RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy67
(526 letters)
>gnl|CDD|241298 cd01268, PTB_Numb, Numb Phosphotyrosine-binding (PTB) domain. Numb
is a membrane associated adaptor protein which plays
critical roles in cell fate determination. Numb proteins
are involved in control of asymmetric cell division and
cell fate choice, endocytosis, cell adhesion, cell
migration, ubiquitination of specific substrates and a
number of signaling pathways (Notch, Hedgehog, p53).
Mutations in Numb plays a critical role in disease
(cancer). Numb has an N-terminal PTB domain and a
C-terminal NumbF 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 = 135
Score = 258 bits (662), Expect = 5e-85
Identities = 98/116 (84%), Positives = 111/116 (95%)
Query: 195 RYLGCVEVYESRGMQVCEDALKVLRNSRRRPVRAILYVSGDGLRVVDDETKGLMVDQTIE 254
+YLGCVEV ESRGMQVCE+ALK L+ SR++PVRA+L+VSGDGLRVVD++TKGL+VDQTIE
Sbjct: 20 KYLGCVEVGESRGMQVCEEALKKLKASRKKPVRAVLWVSGDGLRVVDEKTKGLIVDQTIE 79
Query: 255 KVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSHAVGCAFAACLER 310
KVSFCAPDRNHE+ FSYICRDGTTRRWMCH FLA+K+SGERLSHAVGCAFAACLER
Sbjct: 80 KVSFCAPDRNHERAFSYICRDGTTRRWMCHCFLAVKDSGERLSHAVGCAFAACLER 135
Score = 50.4 bits (121), Expect = 1e-07
Identities = 19/20 (95%), Positives = 19/20 (95%)
Query: 467 DPGERLSHAVGCAFAACLER 486
D GERLSHAVGCAFAACLER
Sbjct: 116 DSGERLSHAVGCAFAACLER 135
>gnl|CDD|144292 pfam00640, PID, Phosphotyrosine interaction domain (PTB/PID).
Length = 133
Score = 126 bits (318), Expect = 1e-34
Identities = 42/131 (32%), Positives = 65/131 (49%), Gaps = 12/131 (9%)
Query: 195 RYLGCVEVYESRGMQVCEDALKV----------LRNSRRRPVRAILYVSGDGLRVVDDET 244
+YLG VEV E R E ++ L R+ L +S DGL+++D++T
Sbjct: 4 KYLGSVEVPEERMDVANEAISRLKMAKNAKRAGLTGHRQPGTSIDLSISTDGLKLLDEKT 63
Query: 245 KGLMVDQTIEKVSFCAP-DRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSHAVGCA 303
K L+ D + +SF A D + + F+YI DG T R+ CH F ++ E ++ AVG A
Sbjct: 64 KELLHDHPLRSISFIAVGDPDDLRTFAYIAADGATGRFACHVFEC-EKGAEDIAQAVGQA 122
Query: 304 FAACLERKQKR 314
FA + +
Sbjct: 123 FAVAYQEFLRA 133
Score = 31.9 bits (73), Expect = 0.26
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 467 DPGERLSHAVGCAFAACLERKQKR 490
E ++ AVG AFA + +
Sbjct: 110 KGAEDIAQAVGQAFAVAYQEFLRA 133
>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 = 117 bits (296), Expect = 2e-31
Identities = 44/128 (34%), Positives = 77/128 (60%), Gaps = 5/128 (3%)
Query: 194 LRYLGCVEVYESRGMQVCEDALKVLR----NSRRRPVRAILYVSGDGLRVVDDETKGLMV 249
++YLG VEV E+RG+QV ++A++ LR + ++ P + IL +S G++++D++TK ++
Sbjct: 8 VKYLGSVEVPEARGLQVVQEAIRKLRAAQGSEKKEPQKVILSISSRGVKLIDEDTKAVLH 67
Query: 250 DQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSHAVGCAFAACLE 309
+ + ++SFCA + F YI RD + R+ CH F K + + ++ A+G AF E
Sbjct: 68 EHPLRRISFCAVGPDDLDVFGYIARDPGSSRFACHVFRCEKAAED-IALAIGQAFQLAYE 126
Query: 310 RKQKRDKE 317
K K E
Sbjct: 127 LKLKARSE 134
>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 = 91.5 bits (227), Expect = 4e-22
Identities = 39/115 (33%), Positives = 71/115 (61%), Gaps = 5/115 (4%)
Query: 194 LRYLGCVEVYESRGMQVCEDALKV----LRNSRRRPVRAILYVSGDGLRVVDDETKGLMV 249
++YLG VEV RG++V E+ALK+ L++S+R+P +L VS +G++++D +TK L++
Sbjct: 5 VKYLGSVEVGSPRGVKVIEEALKLLALLLKSSKRKPGPVLLEVSPEGVKLLDLDTKELLL 64
Query: 250 DQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKESG-ERLSHAVGCA 303
+ ++S+C D ++ K F++I R + CH F + E + +A+G A
Sbjct: 65 RHPLSRISYCGRDPDNPKVFAFIARRSGGSGFRCHVFQCEDKEEAEEILNALGQA 119
>gnl|CDD|218982 pfam06311, NumbF, NUMB domain. This presumed domain is found in
the Numb family of proteins adjacent to the PTB domain..
Length = 87
Score = 87.2 bits (216), Expect = 5e-21
Identities = 34/54 (62%), Positives = 40/54 (74%), Gaps = 1/54 (1%)
Query: 377 PHAIERPHAPIPLLQRQGSFRGFSQLNQA-SPFKRQLSLRIGDLPSNLERTRLQ 429
PHAI R HAP+ +L RQGSFRGF L+Q SPFKRQLSLR+ +LPS L+R
Sbjct: 1 PHAIPRRHAPLEMLIRQGSFRGFPALSQKNSPFKRQLSLRLNELPSTLQRQSQD 54
>gnl|CDD|241315 cd13161, PTB_TK_HMTK, Tyrosine-specific kinase/HM-motif TK
(TM/HMTK) Phosphotyrosine-binding (PTB) PH-like fold.
TK kinases catalyzes the transfer of the terminal
phosphate of ATP to a specific tyrosine residue on its
target protein. TK kinases play significant roles in
development and cell division. Tyrosine-protein kinases
can be divided into two subfamilies: receptor tyrosine
kinases, which have an intracellular tyrosine kinase
domain, a transmembrane domain and an extracellular
ligand-binding domain; and non-receptor (cytoplasmic)
tyrosine kinases, which are soluble, cytoplasmic
kinases. In HMTK the conserved His-Arg-Asp sequence
within the catalytic loop is replaced by a His-Met
sequence. TM/HMTK have are 2-3 N-terminal PTB domains.
PTB domains in TKs are thought to function analogously
to the membrane targeting (PH, myristoylation) and pTyr
binding (SH2) domains of Src subgroup kinases. 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 = 120
Score = 82.7 bits (205), Expect = 5e-19
Identities = 36/114 (31%), Positives = 62/114 (54%), Gaps = 1/114 (0%)
Query: 196 YLGCVEVYESRGMQVCEDALKVLRNSRRRPVRAILYVSGDGLRVVDDETKGLMVDQTIEK 255
YLG V V E +G +V A+K L++ + +P + +L V+ +G+RVV+ +T ++ + I+
Sbjct: 8 YLGSVPVKEPKGNEVVMAAVKRLKDLKLKPKKVVLVVTSEGIRVVERKTGEVLTNVPIKD 67
Query: 256 VSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSHAVGCAFAACLE 309
+SF D +K F++I D R CH F K+ + + + AF A E
Sbjct: 68 ISFVTVDPRDKKLFAFISHDSRLGRITCHVFR-CKKGAQAICDTIAEAFKAAAE 120
>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 = 77.7 bits (192), Expect = 4e-17
Identities = 34/119 (28%), Positives = 72/119 (60%), Gaps = 8/119 (6%)
Query: 193 VLRYLGCVEVYESRGMQVCEDALKVLRNSRR-------RPVRAILYVSGDGLRVVDDETK 245
++++LGC EV + +G +V ++A++ L+ +R+ + + L +S DG+++ D +TK
Sbjct: 15 LVKFLGCTEVDQPKGTEVVKEAIRKLKFARQIKKSEGAKLPKVELQISIDGVKIQDPKTK 74
Query: 246 GLMVDQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSHAVGCAF 304
+M + ++SFCA D+ ++ FS+I +D + + +C F + K + E ++ +G AF
Sbjct: 75 EIMHQFPLHRISFCADDKTDKRIFSFIAKDSESNKHLCFVFDSEKLA-EEITLTIGQAF 132
Score = 30.7 bits (70), Expect = 0.98
Identities = 9/22 (40%), Positives = 17/22 (77%)
Query: 140 KYLGCVEVYESRGMQVCEDALK 161
K+LGC EV + +G +V ++A++
Sbjct: 17 KFLGCTEVDQPKGTEVVKEAIR 38
>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 = 73.1 bits (180), Expect = 1e-15
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 5/116 (4%)
Query: 194 LRYLGCVEVYESRGMQVCEDALK----VLRNSRRRPVRAILYVSGDGLRVVDDETKGLMV 249
L+YLG V + +G +A+K + S ++ + L VS G++V D T ++
Sbjct: 7 LKYLGSTLVEKPKGEGATAEAVKTIIATAKASGKKLQKVTLTVSPKGIKVTDSATNETIL 66
Query: 250 DQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALKES-GERLSHAVGCAF 304
+ +I ++S+C D NH+K F++I ++ + CH FL K + ++ V AF
Sbjct: 67 EVSIYRISYCTADANHDKVFAFIAQNQDNEKLECHAFLCAKRKMAQAVTLTVAQAF 122
>gnl|CDD|241304 cd01274, PTB_Anks, Ankyrin repeat and sterile alpha motif (SAM)
domain-containing (Anks) protein family
Phosphotyrosine-binding (PTB) domain. Both AIDA-1b
(AbetaPP intracellular domain-associated protein 1b) and
Odin (also known as ankyrin repeat and sterile alpha
motif domain-containing 1A; ANKS1A) belong to the Anks
protein family. Both of these family members interacts
with the EphA8 receptor. Ank members consists of
ankyrin repeats, a SAM domain and a C-terminal PTB
domain which is crucial for interaction with the
juxtamembrane (JM) region of EphA8. PTB domains are
classified into three groups, namely,
phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains of
which the Anks PTB is a member. 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 = 146
Score = 54.2 bits (131), Expect = 7e-09
Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 5/99 (5%)
Query: 196 YLGCVEVYESRGMQVCEDALKVLRNS----RRRPVRAILYVSGDGLRVVDDETKGLMVDQ 251
YLG + E RG + +DA + L+ S ++ P IL +S G++ +D TK L+ +
Sbjct: 21 YLGSTLIKELRGTESTKDACQKLKKSTEEMKKIP-TIILSISYKGVKFIDATTKNLICEH 79
Query: 252 TIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALK 290
I +S D F+YI +D T CH F L
Sbjct: 80 EIRNISCACQDPEDLNTFAYITKDLKTDHHYCHVFCVLT 118
>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 = 51.5 bits (124), Expect = 7e-08
Identities = 29/101 (28%), Positives = 50/101 (49%), Gaps = 12/101 (11%)
Query: 197 LGCVEVYESRGMQVCEDAL-------KVLRNSRRRPVRAILYVSGDGLRVVDDETKGLMV 249
+G EV +RG ++C+DA+ K + R L +S +G++++D++T L+
Sbjct: 23 IGIDEVPAARGDKMCQDAMMKLKGIVKAAGSQGEHKQRIWLNISLEGIKILDEKTGALLH 82
Query: 250 DQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGFLALK 290
+ K+SF A D + F Y+C G H F A+K
Sbjct: 83 HHPVHKISFIARDSTDNRAFGYVC--GLDGG---HKFFAIK 118
>gnl|CDD|241235 cd00900, PH-like, Pleckstrin homology-like domain. The PH-like
family includes the PH domain, both the Shc-like and
IRS-like PTB domains, the ran-binding domain, the EVH1
domain, a domain in neurobeachin and the third domain of
FERM. All of these domains have a PH fold, but lack
significant sequence similarity. They are generally
involved in targeting to protein to the appropriate
cellular location or interacting with a binding partner.
This domain family possesses multiple functions
including the ability to bind inositol phosphates and to
other proteins.
Length = 88
Score = 48.9 bits (117), Expect = 1e-07
Identities = 12/84 (14%), Positives = 30/84 (35%), Gaps = 6/84 (7%)
Query: 211 CEDALKVLRNSRRRPVRAILYVSGDGLRVVDDETKGLMVDQTIEKVSFCAPDR--NHEKG 268
C + + ++ R L+++ + L + D + L + I + P R + ++
Sbjct: 1 CSFSAVRVYCDGKKRGRGTLFITSNRLILRDKQDDRLKLKIPISDIVKVNPSRASDSDRA 60
Query: 269 FSYICRDGTTRRWMCHGFLALKES 292
+D + GF +
Sbjct: 61 LVLRLKD----KRESLGFSFKSKE 80
>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 = 44.2 bits (105), Expect = 2e-05
Identities = 37/126 (29%), Positives = 57/126 (45%), Gaps = 18/126 (14%)
Query: 194 LRYLGCVEVYESRGMQV-CEDALKVLRNSRRR-----PVRAILYVSGDGLRVVDDETKGL 247
L++LG VEV +G V C+ K+ R P IL +S GL++VD
Sbjct: 7 LKFLGSVEVPYHKGNDVLCQAMQKIATARRLTVHLRPPASCILEISDRGLKMVDQSKPNK 66
Query: 248 M-VDQTIE------KVSFCA--PDRNHEKGFSYICRDGTTRRWMCHGFLALKESGERLSH 298
+SFC P RN + F +I + +R+ CH F++ +ES ++
Sbjct: 67 KEGKPCSHFFQSLKNISFCGFHP-RNS-RYFGFITKHPLLQRFACHVFVS-QESTRPVAE 123
Query: 299 AVGCAF 304
+VG AF
Sbjct: 124 SVGRAF 129
>gnl|CDD|241312 cd13158, PTB_APPL, Adaptor protein containing PH domain, PTB
domain, and Leucine zipper motif (APPL; also called
DCC-interacting protein (DIP)-13alpha)
Phosphotyrosine-binding (PTB) domain. APPL interacts
with oncoprotein serine/threonine kinase AKT2, tumor
suppressor protein DCC (deleted in colorectal cancer),
Rab5, GIPC (GAIP-interacting protein, C terminus), human
follicle-stimulating hormone receptor (FSHR), and the
adiponectin receptors AdipoR1 and AdipoR2. There are two
isoforms of human APPL: APPL1 and APPL2, which share
about 50% sequence identity. APPL has a BAR and a PH
domain near its N terminus, and the two domains are
thought to function as a unit (BAR-PH domain).
C-terminal to this is a PTB domain. Lipid binding assays
show that the BAR, PH, and PTB domains can bind
phospholipids. 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.
Length = 135
Score = 40.0 bits (94), Expect = 5e-04
Identities = 32/126 (25%), Positives = 59/126 (46%), Gaps = 22/126 (17%)
Query: 193 VLRYLGCVEVYESRGMQVCEDALK-VLRNSRRRPVRAI----------LYVSGDGLRVVD 241
++R+LG +EV R +V +A++ +L RAI L V+ D LR++D
Sbjct: 14 IVRFLGSMEVKSDRTSEVIYEAMRQIL------AARAIHNIFRMTESHLLVTSDCLRLID 67
Query: 242 DETKGLMVDQTIEKVSFCAPDRNHEKGFSYICR----DGTTRRWMCHGFLALKESGERLS 297
+T+ + VS A + +++ F ++ R DG + C+ F + GE++
Sbjct: 68 PQTQVTRARFPLANVSQFAAHQENKRLFGFVVRSRGGDGGRPSYSCYVFES-NTEGEKIC 126
Query: 298 HAVGCA 303
A+ A
Sbjct: 127 DAISLA 132
>gnl|CDD|241300 cd01270, PTB_CAPON-like, Carboxyl-terminal PDZ ligand of neuronal
nitric oxide synthase protein (CAPON)
Phosphotyrosine-binding (PTB) domain. CAPON (also known
as Nitric oxide synthase 1 adaptor protein, NOS1AP,
encodes a cytosolic protein that binds to the signaling
molecule, neuronal NOS (nNOS). It contains a N-terminal
PTB domain that binds to the small monomeric G protein,
Dexras1 and a C-terminal PDZ-binding domain that
mediates interactions with nNOS. Included in this cd
are C. elegan proteins dystrobrevin, DYB-1, which
controls neurotransmitter release and muscle Ca(2+)
transients by localizing BK channels and DYstrophin-like
phenotype and CAPON related,DYC-1, which is functionally
related to dystrophin homolog, DYS-1. Mutations in the
dystrophin gene causes Duchenne muscular dystrophy.
DYS-1 shares sequence similarity, including key motifs,
with their mammalian counterparts. These CAPON-like
proteins all have 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 is part of the Dab-like subgroup.
Length = 179
Score = 40.3 bits (95), Expect = 7e-04
Identities = 31/101 (30%), Positives = 53/101 (52%), Gaps = 14/101 (13%)
Query: 219 RNSRRRPVRAILYVSGDGLRVV-----------DDETKGLMVDQTIEKVSFCAPDRNHEK 267
+N +++ V + VS DG++VV DE+K L++ I ++ + + D K
Sbjct: 64 KNIKKKKV--TITVSVDGVKVVLRKKKKKKGWTWDESKLLLMQHPIYRIFYVSHDSQDLK 121
Query: 268 GFSYICRDGTTRRWMCHGFLALKESGE-RLSHAVGCAFAAC 307
FSYI RDG++ + C+ F + K+S R+ +G AF C
Sbjct: 122 IFSYIARDGSSNVFKCNVFKSKKKSQAMRIVRTIGQAFEVC 162
>gnl|CDD|222633 pfam14261, DUF4351, Domain of unknown function (DUF4351). This
domain is found in bacteria, and is approximately 60
amino acids in length.
Length = 59
Score = 35.1 bits (82), Expect = 0.004
Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 410 RQLSLRIGDLPSNLERTRLQQLSLTQ 435
R L+ R G+LP + +++ LSL Q
Sbjct: 14 RLLTRRFGELPPEI-EEQIESLSLEQ 38
>gnl|CDD|241302 cd01272, PTB1_Fe65, Fe65 N-terminal Phosphotyrosine-binding (PTB)
domain. The neuronal adaptor protein Fe65 is involved
in brain development, Alzheimer disease amyloid
precursor protein (APP) signaling, and proteolytic
processing of APP. It contains three protein-protein
interaction domains, one WW domain, and a unique tandem
array of phosphotyrosine-binding (PTB) domains. The
N-terminal PTB domain was shown to interact with a
variety of proteins, including the low density
lipoprotein receptor-related protein (LRP-1), the ApoEr2
receptor, and the histone acetyltransferase Tip60. 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 = 138
Score = 35.7 bits (83), Expect = 0.017
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 235 DGLRVVDDETKGLMVDQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHGF 286
D L++VD + ++ Q I + R++ + F+Y+ RD TR CH F
Sbjct: 62 DTLKLVDPDDHSVLHSQPIHSIRVWGVGRDNGRDFAYVARDKDTRVLKCHVF 113
>gnl|CDD|241301 cd01271, PTB2_Fe65, Fe65 C-terminal Phosphotyrosine-binding (PTB)
domain. The neuronal adaptor protein Fe65 is involved
in brain development, Alzheimer disease amyloid
precursor protein (APP) signaling, and proteolytic
processing of APP. It contains three protein-protein
interaction domains, one WW domain, and a unique tandem
array of phosphotyrosine-binding (PTB) domains. The
C-terminal PTB domain is responsible for APP binding.
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 = 127
Score = 33.0 bits (76), Expect = 0.13
Identities = 33/148 (22%), Positives = 58/148 (39%), Gaps = 29/148 (19%)
Query: 167 MFALCYLGCVEVYESRGMQVCEDALKVLRYLGCVEVYESRGMQVCEDALKVLRNSRRRPV 226
F YLG V + GM V +A++ L + +
Sbjct: 8 KFEALYLGSTPVSKPTGMDVLNEAIEQL----------------------LSSVPKEDWT 45
Query: 227 RAILYVSGDGLRVVDDE-TKGLMVDQTIEKVSFCAPDRNHEKGFSYICRDGTTRRWMCHG 285
+ V+ + V+ + + ++V+ + +SF ++ F++I D +R+ CH
Sbjct: 46 PVNVSVAPSTVTVLSQKDEEEVLVECRVRFLSFLGIGKDVHT-FAFIM-DTGPQRFQCHV 103
Query: 286 FLALKESGERLSHAVGCAFAACLERKQK 313
F +G LS AV AAC+ R QK
Sbjct: 104 FWCEPNAGA-LSEAVQ---AACMLRYQK 127
>gnl|CDD|241314 cd13160, PTB_LDLRAP_insect-like, Low Density Lipoprotein Receptor
Adaptor Protein 1 (LDLRAP1) in insects 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 insects, ticks, sea urchins, and nematodes.
Length = 124
Score = 32.7 bits (75), Expect = 0.16
Identities = 19/102 (18%), Positives = 34/102 (33%), Gaps = 9/102 (8%)
Query: 195 RYLGCVEVYESRGMQVCED---ALKVLRNSRRRPVRAILYVSGDGLRVVDDETKGLMVDQ 251
+YLG + G++ + + L VS DG+++ +
Sbjct: 6 KYLGRMPARGLWGIKHTRKPLVDALKNLPKGKTLPKTKLEVSSDGVKLEELRGGFGSSKT 65
Query: 252 T---IEKVSFCAPDRNHEKGFSYICRDGTTRR---WMCHGFL 287
I +S+ D H + FS I + CH F+
Sbjct: 66 VFFPIHTISYGVQDLVHTRVFSMIVVGEQDSSNHPFECHAFV 107
>gnl|CDD|241311 cd13157, PTB_tensin-related, Tensin-related Phosphotyrosine-binding
(PTB) domain. Tensin plays critical roles in renal
function, muscle regeneration, and cell migration. It
binds to actin filaments and interacts with the
cytoplasmic tails of beta-integrin via its PTB domain,
allowing tensin to link actin filaments to integrin
receptors. Tensin functions as a platform for assembly
and disassembly of signaling complexes at focal
adhesions by recruiting tyrosine-phosphorylated
signaling molecules, and also by providing interaction
sites for other proteins. In addition to its PTB
domain, it contains a C-terminal SH2 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.
Length = 129
Score = 32.7 bits (75), Expect = 0.17
Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 10/99 (10%)
Query: 195 RYLGCVEVYESRGMQVCE---DALKVLRNS--RRRPVRAILYVSGDGLRVVDDETKGLMV 249
+Y+G V + + L L+ S R RPV IL +S G+++ ++ + +++
Sbjct: 7 QYIGSFPVSGLDLQERADSVGKQLDSLKPSTSRGRPV--ILSISLSGIKICSEDGETVLM 64
Query: 250 DQTIEKVSFCAPDRNHEKGFSYICRD--GTTRRWMCHGF 286
+ +VS+ F+++ R+ G T R CH F
Sbjct: 65 AHALRRVSYSTCRPAD-AQFAFVARNPGGPTSRQYCHVF 102
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 33.8 bits (78), Expect = 0.23
Identities = 26/138 (18%), Positives = 49/138 (35%), Gaps = 12/138 (8%)
Query: 119 VFMRFGYRPSGDVLHLSASAFKYLGCVEVYESRGMQVCEDALKVVLIYMFALCYLGCVEV 178
+ E+ E+ GM+ E + L L V
Sbjct: 24 DVANALALAKRQKNAEAVIGR---PLREILETLGMERVEQSRDKELTERLKL--KVKRIV 78
Query: 179 YESRGMQVCEDALKVLRYLGCVEVYESRGMQVCEDALKVLRNSRRRPVRAILYVSGDGLR 238
G ++ +V+ L V + S +++ E+ L+ R+ + AIL DGL
Sbjct: 79 --VVGKTPVDEQGRVVGVL-EVFLDISEALELIEENLR----QLRQRLEAILDSIDDGLL 131
Query: 239 VVDDETKGLMVDQTIEKV 256
VVD++ + ++ K+
Sbjct: 132 VVDEDGIIIYYNKAYAKL 149
>gnl|CDD|241250 cd01214, PTB_FAM43A, Family with sequence similarity 43, member A
(FAM43A) Phosphotyrosine-binding (PTB) domain. The
function of FAM43A is currently unknown. Human FAM43A is
located on chromosome 3 at location 3q29. It encodes a
3182 base pair mRNA which possesses one Pleckstrin
homology-like domain. The mRNA translates into
LOC131583, a hydrophilic protein that is predicted to
localize in the nucleus. The FAM43A gene is conserved
through a broad range of vertebrates. It is highly
conserved from chimpanzees to zebrafish. 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.
Length = 125
Score = 31.9 bits (73), Expect = 0.26
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 17/109 (15%)
Query: 195 RYLGCVEVYESRGMQVCEDALKVL-RNSRRRP---VRAILYVSGDGLRVVDDETKGLMVD 250
YLG V ++G E L + RN + V+ L V+ GL+ + GL
Sbjct: 11 VYLGNVLTLWAKGEGCTEKPLATIWRNYTQGSKPDVKMKLTVTPSGLKATTKQ-HGL--- 66
Query: 251 QTIE----KVSFCAPDRNHEKGFSYICR-DGTTRRWM--CHGFLALKES 292
E ++++C+ D N+ + F +I R +G + CH L KES
Sbjct: 67 --TEYWLHRITYCSADPNYPRVFCWIYRHEGRKLKVELRCHAVLCSKES 113
>gnl|CDD|217789 pfam03915, AIP3, Actin interacting protein 3.
Length = 424
Score = 33.1 bits (76), Expect = 0.40
Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 21/123 (17%)
Query: 320 VTMNFDTTNSTFTRSGSFRQPTLTDRIIDGEVDMPVSPLSPPPNSVPTTPGSVKPPNPHA 379
+ D ST + S + + ++ +PPP+S+P + S NP
Sbjct: 97 LKQALDDQQSTILQRLS-------ELQQNTAKEVARPAAAPPPSSLPNSSSSPDSINP-- 147
Query: 380 IERPHAPIPLLQRQGSFRGFSQLNQA-SPFKRQLSLRIGDLPSNLERTR-LQQLSLTQAN 437
+ L+R+ + L Q S FK ++ I + LE+ + SL +
Sbjct: 148 --AGLKELQSLRRE-----LAVLRQTHSDFKSEIQASISSI---LEKINAFKSASLNASG 197
Query: 438 HAN 440
+N
Sbjct: 198 SSN 200
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 31.3 bits (71), Expect = 1.3
Identities = 16/121 (13%), Positives = 33/121 (27%), Gaps = 2/121 (1%)
Query: 352 DMPVSPLSPPPNSVPT-TPGSVKPPNPHAIERPHAPIPLLQRQGSFRGFSQLNQASPFKR 410
D P + P S + P+ + + L Q+ Q + A +
Sbjct: 138 DQPAQQRALQQLQQRYGAPASGQLPSQQQSAQKNDESQLQQQPNGETPPQQTDGAGDDES 197
Query: 411 QLSLRIGDLPSNLERTRLQQLSLTQANHANNIAPLIYLKTPVSPIPESISPLKSNGDPGE 470
+ +R+ + LE R++ A + I + + G
Sbjct: 198 EALVRLREADGTLE-QRIKGAEGGGAMKVLKQPKKQAKSSKRRTIAQIDGIDSDDEGDGS 256
Query: 471 R 471
Sbjct: 257 D 257
>gnl|CDD|222659 pfam14297, DUF4373, Domain of unknown function (DUF4373). This
domain is found in bacteria, eukaryotes and viruses, and
is approximately 90 amino acids in length.
Length = 87
Score = 28.7 bits (65), Expect = 1.7
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 157 EDALKVVLIYMFALCYLGCVEVYESRGMQVCEDALKVL-RYLGC 199
+ K IY + L YL Y+ G DAL ++ R LG
Sbjct: 20 KYGAKGYGIYWYLLEYL-----YKEPGYYASLDALFIIARKLGV 58
>gnl|CDD|219241 pfam06958, Pyocin_S, S-type Pyocin. This family represents a
conserved region approximately 180 residues long within
bacterial S-type pyocins. Pyocins are polypeptide toxins
produced by, and active against, bacteria. S-type
pyocins cause cell death by DNA breakdown due to
endonuclease activity.
Length = 139
Score = 29.6 bits (67), Expect = 1.8
Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 12/62 (19%)
Query: 320 VTMNFDTTNSTFTRSGSFRQPTLTDRIIDGEVDMPVSPLSPPPNSVPTTPGSVKPPNPHA 379
++ +T FT T+ +P SPP + +T PP+
Sbjct: 48 AVLDAETGVYEFTLDAVP-GRTIL-----------WTPASPPGDIPSSTSSPAPPPDTPV 95
Query: 380 IE 381
I
Sbjct: 96 IT 97
>gnl|CDD|215382 PLN02712, PLN02712, arogenate dehydrogenase.
Length = 667
Score = 30.7 bits (69), Expect = 2.1
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 7/43 (16%)
Query: 353 MPVSPLSPPPNSVPTTPG-------SVKPPNPHAIERPHAPIP 388
P P PPP+ PT+ S+ + A P+P
Sbjct: 1 SPPPPPQPPPSLFPTSKPTTMSPRLSLSIKSQSATATDKQPLP 43
>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 = 29.2 bits (66), Expect = 2.2
Identities = 26/146 (17%), Positives = 53/146 (36%), Gaps = 23/146 (15%)
Query: 172 YLGCVEVYESRGMQVCEDALKVLRYLGCVEVYESRGMQVCEDALKVLRNSRRRPVRAILY 231
+L ++ G+Q EDA+ L+ L R +L
Sbjct: 6 HLTTFDLDSLTGVQAVEDAIAKLQLLDA--------------------QGRVWAQDMLLQ 45
Query: 232 VSGDGLRVVDDETKGLMVDQTIEKVSFCAPD---RNHEKGFSYICRDGTTRRWMCHGFLA 288
VS G+ + D+ETK + + ++ C R + +++ ++ + H F
Sbjct: 46 VSAQGITLTDNETKEELEHYPLNSITHCDAVLNERRYNSLLAFVAQEPGQSKPNVHLFQC 105
Query: 289 LKESGERLSHAVGCAFAACLERKQKR 314
+ E+ + + A + K+KR
Sbjct: 106 DELGAEQPAEDIESALSKVRLGKKKR 131
>gnl|CDD|220603 pfam10152, DUF2360, Predicted coiled-coil domain-containing protein
(DUF2360). This is the conserved 140 amino acid region
of a family of proteins conserved from nematodes to
humans. One C. elegans member is annotated as a
Daf-16-dependent longevity protein 1 but this could not
be confirmed. The function is unknown.
Length = 147
Score = 29.3 bits (66), Expect = 2.7
Identities = 15/42 (35%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 347 IDGEVDMPVSPLSPPPNSVPTTPGSVKPPNPHAIERPHAPIP 388
I G D+ V PPP + T G PP P E P P
Sbjct: 47 IPGLEDVTVQTT-PPPPASAITNGGPPPPPPARAEAASPPPP 87
>gnl|CDD|151991 pfam11555, Inhibitor_Mig-6, EGFR receptor inhibitor Mig-6. When
the kinase domain of EGFR binds to segment one of
Mitogen induced gene 6 (Mig-6), EGFR becomes inactive
due to the conformation it adopts which is Src/CDK like.
The binding of the two proteins prevents EGFR acting as
a cyclin-like activator for other kinase domains.The
structure of Mig-6(1) consists of alpha helices-G and -H
with a polar surface and hydrophobic residues for
interactions with EGFR. A critical step for the
activation of EGFR is the formation of an asymmetric
dimer involving the kinase domains of the protein. Since
Mig-6 binds to the kinase domain it blocks this process
and EGFR becomes inactive.
Length = 58
Score = 27.2 bits (60), Expect = 3.6
Identities = 20/52 (38%), Positives = 23/52 (44%), Gaps = 7/52 (13%)
Query: 354 PVSPLSPP------PNSVPTTPGSVKPPNPHAIERP-HAPIPLLQRQGSFRG 398
P PLSPP P S+PT P V P P + +LQRQGS
Sbjct: 7 PREPLSPPGSRTPSPKSLPTYPNGVMPTTQSFASDPKYVSPKVLQRQGSEGS 58
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 30.3 bits (68), Expect = 3.7
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 354 PVSPLSPPPNSVPTTPGSV-KPPNPHAIERPHAPIP 388
P +P P + P TPG +P P P AP P
Sbjct: 2736 PAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAP 2771
Score = 29.1 bits (65), Expect = 7.1
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 354 PVSPLSPPPNSVPTTPGSVKPPNP 377
P PL PP ++ PT P P P
Sbjct: 2824 PAGPLPPPTSAQPTAPPPPPGPPP 2847
>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106). This
family of proteins are found in large numbers in the
Trichomonas vaginalis proteome. The function of this
protein is unknown.
Length = 422
Score = 29.6 bits (66), Expect = 4.8
Identities = 22/84 (26%), Positives = 25/84 (29%), Gaps = 15/84 (17%)
Query: 330 TFTRSGSFR---------QPTLTDRIIDGEVDMPVSPLSPPPNSVPTTPGSVKPPNPHAI 380
TFT S R QPT+ + V P P P P P A
Sbjct: 188 TFTSSHGHRHRHAPKPTQQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQ 247
Query: 381 ERPHAPIPLLQRQGSFRGFSQLNQ 404
+ P QG R Q NQ
Sbjct: 248 QPPQ------TEQGHKRSREQGNQ 265
>gnl|CDD|115307 pfam06637, PV-1, PV-1 protein (PLVAP). This family consists of
several PV-1 (PLVAP) proteins which seem to be specific
to mammals. PV-1 is a novel protein component of the
endothelial fenestral and stomatal diaphragms. The
function of this family is unknown.
Length = 442
Score = 29.6 bits (66), Expect = 4.9
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 353 MPVS-PLSPPPNSVPTTPGSVKPPNPHAIE--RPHAPIPLLQRQG 394
MP S P+ PPPN P P S++ +E R A IP G
Sbjct: 398 MPPSRPMGPPPNPPPIDPASLEEFKKKILESQRLPAGIPAAPPSG 442
>gnl|CDD|217337 pfam03050, DDE_Tnp_IS66, Transposase IS66 family. Transposase
proteins are necessary for efficient DNA transposition.
This family includes IS66 from Agrobacterium
tumefaciens.
Length = 277
Score = 29.1 bits (66), Expect = 5.0
Identities = 17/104 (16%), Positives = 33/104 (31%), Gaps = 15/104 (14%)
Query: 175 CVEVYESRGMQVCEDALKVLRYLGCVEVY--ESRGMQVCEDALKVLRNSRRRPVRAILYV 232
V+ +S +AL+ + E+Y E + + LR RP+ L
Sbjct: 153 FVDAVKSDPSPRAAEALRRIG-----ELYAIEREARGLPPEERLALRQEYSRPLLDALE- 206
Query: 233 SGDGLRVVDDETKGLMVDQTIEKVSFCAPDRNHEKGFSYICRDG 276
++ + G++ + K N + DG
Sbjct: 207 -----AWLEAQLPGVLPKSKLGK--AIRYLLNRWDALTRFLEDG 243
>gnl|CDD|240253 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional.
Length = 202
Score = 28.9 bits (65), Expect = 5.1
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 7/61 (11%)
Query: 167 MFALCYLGCVEVYESRGMQVCEDALKVLR-YLGCVEVYESRGMQVCEDALKV--LRNSRR 223
+F G + RG ALK L+ + G Y+ V AL+V L+ R
Sbjct: 78 IFWRTVRGMLPHKTKRGAA----ALKRLKVFEGVPAPYDKVKRVVIPSALRVLRLKPERP 133
Query: 224 R 224
Sbjct: 134 Y 134
>gnl|CDD|166942 PRK00404, tatB, sec-independent translocase; Provisional.
Length = 141
Score = 28.3 bits (63), Expect = 5.2
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 356 SPLSPPPNSVPTTPGSVKPPNPHAIERPHAPIP 388
+PL+PP P TP + + P P P P
Sbjct: 80 APLTPPAPPEPVTPPTAQSPAPAVPTPPPTSTP 112
>gnl|CDD|185120 PRK15198, PRK15198, outer membrane usher protein FimD; Provisional.
Length = 860
Score = 29.1 bits (65), Expect = 6.6
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 13/61 (21%)
Query: 373 KPPNPHAIERPHAPIPLLQRQGSFR----------GFSQLNQASPFKRQLSLRIGDLPSN 422
K N P++ +PLLQR+G + G SQ Q+SPF Q + IG LP
Sbjct: 330 KDGNQQRYTVPYSTVPLLQREGRVKYDLVAGDFRSGNSQ--QSSPFFFQGTA-IGGLPQG 386
Query: 423 L 423
Sbjct: 387 F 387
>gnl|CDD|132908 cd07030, RNAP_D, D subunit of Archaeal RNA polymerase. The D
subunit of archaeal RNA polymerase (RNAP) is involved in
the assembly of RNAP subunits. RNAP is a large
multi-subunit complex responsible for the synthesis of
RNA. It is the principal enzyme of the transcription
process, and is a final target in many regulatory
pathways that control gene expression in all living
cells. A single distinct RNAP complex is found in
archaea, which may be responsible for the synthesis of
all RNAs. The archaeal RNAP harbors homologues of all
eukaryotic RNAP II subunits with two exceptions (RPB8
and RPB9). The 12 archaeal subunits are designated by
letters and can be divided into three functional groups
that are engaged in: (I) catalysis (A'/A", B'/B" or B);
(II) assembly (L, N, D and P); and (III) auxiliary
functions (F, E, H and K). The D subunit is equivalent
to the RPB3 subunit of eukaryotic RNAP II. It contains
two subdomains: one subdomain is similar the eukaryotic
Rpb11/AC19/archaeal L subunit which is involved in
dimerization, and the other is an inserted beta sheet
subdomain. The assembly of the two largest archaeal RNAP
subunits that provide most of the enzyme's catalytic
functions depends on the presence of the archaeal D/L
heterodimer.
Length = 259
Score = 28.4 bits (64), Expect = 7.7
Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 114 GEEHSVFM---RFGYRPSGDVLHLSASAFKYLGCVEVYESRGMQVCEDALKVVLIYMFAL 170
G+EH+ + GY+ + + CVE +++ E + V + +L
Sbjct: 145 GKEHAKWQPTTACGYKYYPVI-EIDEDCDGCGKCVEECPRGVLELEEGKVVVEDLEDCSL 203
Query: 171 CYLGCVEVYESRGMQVCED 189
C L C ++ ++V D
Sbjct: 204 CKL-CERACDAGAIRVGWD 221
>gnl|CDD|214826 smart00806, AIP3, Actin interacting protein 3. Aip3p/Bud6p is a
regulator of cell and cytoskeletal polarity in
Saccharomyces cerevisiae that was previously identified
as an actin-interacting protein. Actin-interacting
protein 3 (Aip3p) localizes at the cell cortex where
cytoskeleton assembly must be achieved to execute
polarized cell growth, and deletion of AIP3 causes gross
defects in cell and cytoskeletal polarity. Aip3p
localization is mediated by the secretory pathway,
mutations in early- or late-acting components of the
secretory apparatus lead to Aip3p mislocalization.
Length = 426
Score = 28.9 bits (65), Expect = 8.4
Identities = 18/68 (26%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 409 KRQLSLRIGDL---------PSNLERTRLQQLSLTQANHANNIAPLIYLKTPVSPIPESI 459
K+ + I L +R +Q+L Q N A NIA +PV S
Sbjct: 80 KKHIDDEIDTLQNELDEVKQALESQREAIQRLKERQQNSAANIARPAASPSPVLASSSSA 139
Query: 460 SPLKSNGD 467
L +N D
Sbjct: 140 ISLANNPD 147
>gnl|CDD|241247 cd01211, PTB_Rab6GAP, GTPase activating protein for Rab 6
Phosphotyrosine-binding (PTB) domain. GAPCenA is a
centrosome-associated GTPase activating protein (GAP)
for Rab 6. It consists of an N-terminal PTB domain and a
C-terminal TBC 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 = 131
Score = 27.6 bits (62), Expect = 9.3
Identities = 30/120 (25%), Positives = 51/120 (42%), Gaps = 13/120 (10%)
Query: 196 YLGCVEVYESRGMQVCEDALKVLRNSRRRPVRAILYV--SGDGL-RVVDDETKGLMVDQT 252
YLGC +V R + +LR +P++ L V S +G R+ D + +
Sbjct: 8 YLGCAKVNAPRSETEALRIMAILREQSAQPIKVTLSVPNSSEGSVRLYDPTSNTEIASYP 67
Query: 253 IEKVSFCAPDRNHEK-------GFSYICRDGTTRRWMCHGF-LALKESGERLSHAVGCAF 304
I ++ FCA R + F++ D T + CH F + E+ R+ ++ AF
Sbjct: 68 IYRILFCA--RGQDGTSESDCFAFTWSHGDQETAIFQCHVFRCEIPEAVSRVLYSFAKAF 125
>gnl|CDD|216421 pfam01299, Lamp, Lysosome-associated membrane glycoprotein (Lamp).
Length = 305
Score = 28.5 bits (64), Expect = 9.3
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 319 GVTMNF-DTTNSTFTRSGSFRQPTLTDRIIDGEVDMPVSPLSPPPNSVPTTP 369
VT+ D T + +G+F T T D V+ SP P VP++P
Sbjct: 55 NVTVTLHDVTLQAYLSNGTF-SKTETRCEADTPSPTTVATPSPSPTPVPSSP 105
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
0.320 0.135 0.412
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,656,479
Number of extensions: 2538411
Number of successful extensions: 2398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2365
Number of HSP's successfully gapped: 70
Length of query: 526
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 425
Effective length of database: 6,457,848
Effective search space: 2744585400
Effective search space used: 2744585400
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 (21.8 bits)
S2: 61 (27.3 bits)