RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17028
(334 letters)
>gnl|CDD|241295 cd01264, PH_MELT_VEPH1, Melted pleckstrin homology (PH) domain.
The melted protein (also called Ventricular zone
expressed PH domain-containing protein homolog 1) is
expressed in the developing central nervous system of
vertebrates. It contains a single C-terminal PH domain
that is required for membrane targeting. 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 = 195 bits (498), Expect = 4e-63
Identities = 72/110 (65%), Positives = 85/110 (77%), Gaps = 1/110 (0%)
Query: 212 FLQDSHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV 271
FLQ+ PVIEGQLKEKKGRWK FKRWRTRYFTLSGA L Y+ K PI++ +IRSV
Sbjct: 1 FLQEGQPVIEGQLKEKKGRWKFFKRWRTRYFTLSGASLLYRKLKSKDDSPPIELSKIRSV 60
Query: 272 KVS-RGARNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHSQAK 320
KV R R+IPKAFEIFT D + +LK K+GKNAE+WVQCLS+ VA + A+
Sbjct: 61 KVLRRRDRSIPKAFEIFTDDKTYVLKAKDGKNAEEWVQCLSIAVAQAHAR 110
>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 = 60.4 bits (147), Expect = 1e-11
Identities = 32/108 (29%), Positives = 49/108 (45%), Gaps = 6/108 (5%)
Query: 216 SHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHL-SYKGSKEDKQETP-IDVHRIRSVKV 273
S P G L K+G K WR R+F L L +K D + ID+ +VK
Sbjct: 5 SDPEKAGWL-TKQGGS--IKTWRRRWFVLKQGKLFYFKDEDPDSEPRGVIDLSDCLTVKS 61
Query: 274 SRGARNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCL-SVVVAHSQAK 320
+ A N AFE+ T + + L + K E+W+ + +V S++K
Sbjct: 62 AEEATNKEFAFEVSTPERTFYLIADSEKEKEEWISAIGRAIVKLSRSK 109
>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 = 53.7 bits (129), Expect = 2e-09
Identities = 31/99 (31%), Positives = 45/99 (45%), Gaps = 8/99 (8%)
Query: 218 PVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLS-YKGSKEDKQETPIDVHRIRSVKVSRG 276
+ EG L +K G K K W+ RYF L + L YK K+ K P + V
Sbjct: 1 VIKEGWLYKKSGGGK--KSWKKRYFVLFNSTLLYYKSKKDKKSYKPKGSIDLSGCTVREA 58
Query: 277 ARNI----PKAFEIFTGD-DSLILKPKNGKNAEQWVQCL 310
P FEI T D +L+L+ ++ + E+WV+ L
Sbjct: 59 PDPDSSKKPHCFEIKTSDRKTLLLQAESEEEREKWVEAL 97
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 53.2 bits (128), Expect = 3e-09
Identities = 23/98 (23%), Positives = 44/98 (44%), Gaps = 7/98 (7%)
Query: 218 PVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGA 277
+ EG L +K + K W+ RYF L L Y + P + +V++
Sbjct: 1 VIKEGWLLKKGSGGR--KSWKKRYFVLFDGVLLYYKDSKKSSSRPKGSIPLSGCQVTKVP 58
Query: 278 RNI----PKAFEIFTGD-DSLILKPKNGKNAEQWVQCL 310
+ FEI TGD ++ +L+ ++ + ++WV+ +
Sbjct: 59 DSEDGKRKNCFEIRTGDRETFLLQAESEEERKEWVKAI 96
>gnl|CDD|241277 cd01244, PH_GAP1-like, RAS p21 protein activator (GTPase activating
protein) family pleckstrin homology (PH) domain.
RASAL1, GAP1(m), GAP1(IP4BP), and CAPRI are all members
of the GAP1 family of GTPase-activating proteins. They
contain N-terminal SH2-SH3-SH2 domains, followed by two
C2 domains, a PH domain, a RasGAP domain, and a BTK
domain. With the notable exception of GAP1(m), they all
possess an arginine finger-dependent GAP activity on the
Ras-related protein Rap1. They act as a suppressor of
RAS 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. PH domains share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. 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 = 107
Score = 50.3 bits (121), Expect = 4e-08
Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 4/106 (3%)
Query: 221 EGQL-KEKKGRWKIF--KRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV-KVSRG 276
EG L K +GR K ++ RYF L+ LSY SK + I + I +V +V
Sbjct: 2 EGYLIKRAQGRKGKLGRKNFKKRYFRLTNEALSYSKSKGSQPLCSIPLQDILAVERVDEK 61
Query: 277 ARNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHSQAKEM 322
+ + F++ D +L L+ KN +W+ L V + +
Sbjct: 62 SFKMKNMFQVVQPDRTLYLQAKNVVELNEWLSALRKVCLCNPNRLP 107
>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 = 47.0 bits (111), Expect = 5e-07
Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 220 IEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETP---IDVHRIRSVKVSRG 276
EG LK++ G K K W+ R+F L L Y SK+D + P I + V++
Sbjct: 1 KEGWLKKRGG--KGLKSWKKRWFVLFDDVLLYYKSKKDSSKKPKGLIPLSDGLEVELV-S 57
Query: 277 ARNIPKAFEIFTGDDS--LILKPKNGKNAEQWVQC 309
+ P FE+ T D L+ ++ + E+W++
Sbjct: 58 SSGKPNCFELVTPDRGRTYYLQAESEEEREEWLEA 92
>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 = 44.7 bits (106), Expect = 4e-06
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 4/86 (4%)
Query: 226 EKKGRWKIFKRWRTRYFTLSGAHLS-YKGSKEDKQETPIDVHRIRSVKVSRGARNIPKAF 284
EKKG + K W+ R+F L L+ YK KE + ID+ I + + ++ F
Sbjct: 13 EKKGERR--KTWKKRWFVLRPTKLAYYKNDKEYRLLRLIDLTDIHTCTEVQLKKH-DNTF 69
Query: 285 EIFTGDDSLILKPKNGKNAEQWVQCL 310
I T + ++ + E W+ +
Sbjct: 70 GIVTPARTFYVQADSKAEMESWISAI 95
>gnl|CDD|241448 cd13294, PH_ORP_plant, Plant Oxysterol binding protein related
protein Pleckstrin homology (PH) domain. Plant ORPs
contain a N-terminal PH domain and a C-terminal
OSBP-related domain. Not much is known about its
specific function in plants to date. Members here
include: Arabidopsis, spruce, and petunia. Oxysterol
binding proteins are a multigene family that is
conserved in yeast, flies, worms, mammals and plants. In
general OSBPs and ORPs have been found to be involved in
the transport and metabolism of cholesterol and related
lipids in eukaryotes. They all contain a C-terminal
oxysterol binding domain, and most contain an N-terminal
PH domain. OSBP PH domains bind to membrane
phosphoinositides and thus likely play an important role
in intracellular targeting. They are members of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF 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 = 100
Score = 42.9 bits (101), Expect = 1e-05
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 7/79 (8%)
Query: 235 KRWRTRYFTLSGAHLSY-KGSKEDKQETPIDVHRIRSVKVS--RGARNIPKAFEIFTGDD 291
K WR+R+F L LSY K DK + +VH +KVS R +R+ K F IFTG
Sbjct: 13 KGWRSRWFVLQDGVLSYYKVHGPDKVKPSGEVH----LKVSSIRESRSDDKKFYIFTGTK 68
Query: 292 SLILKPKNGKNAEQWVQCL 310
+L L+ ++ ++ W++ L
Sbjct: 69 TLHLRAESREDRAAWLEAL 87
>gnl|CDD|241520 cd13369, PH_RASAL1, Ras-GTPase-activating-like protein pleckstrin
homology (PH) domain. RASAL1 is a member of the GAP1
family of GTPase-activating proteins, along with
GAP1(m), GAP1(IP4BP) and CAPRI. RASAL1 contains two C2
domains, a PH domain, a RasGAP domain, and a BTK domain.
RASAL1 contains two fully conserved C2 domains, a PH
domain, a RasGAP domain, and a BTK domain. Its catalytic
GAP domain has dual RasGAP and RapGAP activities, while
its C2 domains bind phospholipids in the presence of
Ca2+. Both CAPRI and RASAL1 are calcium-activated
RasGAPs that inactivate Ras at the plasma membrane.
Thereby enhancing the weak intrinsic GTPase activity of
RAS proteins resulting in the inactive GDP-bound form of
RAS and allowing control of cellular proliferation and
differentiation. CAPRI and RASAL1 differ in that CAPRI
is an amplitude sensor while RASAL1 senses calcium
oscillations. This difference between them resides not
in their C2 domains, but in their PH domains leading to
speculation that this might reflect an association with
either phosphoinositides and/or 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 = 138
Score = 41.8 bits (98), Expect = 7e-05
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 10/97 (10%)
Query: 234 FKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV-KVSRGARNIPKAFEIFTGDD- 291
FK+ RYF LS LSY S E + + I V RI +V +V A P ++ T D
Sbjct: 37 FKK---RYFWLSSETLSYSKSPEWQVRSSIPVQRICAVERVDENAFQQPHVMQVVTQDGT 93
Query: 292 ----SLILKPKNGKNAEQWVQCLSVVVAHSQAKEMPT 324
+ ++ KN QW+ L ++ +PT
Sbjct: 94 GQLHTTYIQCKNVNELNQWLSALRKASLSNERM-LPT 129
>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 = 39.5 bits (93), Expect = 2e-04
Identities = 20/87 (22%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 234 FKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIR--SVKVSRGA--RNIPKAFEIFTG 289
FK W+ R+F++ L Y+ + K + V +R +VK R FE+ +
Sbjct: 13 FKTWKRRWFSIQNGQLVYQ-KRFKKDTPTVVVEDLRLCTVKPCEDIDRRF---CFEVVSP 68
Query: 290 DDSLILKPKNGKNAEQWVQCLSVVVAH 316
S +L+ ++ ++ + W+Q + +A
Sbjct: 69 TKSYMLQAESEEDRQAWIQAIQAAIAS 95
>gnl|CDD|241470 cd13316, PH_Boi, Boi family Pleckstrin homology domain. Yeast Boi
proteins Boi1 and Boi2 are functionally redundant and
important for cell growth with Boi mutants displaying
defects in bud formation and in the maintenance of cell
polarity.They appear to be linked to Rho-type GTPase,
Cdc42 and Rho3. Boi1 and Boi2 display two-hybrid
interactions with the GTP-bound ("active") form of
Cdc42, while Rho3 can suppress of the lethality caused
by deletion of Boi1 and Boi2. These findings suggest
that Boi1 and Boi2 are targets of Cdc42 that promote
cell growth in a manner that is regulated by Rho3. Boi
proteins contain a N-terminal SH3 domain, followed by a
SAM (sterile alpha motif) domain, a proline-rich region,
which mediates binding to the second SH3 domain of Bem1,
and C-terminal PH domain. The PH domain is essential for
its function in cell growth and is important for
localization to the bud, while the SH3 domain is needed
for localization to the neck. 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 = 95
Score = 37.7 bits (88), Expect = 0.001
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 6/50 (12%)
Query: 222 GQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETP-IDV--HRI 268
G +K++ R+ W+TRYF L G L Y S+ D +E ID+ HR+
Sbjct: 3 GWMKKRGERYGT---WKTRYFVLKGTRLYYLKSENDSKEKGLIDLTGHRV 49
>gnl|CDD|241428 cd13274, PH_DGK_type2, Type 2 Diacylglycerol kinase Pleckstrin
homology (PH) domain. DGK (also called DAGK) catalyzes
the conversion of diacylglycerol (DAG) to phosphatidic
acid (PA) utilizing ATP as a source of the phosphate. In
non-stimulated cells, DGK activity is low and DAG is
used for glycerophospholipid biosynthesis. Upon receptor
activation of the phosphoinositide pathway, DGK activity
increases which drives the conversion of DAG to PA. DGK
acts as a switch by terminating the signalling of one
lipid while simultaneously activating signalling by
another. There are 9 mammalian DGK isoforms all with
conserved catalytic domains and two cysteine rich
domains. These are further classified into 5 groups
according to the presence of additional functional
domains and substrate specificity: Type 1 - DGK-alpha,
DGK-beta, DGK-gamma - contain EF-hand motifs and a
recoverin homology domain; Type 2 - DGK-delta, DGK-eta,
and DGK-kappa- contain a pleckstrin homology domain, two
cysteine-rich zinc finger-like structures, and a
separated catalytic region; Type 3 - DGK-epsilon - has
specificity for arachidonate-containing DAG; Type 4 -
DGK-zeta, DGK-iota- contain a MARCKS homology domain,
ankyrin repeats, a C-terminal nuclear localization
signal, and a PDZ-binding motif; Type 5 - DGK-theta -
contains a third cysteine-rich domain, a pleckstrin
homology domain and a proline rich region. The type 2
DGKs are present as part of this Metazoan DGK hierarchy.
They have a N-terminal PH domain, two cysteine rich
domains, followed by bipartite catalytic domains, and a
C-terminal SAM domain. Their catalytic domains and
perhaps other DGK catalytic domains may function as two
independent units in a coordinated fashion. They may
also require other motifs for maximal activity because
several DGK catalytic domains have very little DAG
kinase activity when expressed as isolated subunits. 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 = 97
Score = 37.3 bits (87), Expect = 0.001
Identities = 27/82 (32%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 234 FKRWRTRYFTLSGAHLSY-KGSKEDKQETPIDVHRIRSVKVSRGARNIPKAFEIFTGDDS 292
F+RW+ RYF L G L Y K SK + +D+ SV +N+ +F + T
Sbjct: 13 FQRWKKRYFKLRGRTLYYAKDSKSLIFDE-VDLSDA-SV-AECSTKNVNHSFTVITPFRK 69
Query: 293 LILKPKNGKNAEQWVQCLSVVV 314
LIL ++ K E+W+ L V
Sbjct: 70 LILCAESRKEMEEWISALKTVQ 91
>gnl|CDD|241274 cd01241, PH_PKB, Protein Kinase B-like pleckstrin homology (PH)
domain. PKB (also called Akt), a member of the AGC
kinase family, is a phosphatidylinositol 3'-kinase
(PI3K)-dependent Ser/Thr kinase which alters the
activity of the targeted protein. The name AGC is based
on the three proteins that it is most similar to
cAMP-dependent protein kinase 1 (PKA; also known as
PKAC), cGMP-dependent protein kinase (PKG; also known as
CGK1) and protein kinase C (PKC). Human Akt has three
isoforms derived for distinct genes: Akt1/PKBalpha,
Akt2/PKBbeta, and Akt3/PKBgamma. All Akts have an
N-terminal PH domain with an activating Thr
phosphorylation site, a kinase domain, and a short
C-terminal regulatory tail with an activating Ser
phosphorylation site. The PH domain recruits Akt to the
plasma membrane by binding to phosphoinositides
(PtdIns-3,4-P2) and is required for activation. The
phosphorylation of Akt at its Thr and Ser
phosphorylation sites leads to increased Akt activity
toward forkhead transcription factors, the mammalian
target of rapamycin (mTOR), and the
Bcl-xL/Bcl-2-associated death promoter (BAD), all of
which possess a consensus motif R-X-R-XX-ST-B (X = amino
acid, B = bulky hydrophobic residue) for Akt
phosphorylation. 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 = 121
Score = 37.7 bits (88), Expect = 0.001
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 224 LKEKKG--RWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIR----SVKVSR 275
+KE R + K WR R+F L +KG KE Q+ +D SV + R
Sbjct: 4 VKEGWLTKRGEYIKTWRPRWFVLKSDDGKFKGYKEKPQDKDVDPTPKPLNNFSVAIKR 61
>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 = 36.9 bits (86), Expect = 0.002
Identities = 21/82 (25%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 232 KIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVK-VSR-GARNIPKAFEIFTG 289
I K W+TR+F L L Y ++ D PI + V ++ P F +
Sbjct: 14 GIVKNWKTRWFVLRKNELKYFKTRTDT--KPIRTLDLTECSSVQADYSQGKPNCFRLVFP 71
Query: 290 DDSLILKPKNGKNAEQWVQCLS 311
D + + K + A++WV+ L
Sbjct: 72 DRTFYMYAKTEEEADEWVKLLK 93
>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 = 37.2 bits (87), Expect = 0.002
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 4/85 (4%)
Query: 227 KKGRWKIFKRWRTRYFTLSGAHLS-YKGSKEDKQETPIDVHRIRSVKVSRGARNIPKAFE 285
K+ R K W+ R+F L LS YK KE K I++ + +V + + F
Sbjct: 14 KRSRKT--KTWKKRWFVLRPCQLSYYKDEKEYKLRRVINLSELTAVAPLKDKK-RKNVFA 70
Query: 286 IFTGDDSLILKPKNGKNAEQWVQCL 310
I+T + + + K+A +WV+ +
Sbjct: 71 IYTPSKNYHFQASSEKDANEWVEAI 95
>gnl|CDD|241427 cd13273, PH_SWAP-70, Switch-associated protein-70 Pleckstrin
homology (PH) domain. SWAP-70 (also called
Differentially expressed in FDCP 6/DEF-6 or IRF4-binding
protein) functions in cellular signal transduction
pathways (in conjunction with Rac), regulates cell
motility through actin rearrangement, and contributes to
the transformation and invasion activity of mouse embryo
fibroblasts. Metazoan SWAP-70 is found in B lymphocytes,
mast cells, and in a variety of organs. Metazoan SWAP-70
contains an N-terminal EF-hand motif, a centrally
located PH domain, and a C-terminal coiled-coil domain.
The PH domain of Metazoan SWAP-70 contains a
phosphoinositide-binding site and a nuclear localization
signal (NLS), which localize SWAP-70 to the plasma
membrane and nucleus, respectively. The NLS is a
sequence of four Lys residues located at the N-terminus
of the C-terminal a-helix; this is a unique
characteristic of the Metazoan SWAP-70 PH domain. The
SWAP-70 PH domain binds PtdIns(3,4,5)P3 and
PtdIns(4,5)P2 embedded in lipid bilayer vesicles. There
are additional plant SWAP70 proteins, but these are not
included in this hierarchy. Rice SWAP70 (OsSWAP70)
exhibits GEF activity toward the its Rho GTPase, OsRac1,
and regulates chitin-induced production of reactive
oxygen species and defense gene expression in rice.
Arabidopsis SWAP70 (AtSWAP70) plays a role in both PAMP-
and effector-triggered immunity. Plant SWAP70 contains
both DH and PH domains, but their arrangement is the
reverse of that in typical DH-PH-type Rho GEFs, wherein
the DH domain is flanked by a C-terminal 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 = 110
Score = 36.1 bits (84), Expect = 0.004
Identities = 27/103 (26%), Positives = 45/103 (43%), Gaps = 11/103 (10%)
Query: 227 KKGRW--KIFKR--WRTRYFTLSGAHLSYKGSKEDKQ---ETPIDVH-RIRSVKVSRGAR 278
KKG K WR R+F L LSY S++ K+ E +D + + S+ G +
Sbjct: 10 KKGYLWKKGHLLPTWRERWFVLKPNSLSYYKSEDLKEKKGEIALDSNCCVESLPDREGKK 69
Query: 279 NIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHSQAKE 321
F + T D + L + K ++W+Q + + SQ +
Sbjct: 70 CR---FCVKTPDKTYELSASDHKTRQEWIQAIQTAIRLSQEGK 109
>gnl|CDD|241521 cd13370, PH_GAP1m_mammal-like, GTPase activating protein 1 m
pleckstrin homology (PH) domain. GAP1(m) (also called
RASA2/RAS p21 protein activator (GTPase activating
protein) 2) is a member of the GAP1 family of
GTPase-activating proteins, along with RASAL1,
GAP1(IP4BP), and CAPRI. With the notable exception of
GAP1(m), they all possess an arginine finger-dependent
GAP activity on the Ras-related protein Rap1. GAP1(m)
contains two C2 domains, a PH domain, a RasGAP domain,
and a BTK domain. Its C2 domains, like those of
GAP1IP4BP, do not contain the C2 motif that is known to
be required for calcium-dependent phospholipid binding.
GAP1(m) is regulated by the binding of its PH domains to
phophoinositides, PIP3 (phosphatidylinositol
3,4,5-trisphosphate). It suppresses RAS, 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. GAP1(m)
binds inositol tetrakisphosphate (IP4). 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 = 133
Score = 36.5 bits (84), Expect = 0.005
Identities = 31/110 (28%), Positives = 54/110 (49%), Gaps = 5/110 (4%)
Query: 216 SHPVI--EGQL-KEKKGRWKIFKR-WRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV 271
S V EG++ K +GR +I K+ ++ R+F L+ L+Y K + I V I +V
Sbjct: 12 SESVHLKEGEMHKRAQGRTRIGKKNFKKRWFCLTSRELTYHKQKGKEAIFTIPVKNILAV 71
Query: 272 -KVSRGARNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHSQAK 320
K+ A N F++ + L ++ N A +W++ LS V +Q +
Sbjct: 72 EKLEESAFNKKNMFQVIHSEKPLYVQANNCVEANEWIEVLSRVSRCNQKR 121
>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 = 35.1 bits (81), Expect = 0.010
Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 7/100 (7%)
Query: 222 GQLKEKKGRWKIFKR--WRTRYFTLSGAHLSYKGSKED--KQETPIDVHRIRSVKVSRGA 277
G L +K G R W++R+F L L Y + ++ K ID+ + V
Sbjct: 11 GWLYKKGGGSSTLSRKNWKSRWFVLRDTVLKYYENDQEGAKALGTIDIRSAK-EIVDNTP 69
Query: 278 RNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHS 317
+ F+I T + ++ ++A QW L+ V + +
Sbjct: 70 K--ENGFDITTPSRTYHFVAESPEDASQWFSVLTRVHSAT 107
>gnl|CDD|241463 cd13309, PH_SKIP, SifA and kinesin-interacting protein Pleckstrin
homology (PH) domain. SKIP (also called
PLEKHM2/Pleckstrin homology domain-containing family M
member 2) is a soluble cytosolic protein that contains a
RUN domain and a PH domain separated by a unstructured
linker region. SKIP is a target of the Salmonella
effector protein SifA and the SifA-SKIP complex
regulates kinesin-1 on the bacterial vacuole. The PH
domain of SKIP binds to the N-terminal region of SifA
while the N-terminus of SKIP is proposed to bind the TPR
domain of the kinesin light chain. The opposite side of
the SKIP PH domain is proposed to bind
phosphoinositides. TSifA, SKIP, SseJ, and RhoA family
GTPases are also thought to promote host membrane
tubulation. Recently, it was shown that the lysosomal
GTPase Arl8 binds to the kinesin-1 linker SKIP and that
both are required for the normal intracellular
distribution of lysosomes. Interestingly, two kinesin
light chain binding motifs (WD) in SKIP have now been
identified to match a consensus sequence for a kinesin
light chain binding site found in several proteins
including calsyntenin-1/alcadein, caytaxin, and vaccinia
virus A36. SKIP has also been shown to interact with
Rab1A. 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 = 34.7 bits (80), Expect = 0.012
Identities = 28/105 (26%), Positives = 38/105 (36%), Gaps = 14/105 (13%)
Query: 221 EGQLKEKKGRWKIFKR-WRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSR--GA 277
EG L K G + W+ YF L L + D P S+ + G
Sbjct: 3 EGPLMYKTGTSYLGGETWKPGYFLLKNGVLYQYPDRSD--RLP---LLSISLGGEQCGGC 57
Query: 278 RNI-----PKAFE-IFTGDDSLILKPKNGKNAEQWVQCLSVVVAH 316
R I P +FE I T SL L + A +W+Q L +
Sbjct: 58 RRINNTDRPHSFELILTDRPSLELAAPDEYEASEWLQSLCQSASK 102
>gnl|CDD|241417 cd13263, PH_RhoGap25-like, Rho GTPase activating protein 25 and
related proteins Pleckstrin homology (PH) domain.
RhoGAP25 (also called ArhGap25) like other RhoGaps are
involved in cell polarity, cell morphology and
cytoskeletal organization. They act as GTPase activators
for the Rac-type GTPases by converting them to an
inactive GDP-bound state and control actin remodeling by
inactivating Rac downstream of Rho leading to suppress
leading edge protrusion and promotes cell retraction to
achieve cellular polarity and are able to suppress RAC1
and CDC42 activity in vitro. Overexpression of these
proteins induces cell rounding with partial or complete
disruption of actin stress fibers and formation of
membrane ruffles, lamellipodia, and filopodia. This
hierarchy contains RhoGAP22, RhoGAP24, and RhoGAP25.
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 = 114
Score = 34.6 bits (80), Expect = 0.013
Identities = 29/102 (28%), Positives = 42/102 (41%), Gaps = 14/102 (13%)
Query: 218 PVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSY-KGSKEDKQETPIDVHRIRSVKVSRG 276
+ G LK++ G I K W+ R+F L G L Y K E K + I + ++
Sbjct: 3 VIKSGWLKKQGG---IVKNWQRRWFVLRGDQLYYYKDEDESKPQGCIPLPGNTVKELPFN 59
Query: 277 ARNIPK-AFEIFTGD---------DSLILKPKNGKNAEQWVQ 308
K FEI GD DS +L + E+WV+
Sbjct: 60 PEEPGKFLFEIIPGDGGTRRSANHDSYLLMANSQAEMEEWVK 101
>gnl|CDD|241441 cd13287, PH_ORP3_ORP6_ORP7, Human Oxysterol binding protein related
proteins 3, 6, and 7 Pleckstrin homology (PH) domain.
Human ORP3 is proposed to function in regulating the
cell-matrix and cell-cell adhesion. A proposed specific
function for Human ORP6 was not found at present. Human
ORP7is proposed to function in negatively regulating the
Golgi soluble NSF attachment protein receptor (SNARE) of
28kDa (GS28) protein stability via sequestration of
Golgi-associated ATPase enhancer of 16 kDa (GATE-16).
ORP3 has 2 isoforms: the longer ORP3(1) and the shorter
ORP3(2). ORP3(1), ORP6, and ORP7 all contain a
N-terminal PH domain, a FFAT motif (two phenylalanines
in an acidic tract), and a C-terminal OSBP-related
domain. The shorter ORP3(2) is missing the C-terminal
portion of its OSBP-related domain. Oxysterol binding
proteins are a multigene family that is conserved in
yeast, flies, worms, mammals and plants. In general
OSBPs and ORPs have been found to be involved in the
transport and metabolism of cholesterol and related
lipids in eukaryotes. They all contain a C-terminal
oxysterol binding domain, and most contain an N-terminal
PH domain. OSBP PH domains bind to membrane
phosphoinositides and thus likely play an important role
in intracellular targeting. They are members of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF 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 = 123
Score = 34.6 bits (80), Expect = 0.016
Identities = 28/120 (23%), Positives = 44/120 (36%), Gaps = 16/120 (13%)
Query: 206 PERAVGFLQDSHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQE----T 261
+ + EG L +K+ +W K W R+F L L Y S D +
Sbjct: 10 GLKGGQSSEQEPGKQEGYLLKKR-KW-PLKGWHKRFFVLEKGILKYAKSPLDIAKGKLHG 67
Query: 262 PIDVH-RIRSVKVSRGARNIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLSVVVAHSQAK 320
IDV + S+K + ++ T + LK K+ + WV L AH +
Sbjct: 68 SIDVGLSVMSIKKKA------RRIDLDTEEFIYHLKAKSQDLFDSWVAKLR---AHRLYR 118
>gnl|CDD|241446 cd13292, PH_Osh1p_Osh2p_yeast, Yeast oxysterol binding protein
homologs 1 and 2 Pleckstrin homology (PH) domain. Yeast
Osh1p is proposed to function in postsynthetic sterol
regulation, piecemeal microautophagy of the nucleus, and
cell polarity establishment. Yeast Osh2p is proposed to
function in sterol metabolism and cell polarity
establishment. Both Osh1p and Osh2p contain 3 N-terminal
ankyrin repeats, a PH domain, a FFAT motif (two
phenylalanines in an acidic tract), and a C-terminal
OSBP-related domain. OSBP andOsh1p PH domains
specifically localize to the Golgi apparatus in a
PtdIns4P-dependent manner. Oxysterol binding proteins
are a multigene family that is conserved in yeast,
flies, worms, mammals and plants. In general OSBPs and
ORPs have been found to be involved in the transport and
metabolism of cholesterol and related lipids in
eukaryotes. They all contain a C-terminal oxysterol
binding domain, and most contain an N-terminal PH
domain. OSBP PH domains bind to membrane
phosphoinositides and thus likely play an important role
in intracellular targeting. They are members of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF 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 = 103
Score = 34.2 bits (79), Expect = 0.019
Identities = 25/109 (22%), Positives = 42/109 (38%), Gaps = 31/109 (28%)
Query: 218 PVIEGQLKEKKGRWKIFKR-WRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRG 276
P ++G LK +W + + ++TR+F L LSY ++D RG
Sbjct: 2 PTMKGYLK----KWTNYAKGYKTRWFVLEDGVLSYYRHQDD------------EGSACRG 45
Query: 277 ARNIPKA-----------FEIFTGDDS---LILKPKNGKNAEQWVQCLS 311
+ N+ A FE+ + LK + A +W+Q L
Sbjct: 46 SINMKNARLVSDPSEKLRFEVSSKTSGSPKWYLKANHPVEAARWIQALQ 94
>gnl|CDD|241425 cd13271, PH2_TAPP1_2, Tandem PH-domain-containing proteins 1 and 2
Pleckstrin homology (PH) domain, C-terminal repeat. The
binding of TAPP1 (also called PLEKHA1/pleckstrin
homology domain containing, family A (phosphoinositide
binding specific) member 1) and 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). TAPP1 and TAPP2 contain 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. 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 = 34.2 bits (79), Expect = 0.019
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 10/98 (10%)
Query: 235 KRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIR---SVKVSRGARNIPK--AFEIFTG 289
K W+ RYF L +SY S+ DK+ P+ ++ V + + FEI T
Sbjct: 22 KNWKRRYFILDDNTISYYKSETDKE--PLRTIPLKEVLKVHECLSGDLLMRDNLFEIITT 79
Query: 290 DDSLILKPKNGKNAEQWVQCLSVVVAHSQAKEMPTRGS 327
+ ++ + ++ W++ +S + A+ P R S
Sbjct: 80 SRTFYIQADSPEDMHSWIKAISGAI---VARRGPYRSS 114
>gnl|CDD|241442 cd13288, PH_Ses, Sesquipedalian family Pleckstrin homology (PH)
domain. The sesquipedalian family has 2 mammalian
members: Ses1 and Ses2, which are also callled 7 kDa
inositol polyphosphate phosphatase-interacting protein 1
and 2. They play a role in endocytic trafficking and are
required for receptor recycling from endosomes, both to
the trans-Golgi network and the plasma membrane. Members
of this family form homodimers and heterodimers.
Sesquipedalian interacts with inositol polyphosphate
5-phosphatase OCRL-1 (INPP5F) also known as Lowe
oculocerebrorenal syndrome protein, a phosphatase enzyme
that is involved in actin polymerization and is found in
the trans-Golgi network and INPP5B. Sesquipedalian
contains a single 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 = 120
Score = 34.5 bits (80), Expect = 0.020
Identities = 29/103 (28%), Positives = 45/103 (43%), Gaps = 8/103 (7%)
Query: 212 FLQDSHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV 271
+S EG L +K R +++ R+F L G L Y K D+ P+ V +
Sbjct: 2 ASCNSPVDKEGYLWKKGERNTSYQK---RWFVLKGNLLFYFEKKGDR--EPLGVIVLEGC 56
Query: 272 KVSRGARNIPKAFEI-FTGDD--SLILKPKNGKNAEQWVQCLS 311
V P AF I F G S +L ++ ++ E W++ LS
Sbjct: 57 TVELSEDEEPYAFAIRFDGPGSRSYVLAAESQEDMESWMKALS 99
>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 = 33.0 bits (76), Expect = 0.055
Identities = 28/124 (22%), Positives = 51/124 (41%), Gaps = 30/124 (24%)
Query: 217 HPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSY---KGSKEDKQETPIDVHRIRSVKV 273
+P EG L + GR K W+ R+F L+ L Y KE + P++ +R V+
Sbjct: 2 NPDREGWLLKLGGR---VKSWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSVREVED 58
Query: 274 SRGARNIPKAFEIFTGDDSLILKPK---NGKNAE-----------------QWVQCLSVV 313
S+ P FE+++ + +I K +GK E +W++ +
Sbjct: 59 SKK----PFCFELYSPSNEVIKACKTDSDGKVVEGNHTVYRISAATEEEMDEWIKSIKAS 114
Query: 314 VAHS 317
++
Sbjct: 115 ISRD 118
>gnl|CDD|241532 cd13381, PH_Skap-hom_Skap2, Src kinase-associated phosphoprotein
homolog and Skap 2 Pleckstrin homology (PH) domain.
Adaptor protein Skap-hom, a homolog of Skap55, which
interacts with actin and with ADAP (adhesion and
degranulation promoting adapter protein) undergoes
tyrosine phosphorylation in response to plating of bone
marrow-derived macrophages on fibronectin. Skap-hom has
an N-terminal coiled-coil conformation that is involved
in homodimer formation, a central PH domain and a
C-terminal SH3 domain that associates with ADAP. The
Skap-hom PH domain regulates intracellular targeting;
its interaction with the DM domain inhibits Skap-hom
actin-based ruffles in macrophages and its binding to
3'-phosphoinositides reverses this autoinhibition. The
Skap-hom PH domain binds PI[3,4]P2 and PI[3,4,5]P3, but
not to PI[3]P, PI[5]P, or PI[4,5]P2. Skap2 is a
downstream target of Heat shock transcription factor 4
(HSF4) and functions in the regulation of actin
reorganization during lens differentiation. It is
thought that SKAP2 anchors the complex of tyrosine
kinase adaptor protein 2 (NCK20/focal adhesion to
fibroblast growth factor receptors at the lamellipodium
in lens epithelial cells. Skap2 has an N-terminal
coiled-coil conformation which interacts with the SH2
domain of NCK2, a central PH domain and a C-terminal SH3
domain that associates with ADAP (adhesion and
degranulation promoting adapter protein)/FYB (the Fyn
binding protein). Skap2 PH domain binds to membrane
lipids. Skap adaptor proteins couple receptors to
cytoskeletal rearrangements. Src kinase-associated
phosphoprotein of 55 kDa (Skap55)/Src kinase-associated
phosphoprotein 1 (Skap1), Skap2, and Skap-hom have an
N-terminal coiled-coil conformation, a central PH domain
and a C-terminal SH3 domain. Their PH domains bind
3'-phosphoinositides as well as directly affecting
targets such as in Skap55 where it directly affecting
integrin regulation by ADAP and NF-kappaB activation or
in Skap-hom where the dimerization and PH domains
comprise a 3'-phosphoinositide-gated molecular switch
that controls ruffle formation. 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 = 32.2 bits (73), Expect = 0.11
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 4/82 (4%)
Query: 237 WRTRYFTLSGAHLSYKGSKEDKQ---ETPIDVHRIRSVKVSRGARNIPKAFEIFTGDDSL 293
W+ R+ LS Y GS +DKQ E ID + +R R FEI D +
Sbjct: 21 WQKRWCALSKTVFYYYGSDKDKQQKGEFAIDGYTVRMNNTLRKDAKKDCCFEISAPDKRI 80
Query: 294 I-LKPKNGKNAEQWVQCLSVVV 314
+ K AE+WVQ + ++
Sbjct: 81 YQFTAASPKEAEEWVQQIKFII 102
>gnl|CDD|241426 cd13272, PH_INPP4A_INPP4B, Type I inositol 3,4-bisphosphate
4-phosphatase and Type II inositol 3,4-bisphosphate
4-phosphatase Pleckstrin homology (PH) domain. INPP4A
(also called Inositol polyphosphate 4-phosphatase type
I) and INPP4B (also called Inositol polyphosphate
4-phosphatase type II) both catalyze the hydrolysis of
the 4-position phosphate of phosphatidylinositol
3,4-bisphosphate and inositol 1,3,4-trisphosphate. They
differ in that INPP4A additionally catalyzes the
hydrolysis of the 4-position phosphate of inositol
3,4-bisphosphate, while INPP4B catalyzes the hydrolysis
of the 4-position phosphate of inositol
1,4-bisphosphate. They both have a single PH domain
followed by a C2 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 = 31.1 bits (71), Expect = 0.25
Identities = 19/90 (21%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 224 LKEKKGR-WKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGAR-NIP 281
+KE++ ++ + ++ R+F L G L Y S E E P V + + +V R
Sbjct: 1 IKERQMGFFRKSEVFKERWFKLRGNLLFYFKSNEPGSE-PAGVIVLENCRVQREEPDPGG 59
Query: 282 KAFEI-FTGDDSLILKPKNGKNAEQWVQCL 310
AF + F + ++ + ++W++ +
Sbjct: 60 FAFSLVFKDEKKYRFSCRSEEERDEWIEAI 89
>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 = 31.1 bits (70), Expect = 0.26
Identities = 26/106 (24%), Positives = 45/106 (42%), Gaps = 16/106 (15%)
Query: 222 GQLKEKKGRWKIFKRWRTRYFTLSGAHL-SYKGSKEDKQETPIDVHRIRSVKVSRGARNI 280
G LK+++ I K W+ R+F L G L YK +E K + I + + ++
Sbjct: 7 GWLKKQR---SIMKNWQQRWFVLRGDQLFYYKDEEETKPQGCISLQGSQVNELPPNPEEP 63
Query: 281 PK-AFEIFTG-----------DDSLILKPKNGKNAEQWVQCLSVVV 314
K FEI G ++ +L + + E WV+ + V+
Sbjct: 64 GKHLFEILPGGAGDREKVPMNHEAFLLMANSQSDMEDWVKAIRRVI 109
>gnl|CDD|220092 pfam09028, Mac-1, Mac 1. The bacterial protein Mac 1 adopts an
alpha/beta fold, with 14 beta strands and 9 alpha
helices. The N-terminal domain is made up predominantly
of alpha helices, whereas the C-terminal domain consists
predominantly of beta sheets. Mac 1 blocks
polymorphonuclear opsonophagocytosis, inhibits the
production of reactive oxygen species and contains IgG
endopeptidase activity.
Length = 333
Score = 32.3 bits (73), Expect = 0.31
Identities = 18/84 (21%), Positives = 28/84 (33%), Gaps = 10/84 (11%)
Query: 103 RSSQSVLLREATLLCSTY--------PVLCTDKMLAEVWQCSRNRYNHTSTYWSATHYQL 154
+ L + C T L + L W Y H T W A + +
Sbjct: 213 HDTSPKNL-TNRIRCETKKEFEQLMNKTLDNKRALGLFWSKGNRPYQHAVTCWGAAYDED 271
Query: 155 DLIRCQVYLIDAQDQEAVLNELRH 178
I +Y+ D+ EAV+ R+
Sbjct: 272 GNIIA-LYITDSDLPEAVIGLKRY 294
>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 = 30.0 bits (68), Expect = 0.42
Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 3/83 (3%)
Query: 233 IFKRWRTRYFTLSGAHLSYKGSKEDKQETPI-DVHRIRSVKVSRGARNIPKAFEIFTGDD 291
K W+ R+F L L Y S D P + S +++R + FEI T
Sbjct: 11 KVKTWKRRWFVLKNGELFYYKSPNDVIRKPQGQIALDGSCEIARAEGA--QTFEIVTEKR 68
Query: 292 SLILKPKNGKNAEQWVQCLSVVV 314
+ L + + ++W++ + V+
Sbjct: 69 TYYLTADSENDLDEWIRVIQNVL 91
>gnl|CDD|241447 cd13293, PH_CpORP2-like, Cryptosporidium-like Oxysterol binding
protein related protein 2 Pleckstrin homology (PH)
domain. There are 2 types of ORPs found in
Cryptosporidium: CpORP1 and CpORP2. Cryptosporium
differs from other apicomplexans like Plasmodium,
Toxoplasma, and Eimeria which possess only a single
long-type ORP consisting of an N-terminal PH domain
followed by a C-terminal ligand binding (LB) domain.
CpORP2 is like this, but CpORP1 differs and has a
truncated N-terminus resulting in only having a LB
domain present. The exact functions of these proteins
are largely unknown though CpORP1 is thought to be
involved in lipid transport across the parasitophorous
vacuole membrane. Oxysterol binding proteins are a
multigene family that is conserved in yeast, flies,
worms, mammals and plants. In general OSBPs and ORPs
have been found to be involved in the transport and
metabolism of cholesterol and related lipids in
eukaryotes. They all contain a C-terminal oxysterol
binding domain, and most contain an N-terminal PH
domain. OSBP PH domains bind to membrane
phosphoinositides and thus likely play an important role
in intracellular targeting. They are members of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF 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 = 88
Score = 29.6 bits (67), Expect = 0.63
Identities = 26/80 (32%), Positives = 34/80 (42%), Gaps = 13/80 (16%)
Query: 220 IEGQLKEKKGRW-KIFKRWRTRYFTLSGAHLSY-KGSKEDKQET-PIDVHRIRSVKVSRG 276
+EG LK +W IF W+ RYF L L Y K K+ T + + IR V
Sbjct: 1 MEGYLK----KWTNIFNSWKPRYFILYPGILCYSKQKGGPKKGTIHLKICDIRLVPDD-- 54
Query: 277 ARNIPKAFEIFTGDDSLILK 296
P I TG + L L+
Sbjct: 55 ----PLRIIINTGTNQLHLR 70
>gnl|CDD|241437 cd13283, PH_GPBP, Goodpasture antigen binding protein Pleckstrin
homology (PH) domain. The GPBP (also called Collagen
type IV alpha-3-binding protein/hCERT; START
domain-containing protein 11/StARD11; StAR-related lipid
transfer protein 11) is a kinase that phosphorylates an
N-terminal region of the alpha 3 chain of type IV
collagen, which is commonly known as the goodpasture
antigen. Its splice variant the ceramide transporter
(CERT) mediates the cytosolic transport of ceramide.
There have been additional splice variants identified,
but all of them function as ceramide transport proteins.
GPBP and CERT both contain an N-terminal PH domain,
followed by a serine rich domain, and a C-terminal START
domain. However, GPBP has an additional serine rich
domain just upstream of its START domain. They are
members of the oxysterol binding protein (OSBP) family
which includes OSBP, OSBP-related proteins (ORP),
Goodpasture antigen binding protein (GPBP), and Four
phosphate adaptor protein 1 (FAPP1). They have a wide
range of purported functions including sterol transport,
cell cycle control, pollen development and vessicle
transport from Golgi recognize both PI lipids and ARF
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 = 100
Score = 29.5 bits (67), Expect = 0.65
Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 23/82 (28%)
Query: 237 WRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGARNIPKA-----------FE 285
W+ RYF L LSY S+++ Q RG+ ++ KA F+
Sbjct: 15 WQDRYFVLKDGTLSYYKSEDETQ------------YGCRGSISLRKAVIKPHEFDECRFD 62
Query: 286 IFTGDDSLILKPKNGKNAEQWV 307
+ D L+ ++ + ++WV
Sbjct: 63 VSVNDSVWYLRAESPEERQRWV 84
>gnl|CDD|220155 pfam09258, Glyco_transf_64, Glycosyl transferase family 64 domain.
Members of this family catalyze the transfer reaction of
N-acetylglucosamine and N-acetylgalactosamine from the
respective UDP-sugars to the non-reducing end of
[glucuronic acid]beta 1-3[galactose]beta
1-O-naphthalenemethanol, an acceptor substrate analog of
the natural common linker of various
glycosylaminoglycans. They are also required for the
biosynthesis of heparan-sulphate.
Length = 244
Score = 31.1 bits (71), Expect = 0.71
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 204 NHPERAVGFLQDSHPVIEGQLKEKKGRWKIFKRWRTRY-FTLSGA 247
+ P+R VGF SH KGRW W Y L+GA
Sbjct: 102 SFPDRIVGFPPRSH-----FWDLSKGRWGYTSEWTNDYSMVLTGA 141
>gnl|CDD|241523 cd13372, PH_CAPRI, Ca2+ promoted Ras inactivator pleckstrin
homology (PH) domain. CAPRI (also called RASA4/RAS p21
protein activator (GTPase activating protein)
4/GAPL/FLJ59070/KIAA0538/MGC131890) is a member of the
GAP1 family of GTPase-activating proteins. CAPRI
contains two fully conserved C2 domains, a PH domain, a
RasGAP domain, and a BTK domain. Its catalytic GAP
domain has dual RasGAP and RapGAP activities, while its
C2 domains bind phospholipids in the presence of Ca2+.
Both CAPRI and RASAL are calcium-activated RasGAPs that
inactivate Ras at the plasma membrane. Thereby enhancing
the weak intrinsic GTPase activity of RAS proteins
resulting in the inactive GDP-bound form of RAS and
allowing control of cellular proliferation and
differentiation. CAPRI and RASAL differ in that CAPRI is
an amplitude sensor while RASAL senses calcium
oscillations. This difference between them resides not
in their C2 domains, but in their PH domains leading to
speculation that this might reflect an association with
either phosphoinositides and/or 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 = 140
Score = 30.2 bits (68), Expect = 0.81
Identities = 30/117 (25%), Positives = 50/117 (42%), Gaps = 15/117 (12%)
Query: 213 LQDSHPVIEGQLKEKKGRWK------IFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVH 266
L + V EG L + + K FK+ YFTL+ LS+ + K+ + I +
Sbjct: 21 LLQAPMVKEGFLFIHRTKGKGPLMASSFKKL---YFTLTKDALSFAKTPHSKKSSSISLA 77
Query: 267 RIRSV-KVSRGARNIPKAFEIFTGDDS-----LILKPKNGKNAEQWVQCLSVVVAHS 317
+IR+ KV +I DD+ L L+ K+ QW+ L V +++
Sbjct: 78 KIRAAEKVEEKCFGSSNVMQIIYTDDAGQQETLYLQCKSVNELNQWLSALRKVCSNN 134
>gnl|CDD|241435 cd13281, PH_PLEKHD1, Pleckstrin homology (PH) domain containing,
family D (with coiled-coil domains) member 1 PH domain.
Human PLEKHD1 (also called UPF0639, pleckstrin homology
domain containing, family D (with M protein repeats)
member 1) is a single transcript and contains a single
PH domain. PLEKHD1 is conserved in human, chimpanzee, ,
dog, cow, mouse, chicken, zebrafish, and Caenorhabditis
elegans. 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 = 139
Score = 29.6 bits (67), Expect = 1.00
Identities = 21/97 (21%), Positives = 33/97 (34%), Gaps = 15/97 (15%)
Query: 227 KKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDK---QETPIDVHR------IRSVKVSRGA 277
K+ + +W R+F L L Y E K + ++H +
Sbjct: 20 KRPFGRQSAKWSKRFFVLKECFLLYYAESEKKDFEKTRRFNIHPKGVIPLGGCSIEAGRD 79
Query: 278 RNIPKAFEI----FTGDDSLILKPKNGKNAEQWVQCL 310
P F I F G S+IL + + E W+ L
Sbjct: 80 PGRPYCFLISHPDFKG--SIILAADSEEEQESWLDML 114
>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 = 29.2 bits (66), Expect = 1.1
Identities = 24/106 (22%), Positives = 37/106 (34%), Gaps = 13/106 (12%)
Query: 223 QLKEKKGRWKIFKRWRTRYFTLSGAHLS-YKGSKEDKQETP---IDVHRIRSVKVSRGAR 278
+++ G WK K W F L A L Y+ S ++ ID+ +V R
Sbjct: 6 MKQDEDGEWK--KHW----FVLRDASLRYYRDSVAEEAGELDGVIDLSTCTNVTELPVQR 59
Query: 279 NIPKAFEIFTGDDSLI-LKPKNGKNAEQWVQCLSVVVAHSQAKEMP 323
N F+I T D L W+Q + ++P
Sbjct: 60 NY--GFQIKTWDGKRYVLSAMTSGIRRNWIQAIRKAAGLPSTPDLP 103
>gnl|CDD|241481 cd13327, PH_PLEKHM3, Pleckstrin homology domain-containing family M
member 3 Pleckstrin homology domain. PLEKHM3 (also
called differentiation associated protein/DAPR)(also
called differentiation associated protein/DAPR) exists
as three alternatively spliced isoforms that participate
in metal ion binding. It contains 2 PH domains and 1
phorbol-ester/DAG-type zinc finger domain. PLEKHM3 is
found in Humans, canines, bovine, mouse, rat, chicken
and zebrafish. PH domains have diverse functions, but in
generally 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 = 88
Score = 28.3 bits (63), Expect = 1.6
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 7/86 (8%)
Query: 227 KKGRWKIFKR---WRTRYFTLSGAHL---SYKGSKEDKQETPIDVHRIRSVKVSRGARNI 280
K G + W+ LS L +++ K V I V S
Sbjct: 1 KVGTLERRTDQSNWKAFTCELSPTSLYLYAFQPGKLQCSPLDYIVDCIELVNNS-KMDGD 59
Query: 281 PKAFEIFTGDDSLILKPKNGKNAEQW 306
F + + L L+ ++ + A+ W
Sbjct: 60 DVCFAVIFPNKVLRLRAESRQEAQDW 85
>gnl|CDD|241270 cd01237, PH_fermitin, Fermitin family pleckstrin homology (PH)
domain. Fermitin functions as a mediator of integrin
inside-out signalling. The recruitment of Fermitin
proteins and Talin to the membrane mediates the terminal
event of integrin signalling, via interaction with
integrin beta subunits. Fermatin has FERM domain
interrupted with a pleckstrin homology (PH) domain.
Fermitin family homologs (Fermt1, 2, and 3, also known
as Kindlins) are each encoded by a different gene. In
mammalian studies, Fermt1 is generally expressed in
epithelial cells, Fermt2 is expressed inmuscle tissues,
and Fermt3 is expressed in hematopoietic lineages.
Specifically Fermt2 is expressed in smooth and striated
muscle tissues in mice and in the somites (a trunk
muscle precursor) and neural crest in Xenopus embryos.
As such it has been proposed that Fermt2 plays a role in
cardiomyocyte and neural crest differentiation.
Expression of mammalian Fermt3 is associated with
hematopoietic lineages: the anterior ventral blood
islands, vitelline veins, and early myeloid cells. In
Xenopus embryos this expression, also include the
notochord and cement gland. 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 = 28.5 bits (64), Expect = 1.8
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 224 LKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVS 274
K KK K FKR+ +F HLSY SKE+ PI ++ +V+
Sbjct: 10 FKPKKFTLKGFKRY---WFVFKDTHLSYYKSKEESNGAPIQQINLKGCEVT 57
>gnl|CDD|241530 cd13379, PH_RhoGap24, Rho GTPase activating protein 24 Pleckstrin
homology (PH) domain. RhoGap24 (also called ARHGAP24,
p73RhoGAp, and Filamin-A-associated RhoGAP) like other
RhoGAPs are involved in cell polarity, cell morphology
and cytoskeletal organization. They act as GTPase
activators for the Rac-type GTPases by converting them
to an inactive GDP-bound state and control actin
remodeling by inactivating Rac downstream of Rho leading
to suppress leading edge protrusion and promotes cell
retraction to achieve cellular polarity and are able to
suppress RAC1 and CDC42 activity in vitro.
Overexpression of these proteins induces cell rounding
with partial or complete disruption of actin stress
fibers and formation of membrane ruffles, lamellipodia,
and filopodia. 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 = 114
Score = 28.4 bits (63), Expect = 1.9
Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 18/106 (16%)
Query: 222 GQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGARNIP 281
G L+++ G K W TR+F L G L Y K++ + P+ + +V+ N
Sbjct: 7 GWLRKQGG---FVKTWHTRWFVLKGDQLYY--FKDEDETKPLGTIFLPGNRVTEHPCNEE 61
Query: 282 KA----FEIFTGDD---------SLILKPKNGKNAEQWVQCLSVVV 314
+ FE+ G D + +L + E WV+ + V+
Sbjct: 62 EPGKFLFEVVPGGDRERMTANHETYLLMASTQNDMEDWVKSIRRVI 107
>gnl|CDD|222858 PHA02533, 17, large terminase protein; Provisional.
Length = 534
Score = 30.0 bits (68), Expect = 2.2
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 125 TDKMLAEVWQCSRNRYNHTSTYWSATHYQLDLIRCQVY 162
T +M+AE +C + Y + TH I+ Q+
Sbjct: 24 TKEMVAEWKKCRDDIVYFAENYCAITHIDYGTIKVQMR 61
>gnl|CDD|173947 cd08188, Fe-ADH4, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenase-like. Alcohol
dehydrogenase catalyzes the reduction of acetaldehyde to
alcohol with NADP as cofactor. Its activity requires
iron ions. The protein structure represents a
dehydroquinate synthase-like fold and is belonged to the
alcohol dehydrogenase-like superfamily. They are
distinct from other alcohol dehydrogenases which contain
different protein domains. Proteins of this family have
not been characterized. Their specific function is
unknown.
Length = 377
Score = 29.5 bits (67), Expect = 2.6
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 87 AQDALNFILAHLPKADRSSQSVLLREATLLCSTY 120
A +A+ I A+LP A + + RE+ +L S
Sbjct: 213 ALEAIRLIAANLPPAIANPTDLEARESMMLASLQ 246
>gnl|CDD|241285 cd01254, PH_PLD, Phospholipase D pleckstrin homology (PH) domain.
PLD hydrolyzes phosphatidylcholine to phosphatidic acid
(PtdOH), which can bind target proteins. PLD contains a
PH domain, a PX domain and four conserved PLD signature
domains. The PLD PH domain is specific for
bisphosphorylated inositides. 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 = 134
Score = 28.4 bits (64), Expect = 2.9
Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 17/88 (19%)
Query: 232 KIFKRWRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSV-------KVSRGAR--NIPK 282
+ RW R+F + + L+Y D +I V KVSRG +
Sbjct: 52 SMCSRWSKRWFIVKDSFLAYV--------DDPDSGKILDVFLFDKEFKVSRGKKETGSRH 103
Query: 283 AFEIFTGDDSLILKPKNGKNAEQWVQCL 310
+I +L +K K+ + A++WV+ +
Sbjct: 104 GLKITNLSRTLKIKCKSYRKAKEWVESI 131
>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 = 28.0 bits (63), Expect = 2.9
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 214 QDSHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHL-SYKGSKEDK 258
++ V G L ++ G K W+ R+F L L YK +E+K
Sbjct: 3 PNAPVVFSGWLHKQGG--SGLKNWKKRWFVLKDNCLYYYKDPEEEK 46
>gnl|CDD|241432 cd13278, PH_Bud4, Bud4 Pleckstrin homology (PH) domain. Bud4 is an
anillin-like yeast protein involved in the formation and
the disassembly of the double ring structure formed by
the septins during cytokinesis. Bud4 acts with Bud3 and
and in parallel with septin phosphorylation by the
p21-activated kinase Cla4 and the septin-dependent
kinase Gin4. Bud4 is regulated by the cyclin-dependent
protein kinase Cdk1, the master regulator of cell cycle
progression. Bud4 contains an anillin-like domain
followed by a PH domain. In addition there are two
consensus Cdk phosphorylation sites: one at the
N-terminus and one right before the C-terminal PH
domain. Anillins also have C-terminal PH domains. 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 = 139
Score = 28.3 bits (64), Expect = 3.1
Identities = 20/97 (20%), Positives = 32/97 (32%), Gaps = 19/97 (19%)
Query: 237 WRTRYFTLSGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGARNIPKA---FEIFTG---- 289
WR R+F L G L E ++ ++ ++ V V + FT
Sbjct: 35 WRRRFFKLQGTKLV--AYHEVTRKPRATINLLKVVDVVDDDDARERTSSFKRNFTDLVLF 92
Query: 290 DDSLILKPKNGK----NAE------QWVQCLSVVVAH 316
++ L NG+ A+ W L VV
Sbjct: 93 EECFRLVFANGEVIDFYADSKEEKADWYSKLKEVVEL 129
>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 = 28.1 bits (63), Expect = 3.1
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 221 EGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDK 258
G L +K G K +W RY + + Y + +
Sbjct: 12 SGYLTKKGGSQKQLLKWPLRYVIIHKGCVYYFKNSQSA 49
>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 = 27.3 bits (61), Expect = 4.3
Identities = 17/87 (19%), Positives = 36/87 (41%), Gaps = 15/87 (17%)
Query: 232 KIFKRWRTRYFTLSGAHLSYKGSKEDKQETPI----DVHRIRSVKVSRGARNIPKAFEIF 287
+F++ R+ G L Y S+++ I + +RSV ++ FE+
Sbjct: 15 YVFQK---RWVVFDGDSLRYFNSEKEMYSKGIIPLSSIKTVRSVGDNK--------FEVV 63
Query: 288 TGDDSLILKPKNGKNAEQWVQCLSVVV 314
TG+ + + + ++ WV L +
Sbjct: 64 TGNRTFVFRAESEDERNLWVSTLMAAI 90
>gnl|CDD|188637 cd00950, DHDPS, Dihydrodipicolinate synthase (DHDPS).
Dihydrodipicolinate synthase (DHDPS) is a key enzyme in
lysine biosynthesis. It catalyzes the aldol condensation
of L-aspartate-beta- semialdehyde and pyruvate to
dihydropicolinic acid via a Schiff base formation
between pyruvate and a lysine residue. The functional
enzyme is a homotetramer consisting of a dimer of
dimers. DHDPS is member of dihydrodipicolinate synthase
family that comprises several pyruvate-dependent class I
aldolases that use the same catalytic step to catalyze
different reactions in different pathways.
Length = 284
Score = 28.6 bits (65), Expect = 4.3
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 272 KVSRGARNIPKAFEIFTGDDSLIL 295
+VS P F + +GDD+L L
Sbjct: 168 RVSELIALCPDDFAVLSGDDALTL 191
>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 1046
Score = 28.8 bits (64), Expect = 4.6
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 246 GAHLSYKGSKEDKQETPIDVHRIRSVKVSRGARNI 280
G + SYKGSK D+ PID I +K RG N+
Sbjct: 792 GTYSSYKGSKWDRGYLPIDT--IELLKEYRGEANL 824
>gnl|CDD|139997 PRK13938, PRK13938, phosphoheptose isomerase; Provisional.
Length = 196
Score = 28.2 bits (62), Expect = 4.8
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 192 GGKEASWGCFLCNHPERAVGFLQDSHPVIEGQLKE 226
GG+ A + FL N P R G +Q+SH V + E
Sbjct: 151 GGQLAEFADFLINVPSRDTGRIQESHIVFIHAISE 185
>gnl|CDD|241267 cd01234, PH_CADPS, Ca2+-dependent activator protein (also called
CAPS) Pleckstrin homology (PH) domain. CADPS/CAPS
consists of two members, CAPS1 which regulates
catecholamine release from neuroendocrine cells and
CAPS2 which is involved in the release of two
neurotrophins, brain-derived neurotrophic factor (BDNF)
and neurotrophin-3 (NT-3) from cerebellar granule cells.
CADPS plays an important role in vesicle exocytosis in
neurons and endocrine cells where it functions to prime
the exocytic machinery for Ca2+-triggered fusion.
Priming involves the assembly of trans SNARE complexes.
The initial interaction of vesicles with target
membranes is mediated by diverse stage-specific
tethering factors or multi-subunit tethering complexes.
CADPS and Munc13 proteins are proposed to be the
functional homologs of the stage-specific tethering
factors that prime membrane fusion. Interestingly,
regions in the C-terminal half of CADPS are similar to
the C-terminal region of Munc13-1 that was reported to
bind syntaxin-1. CADPS has independent interactions with
each of the SNARE proteins (Q-SNARE and R-SNARE)
required for vesicle fusion. CADPS interacts with
Q-SNARE proteins syntaxin-1 (H3 SNARE) and SNAP-25 (SN1)
and might promote Q-SNARE heterodimer formation. Through
its N-terminal R-SNARE VAMP-2 interactions, CADPS bound
to heterodimeric Q-SNARE complexes could be involved in
catalyzing the zippering of VAMP-2 into recipient
complexes. It also contains a central PH domain that
binds to phosphoinositide 4,5 bisphosphate containing
liposomes. Membrane association may also be mediated by
binding to phosphatidlyserine via general electrostatic
interactions. 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 = 122
Score = 27.3 bits (61), Expect = 5.1
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 232 KIFKRWRTRYFTL------SGAHLSYKGSKEDKQE 260
++K+W+ RYF L + A SY+ K + QE
Sbjct: 20 SVWKKWKKRYFVLVQVSQYTFAMCSYREKKSEPQE 54
>gnl|CDD|220925 pfam10987, DUF2806, Protein of unknown function (DUF2806). This
bacterial family of proteins has no known function.
Length = 223
Score = 28.0 bits (63), Expect = 5.3
Identities = 17/98 (17%), Positives = 34/98 (34%), Gaps = 9/98 (9%)
Query: 207 ERAVGFL----QDSHPVIEGQLKEKKGRWKIFKRWRTRYFTLSGAHLSYKGSKEDKQETP 262
++A DS + ++ G + +F++ T L L Y T
Sbjct: 97 QKACSLAVKVGGDSSLKLLLGYYKQGGLFSLFRKSSTENLNLGQFGLPYSSLL-----TL 151
Query: 263 IDVHRIRSVKVSRGARNIPKAFEIFTGDDSLILKPKNG 300
++ + S ++ G + + SL L PK+
Sbjct: 152 QELGLLHSSELESGELPKDQYLPLSYSGKSLSLTPKSS 189
>gnl|CDD|237117 PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.
Length = 1310
Score = 28.4 bits (64), Expect = 6.3
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 85 DKAQDALNFILAH 97
KAQDA FIL+H
Sbjct: 168 GKAQDARTFILSH 180
>gnl|CDD|200583 cd10960, CE4_NodB_like_1, Catalytic NodB homology domain of
uncharacterized bacterial polysaccharide deacetylases.
This family includes many uncharacterized bacterial
polysaccharide deacetylases. Although their biological
function still remains unknown, members in this family
show high sequence homology to the catalytic NodB
homology domain of Streptococcus pneumoniae
polysaccharide deacetylase PgdA (SpPgdA), which is an
extracellular metal-dependent polysaccharide deacetylase
with de-N-acetylase activity toward a hexamer of
chitooligosaccharide N-acetylglucosamine, but not
shorter chitooligosaccharides or a synthetic
peptidoglycan tetrasaccharide. Like SpPgdA, this family
is a member of the carbohydrate esterase 4 (CE4)
superfamily.
Length = 238
Score = 28.0 bits (63), Expect = 6.4
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 9/46 (19%)
Query: 209 AVGFLQDSHPVIEGQLKEKKGRWKIFKRWRTRYFTL---SGAHLSY 251
A GF V EG+L+ ++ + WR L + +H S
Sbjct: 40 AYGF------VNEGKLENDPDGIELLEAWRDAGHELGNHTYSHPSL 79
>gnl|CDD|241278 cd01247, PH_FAPP1_FAPP2, Four phosphate adaptor protein 1 and 2
Pleckstrin homology (PH) domain. Human FAPP1 (also
called PLEKHA3/Pleckstrin homology domain-containing,
family A member 3) regulates secretory transport from
the trans-Golgi network to the plasma membrane. It is
recruited through binding of PH domain to
phosphatidylinositol 4-phosphate (PtdIns(4)P) and a
small GTPase ADP-ribosylation factor 1 (ARF1). These two
binding sites have little overlap the FAPP1 PH domain to
associate with both ligands simultaneously and
independently. FAPP1 has a N-terminal PH domain followed
by a short proline-rich region. FAPP1 is a member of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), and Goodpasture
antigen binding protein (GPBP). They have a wide range
of purported functions including sterol transport, cell
cycle control, pollen development and vessicle transport
from Golgi recognize both PI lipids and ARF proteins.
FAPP2 (also called PLEKHA8/Pleckstrin homology
domain-containing, family A member 8), a member of the
Glycolipid lipid transfer protein(GLTP) family has an
N-terminal PH domain that targets the TGN and C-terminal
GLTP domain. FAPP2 functions to traffic glucosylceramide
(GlcCer) which is made in the Golgi. It's interaction
with vesicle-associated membrane protein-associated
protein (VAP) could be a means of regulation. Some
FAPP2s share the FFAT-like motifs found in GLTP. 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 = 100
Score = 26.9 bits (60), Expect = 6.5
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 237 WRTRYFTLSGAHLSYKGSKED 257
W+ R+F L LSY S+E+
Sbjct: 15 WQPRWFVLDDGVLSYYKSQEE 35
>gnl|CDD|241438 cd13284, PH_OSBP_ORP4, Human Oxysterol binding protein and
OSBP-related protein 4 Pleckstrin homology (PH) domain.
Human OSBP is proposed to function is sterol-dependent
regulation of ERK dephosphorylation and sphingomyelin
synthesis as well as modulation of insulin signaling and
hepatic lipogenesis. It contains a N-terminal PH domain,
a FFAT motif (two phenylalanines in an acidic tract),
and a C-terminal OSBP-related domain. OSBPs and Osh1p PH
domains specifically localize to the Golgi apparatus in
a PtdIns4P-dependent manner. ORP4 is proposed to
function in Vimentin-dependent sterol transport and/or
signaling. Human ORP4 has 2 forms, a long (ORP4L) and a
short (ORP4S). ORP4L contains a N-terminal PH domain, a
FFAT motif (two phenylalanines in an acidic tract), and
a C-terminal OSBP-related domain. ORP4S is truncated and
contains only an OSBP-related domain. Oxysterol binding
proteins are a multigene family that is conserved in
yeast, flies, worms, mammals and plants. They all
contain a C-terminal oxysterol binding domain, and most
contain an N-terminal PH domain. OSBP PH domains bind to
membrane phosphoinositides and thus likely play an
important role in intracellular targeting. They are
members of the oxysterol binding protein (OSBP) family
which includes OSBP, OSBP-related proteins (ORP),
Goodpasture antigen binding protein (GPBP), and Four
phosphate adaptor protein 1 (FAPP1). They have a wide
range of purported functions including sterol transport,
cell cycle control, pollen development and vessicle
transport from Golgi recognize both PI lipids and ARF
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 = 99
Score = 26.9 bits (60), Expect = 6.6
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 235 KRWRTRYFTLSGAHLSYKGSKEDKQET 261
K ++ R+F LS LSY ++ + T
Sbjct: 13 KGYQRRWFVLSNGLLSYYRNQAEMAHT 39
>gnl|CDD|233013 TIGR00540, TPR_hemY_coli, heme biosynthesis-associated TPR protein.
Members of this protein family are uncharacterized
tetratricopeptide repeat (TPR) proteins invariably found
in heme biosynthesis gene clusters. The absence of any
invariant residues other than Ala argues against this
protein serving as an enzyme per se. The gene symbol
hemY assigned in E. coli is unfortunate in that an
unrelated protein, protoporphyrinogen oxidase (HemG in
E. coli) is designated HemY in Bacillus subtilis
[Unknown function, General].
Length = 367
Score = 28.0 bits (63), Expect = 6.6
Identities = 18/92 (19%), Positives = 38/92 (41%), Gaps = 3/92 (3%)
Query: 27 LATNSTILATMQIFLHLAEKRPQLLVDYVPKLKQANEGNANTLCVTVQVVAAVGRLNK-- 84
A T + + + + L+ +P L++A + ++ A +G L++
Sbjct: 163 QAPRHTAVLRLALRAYQRSGNWDALLKLLPALRKAKALSPEEA-ARLEQQAYIGLLDEAR 221
Query: 85 DKAQDALNFILAHLPKADRSSQSVLLREATLL 116
++ DAL LP+A+R + + A L
Sbjct: 222 EEDADALKTWWKQLPRAERQEPELAVAAAEAL 253
>gnl|CDD|241420 cd13266, PH_Skap_family, Src kinase-associated phosphoprotein
family Pleckstrin homology (PH) domain. Skap adaptor
proteins couple receptors to cytoskeletal
rearrangements. Src kinase-associated phosphoprotein of
55 kDa (Skap55)/Src kinase-associated phosphoprotein 1
(Skap1), Skap2, and Skap-homology (Skap-hom) have an
N-terminal coiled-coil conformation, a central PH domain
and a C-terminal SH3 domain. Their PH domains bind
3'-phosphoinositides as well as directly affecting
targets such as in Skap55 where it directly affecting
integrin regulation by ADAP and NF-kappaB activation or
in Skap-hom where the dimerization and PH domains
comprise a 3'-phosphoinositide-gated molecular switch
that controls ruffle formation. PH domains are only
found in eukaryotes. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. 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 = 26.7 bits (59), Expect = 7.6
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 5/99 (5%)
Query: 221 EGQLKEKKGRWKIF-KRWRTRYFTLSGAHLSYKGSKEDKQ---ETPIDVHRIRSVKVSRG 276
+G L++++ F W+ R+ LS Y GS++DKQ E ID +R R R
Sbjct: 4 QGYLEKRRKDHSFFGSEWQKRWCVLSNTAFYYYGSEKDKQQKGEFAIDGYRARMNPTLRK 63
Query: 277 ARNIPKAFEIFTGDDSLI-LKPKNGKNAEQWVQCLSVVV 314
FEI D + + K A +WV + ++
Sbjct: 64 DSKKDCCFEISAPDKRVYQFTAASPKEAREWVDQIKFLL 102
>gnl|CDD|239123 cd02658, Peptidase_C19B, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 311
Score = 28.1 bits (63), Expect = 7.6
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 8 NLCGGYKLLEASLPQLCEYL-ATNSTILATMQIFLHLAEKRPQLLVDYVPK 57
+ E E AT +T T +L + KR QLL ++VPK
Sbjct: 186 AYFAPETI-EDFCSTCKEKTTATKTTGFKTFPDYLVINMKRFQLLENWVPK 235
>gnl|CDD|213592 TIGR01179, galE, UDP-glucose-4-epimerase GalE. Alternate name:
UDPgalactose 4-epimerase This enzyme interconverts
UDP-glucose and UDP-galactose. A set of related
proteins, some of which are tentatively identified as
UDP-glucose-4-epimerase in Thermotoga maritima, Bacillus
halodurans, and several archaea, but deeply branched
from this set and lacking experimental evidence, are
excluded from This model and described by a separate
model [Energy metabolism, Sugars].
Length = 328
Score = 27.7 bits (62), Expect = 8.1
Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 10/53 (18%)
Query: 240 RYFTLSGAHLSYK-GSKEDKQETPIDVHRIRSV-KVSRGARNIPKAFEIFTGD 290
RYF ++GAH S G ED H I +V+ G R IF D
Sbjct: 172 RYFNVAGAHPSGDIG--EDPPGIT---HLIPYACQVAVGKR---DKLTIFGTD 216
>gnl|CDD|241535 cd13384, PH_Gab2_2, Grb2-associated binding protein family
pleckstrin homology (PH) domain. The Gab subfamily
includes several Gab proteins, Drosophila DOS and C.
elegans SOC-1. They are scaffolding adaptor proteins,
which possess N-terminal PH domains and a C-terminus
with proline-rich regions and multiple phosphorylation
sites. Following activation of growth factor receptors,
Gab proteins are tyrosine phosphorylated and activate
PI3K, which generates 3-phosphoinositide lipids. By
binding to these lipids via the PH domain, Gab proteins
remain in proximity to the receptor, leading to further
signaling. While not all Gab proteins depend on the PH
domain for recruitment, it is required for Gab activity.
Members here include insect, nematodes, and crustacean
Gab2s. 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 = 115
Score = 26.6 bits (59), Expect = 8.3
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 219 VIEGQLKEKKGRWKIFK-RWRTRYFTL 244
V EG L + +I++ +WR RYF L
Sbjct: 4 VYEGWLTKSPPEKRIWRAKWRRRYFVL 30
>gnl|CDD|184693 PRK14467, PRK14467, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 348
Score = 27.8 bits (62), Expect = 8.4
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 62 NEGNANTLCVTVQVVAAVG 80
E + TLCV+ QV AVG
Sbjct: 94 KERDHLTLCVSSQVGCAVG 112
>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 = 26.5 bits (59), Expect = 8.9
Identities = 24/95 (25%), Positives = 37/95 (38%), Gaps = 17/95 (17%)
Query: 223 QLKEKKGRWKIFKRWRTRYFTL--SGAHLSYKGSKEDKQETPIDVHRIRSVKVSRGARNI 280
E KG + K W++R+F L Y +P D+ + S+ +S A +
Sbjct: 7 NKLETKG---LLKTWKSRWFVFDERKCQLYY-------YRSPQDITPLGSIDLSGAAFSY 56
Query: 281 -----PKAFEIFTGDDSLILKPKNGKNAEQWVQCL 310
FEI T ILK + + W+Q L
Sbjct: 57 DPEAEKGTFEIHTPGRVYILKASDRQAMLYWLQEL 91
>gnl|CDD|241540 cd13389, PH1_FGD5_FGD6, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia proteins 5 and 6
Pleckstrin Homology (PH) domain. FGD5 regulates
promotes angiogenesis of vascular endothelial growth
factor (VEGF) in vascular endothelial cells, including
network formation, permeability, directional movement,
and proliferation. The specific function of FGD6 is
unknown. In general, FGDs have a RhoGEF (DH) domain,
followed by a PH domain, a FYVE domain and a C-terminal
PH domain. All FGDs are guanine nucleotide exchange
factors that activate the Rho GTPase Cdc42, an important
regulator of membrane trafficking. The RhoGEF domain is
responsible for GEF catalytic activity, while the PH
domain is involved in intracellular targeting of the DH
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 = 125
Score = 26.8 bits (60), Expect = 8.9
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 271 VKVSRGAR-NIPKAFEIFTGDDSLILKPKNGKNAEQWVQCLS 311
+KVS F+I + S L + + ++WV+ LS
Sbjct: 64 MKVSLPEDEEYSNEFQIESTKRSFTLSASSAEERDEWVKALS 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 0.134 0.411
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: 16,461,456
Number of extensions: 1518060
Number of successful extensions: 1283
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1268
Number of HSP's successfully gapped: 71
Length of query: 334
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 237
Effective length of database: 6,635,264
Effective search space: 1572557568
Effective search space used: 1572557568
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.7 bits)