
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1093
Number of HSP's successfully gapped: 33
Length of query: 339
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 241
Effective length of database: 6,590,910
Effective search space: 1588409310
Effective search space used: 1588409310
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.5 bits)