RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7933
(171 letters)
>gnl|CDD|241266 cd01233, PH_KIFIA_KIFIB, KIFIA and KIFIB protein pleckstrin
homology (PH) domain. The kinesin-3 family motors KIFIA
(Caenorhabditis elegans homolog unc-104) and KIFIB
transport synaptic vesicle precursors that contain
synaptic vesicle proteins, such as synaptophysin,
synaptotagmin and the small GTPase RAB3A, but they do
not transport organelles that contain plasma membrane
proteins. They have a N-terminal motor domain, followed
by a coiled-coil domain, and a C-terminal PH domain.
KIF1A adopts a monomeric form in vitro, but acts as a
processive dimer in vivo. KIF1B has alternatively
spliced isoforms distinguished by the presence or
absence of insertion sequences in the conserved
amino-terminal region of the protein; this results in
their different motor activities. KIF1A and KIF1B bind
to RAB3 proteins through the adaptor protein
mitogen-activated protein kinase (MAPK) -activating
death domain (MADD; also calledDENN), which was first
identified as a RAB3 guanine nucleotide exchange factor
(GEF). PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 111
Score = 174 bits (444), Expect = 2e-57
Identities = 60/111 (54%), Positives = 80/111 (72%)
Query: 33 YVPEIEEIRISPVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLA 92
V E+E I SPVVS+KGYL LE T+GW +RWV +RRPY+ I+ EKD ER ++NL+
Sbjct: 1 LVAEVELIPKSPVVSKKGYLLFLEDATDGWVRRWVVLRRPYLHIYSSEKDGDERGVINLS 60
Query: 93 TAQVEYSEDQQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAINPLLA 143
TA+VEYS DQ+A++ P F+V T YL+Q +E+H+WLYAI+PLLA
Sbjct: 61 TARVEYSPDQEALLGRPNVFAVYTPTNSYLLQARSEKEMHDWLYAIDPLLA 111
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 60.2 bits (146), Expect = 2e-12
Identities = 24/98 (24%), Positives = 39/98 (39%), Gaps = 5/98 (5%)
Query: 46 VSRKGYLNILEQ-KTNGWKKRWVAVRRPYVFIFRDEKDPVER--ALVNLATAQVEYSEDQ 102
V ++G+L WKKR+ + + ++D K R + L+ QV D
Sbjct: 1 VIKEGWLLKKGSGGRKSWKKRYFVLFDGVLLYYKDSKKSSSRPKGSIPLSGCQVTKVPDS 60
Query: 103 QAMVRVPFSFSVVTKHGG-YLMQTAGAREVHEWLYAIN 139
+ R F + T +L+Q E EW+ AI
Sbjct: 61 EDGKR-KNCFEIRTGDRETFLLQAESEEERKEWVKAIR 97
>gnl|CDD|214574 smart00233, PH, Pleckstrin homology domain. Domain commonly found
in eukaryotic signalling proteins. The domain family
possesses multiple functions including the abilities to
bind inositol phosphates, and various proteins. PH
domains have been found to possess inserted domains
(such as in PLC gamma, syntrophins) and to be inserted
within other domains. Mutations in Brutons tyrosine
kinase (Btk) within its PH domain cause X-linked
agammaglobulinaemia (XLA) in patients. Point mutations
cluster into the positively charged end of the molecule
around the predicted binding site for
phosphatidylinositol lipids.
Length = 102
Score = 57.2 bits (138), Expect = 2e-11
Identities = 19/99 (19%), Positives = 40/99 (40%), Gaps = 6/99 (6%)
Query: 46 VSRKGYLNILEQKTN-GWKKRWVAVRRPYVFIFRDEK---DPVERALVNLATAQVEYSED 101
V ++G+L WKKR+ + + ++ +K + ++L+ V + D
Sbjct: 1 VIKEGWLYKKSGGGKKSWKKRYFVLFNSTLLYYKSKKDKKSYKPKGSIDLSGCTVREAPD 60
Query: 102 QQAMVRVPFSFSVVTKHGG-YLMQTAGAREVHEWLYAIN 139
+ + P F + T L+Q E +W+ A+
Sbjct: 61 PDSSKK-PHCFEIKTSDRKTLLLQAESEEEREKWVEALR 98
>gnl|CDD|241231 cd00821, PH, Pleckstrin homology (PH) domain. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 92
Score = 43.1 bits (101), Expect = 4e-06
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 4/93 (4%)
Query: 48 RKGYLNILEQKTN-GWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQAMV 106
++G+L K WKKRW + + ++ +KD ++ + + +
Sbjct: 1 KEGWLKKRGGKGLKSWKKRWFVLFDDVLLYYKSKKDSSKKPKGLIPL-SDGLEVELVSSS 59
Query: 107 RVPFSFSVVTKHGG--YLMQTAGAREVHEWLYA 137
P F +VT G Y +Q E EWL A
Sbjct: 60 GKPNCFELVTPDRGRTYYLQAESEEEREEWLEA 92
>gnl|CDD|241452 cd13298, PH1_PH_fungal, Fungal proteins Pleckstrin homology (PH)
domain, repeat 1. The functions of these fungal
proteins are unknown, but they all contain 2 PH domains.
This cd represents the first PH repeat. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 106
Score = 43.0 bits (102), Expect = 4e-06
Identities = 28/109 (25%), Positives = 49/109 (44%), Gaps = 17/109 (15%)
Query: 35 PEIEEIRISPVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNL--- 91
E + + S G+L +KT WKKRW +R + ++DEK+ R ++NL
Sbjct: 1 FEFDRVLKS------GWLLKRSRKTKTWKKRWFVLRPCQLSYYKDEKEYKLRRVINLSEL 54
Query: 92 -ATAQVEYSEDQQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAIN 139
A A ++ + F++ T Y Q + ++ +EW+ AI
Sbjct: 55 TAVAPLK-------DKKRKNVFAIYTPSKNYHFQASSEKDANEWVEAIR 96
>gnl|CDD|241436 cd13282, PH1_PLEKHH1_PLEKHH2, Pleckstrin homology (PH) domain
containing, family H (with MyTH4 domain) members 1 and 2
(PLEKHH1) PH domain, repeat 1. PLEKHH1 and PLEKHH2
(also called PLEKHH1L) are thought to function in
phospholipid binding and signal transduction. There are
3 Human PLEKHH genes: PLEKHH1, PLEKHH2, and PLEKHH3.
There are many isoforms, the longest of which contain a
FERM domain, a MyTH4 domain, two PH domains, a peroximal
domain, a vacuolar domain, and a coiled coil stretch.
The FERM domain has a cloverleaf tripart structure
(FERM_N, FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe,
B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3 within the
FERM domain is part of the PH domain family. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 96
Score = 38.4 bits (90), Expect = 2e-04
Identities = 23/101 (22%), Positives = 45/101 (44%), Gaps = 10/101 (9%)
Query: 48 RKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERAL--VNL-ATAQVEYSEDQQA 104
+ GYL L K WK+RW ++ +F ++ D + + + L + ++ +E Q
Sbjct: 1 KAGYLTKLGGKVKTWKRRWFVLKNGELFYYKSPNDVIRKPQGQIALDGSCEIARAEGAQ- 59
Query: 105 MVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAINPLLAGQ 145
+F +VT+ Y + ++ EW+ I +L Q
Sbjct: 60 ------TFEIVTEKRTYYLTADSENDLDEWIRVIQNVLRRQ 94
>gnl|CDD|241409 cd13255, PH_TAAP2-like, Tandem PH-domain-containing protein 2
Pleckstrin homology (PH) domain. The binding of TAPP2
(also called PLEKHA2) adaptors to PtdIns(3,4)P(2), but
not PI(3,4, 5)P3, function as negative regulators of
insulin and PI3K signalling pathways (i.e.
TAPP/utrophin/syntrophin complex). TAPP2 contains two
sequential PH domains in which the C-terminal PH domain
specifically binds PtdIns(3,4)P2 with high affinity. The
N-terminal PH domain does not interact with any
phosphoinositide tested. They also contain a C-terminal
PDZ-binding motif that interacts with several
PDZ-binding proteins, including PTPN13 (known previously
as PTPL1 or FAP-1) as well as the scaffolding proteins
MUPP1 (multiple PDZ-domain-containing protein 1),
syntrophin and utrophin. The members here are most
sequence similar to TAPP2 proteins, but may not be
actual TAPP2 proteins. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 110
Score = 37.4 bits (87), Expect = 5e-04
Identities = 25/102 (24%), Positives = 47/102 (46%), Gaps = 11/102 (10%)
Query: 42 ISPVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNL----ATAQVE 97
IS V + GYL ++ WKKRW +R + ++++K+ L++L +V+
Sbjct: 2 ISEAVLKAGYLEKKGERRKTWKKRWFVLRPTKLAYYKNDKEYRLLRLIDLTDIHTCTEVQ 61
Query: 98 YSEDQQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAIN 139
+ + +F +VT + +Q E+ W+ AIN
Sbjct: 62 -------LKKHDNTFGIVTPARTFYVQADSKAEMESWISAIN 96
>gnl|CDD|241430 cd13276, PH_AtPH1, Arabidopsis thaliana Pleckstrin homolog (PH) 1
(AtPH1) PH domain. AtPH1 is expressed in all plant
tissue and is proposed to be the plant homolog of human
pleckstrin. Pleckstrin consists of two PH domains
separated by a linker region, while AtPH has a single PH
domain with a short N-terminal extension. AtPH1 binds
PtdIns3P specifically and is thought to be an adaptor
molecule since it has no obvious catalytic functions. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 117
Score = 37.0 bits (86), Expect = 8e-04
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 18/120 (15%)
Query: 48 RKGYLNILEQKTNG----WKKRWVAVRRPYVFIFRDEK-DPVERALVNLA-TAQVEYSED 101
+ G+L K G W++RW +++ +F F+DE D R +++L+ V+ +E+
Sbjct: 9 KAGWL----TKQGGSIKTWRRRWFVLKQGKLFYFKDEDPDSEPRGVIDLSDCLTVKSAEE 64
Query: 102 QQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAINPLLAGQIRSKTSRRQPPASPAL 161
F+F V T + + +E EW+ AI + K SR + L
Sbjct: 65 A---TNKEFAFEVSTPERTFYLIADSEKEKEEWISAIGRAIV-----KLSRSKGTIDEVL 116
>gnl|CDD|241296 cd01265, PH_TBC1D2A, TBC1 domain family member 2A pleckstrin
homology (PH) domain. TBC1D2A (also called
PARIS-1/Prostate antigen recognized and identified by
SEREX 1 and ARMUS) contains a PH domain and a TBC-type
GTPase catalytic domain. TBC1D2A integrates signaling
between Arf6, Rac1, and Rab7 during junction
disassembly. Activated Rac1 recruits TBC1D2A to locally
inactivate Rab7 via its C-terminal TBC/RabGAP domain and
facilitate E-cadherin degradation in lysosomes. The
TBC1D2A PH domain mediates localization at cell-cell
contacts and coprecipitates with cadherin complexes. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 101
Score = 36.9 bits (86), Expect = 8e-04
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 9/90 (10%)
Query: 50 GYLNILEQKT--NGWKKRWVAV--RRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQAM 105
GYLN LE K WK RW R+ ++ +R +D ++L+ A Y + +
Sbjct: 4 GYLNKLETKGLLKTWKSRWFVFDERKCQLYYYRSPQDITPLGSIDLSGAAFSYDPEAE-- 61
Query: 106 VRVPFSFSVVTKHGGYLMQTAGAREVHEWL 135
+F + T Y+++ + + + WL
Sbjct: 62 ---KGTFEIHTPGRVYILKASDRQAMLYWL 88
>gnl|CDD|241309 cd10573, PH_DAPP1, Dual Adaptor for Phosphotyrosine and
3-Phosphoinositides Pleckstrin homology (PH) domain.
DAPP1 (also known as PHISH/3'
phosphoinositide-interacting SH2 domain-containing
protein or Bam32) plays a role in B-cell activation and
has potential roles in T-cell and mast cell function.
DAPP1 promotes B cell receptor (BCR) induced activation
of Rho GTPases Rac1 and Cdc42, which feed into
mitogen-activated protein kinases (MAPK) activation
pathways and affect cytoskeletal rearrangement. DAPP1can
also regulate BCR-induced activation of extracellular
signal-regulated kinase (ERK), and c-jun NH2-terminal
kinase (JNK). DAPP1 contains an N-terminal SH2 domain
and a C-terminal pleckstrin homology (PH) domain with a
single tyrosine phosphorylation site located centrally.
DAPP1 binds strongly to both PtdIns(3,4,5)P3 and
PtdIns(3,4)P2. The PH domain is essential for plasma
membrane recruitment of PI3K upon cell activation. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 96
Score = 36.5 bits (85), Expect = 0.001
Identities = 21/92 (22%), Positives = 33/92 (35%), Gaps = 5/92 (5%)
Query: 44 PVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQ-VEYSEDQ 102
+ S++GYL WK RW +R+ + F+ D ++L V+ Q
Sbjct: 1 SLASKEGYLTKQGGIVKNWKTRWFVLRKNELKYFKTRTDTKPIRTLDLTECSSVQADYSQ 60
Query: 103 QAMVRVPFSFSVVTKHGGYLMQTAGAREVHEW 134
P F +V + M E EW
Sbjct: 61 GK----PNCFRLVFPDRTFYMYAKTEEEADEW 88
>gnl|CDD|241405 cd13251, PH_ASAP, ArfGAP with SH3 domain, ankyrin repeat and PH
domain Pleckstrin homology (PH) domain. ASAPs (ASAP1,
ASAP2, and ASAP3) function as an Arf-specific GAPs,
participates in rhodopsin trafficking, is associated
with tumor cell metastasis, modulates phagocytosis,
promotes cell proliferation, facilitates vesicle
budding, Golgi exocytosis, and regulates vesicle coat
assembly via a Bin/Amphiphysin/Rvs domain. ASAPs contain
an NH2-terminal BAR domain, a tandem PH domain/GAP
domain, three ankyrin repeats, two proline-rich regions,
and a COOH-terminal Src homology 3 (SH3) domain. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 108
Score = 35.0 bits (81), Expect = 0.004
Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 19/104 (18%)
Query: 43 SPVVSRKGYLNILEQKTNG-----WKKRWVAVRRPYVFIFRDE--KDPVERALVNLATAQ 95
+ GYL +K+ G W+KR ++R ++ I + K PV+ +NL T Q
Sbjct: 7 EHGTEKSGYL---LKKSEGKLRKVWQKRRCSIRNGFLTISHSDENKPPVK---LNLLTCQ 60
Query: 96 VEYSEDQQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAIN 139
V+ + + F +++ + Y Q +E W+ +
Sbjct: 61 VKPNPED------KKCFDLISHNRTYHFQAEDEQEAEAWISVLQ 98
>gnl|CDD|241392 cd13238, PH2_FGD4_insect-like, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia protein 4 pleckstrin
homology (PH) domain, C-terminus, in insect and related
arthropods. In general, FGDs have a RhoGEF (DH) domain,
followed by an N-terminal PH domain, a FYVE domain and a
C-terminal PH domain. All FGDs are guanine nucleotide
exchange factors that activates the Rho GTPase Cdc42, an
important regulator of membrane trafficking. The RhoGEF
domain is responsible for GEF catalytic activity, while
the N-terminal PH domain is involved in intracellular
targeting of the DH domain. FGD4 is one of the genes
associated with Charcot-Marie-Tooth neuropathy type 4
(CMT4), a group of progressive motor and sensory axonal
and demyelinating neuropathies that are distinguished
from other forms of CMT by autosomal recessive
inheritance. Those affected have distal muscle weakness
and atrophy associated with sensory loss and,
frequently, pes cavus foot deformity. This cd contains
insects, crustaceans, and chelicerates. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 96
Score = 31.8 bits (72), Expect = 0.039
Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 10/96 (10%)
Query: 50 GYLNILEQKTNGWKKRWVAVRRPYV-FIFRDEKD-------PVERALVNLATAQVEYSED 101
GYL + W +RW A+ +V + ++ E+D PV LV L +ED
Sbjct: 3 GYLKLKTNGRKTWIRRWFALHPDFVLYSYKSEEDKLALTATPVPGFLVTLGEKGS--AED 60
Query: 102 QQAMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYA 137
+F + Y Q E +W++A
Sbjct: 61 PLNDKDRIRAFKMFHVKKSYYFQANDGDEKDKWVHA 96
>gnl|CDD|241404 cd13250, PH_ACAP, ArfGAP with coiled-coil, ankyrin repeat and PH
domains Pleckstrin homology (PH) domain. ACAP (also
called centaurin beta) functions both as a Rab35
effector and as an Arf6-GTPase-activating protein (GAP)
by which it controls actin remodeling and membrane
trafficking. ACAP contain an NH2-terminal
bin/amphiphysin/Rvs (BAR) domain, a phospholipid-binding
domain, a PH domain, a GAP domain, and four ankyrin
repeats. The AZAPs constitute a family of Arf GAPs that
are characterized by an NH2-terminal pleckstrin homology
(PH) domain and a central Arf GAP domain followed by two
or more ankyrin repeats. On the basis of sequence and
domain organization, the AZAP family is further
subdivided into four subfamilies: 1) the ACAPs contain
an NH2-terminal bin/amphiphysin/Rvs (BAR) domain (a
phospholipid-binding domain that is thought to sense
membrane curvature), a single PH domain followed by the
GAP domain, and four ankyrin repeats; 2) the ASAPs also
contain an NH2-terminal BAR domain, the tandem PH
domain/GAP domain, three ankyrin repeats, two
proline-rich regions, and a COOH-terminal Src homology 3
domain; 3) the AGAPs contain an NH2-terminal GTPase-like
domain (GLD), a split PH domain, and the GAP domain
followed by four ankyrin repeats; and 4) the ARAPs
contain both an Arf GAP domain and a Rho GAP domain, as
well as an NH2-terminal sterile-a motif (SAM), a
proline-rich region, a GTPase-binding domain, and five
PH domains. PMID 18003747 and 19055940 Centaurin can
bind to phosphatidlyinositol (3,4,5)P3. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 98
Score = 31.8 bits (73), Expect = 0.043
Identities = 24/96 (25%), Positives = 44/96 (45%), Gaps = 10/96 (10%)
Query: 48 RKGYLNILEQKTNG---WKKRWVAVRRPYVFIF-RDEKDPVERALVNLATAQVEYSEDQQ 103
++GYL ++ +N WK+RW +++ + R +KD + +L V+ ED
Sbjct: 1 KEGYL--FKRSSNAFKTWKRRWFSIQNGQLVYQKRFKKDTPTVVVEDLRLCTVKPCED-- 56
Query: 104 AMVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAIN 139
+ F F VV+ Y++Q + W+ AI
Sbjct: 57 --IDRRFCFEVVSPTKSYMLQAESEEDRQAWIQAIQ 90
>gnl|CDD|241529 cd13378, PH_RhoGAP2, Rho GTPase activating protein 2 Pleckstrin
homology (PH) domain. RhoGAP2 (also called RhoGap22 or
ArhGap22) are involved in cell polarity, cell morphology
and cytoskeletal organization. They activate a GTPase
belonging to the RAS superfamily of small GTP-binding
proteins. The encoded protein is insulin-responsive, is
dependent on the kinase Akt, and requires the
Akt-dependent 14-3-3 binding protein which binds
sequentially to two serine residues resulting in
regulation of cell motility. Members here contain an
N-terminal PH domain followed by a RhoGAP domain and
either a BAR or TATA Binding Protein (TBP) Associated
Factor 4 (TAF4) domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 116
Score = 31.5 bits (71), Expect = 0.077
Identities = 21/103 (20%), Positives = 44/103 (42%), Gaps = 10/103 (9%)
Query: 46 VSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQV-EYSEDQQA 104
V + G+L W++RW +R +F ++DE++ + ++L +QV E + +
Sbjct: 3 VLKAGWLKKQRSIMKNWQQRWFVLRGDQLFYYKDEEETKPQGCISLQGSQVNELPPNPEE 62
Query: 105 MVRVPFSFS---------VVTKHGGYLMQTAGAREVHEWLYAI 138
+ F V H +L+ ++ +W+ AI
Sbjct: 63 PGKHLFEILPGGAGDREKVPMNHEAFLLMANSQSDMEDWVKAI 105
>gnl|CDD|241264 cd01230, PH1_Tiam1_2, T-lymphoma invasion and metastasis 1 and 2
Pleckstrin Homology (PH) domain, N-terminal domain.
Tiam1 activates Rac GTPases to induce membrane ruffling
and cell motility while Tiam2 (also called STEF (SIF
(still life) and Tiam1 like-exchange factor) contributes
to neurite growth. Tiam1/2 are Dbl-family of GEFs that
possess a Dbl(DH) domain with a PH domain in tandem.
DH-PH domain catalyzes the GDP/GTP exchange reaction in
the GTPase cycle and facillitating the switch between
inactive GDP-bound and active GTP-bound states. Tiam1/2
possess two PH domains, which are often referred to as
PHn and PHc domains. The DH-PH tandem domain is made up
of the PHc domain while the PHn is part of a novel
N-terminal PHCCEx domain which is made up of the PHn
domain, a coiled coil region(CC), and an extra region
(Ex). PHCCEx mediates binding to plasma membranes and
signalling proteins in the activation of Rac GTPases.
The PH domain resembles the beta-spectrin PH domain,
suggesting non-canonical phosphatidylinositol binding.
CC and Ex form a positively charged surface for protein
binding. There are 2 motifs in Tiam1/2-interacting
proteins that bind to the PHCCEx domain: Motif-I in
CD44, ephrinBs, and the NMDA receptor and Motif-II in
Par3 and JIP2.Neither of these fall in the PHn domain.
PH domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 127
Score = 31.2 bits (71), Expect = 0.11
Identities = 23/95 (24%), Positives = 36/95 (37%), Gaps = 5/95 (5%)
Query: 55 LEQKTN-GWKKRWVAVRRPYVFIFR-DEKDPVERALVNLATAQVEYSEDQQA--MVRVPF 110
LE + WKK WV ++ + + DE+ ++ VE S Q +
Sbjct: 23 LELASRRKWKKYWVTLKGCTLLFYECDERTGIDDNSTPKHALFVEGSIAQAVPEHPKKDN 82
Query: 111 SFSVVTKHG-GYLMQTAGAREVHEWLYAINPLLAG 144
F + G YL Q E+ W+ AI+ A
Sbjct: 83 VFCLSNSFGDAYLFQATSQTELENWITAIHSACAS 117
>gnl|CDD|241284 cd01253, PH_ARHGAP21-like, ARHGAP21 and related proteins pleckstrin
homology (PH) domain. ARHGAP family genes encode
Rho/Rac/Cdc42-like GTPase activating proteins with a
RhoGAP domain. These proteins functions as a
GTPase-activating protein (GAP) for RHOA and CDC42.
ARHGAP21 controls the Arp2/3 complex and F-actin
dynamics at the Golgi complex by regulating the activity
of the small GTPase Cdc42. It is recruited to the Golgi
by to GTPase, ARF1, through its PH domain and its
helical motif. It is also required for CTNNA1
recruitment to adherens junctions. ARHGAP21 and it
related proteins all contains a PH domain and a RhoGAP
domain. Some of the members have additional N-terminal
domains including PDZ, SH3, and SPEC. The ARHGAP21 PH
domain interacts with the GTPbound forms of both ARF1
and ARF6 ARF-binding domain/ArfBD. The members here
include: ARHGAP15, ARHGAP21, and ARHGAP23. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 113
Score = 30.7 bits (70), Expect = 0.12
Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 16/90 (17%)
Query: 60 NGWKKRWVAVRRPYVFIFRDEKD--------PVERALVNLATAQVE--YSEDQQAMVRVP 109
WK+ W +R +++++D+++ +++ + V+ YS ++ V
Sbjct: 22 RSWKQVWAVLRGHSLYLYKDKRETSPALSAAEDSEQRIDIRSCIVDIAYSYTKRKNV--- 78
Query: 110 FSFSVVTKHGG-YLMQTAGAREVHEWLYAI 138
F + T G YL Q ++ W+ AI
Sbjct: 79 --FRLTTSDGSEYLFQAEDRDDMLGWIKAI 106
>gnl|CDD|241407 cd13253, PH1_ARAP, ArfGAP with RhoGAP domain, ankyrin repeat and PH
domain Pleckstrin homology (PH) domain, repeat 1. ARAP
proteins (also called centaurin delta) are
phosphatidylinositol 3,4,5-trisphosphate-dependent
GTPase-activating proteins that modulate actin
cytoskeleton remodeling by regulating ARF and RHO family
members. They bind phosphatidylinositol
3,4,5-trisphosphate (PtdIns(3,4,5)P3) and
phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4,5)P2)
binding. There are 3 mammalian ARAP proteins: ARAP1,
ARAP2, and ARAP3. All ARAP proteins contain a N-terminal
SAM (sterile alpha motif) domain, 5 PH domains, an
ArfGAP domain, 2 ankyrin domain, A RhoGap domain, and a
Ras-associating domain. This hierarchy contains the
first PH domain in ARAP. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 93
Score = 30.3 bits (69), Expect = 0.16
Identities = 20/91 (21%), Positives = 40/91 (43%), Gaps = 12/91 (13%)
Query: 47 SRKGYLNILEQKTN-GWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQAM 105
++ G+L+ L + N ++KRWV + F EK+ + ++ L++ +
Sbjct: 1 TKSGWLDKLSPQGNYVFQKRWVVFDGDSLRYFNSEKEMYSKGIIPLSSIK---------T 51
Query: 106 VRVP--FSFSVVTKHGGYLMQTAGAREVHEW 134
VR F VVT + ++ + E + W
Sbjct: 52 VRSVGDNKFEVVTGNRTFVFRAESEDERNLW 82
>gnl|CDD|241449 cd13295, PH_EFA6, Exchange Factor for ARF6 Pleckstrin homology (PH)
domain. EFA6 (also called PSD/pleckstrin and Sec7
domain containing) is an guanine nucleotide exchange
factor for ADP ribosylation factor 6 (ARF6), which is
involved in membrane recycling. EFA6 has four
structurally related polypeptides: EFA6A, EFA6B, EFA6C
and EFA6D. It consists of a N-terminal proline rich
region (PR), a SEC7 domain, a PH domain, a PR, a
coiled-coil region, and a C-terminal PR. The EFA6 PH
domain regulates its association with the plasma
membrane. EFA6 activates Arf6 through its Sec7 catalytic
domain and modulates this activity through its
C-terminal domain, which rearranges the actin
cytoskeleton in fibroblastic cell lines. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 126
Score = 30.4 bits (69), Expect = 0.20
Identities = 25/117 (21%), Positives = 43/117 (36%), Gaps = 29/117 (24%)
Query: 45 VVSRKGYL------NILEQKTNGWKKRW---VAVRRPYVFIFRDEKDPVERALV------ 89
V +KGYL + +KT K+ W A + V ++ ++ L
Sbjct: 5 VEYKKGYLMRKCHADPDGKKTPRGKRGWKMFYATLKGLVLYLHKDEYGCKKQLSYESLRN 64
Query: 90 ------NLATAQVEYSEDQQAMVRVPFSFSVVTKHGG-YLMQTAGAREVHEWLYAIN 139
+LA +Y+ + P F + T +L Q + E+ W+ AIN
Sbjct: 65 AISVHHSLAEKATDYT-------KKPHVFRLQTADWREFLFQASDTEEMQSWIEAIN 114
>gnl|CDD|241450 cd13296, PH2_MyoX, Myosin X Pleckstrin homology (PH) domain, repeat
2. MyoX, a MyTH-FERM myosin, is a molecular motor that
has crucial functions in the transport and/or tethering
of integrins in the actin-based extensions known as
filopodia, microtubule binding, and in netrin-mediated
axon guidance. It functions as a dimer. MyoX walks on
bundles of actin, rather than single filaments, unlike
the other unconventional myosins. MyoX is present in
organisms ranging from humans to choanoflagellates, but
not in Drosophila and Caenorhabditis elegans.MyoX
consists of a N-terminal motor/head region, a neck made
of 3 IQ motifs, and a tail consisting of a coiled-coil
domain, a PEST region, 3 PH domains, a myosin tail
homology 4 (MyTH4), and a FERM domain at its very
C-terminus. The first PH domain in the MyoX tail is a
split-PH domain, interupted by the second PH domain such
that PH 1a and PH 1b flanks PH 2. The third PH domain
(PH 3) follows the PH 1b domain. This cd contains the
second PH repeat. PH domains have diverse functions, but
in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 111
Score = 29.3 bits (66), Expect = 0.40
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 8/80 (10%)
Query: 62 WKKRWVAVRRPYVFIFRDEKDPVERAL--VNLATAQVEYSEDQQAMVRVPFSFSVVTKHG 119
WK RW V R V + + +AL +++ +A+ + F + T
Sbjct: 28 WKSRWF-VLRDTVLKYYENDQEGAKALGTIDIRSAKEIVDNTPK-----ENGFDITTPSR 81
Query: 120 GYLMQTAGAREVHEWLYAIN 139
Y + +W +
Sbjct: 82 TYHFVAESPEDASQWFSVLT 101
>gnl|CDD|241455 cd13301, PH1_Pleckstrin_2, Pleckstrin 2 Pleckstrin homology (PH)
domain, repeat 1. Pleckstrin is a protein found in
platelets. This name is derived from platelet and
leukocyte C kinase substrate and the KSTR string of
amino acids. Pleckstrin 2 contains two PH domains and a
DEP (dishvelled, egl-10, and pleckstrin) domain. Unlike
pleckstrin 1, pleckstrin 2 does not contain obvious
sites of PKC phosphorylation. Pleckstrin 2 plays a role
in actin rearrangement, large lamellipodia and
peripheral ruffle formation, and may help orchestrate
cytoskeletal arrangement. The PH domains of pleckstrin 2
are thought to contribute to lamellipodia formation.
This cd contains the first PH domain repeat. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 108
Score = 29.3 bits (66), Expect = 0.43
Identities = 21/102 (20%), Positives = 37/102 (36%), Gaps = 13/102 (12%)
Query: 44 PVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQV-----EY 98
P V ++G+L N WK RW + + ++ + D + ++ L + EY
Sbjct: 1 PGVLKEGFLVKKGHVVNNWKARWFVLLEDKLEYYKKKTDSSPKGMILLKGCTITSPCLEY 60
Query: 99 SEDQQAMVRVPFSFSVVTKHGG-YLMQTAGAREVHEWLYAIN 139
+ P F + T G + +Q E W I
Sbjct: 61 EKR-------PLVFKLTTAKGQDHFLQACSREERDAWAKDIT 95
>gnl|CDD|241402 cd13248, PH_PEPP1_2_3, Phosphoinositol 3-phosphate binding proteins
1, 2, and 3 pleckstrin homology (PH) domain. PEPP1
(also called PLEKHA4/PH domain-containing family A
member 4 and RHOXF1/Rhox homeobox family member 1), and
related homologs PEPP2 (also called PLEKHA5/PH
domain-containing family A member 5) and PEPP3 (also
called PLEKHA6/PH domain-containing family A member 6),
have PH domains that interact specifically with
PtdIns(3,4)P3. Other proteins that bind PtdIns(3,4)P3
specifically are: TAPP1 (tandem PH-domain-containing
protein-1) and TAPP2], PtdIns3P AtPH1, and Ptd-
Ins(3,5)P2 (centaurin-beta2). All of these proteins
contain at least 5 of the 6 conserved amino acids that
make up the putative phosphatidylinositol 3,4,5-
trisphosphate-binding motif (PPBM) located at their
N-terminus. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 104
Score = 29.1 bits (66), Expect = 0.52
Identities = 21/102 (20%), Positives = 41/102 (40%), Gaps = 15/102 (14%)
Query: 46 VSRKGYLNILEQKTNG-----WKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSE 100
V G+L K G WKKRW ++ ++ ++D ++ + L + + +
Sbjct: 7 VVFSGWL----HKQGGSGLKNWKKRWFVLKDNCLYYYKDPEEEKALGSILLPSYTISPAS 62
Query: 101 DQQAMVRVPFSFSVVTKHGG---YLMQTAGAREVHEWLYAIN 139
+ R F+F H G Y E+ +W+ A++
Sbjct: 63 PSDEINR-KFAFKAE--HAGMRTYYFAADTQEEMEQWMKALS 101
>gnl|CDD|241461 cd13307, PH2_AFAP, Actin filament associated protein family
Pleckstrin homology (PH) domain, repeat 2. There are 3
members of the AFAP family of adaptor proteins: AFAP1,
AFAP1L1, and AFAP1L2/XB130. AFAP1 is a cSrc binding
partner and actin cross-linking protein. AFAP1L1 is
thought to play a similar role to AFAP1 in terms of
being an actin cross-linking protein, but it
preferentially binds to cortactin and not cSrc, thereby
playing a role in invadosome formation. AFAP1L2 is a
cSrc binding protein, but does not bind to actin
filaments. AFAP1L2 acts as an intermediary between the
RET/PTC kinase and PI-3kinase pathway in the thyroid.
The AFAPs share a similar structure of a SH3 binding
motif, 3 SH2 binding motifs, 2 PH domains, a
coiled-coil region corresponding to the AFAP1 leucine
zipper, and an actin binding domain. This cd is the
second PH domain of AFAP. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold,
which is electrostatically polarized. Less than 10% of
PH domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 101
Score = 28.9 bits (65), Expect = 0.57
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 45 VVSRKGYLNILEQKTNG-WKKRWVAVRRPYVFIFRDEKD 82
V GYLN+L N W+ RW V+ + ++D
Sbjct: 1 DVPTCGYLNVL---VNCQWRSRWCCVKDGQLHFYQDRNK 36
>gnl|CDD|241283 cd01252, PH_GRP1-like, General Receptor for
Phosphoinositides-1-like Pleckstrin homology (PH)
domain. GRP1/cytohesin3 and the related proteins ARNO
(ARF nucleotide-binding site opener)/cytohesin-2 and
cytohesin-1 are ARF exchange factors that contain a
pleckstrin homology (PH) domain thought to target these
proteins to cell membranes through binding
polyphosphoinositides. The PH domains of all three
proteins exhibit relatively high affinity for
PtdIns(3,4,5)P3. Within the Grp1 family, diglycine (2G)
and triglycine (3G) splice variants, differing only in
the number of glycine residues in the PH domain,
strongly influence the affinity and specificity for
phosphoinositides. The 2G variants selectively bind
PtdIns(3,4,5)P3 with high affinity,the 3G variants bind
PtdIns(3,4,5)P3 with about 30-fold lower affinity and
require the polybasic region for plasma membrane
targeting. These ARF-GEFs share a common, tripartite
structure consisting of an N-terminal coiled-coil
domain, a central domain with homology to the yeast
protein Sec7, a PH domain, and a C-terminal polybasic
region. The Sec7 domain is autoinhibited by conserved
elements proximal to the PH domain. GRP1 binds to the
DNA binding domain of certain nuclear receptors
(TRalpha, TRbeta, AR, ER, but not RXR), and can repress
thyroid hormone receptor (TR)-mediated transactivation
by decreasing TR-complex formation on thyroid hormone
response elements. ARNO promotes sequential activation
of Arf6, Cdc42 and Rac1 and insulin secretion. Cytohesin
acts as a PI 3-kinase effector mediating biological
responses including cell spreading and adhesion,
chemotaxis, protein trafficking, and cytoskeletal
rearrangements, only some of which appear to depend on
their ability to activate ARFs. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 118
Score = 29.2 bits (66), Expect = 0.58
Identities = 27/112 (24%), Positives = 41/112 (36%), Gaps = 24/112 (21%)
Query: 48 RKGYLNILEQKTNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQAMVR 107
R+G+L L + WK+RW + ++ F D R ++ L V ED +
Sbjct: 5 REGWLLKLGGRVKSWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSVREVEDSKK--- 61
Query: 108 VPFSF-------------------SVVT-KHGGYLMQTAGAREVHEWLYAIN 139
PF F VV H Y + A E+ EW+ +I
Sbjct: 62 -PFCFELYSPSNEVIKACKTDSDGKVVEGNHTVYRISAATEEEMDEWIKSIK 112
>gnl|CDD|236627 PRK09824, PRK09824, PTS system beta-glucoside-specific transporter
subunits IIABC; Provisional.
Length = 627
Score = 28.9 bits (65), Expect = 1.2
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 105 MVRVPFSFSVVTKHGGYLMQTAGAREVHEWLYAINPLLAG 144
MV VP +F ++ +L + A ++WLY P AG
Sbjct: 255 MVIVPLTFLLIGPLATWLSELLAAG--YQWLYQAVPAFAG 292
>gnl|CDD|241291 cd01260, PH_CNK_mammalian-like, Connector enhancer of KSR (Kinase
suppressor of ras) (CNK) pleckstrin homology (PH)
domain. CNK family members function as protein
scaffolds, regulating the activity and the subcellular
localization of RAS activated RAF. There is a single CNK
protein present in Drosophila and Caenorhabditis elegans
in contrast to mammals which have 3 CNK proteins (CNK1,
CNK2, and CNK3). All of the CNK members contain a
sterile a motif (SAM), a conserved region in CNK (CRIC)
domain, and a PSD-95/DLG-1/ZO-1 (PDZ) domain, and, with
the exception of CNK3, a PH domain. A CNK2 splice
variant CNK2A also has a PDZ domain-binding motif at its
C terminus and Drosophila CNK (D-CNK) also has a domain
known as the Raf-interacting region (RIR) that mediates
binding of the Drosophila Raf kinase. This cd contains
CNKs from mammals, chickens, amphibians, fish, and
crustacea. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 114
Score = 27.7 bits (62), Expect = 1.5
Identities = 7/45 (15%), Positives = 21/45 (46%)
Query: 59 TNGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQ 103
WK+ W ++ ++ + + +D +NL ++E + + +
Sbjct: 30 GQKWKRYWFVLKGSSLYWYNNPQDEKAEGFINLPDFKIERASECK 74
>gnl|CDD|241433 cd13279, PH_Cla4_Ste20, Pleckstrin homology (PH) domain. Budding
yeast contain two main p21-activated kinases (PAKs),
Cla4 and Ste20. The yeast Ste20 protein kinase is
involved in pheromone response, though the function of
Ste20 mammalian homologs is unknown. Cla4 is involved in
budding and cytokinesis and interacts with Cdc42, a
GTPase required for polarized cell growth as is Pak.
Cla4 and Ste20 kinases share a function in localizing
cell growth with respect to the septin ring. They both
contain a PH domain, a Cdc42/Rac interactive binding
(CRIB) domain, and a C-terminal Protein Kinase catalytic
(PKc) domain. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 91
Score = 26.8 bits (60), Expect = 2.1
Identities = 17/98 (17%), Positives = 41/98 (41%), Gaps = 17/98 (17%)
Query: 46 VSRKGYLNILEQKTNG-----WKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQ-VEYS 99
V + G++++ K +G W KR++ +R + +++E + L V +
Sbjct: 1 VVKSGWVSV---KEDGLLSFRWSKRYLVLREQSLDFYKNESSSSASLSIPLKDISNVSRT 57
Query: 100 EDQQAMVRVPFSFSVVTKHGG--YLMQTAGAREVHEWL 135
+ + P+ F +V K + E+++W+
Sbjct: 58 DLK------PYCFEIVRKSSTKSIYISVKSDDELYDWM 89
>gnl|CDD|241275 cd01242, PH_ROCK, Rho-associated coiled-coil containing protein
kinase pleckstrin homology (PH) domain. ROCK is a
serine/threonine kinase that binds GTP-Rho. It consists
of a kinase domain, a coiled coil region and a PH
domain. The ROCK PH domain is interrupted by a C1
domain. ROCK plays a role in cellular functions, such
as contraction, adhesion, migration, and proliferation
and in the regulation of apoptosis. There are two ROCK
isoforms, ROCK1 and ROCK2. In ROCK2 the Rho Binding
Domain (RBD) and the PH domain work together in
membrane localization with RBD receiving the RhoA
signal and the PH domain receiving the phospholipid
signal. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 126
Score = 27.4 bits (61), Expect = 2.3
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 58 KTNGWKKRWVAVRRPYVFIFRDEKD 82
K +GWKK++V V + + E+D
Sbjct: 16 KRHGWKKQFVVVSSKKILFYNSEQD 40
>gnl|CDD|163403 TIGR03691, 20S_bact_alpha, proteasome, alpha subunit, bacterial
type. Members of this family are the alpha subunit of
the 20S proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In most
Actinobacteria (an exception is Propionibacterium
acnes), the proteasome is accompanied by a system of
tagging proteins for degradation with Pup [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 228
Score = 27.8 bits (62), Expect = 2.5
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 76 IFRDEKDPVERALVNLATAQVEYSEDQQAMVRVPFSFSVVTKHGGYLM 123
IF +++ P E V + A+V + DQ + R+ F S+V + G +M
Sbjct: 110 IFTEQQKPYE---VEICVAEVGETPDQDQLYRITFDGSIVDERGFVVM 154
>gnl|CDD|198182 cd09928, SH2_Cterm_SPT6_like, C-terminal Src homology 2 (SH2)
domain found 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 = 89
Score = 26.4 bits (59), Expect = 3.4
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 11/60 (18%)
Query: 77 FRDEKDPVERALVNLATAQVEYSEDQQAMVRVPFSFSVVTKHGGY--LMQTAGAREVHEW 134
FR K+ VE+ L E + R+P++F V K+ G L V
Sbjct: 9 FRGTKEEVEKLLK-------EEKKANPK--RIPYAFCVSKKYPGKFLLSYLPANTRVRHE 59
>gnl|CDD|241414 cd13260, PH_RASA1, RAS p21 protein activator (GTPase activating
protein) 1 Pleckstrin homology (PH) domain. RASA1 (also
called RasGap1 or p120) is a member of the RasGAP family
of GTPase-activating proteins. RASA1 contains N-terminal
SH2-SH3-SH2 domains, followed by two C2 domains, a PH
domain, a RasGAP domain, and a BTK domain. Splice
variants lack the N-terminal domains. It is a cytosolic
vertebrate protein that acts as a suppressor of RAS via
its C-terminal GAP domain function, enhancing the weak
intrinsic GTPase activity of RAS proteins resulting in
the inactive GDP-bound form of RAS, allowing control of
cellular proliferation and differentiation.
Additionally, it is involved in mitogenic signal
transmission towards downstream interacting partners
through its N-terminal SH2-SH3-SH2 domains. RASA1
interacts with a number of proteins including: G3BP1,
SOCS3, ANXA6, Huntingtin, KHDRBS1, Src, EPHB3, EPH
receptor B2, Insulin-like growth factor 1 receptor,
PTK2B, DOK1, PDGFRB, HCK, Caveolin 2, DNAJA3, HRAS,
GNB2L1 and NCK1. PH domains have diverse functions, but
in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 103
Score = 26.5 bits (59), Expect = 3.7
Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 46 VSRKGYLNILEQKTNGWKKRWVAVR--RPYVFIFRDEKDPVERALVNLATAQVEYSEDQQ 103
+ +KGYL K WK + + +++ F +EK + L++L+ + V Y
Sbjct: 3 IVKKGYLLKKSGKNKKWKNLYFVLEGAEQHLYFFENEKRTKPKGLIDLSYSSV-YPVHDS 61
Query: 104 AMVRVPFSFSVVTKH 118
R P F +V +
Sbjct: 62 LFGR-PNCFQIVVRA 75
>gnl|CDD|241290 cd01259, PH_APBB1IP, Amyloid beta (A4) Precursor protein-Binding,
family B, member 1 Interacting Protein pleckstrin
homology (PH) domain. APBB1IP consists of a
Ras-associated (RA) domain, a PH domain, a
family-specific BPS region, and a C-terminal SH2
domain. Grb7, Grb10 and Grb14 are paralogs that are
also present in this hierarchy. These adapter proteins
bind a variety of receptor tyrosine kinases, including
the insulin and insulin-like growth factor-1 (IGF1)
receptors. Grb10 and Grb14 are important
tissue-specific negative regulators of insulin and IGF1
signaling based and may contribute to type 2
(non-insulin-dependent) diabetes in humans. RA-PH
function as a single structural unit and is dimerized
via a helical extension of the PH domain. The PH domain
here are proposed to bind phosphoinositides
non-cannonically ahd are unlikely to bind an activated
GTPase. The tandem RA-PH domains are present in a
second adapter-protein family, MRL proteins,
Caenorhabditis elegans protein MIG-1012, the mammalian
proteins RIAM and lamellipodin and the Drosophila
melanogaster protein Pico12, all of which are
Ena/VASP-binding proteins involved in
actin-cytoskeleton rearrangement. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 124
Score = 26.8 bits (60), Expect = 4.1
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 11/40 (27%)
Query: 32 LYVPEIEEIRISPVVSRKGYLNILEQKTNGWKKRWVAVRR 71
+ VPEIE G+L + E WKKR+ +R
Sbjct: 3 VSVPEIE-----------GFLYLKEDGKKSWKKRYFVLRA 31
>gnl|CDD|233595 TIGR01845, outer_NodT, efflux transporter, outer membrane factor
(OMF) lipoprotein, NodT family. Members of This model
comprise a subfamily of the Outer Membrane Factor (TCDB
1.B.17) porins. OMF proteins operate in conjunction with
a primary transporter of the RND, MFS, ABC, or PET
systems, and a MFP (membrane fusion protein) to tranport
substrates across membranes. The complex thus formed
allows transport (export) of various solutes (heavy
metal cations; drugs, oligosaccharides, proteins, etc.)
across the two envelopes of the Gram-negative bacterial
cell envelope in a single energy-coupled step. Current
data suggest that the OMF (and not the MFP) is largely
responsible for the formation of both the trans-outer
membrane and trans-periplasmic channels. The roles
played by the MFP have yet to be determined [Cellular
processes, Detoxification, Transport and binding
proteins, Porins].
Length = 454
Score = 27.4 bits (61), Expect = 4.2
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 86 RALVNLATAQVEYSEDQQAMVRVPFSFSVVT 116
R V A AQ+E +E R+ S S+
Sbjct: 137 RRAVESALAQLEAAEADSQAARLTLSASIAN 167
>gnl|CDD|241282 cd01251, PH2_ADAP, ArfGAP with dual PH domains Pleckstrin homology
(PH) domain, repeat 2. ADAP (also called centaurin
alpha) is a phophatidlyinositide binding protein
consisting of an N-terminal ArfGAP domain and two PH
domains. In response to growth factor activation, PI3K
phosphorylates phosphatidylinositol 4,5-bisphosphate to
phosphatidylinositol 3,4,5-trisphosphate. Centaurin
alpha 1 is recruited to the plasma membrane following
growth factor stimulation by specific binding of its PH
domain to phosphatidylinositol 3,4,5-trisphosphate.
Centaurin alpha 2 is constitutively bound to the plasma
membrane since it binds phosphatidylinositol
4,5-bisphosphate and phosphatidylinositol
3,4,5-trisphosphate with equal affinity. This cd
contains the second PH domain repeat. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 105
Score = 26.4 bits (59), Expect = 4.8
Identities = 22/91 (24%), Positives = 41/91 (45%), Gaps = 8/91 (8%)
Query: 58 KTNGWKKRWVAV--RRPYVFIFRDEKDPVERALVNLATAQVEYSED----QQAMVRVPFS 111
+T+G++KRW + RR + F+D D + + + + + YS F
Sbjct: 15 QTDGFRKRWFTLDDRR--LMYFKDPLDAFPKGEIFIGSKEEGYSVREGLPAGIKGHWGFG 72
Query: 112 FSVVTKHGGYLMQTAGAREVHEWLYAINPLL 142
F++VT +++ E EW+ AI +L
Sbjct: 73 FTLVTPDRTFVLSAETEEERREWITAIQKVL 103
>gnl|CDD|241462 cd13308, PH_3BP2, SH3 domain-binding protein 2 Pleckstrin homology
(PH) domain. SH3BP2 (the gene that encodes the adaptor
protein 3BP2), HD, ITU, IT10C3, and ADD1 are located
near the Huntington's Disease Gene on Human Chromosome
4pl6.3. SH3BP2 lies in a region that is often missing in
individuals with Wolf-Hirschhorn syndrome (WHS). Gain of
function mutations in SH3BP2 causes enhanced B-cell
antigen receptor (BCR)-mediated activation of nuclear
factor of activated T cells (NFAT), resulting in a rare,
genetic disorder called cherubism. This results in an
increase in the signaling complex formation with Syk,
phospholipase C-gamma2 (PLC-gamma2), and Vav1. It was
recently discovered that Tankyrase regulates 3BP2
stability through ADP-ribosylation and ubiquitylation by
the E3-ubiquitin ligase. Cherubism mutations uncouple
3BP2 from Tankyrase-mediated protein destruction, which
results in its stabilization and subsequent
hyperactivation of the Src, Syk, and Vav signaling
pathways. SH3BP2 is also a potential negative regulator
of the abl oncogene. PH domains have diverse functions,
but in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 113
Score = 26.2 bits (58), Expect = 5.1
Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 5/81 (6%)
Query: 62 WKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVEYSEDQQAMVRVPFSF---SVVTKH 118
W R+V + + V+ F++ + + + +L +E + + F F + H
Sbjct: 28 WPLRYVIIHKGCVYYFKNSQSAKPKGVFSLNGYNRRAAE--ETTSKKKFVFKIIHLSKDH 85
Query: 119 GGYLMQTAGAREVHEWLYAIN 139
+ E+ EW+ ++
Sbjct: 86 RTWYFSAKSEDEMKEWMESLR 106
>gnl|CDD|241429 cd13275, PH_M-RIP, Myosin phosphatase-RhoA Interacting Protein
Pleckstrin homology (PH) domain. M-RIP is proposed to
play a role in myosin phosphatase regulation by RhoA.
M-RIP contains 2 PH domains followed by a Rho binding
domain (Rho-BD), and a C-terminal myosin binding
subunit (MBS) binding domain (MBS-BD). The amino
terminus of M-RIP with its adjacent PH domains and
polyproline motifs mediates binding to both actin and
Galpha. M-RIP brings RhoA and MBS into close proximity
where M-RIP can target RhoA to the myosin phosphatase
complex to regulate the myosin phosphorylation state.
M-RIP does this via its C-terminal coiled-coil domain
which interacts with the MBS leucine zipper domain of
myosin phosphatase, while its Rho-BD, directly binds
RhoA in a nucleotide-independent manner. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 103
Score = 26.1 bits (58), Expect = 5.4
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 48 RKGYLNILEQKTNGWKKRWVAVRRPYVFIFRD 79
+KG+L + + WKK W +R + +RD
Sbjct: 1 KKGWLMKQD-EDGEWKKHWFVLRDASLRYYRD 31
>gnl|CDD|189752 pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain
is unknown. It is found in several lipoproteins.
Length = 105
Score = 26.1 bits (58), Expect = 5.5
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 52 LNILEQKTNGWKKRWVAVRR 71
++I + W+KR V VRR
Sbjct: 86 VSISSLRGPYWQKRLVGVRR 105
>gnl|CDD|224471 COG1554, ATH1, Trehalose and maltose hydrolases (possible
phosphorylases) [Carbohydrate transport and metabolism].
Length = 772
Score = 26.9 bits (60), Expect = 6.0
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 46 VSRKGYLNILEQKTNGWKKRW 66
S+ GY +L W W
Sbjct: 281 ASKGGYEKLLAAHKAAWDDLW 301
>gnl|CDD|237517 PRK13807, PRK13807, maltose phosphorylase; Provisional.
Length = 756
Score = 27.2 bits (61), Expect = 6.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 46 VSRKGYLNILEQKTNGWKKRW 66
+ KG+ +L T W KRW
Sbjct: 283 AAEKGFEELLAAHTAAWAKRW 303
>gnl|CDD|237603 PRK14083, PRK14083, HSP90 family protein; Provisional.
Length = 601
Score = 26.8 bits (60), Expect = 6.8
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 12 FEDSRGRPDSNEATQDTSVILYVPEIEEIR-ISPVVSRKG 50
FE + GR E + VI Y ++E R ++P+ +G
Sbjct: 371 FETTDGRMTLAEIRRRHGVIRYTSSVDEFRQLAPIARAQG 410
>gnl|CDD|232810 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) synthase. Members
of this family are the tRNA modification enzyme TruA,
tRNA pseudouridine(38-40) synthase. In a few species
(e.g. Bacillus anthracis), TruA is represented by two
paralogs [Protein synthesis, tRNA and rRNA base
modification].
Length = 227
Score = 26.5 bits (59), Expect = 7.9
Identities = 6/29 (20%), Positives = 9/29 (31%)
Query: 129 REVHEWLYAINPLLAGQIRSKTSRRQPPA 157
++ +N LL IR K
Sbjct: 69 IPDNKLNAKLNALLPPDIRVKALAPVNDN 97
>gnl|CDD|181507 PRK08626, PRK08626, fumarate reductase flavoprotein subunit;
Provisional.
Length = 657
Score = 26.5 bits (59), Expect = 8.9
Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 20 DSNEATQDTSVILYVPEIEEIRISPVVSRKGYLNILEQKTNGWKKRWVAVRRPYVFIFRD 79
NE DT+++ + ++ RI +++ +G N+ E K + V IFR+
Sbjct: 430 LGNELEIDTALVEKFVKKQQDRIDELIAGEGKENVFE-----IKNEMQEIMMEKVGIFRN 484
Query: 80 EKD 82
+
Sbjct: 485 GPE 487
>gnl|CDD|241431 cd13277, PH_Bem3, Bud emergence protein 3 (Bem3) Pleckstrin
homology (PH) domain. Bud emergence in Saccharomyces
cerevisiae involves cell cycle-regulated
reorganizations of cortical cytoskeletal elements and
requires the action of the Rho-type GTPase Cdc42. Bem3
contains a RhoGAP domain and a PH domain. Though Bem3
and Bem2 both contain a RhoGAP, but only Bem3 is able
to stimulate the hydrolysis of GTP on Cdc42. Bem3 is
thought to be the GAP for Cdc42. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 111
Score = 25.3 bits (56), Expect = 9.6
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 48 RKGYLNILEQKT----NGWKKRWVAVRRPYVFIFRDEKDPVERALVNLATAQVE 97
++GYL +KT GWK R+ + + ++ + + + L AQ+E
Sbjct: 5 KEGYLLKRRKKTLGSTGGWKLRYGVLDGNILELYESRGGQLLES-IKLRNAQIE 57
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
0.316 0.131 0.386
Gapped
Lambda K H
0.267 0.0618 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,770,445
Number of extensions: 800304
Number of successful extensions: 687
Number of sequences better than 10.0: 1
Number of HSP's gapped: 678
Number of HSP's successfully gapped: 53
Length of query: 171
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 81
Effective length of database: 6,945,742
Effective search space: 562605102
Effective search space used: 562605102
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.2 bits)