RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10626
(344 letters)
>gnl|CDD|241307 cd10571, PH_beta_spectrin, Beta-spectrin pleckstrin homology (PH)
domain. Beta spectrin binds actin and functions as a
major component of the cytoskeleton underlying cellular
membranes. Beta spectrin consists of multiple spectrin
repeats followed by a PH domain, which binds to
inositol-1,4,5-trisphosphate. The PH domain of
beta-spectrin is thought to play a role in the
association of spectrin with the plasma membrane of
cells. PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 105
Score = 168 bits (429), Expect = 1e-52
Identities = 57/105 (54%), Positives = 69/105 (65%), Gaps = 1/105 (0%)
Query: 51 IQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDF-VASKAATSPIIIFKA 109
++G LERKHEL+SGGKKA+ RSWK +Y VL GQ L F+KDQ S A P+ + A
Sbjct: 1 MEGFLERKHELESGGKKASNRSWKKVYCVLKGQELSFYKDQKAAASESYAGEPPLNLSGA 60
Query: 110 RCEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISFH 154
CE A DY K+KHVFRL +DGSE+LF A E M DWV K+
Sbjct: 61 VCEVASDYKKKKHVFRLRLSDGSEYLFQAKDEEEMNDWVQKLQAA 105
>gnl|CDD|241284 cd01253, PH_ARHGAP21-like, ARHGAP21 and related proteins pleckstrin
homology (PH) domain. ARHGAP family genes encode
Rho/Rac/Cdc42-like GTPase activating proteins with a
RhoGAP domain. These proteins functions as a
GTPase-activating protein (GAP) for RHOA and CDC42.
ARHGAP21 controls the Arp2/3 complex and F-actin
dynamics at the Golgi complex by regulating the activity
of the small GTPase Cdc42. It is recruited to the Golgi
by to GTPase, ARF1, through its PH domain and its
helical motif. It is also required for CTNNA1
recruitment to adherens junctions. ARHGAP21 and it
related proteins all contains a PH domain and a RhoGAP
domain. Some of the members have additional N-terminal
domains including PDZ, SH3, and SPEC. The ARHGAP21 PH
domain interacts with the GTPbound forms of both ARF1
and ARF6 ARF-binding domain/ArfBD. The members here
include: ARHGAP15, ARHGAP21, and ARHGAP23. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 113
Score = 87.4 bits (217), Expect = 2e-21
Identities = 39/105 (37%), Positives = 54/105 (51%), Gaps = 6/105 (5%)
Query: 52 QGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDD-----FVASKAATSPIII 106
+G L K + GK+A+ RSWK ++ VL G L +KD+ + A + I I
Sbjct: 3 EGWLHFKQSVLEKGKRASDRSWKQVWAVLRGHSLYLYKDKRETSPALSAAEDSEQ-RIDI 61
Query: 107 FKARCEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKI 151
+ A YTKRK+VFRL +DGSE+LF A M W+ I
Sbjct: 62 RSCIVDIAYSYTKRKNVFRLTTSDGSEYLFQAEDRDDMLGWIKAI 106
>gnl|CDD|241449 cd13295, PH_EFA6, Exchange Factor for ARF6 Pleckstrin homology (PH)
domain. EFA6 (also called PSD/pleckstrin and Sec7
domain containing) is an guanine nucleotide exchange
factor for ADP ribosylation factor 6 (ARF6), which is
involved in membrane recycling. EFA6 has four
structurally related polypeptides: EFA6A, EFA6B, EFA6C
and EFA6D. It consists of a N-terminal proline rich
region (PR), a SEC7 domain, a PH domain, a PR, a
coiled-coil region, and a C-terminal PR. The EFA6 PH
domain regulates its association with the plasma
membrane. EFA6 activates Arf6 through its Sec7 catalytic
domain and modulates this activity through its
C-terminal domain, which rearranges the actin
cytoskeleton in fibroblastic cell lines. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 126
Score = 82.0 bits (203), Expect = 3e-19
Identities = 41/116 (35%), Positives = 55/116 (47%), Gaps = 8/116 (6%)
Query: 52 QGVLERKHELQSGGKK--AAVRSWKSLYTVLCGQLLCFFKDQDDF---VASKAATSPIII 106
+G L RK GKK R WK Y L G +L KD+ ++ ++ + I +
Sbjct: 9 KGYLMRKCHADPDGKKTPRGKRGWKMFYATLKGLVLYLHKDEYGCKKQLSYESLRNAISV 68
Query: 107 FKARCEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISFHAQL---PP 159
+ EKA DYTK+ HVFRL D EFLF A M+ W+ I+ A PP
Sbjct: 69 HHSLAEKATDYTKKPHVFRLQTADWREFLFQASDTEEMQSWIEAINLVAAAFSAPP 124
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 62.1 bits (151), Expect = 3e-12
Identities = 30/109 (27%), Positives = 43/109 (39%), Gaps = 11/109 (10%)
Query: 49 VEIQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFK 108
V +G L +K +SWK Y VL +L ++KD +S I +
Sbjct: 1 VIKEGWLLKKGSGGR-------KSWKKRYFVLFDGVLLYYKDSKK--SSSRPKGSIPLSG 51
Query: 109 ARCEKAGDYT--KRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISFHA 155
+ K D KRK+ F + D FL A SE ++WV I
Sbjct: 52 CQVTKVPDSEDGKRKNCFEIRTGDRETFLLQAESEEERKEWVKAIRSAI 100
>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 = 61.8 bits (150), Expect = 4e-12
Identities = 29/110 (26%), Positives = 42/110 (38%), Gaps = 10/110 (9%)
Query: 49 VEIQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFK 108
V +G L +K +SWK Y VL L ++K + D + K S I +
Sbjct: 1 VIKEGWLYKK-------SGGGKKSWKKRYFVLFNSTLLYYKSKKDKKSYKPKGS-IDLSG 52
Query: 109 ARCEKAGDYT--KRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISFHAQ 156
+A D K+ H F + +D L A SE E WV +
Sbjct: 53 CTVREAPDPDSSKKPHCFEIKTSDRKTLLLQAESEEEREKWVEALRKAIA 102
>gnl|CDD|241387 cd13233, PH_ARHGAP9-like, Beta-spectrin pleckstrin homology (PH)
domain. ARHGAP family genes encode Rho/Rac/Cdc42-like
GTPase activating proteins with RhoGAP domain. The
ARHGAP members here all have a PH domain upstream of
their C-terminal RhoGAP domain. Some have additional
N-terminal SH3 and WW domains. The members here include:
ARHGAP9, ARHGAP12, ARHGAP15, and ARHGAP27. ARHGAP27 and
ARHGAP12 shared the common-domain structure, consisting
of SH3, WW, PH, and RhoGAP domains. The PH domain of
ArhGAP9 employs a non-canonical phosphoinositide binding
mechanism, a variation of the spectrin-
Ins(4,5)P2-binding mode, that gives rise to a unique PI
binding profile, namely a preference for both PI(4,5)P2
and the PI 3-kinase products PI(3,4,5)P3 and PI(3,4)P2.
This lipid binding mechanism is also employed by the PH
domain of Tiam1 and Slm1. 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 = 54.2 bits (131), Expect = 2e-09
Identities = 32/105 (30%), Positives = 54/105 (51%), Gaps = 6/105 (5%)
Query: 52 QGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATS-PIIIFK-- 108
QG+L + ++G K ++W + + VL G L F+KDQ AS S P
Sbjct: 3 QGLLNKTKIAENGKKLR--KNWSTSWVVLTGSHLLFYKDQKSAAASGGPQSKPESSVDLR 60
Query: 109 -ARCEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKIS 152
A E A + + RK+VF+L G+E+L + ++T +++W + I
Sbjct: 61 GASIEWAKEKSSRKNVFQLSTVTGTEYLLQSDNDTEIQEWFDAIK 105
>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 = 47.7 bits (113), Expect = 3e-07
Identities = 21/101 (20%), Positives = 41/101 (40%), Gaps = 10/101 (9%)
Query: 51 IQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKAR 110
+G L+++ ++SWK + VL +L ++K + D +SK I +
Sbjct: 1 KEGWLKKRGGK-------GLKSWKKRWFVLFDDVLLYYKSKKD--SSKKPKGLIPLSDGL 51
Query: 111 CEKAGDYTKRKHVFRLYCTDGSE-FLFLAPSETLMEDWVNK 150
+ + + + F L D + A SE E+W+
Sbjct: 52 EVELVSSSGKPNCFELVTPDRGRTYYLQAESEEEREEWLEA 92
>gnl|CDD|241480 cd13326, PH_CNK_insect-like, Connector enhancer of KSR (Kinase
suppressor of ras) (CNK) pleckstrin homology (PH)
domain. CNK family members function as protein
scaffolds, regulating the activity and the subcellular
localization of RAS activated RAF. There is a single CNK
protein present in Drosophila and Caenorhabditis elegans
in contrast to mammals which have 3 CNK proteins (CNK1,
CNK2, and CNK3). All of the CNK members contain a
sterile a motif (SAM), a conserved region in CNK (CRIC)
domain, and a PSD-95/DLG-1/ZO-1 (PDZ) domain, and a PH
domain. A CNK2 splice variant CNK2A also has a PDZ
domain-binding motif at its C terminus and Drosophila
CNK (D-CNK) also has a domain known as the
Raf-interacting region (RIR) that mediates binding of
the Drosophila Raf kinase. This cd contains CNKs from
insects, spiders, mollusks, and nematodes. 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 = 90
Score = 43.5 bits (103), Expect = 8e-06
Identities = 29/100 (29%), Positives = 45/100 (45%), Gaps = 10/100 (10%)
Query: 51 IQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKAR 110
QG L ++ GG K W + VL G L F+ Q+ +KA I +
Sbjct: 1 YQGWLYQRRRKGKGGGK-----WAKRWFVLKGSNLYGFRSQES---TKADCV-IFLPGFT 51
Query: 111 CEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNK 150
A + RK+ F++Y T G+ F F A S+ M+ W++
Sbjct: 52 VSPAPEVKSRKYAFKVYHT-GTVFYFAAESQEDMKKWLDL 90
>gnl|CDD|241264 cd01230, PH1_Tiam1_2, T-lymphoma invasion and metastasis 1 and 2
Pleckstrin Homology (PH) domain, N-terminal domain.
Tiam1 activates Rac GTPases to induce membrane ruffling
and cell motility while Tiam2 (also called STEF (SIF
(still life) and Tiam1 like-exchange factor) contributes
to neurite growth. Tiam1/2 are Dbl-family of GEFs that
possess a Dbl(DH) domain with a PH domain in tandem.
DH-PH domain catalyzes the GDP/GTP exchange reaction in
the GTPase cycle and facillitating the switch between
inactive GDP-bound and active GTP-bound states. Tiam1/2
possess two PH domains, which are often referred to as
PHn and PHc domains. The DH-PH tandem domain is made up
of the PHc domain while the PHn is part of a novel
N-terminal PHCCEx domain which is made up of the PHn
domain, a coiled coil region(CC), and an extra region
(Ex). PHCCEx mediates binding to plasma membranes and
signalling proteins in the activation of Rac GTPases.
The PH domain resembles the beta-spectrin PH domain,
suggesting non-canonical phosphatidylinositol binding.
CC and Ex form a positively charged surface for protein
binding. There are 2 motifs in Tiam1/2-interacting
proteins that bind to the PHCCEx domain: Motif-I in
CD44, ephrinBs, and the NMDA receptor and Motif-II in
Par3 and JIP2.Neither of these fall in the PHn domain.
PH domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 127
Score = 42.4 bits (100), Expect = 4e-05
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 2/86 (2%)
Query: 68 AAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARC--EKAGDYTKRKHVFR 125
A+ R WK + L G L F++ + +T +F + ++ K+ +VF
Sbjct: 26 ASRRKWKKYWVTLKGCTLLFYECDERTGIDDNSTPKHALFVEGSIAQAVPEHPKKDNVFC 85
Query: 126 LYCTDGSEFLFLAPSETLMEDWVNKI 151
L + G +LF A S+T +E+W+ I
Sbjct: 86 LSNSFGDAYLFQATSQTELENWITAI 111
>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 = 39.5 bits (93), Expect = 3e-04
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 71 RSWKSLYTVLCGQLLCFFKDQDDFVASKAA----TSPIIIFKARCEKAGDYTKRKHVFRL 126
++WK + VL L ++KD+ + K S + A + KRK+VF +
Sbjct: 20 KTWKKRWFVLRPCQLSYYKDEKE---YKLRRVINLSELTAV-APLKDK----KRKNVFAI 71
Query: 127 YCTDGSEFLFLAPSETLMEDWVNKI 151
Y T + F A SE +WV I
Sbjct: 72 Y-TPSKNYHFQASSEKDANEWVEAI 95
>gnl|CDD|241421 cd13267, PH_DOCK-D, Dedicator of cytokinesis-D subfamily Pleckstrin
homology (PH) domain. DOCK-D subfamily (also called
Zizimin subfamily) consists of Dock9/Zizimin1,
Dock10/Zizimin3, and Dock11/Zizimin2. DOCK-D has a
N-terminal DUF3398 domain, a PH-like domain, a Dock
Homology Region 1, DHR1 (also called CZH1), a C2 domain,
and a C-terminal DHR2 domain (also called CZH2).
Zizimin1 is enriched in the brain, lung, and kidney;
zizimin2 is found in B and T lymphocytes, and zizimin3
is enriched in brain, lung, spleen and thymus. Zizimin1
functions in autoinhibition and membrane targeting.
Zizimin2 is an immune-related and age-regulated guanine
nucleotide exchange factor, which facilitates filopodial
formation through activation of Cdc42, which results in
activation of cell migration. No function has been
determined for Zizimin3 to date. The N-terminal half of
zizimin1 binds to the GEF domain through three distinct
areas, including CZH1, to inhibit the interaction with
Cdc42. In addition its PH domain binds phosphoinositides
and mediates zizimin1 membrane targeting. DOCK is a
family of proteins involved in intracellular signalling
networks. They act as guanine nucleotide exchange
factors for small G proteins of the Rho family, such as
Rac and Cdc42. There are 4 subfamilies of DOCK family
proteins based on their sequence homology: A-D. 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 = 38.8 bits (91), Expect = 6e-04
Identities = 29/106 (27%), Positives = 49/106 (46%), Gaps = 12/106 (11%)
Query: 52 QGVLERKHELQSGGKKAAVRSWKSLYTVLCGQ-----LLCFFKDQDDFVASKAATSPIII 106
+G L + E S A++S+K + L +L F+KD+ K+ + I
Sbjct: 9 EGYLYKGPENSSMFISLAMKSFKRRFFHLKQLVDGSYILEFYKDE------KSKEAKGTI 62
Query: 107 FKARCEKAGDYTK-RKHVFRLYCTDGSEFLFLAPSETLMEDWVNKI 151
+ C +K RK F L DG ++ A SE+ M+DW++K+
Sbjct: 63 YLDSCTGVVQNSKRRKFCFELRMQDGKSYVLAAESESEMDDWISKL 108
>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 = 38.0 bits (89), Expect = 7e-04
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 11/86 (12%)
Query: 70 VRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPI-IIFKARCEKAG-DYTKRK-HVFRL 126
V++WK+ + VL L +FK + D T PI + C DY++ K + FRL
Sbjct: 16 VKNWKTRWFVLRKNELKYFKTRTD-------TKPIRTLDLTECSSVQADYSQGKPNCFRL 68
Query: 127 YCTDGSEFLFLAPSETLMEDWVNKIS 152
F A +E ++WV +
Sbjct: 69 -VFPDRTFYMYAKTEEEADEWVKLLK 93
>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 = 37.7 bits (88), Expect = 0.001
Identities = 25/99 (25%), Positives = 42/99 (42%), Gaps = 22/99 (22%)
Query: 67 KAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKA------ATSPIIIFKARCEKAGDYTKR 120
V++W+ + VL G L ++KD+D+ SK + + E+ G
Sbjct: 13 GGIVKNWQRRWFVLRGDQLYYYKDEDE---SKPQGCIPLPGNTVKELPFNPEEPG----- 64
Query: 121 KHVFRLYCTDGSE--------FLFLAPSETLMEDWVNKI 151
K +F + DG +L +A S+ ME+WV I
Sbjct: 65 KFLFEIIPGDGGTRRSANHDSYLLMANSQAEMEEWVKVI 103
>gnl|CDD|241430 cd13276, PH_AtPH1, Arabidopsis thaliana Pleckstrin homolog (PH) 1
(AtPH1) PH domain. AtPH1 is expressed in all plant
tissue and is proposed to be the plant homolog of human
pleckstrin. Pleckstrin consists of two PH domains
separated by a linker region, while AtPH has a single PH
domain with a short N-terminal extension. AtPH1 binds
PtdIns3P specifically and is thought to be an adaptor
molecule since it has no obvious catalytic functions. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 117
Score = 37.3 bits (87), Expect = 0.002
Identities = 21/85 (24%), Positives = 42/85 (49%), Gaps = 9/85 (10%)
Query: 70 VRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARC---EKAGDYTKRKHVFRL 126
+++W+ + VL L +FKD+D S+ +I + C + A + T ++ F +
Sbjct: 20 IKTWRRRWFVLKQGKLFYFKDEDPD--SEPRG---VIDLSDCLTVKSAEEATNKEFAFEV 74
Query: 127 YCTDGSEFLFLAPSETLMEDWVNKI 151
+ + F +A SE E+W++ I
Sbjct: 75 STPERT-FYLIADSEKEKEEWISAI 98
>gnl|CDD|241455 cd13301, PH1_Pleckstrin_2, Pleckstrin 2 Pleckstrin homology (PH)
domain, repeat 1. Pleckstrin is a protein found in
platelets. This name is derived from platelet and
leukocyte C kinase substrate and the KSTR string of
amino acids. Pleckstrin 2 contains two PH domains and a
DEP (dishvelled, egl-10, and pleckstrin) domain. Unlike
pleckstrin 1, pleckstrin 2 does not contain obvious
sites of PKC phosphorylation. Pleckstrin 2 plays a role
in actin rearrangement, large lamellipodia and
peripheral ruffle formation, and may help orchestrate
cytoskeletal arrangement. The PH domains of pleckstrin 2
are thought to contribute to lamellipodia formation.
This cd contains the first PH domain repeat. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 108
Score = 36.6 bits (85), Expect = 0.003
Identities = 25/95 (26%), Positives = 35/95 (36%), Gaps = 20/95 (21%)
Query: 66 KKAAVR-SWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAG--------D 116
KK V +WK+ + VL L ++K K +SP K G +
Sbjct: 11 KKGHVVNNWKARWFVLLEDKLEYYK-------KKTDSSP----KGMILLKGCTITSPCLE 59
Query: 117 YTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKI 151
Y KR VF+L G + A S + W I
Sbjct: 60 YEKRPLVFKLTTAKGQDHFLQACSREERDAWAKDI 94
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 37.7 bits (87), Expect = 0.009
Identities = 33/143 (23%), Positives = 64/143 (44%), Gaps = 19/143 (13%)
Query: 197 GYINSDGYSNLRNNHTSYEELP---SPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDM- 252
G N GY+N N++T Y P +P+S P P + PP ++ +NTP N S+
Sbjct: 418 GNSNP-GYNNAPNSNTPYNNPPNSNTPYSNP---PNSNPPYSNLPYSNTPYSNAPLSNAP 473
Query: 253 --NSYGHGTIYQNIGPPQHIGPPPTSL--NNRQSVNN----SKSSTLPPYVNPPYVKENS 304
++ H + Y + P +L N+ + NN + +S P+ + P+ S
Sbjct: 474 PSSAKDHHSAYHAAYQHRAANQPAANLPTANQPAANNFHGAAGNSVGNPFASRPF---GS 530
Query: 305 TRRPSESSSESEPTSVQRKDKRP 327
+++ ++P + +++ P
Sbjct: 531 APYGGNAATTADPNGIAKREDHP 553
>gnl|CDD|241391 cd13237, PH2_FGD5_FGD6, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia proteins 5 and 6
pleckstrin homology (PH) domain, C-terminus. 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 = 90
Score = 34.3 bits (79), Expect = 0.015
Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Query: 66 KKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDYTKRKHVFR 125
+K +SWK L+ VL ++L +K +D VA + + P++ + K G VF+
Sbjct: 8 RKRKKKSWKRLWFVLKDKVLYTYKASEDVVALE--SIPLLGYTVVPAKEGFEGDESLVFQ 65
Query: 126 LYCTDGSEFLFLAPSETLMEDWVNK 150
L ++F A + W+
Sbjct: 66 LLHKGQLPYIFRADDAETAQRWIEA 90
>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 = 28/115 (24%), Positives = 45/115 (39%), Gaps = 30/115 (26%)
Query: 47 PPVEIQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPI-I 105
PV+ +G L +K E S++ + VL G LL +F+ + D P+ +
Sbjct: 6 SPVDKEGYLWKKGER--------NTSYQKRWFVLKGNLLFYFEKKGD-------REPLGV 50
Query: 106 IFKARC-----EKAGDYTKRKHVFRLYCTDGSE---FLFLAPSETLMEDWVNKIS 152
I C E Y F + DG ++ A S+ ME W+ +S
Sbjct: 51 IVLEGCTVELSEDEEPYA-----FAI-RFDGPGSRSYVLAAESQEDMESWMKALS 99
>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 = 33.8 bits (78), Expect = 0.020
Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 9/88 (10%)
Query: 64 GGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDYTKRKHV 123
GGK V++WK + VL L ++K +D + + CE A +
Sbjct: 9 GGK---VKTWKRRWFVLKNGELFYYKSPNDVIRKPQGQIALD---GSCEIAR--AEGAQT 60
Query: 124 FRLYCTDGSEFLFLAPSETLMEDWVNKI 151
F + T+ + A SE +++W+ I
Sbjct: 61 FEI-VTEKRTYYLTADSENDLDEWIRVI 87
>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 = 34.1 bits (79), Expect = 0.021
Identities = 27/114 (23%), Positives = 46/114 (40%), Gaps = 13/114 (11%)
Query: 44 DQLPPVEIQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSP 103
D PV G L H+ G +++WK + VL L ++KD ++ + A
Sbjct: 2 DPNAPVVFSGWL---HKQGGSG----LKNWKKRWFVLKDNCLYYYKDPEE----EKALGS 50
Query: 104 III--FKARCEKAGDYTKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISFHA 155
I++ + D RK F+ + F A ++ ME W+ +S A
Sbjct: 51 ILLPSYTISPASPSDEINRKFAFKAEHAGMRTYYFAADTQEEMEQWMKALSLAA 104
>gnl|CDD|241453 cd13299, PH2_PH_fungal, Fungal proteins Pleckstrin homology (PH)
domain, repeat 2. The functions of these fungal
proteins are unknown, but they all contain 2 PH
domains. This cd represents 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 = 102
Score = 33.4 bits (77), Expect = 0.031
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 66 KKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASK 98
KK V WK + VL + L F+KDQ ++ K
Sbjct: 16 KKKGVNQWKKYWLVLRNRSLSFYKDQSEYSPVK 48
>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 = 31.6 bits (72), Expect = 0.13
Identities = 22/88 (25%), Positives = 33/88 (37%), Gaps = 12/88 (13%)
Query: 73 WKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDY-----TKRKHVFRLY 127
WK Y +L +L + D+ D + P++ E+ G T R H F L
Sbjct: 20 WKPGYFLLKNGVLYQYPDRSDRL-------PLLSISLGGEQCGGCRRINNTDRPHSFELI 72
Query: 128 CTDGSEFLFLAPSETLMEDWVNKISFHA 155
TD AP E +W+ + A
Sbjct: 73 LTDRPSLELAAPDEYEASEWLQSLCQSA 100
>gnl|CDD|239989 cd04617, CBS_pair_4, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 118
Score = 31.1 bits (71), Expect = 0.27
Identities = 23/61 (37%), Positives = 28/61 (45%), Gaps = 10/61 (16%)
Query: 2 RKDLKRAESMKADLTKKP-----KRTPSFTTRRRTQSF----RKLQKLEQLDQLPPVEIQ 52
RKDL +A ADL K P R P+ TT +S +KL Q+D LP VE
Sbjct: 42 RKDLLKASIGGADLQKVPVGVIMTRMPNITTTTPEESVLEAAKKLI-EHQVDSLPVVEKV 100
Query: 53 G 53
Sbjct: 101 D 101
>gnl|CDD|241464 cd13310, PH_RalGPS1_2, Ral GEF with PH domain and SH3 binding
motif 1 and 2 Pleckstrin homology (PH) domain. RalGPS1
(also called Ral GEF with PH domain and SH3 binding
motif 1;RALGEF2/ Ral guanine nucleotide exchange factor
2; RalA exchange factor RalGPS1; Ral guanine nucleotide
exchange factor RalGPS1A2; ras-specific guanine
nucleotide-releasing factor RalGPS1) and RalGPS2 (also
called Ral GEF with PH domain and SH3 binding motif 2;
Ral-A exchange factor RalGPS2; ras-specific guanine
nucleotide-releasing factor RalGPS22). They activate
small GTPase Ral proteins such as RalA and RalB by
stimulating the exchange of Ral bound GDP to GTP,
thereby regulating various downstream cellular
processes. Structurally they contain an N-terminal
Cdc25-like catalytic domain, followed by a PXXP motif
and a C-terminal PH domain. The Cdc25-like catalytic
domain interacts with Ral and its PH domain ensures the
correct membrane localization. Its PXXP motif is
thought to interact with the SH3 domain of Grb2. 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 = 0.31
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 51 IQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFF 88
+QG L RK L+ G +K V SW+ + L G L ++
Sbjct: 2 MQGCLRRKTVLKEG-RKPTVSSWQRYWVQLWGTSLVYY 38
>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 = 31.0 bits (71), Expect = 0.33
Identities = 12/39 (30%), Positives = 17/39 (43%)
Query: 124 FRLYCTDGSEFLFLAPSETLMEDWVNKISFHAQLPPSLQ 162
FRL +G F A S+ DW +K+ +L Q
Sbjct: 96 FRLVFANGEVIDFYADSKEEKADWYSKLKEVVELNRFHQ 134
>gnl|CDD|241266 cd01233, PH_KIFIA_KIFIB, KIFIA and KIFIB protein pleckstrin
homology (PH) domain. The kinesin-3 family motors KIFIA
(Caenorhabditis elegans homolog unc-104) and KIFIB
transport synaptic vesicle precursors that contain
synaptic vesicle proteins, such as synaptophysin,
synaptotagmin and the small GTPase RAB3A, but they do
not transport organelles that contain plasma membrane
proteins. They have a N-terminal motor domain, followed
by a coiled-coil domain, and a C-terminal PH domain.
KIF1A adopts a monomeric form in vitro, but acts as a
processive dimer in vivo. KIF1B has alternatively
spliced isoforms distinguished by the presence or
absence of insertion sequences in the conserved
amino-terminal region of the protein; this results in
their different motor activities. KIF1A and KIF1B bind
to RAB3 proteins through the adaptor protein
mitogen-activated protein kinase (MAPK) -activating
death domain (MADD; also calledDENN), which was first
identified as a RAB3 guanine nucleotide exchange factor
(GEF). PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 111
Score = 30.6 bits (70), Expect = 0.39
Identities = 23/83 (27%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 73 WKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDY---TKRKHVFRLYCT 129
W + VL L + + D I + AR E + D R +VF +Y T
Sbjct: 30 WVRRWVVLRRPYLHIYSSEKDGDERGV----INLSTARVEYSPDQEALLGRPNVFAVY-T 84
Query: 130 DGSEFLFLAPSETLMEDWVNKIS 152
+ +L A SE M DW+ I
Sbjct: 85 PTNSYLLQARSEKEMHDWLYAID 107
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
Length = 1355
Score = 32.4 bits (73), Expect = 0.42
Identities = 19/111 (17%), Positives = 34/111 (30%), Gaps = 3/111 (2%)
Query: 214 YEELPSPHSEPP---PLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHI 270
++ +P P + P P P+ P Q + P + P Q
Sbjct: 360 WQPVPGPQTGEPVIAPAPEGYPQQSQYAQPAVQYNEPLQQPVQPQQPYYAPAAEQPAQQP 419
Query: 271 GPPPTSLNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPTSVQ 321
P Q + + P N +E + +S+ ++E T Q
Sbjct: 420 YYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQSTFAPQSTYQTEQTYQQ 470
Score = 30.8 bits (69), Expect = 1.4
Identities = 18/120 (15%), Positives = 34/120 (28%), Gaps = 12/120 (10%)
Query: 211 HTSYEELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIY------QNI 264
+ Y + ++EP P + P + P+ + Y Q +
Sbjct: 383 QSQYAQPAVQYNEPLQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPV 442
Query: 265 GPPQHIGPPPTSLNNRQSVNNSKSSTL------PPYVNPPYVKENSTRRPSESSSESEPT 318
S QS ++ + P Y P V++ P E++P
Sbjct: 443 AGNAWQAEEQQSTFAPQSTYQTEQTYQQPAAQEPLYQQPQPVEQQPVVEPEPVVEETKPA 502
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 32.1 bits (73), Expect = 0.44
Identities = 23/101 (22%), Positives = 33/101 (32%), Gaps = 5/101 (4%)
Query: 218 PSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPPTSL 277
P H +P A PQ + +P + +S PP S+
Sbjct: 375 PKQHIKPVFTQPAAAPQPSAAAAASPSPS-----QSSAAAQPSAPQSATQPAGTPPTVSV 429
Query: 278 NNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPT 318
+ +V + ST P V P KE S+ SS T
Sbjct: 430 DPPAAVPVNPPSTAPQAVRPAQFKEEKKIPVSKVSSLGPST 470
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 31.9 bits (73), Expect = 0.52
Identities = 16/81 (19%), Positives = 20/81 (24%), Gaps = 12/81 (14%)
Query: 205 SNLRNNHTSYEELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNI 264
S N + P P P P+T SP P I
Sbjct: 372 SAPANPTPAPNPSPPPAPIQPSAPKTKQAATTPSPPPAKASPP------------IPVPA 419
Query: 265 GPPQHIGPPPTSLNNRQSVNN 285
P + PP + N N
Sbjct: 420 EPTEPSPTPPANAANAPPSLN 440
Score = 28.0 bits (63), Expect = 9.9
Identities = 14/76 (18%), Positives = 20/76 (26%)
Query: 216 ELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPPT 275
+ P P + PP P PP + P P P + I PP
Sbjct: 522 KTPPPPQKSPPPPAPTPPLPQPTATAPPPTPPPPPPTATQASSNAPAQIPADSSPPPPIP 581
Query: 276 SLNNRQSVNNSKSSTL 291
+S +
Sbjct: 582 EEPTPSPTKDSSPEEI 597
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 31.7 bits (72), Expect = 0.58
Identities = 19/69 (27%), Positives = 22/69 (31%), Gaps = 6/69 (8%)
Query: 218 PSPHSEPPPLPQTAPP----QKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPP 273
P+ PP LPQ PP Q P P P Q PPQ+ P
Sbjct: 227 PAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPPQPPQQQQQPPQP--QAQPPPQNQPTP 284
Query: 274 PTSLNNRQS 282
L Q+
Sbjct: 285 HPGLPQGQN 293
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 31.7 bits (72), Expect = 0.59
Identities = 16/103 (15%), Positives = 22/103 (21%), Gaps = 22/103 (21%)
Query: 224 PPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPPTSLNNRQSV 283
P P PQ A P P P P +
Sbjct: 362 PVPAPQPAKPTAAAPSPVRPTPAP----------------------STRPKAAAAANIPP 399
Query: 284 NNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPTSVQRKDKR 326
T P PP ES+ + ++ +K
Sbjct: 400 KEPVRETATPPPVPPRPVAPPVPHTPESAPKLTRAAIPVDEKP 442
>gnl|CDD|241422 cd13268, PH_Brdg1, BCR downstream signaling 1 Pleckstrin homology
(PH) domain. Brdg1 is thought to function as a docking
protein acting downstream of Tec, a protein tyrosine
kinases (PTK), in B-cell antigen receptor (BCR)
signaling. BRDG1 contains a proline-rich (PR) motif
which is thought to bind SH3 or WW domains, a PH
domain, and multiple tyrosine residues which are
potential target sites for SH2 domains. Since PH
domains bind phospholipids it is thought to be involved
in the tethering of Tec and BRDG1 to the cell
membrane.Tec and Pyk2, but not Btk, Bmx, Lyn, Syk, or
c-Abl, induces phosphorylation of BRDG1 on tyrosine
residues. Efficient phosphorylation requires both the
PH and SH2 domains of BRDG1 and the kinase domain of
Tec. The overexpression of BRDG1 increases
theBCR-mediated activation of cAMP-response element
binding protein (CREB). Phosphorylated BRDG1 is
hypothesized to recruit CREB either directly or through
its recruitment of downstream effectors which then
recruit CREB. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 127
Score = 30.1 bits (68), Expect = 0.61
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 8/52 (15%)
Query: 44 DQLPPVEIQGVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFV 95
LPP+ +G LE++ ++ R ++ L+T L G L F+ D+ D
Sbjct: 7 ITLPPLYFEGFLEKR--------RSKDREFRKLWTELRGTTLFFYNDKKDTQ 50
>gnl|CDD|241531 cd13380, PH_Skap1, Src kinase-associated phosphoprotein 1
Pleckstrin homology (PH) domain. Adaptor protein Skap1
(also called Skap55/Src kinase-associated phosphoprotein
of 55 kDa) and its partner, ADAP (adhesion and
degranulation promoting adapter protein) help reorganize
the cytoskeleton and/or promote integrin-mediated
adhesion upon immunoreceptor activation. Skap1 is also
involved in T Cell Receptor (TCR)-induced RapL-Rap1
complex formation and LFA-1 activation. Skap1 has an
N-terminal coiled-coil conformation which is proposed to
be involved in homodimer formation, a central PH domain
and a C-terminal SH3 domain that associates with ADAP.
The Skap1 PH domain plays a role in controlling integrin
function via recruitment of ADAP-SKAP complexes to
integrins as well as in controlling the ability of ADAP
to interact with the CBM signalosome and regulate
NF-kappaB. SKAP1 is necessary for RapL binding to
membranes in a PH domain-dependent manner and the PI3K
pathway. Skap adaptor proteins couple receptors to
cytoskeletal rearrangements. Skap55/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 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 = 29.9 bits (67), Expect = 0.69
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 118 TKRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISF 153
++R F L + + F A S + DWV++I F
Sbjct: 65 SRRDSCFELTTPNQRTYEFTAASPSEARDWVDQIQF 100
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 31.2 bits (71), Expect = 0.69
Identities = 19/112 (16%), Positives = 31/112 (27%), Gaps = 13/112 (11%)
Query: 207 LRNNHTSYEELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGP 266
S P ++P + PP + P PS +
Sbjct: 162 DVATTNSDNSFPGEDADPASASPSDPPSSSPGVPSFPSPPEDPSSPSDSS---------L 212
Query: 267 PQHIGPPPTSLNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPT 318
P P P+S + + +S T P P + S ++PT
Sbjct: 213 P----PAPSSFQSDTPPPSPESPTNPSPPPGPAAPPPPPVQQVPPLSTAKPT 260
Score = 27.7 bits (62), Expect = 9.2
Identities = 12/71 (16%), Positives = 14/71 (19%), Gaps = 3/71 (4%)
Query: 208 RNNHTSYEELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPP 267
S S P PP SP N + + P
Sbjct: 200 PPEDPSSPSDSSLPPAPSSFQSDTPPPSPESPTNPSPPPGPAAPPPPPVQQVPPLSTAKP 259
Query: 268 QHIGPPPTSLN 278
PP S
Sbjct: 260 T---PPSASAT 267
>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 = 29.4 bits (66), Expect = 1.1
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 119 KRKHVFRLYCTDGSEFLFLAPSETLMEDWVNKISF 153
K+ F + D + F A S +WV++I F
Sbjct: 66 KKDCCFEISAPDKRVYQFTAASPKEAREWVDQIKF 100
>gnl|CDD|234458 TIGR04076, TIGR04076, TIGR04076 family protein. Members of this
protein family are uncharacterized. The only invariant
residue, and one of three other residues better than 90
percent conserved are both Cys. Phylogenetic profiling
results and occasional fusion genes suggest a role for
members of this family in redox reactions or iron
cluster metabolism. Species occasionally have two or
three copies.
Length = 89
Score = 28.4 bits (64), Expect = 1.6
Identities = 8/33 (24%), Positives = 10/33 (30%)
Query: 99 AATSPIIIFKARCEKAGDYTKRKHVFRLYCTDG 131
AA P + R D+ V C D
Sbjct: 44 AAILPYVPALQRGGSPNDWMNDDGVAIFCCPDP 76
>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 = 28.5 bits (64), Expect = 2.0
Identities = 25/91 (27%), Positives = 38/91 (41%), Gaps = 9/91 (9%)
Query: 66 KKAAVR-SWKSLYTVLCGQLLCFFKDQDDFVASKAATSPII---IFKARCEKAGDYTKRK 121
K+ AVR +WK Y +L + ++K + D K I + K +GD R
Sbjct: 16 KQGAVRKNWKRRYFILDDNTISYYKSETD----KEPLRTIPLKEVLKVHECLSGDLLMRD 71
Query: 122 HVFRLYCTDGSEFLFLAPSETLMEDWVNKIS 152
++F + T F A S M W+ IS
Sbjct: 72 NLFEII-TTSRTFYIQADSPEDMHSWIKAIS 101
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.5 bits (66), Expect = 3.4
Identities = 29/140 (20%), Positives = 44/140 (31%), Gaps = 26/140 (18%)
Query: 215 EELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDM--NSYGHGTIYQNIGPPQHIGP 272
+ P P PP P PQ ++P P PS + + + P+ P
Sbjct: 2921 PQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVP 2980
Query: 273 PPTSLNNRQSVNNSKSSTLPPY-------------------VNPPYVKENSTRRPSESSS 313
P S SST P +PP V T P + +
Sbjct: 2981 QP-----APSREAPASSTPPLTGHSLSRVSSWASSLALHEETDPPPVSLKQTLWPPDDTE 3035
Query: 314 ESEPTSVQRKDKRPNVLSSL 333
+S+ S+ D + L +L
Sbjct: 3036 DSDADSLFDSDSERSDLEAL 3055
Score = 29.1 bits (65), Expect = 4.3
Identities = 22/114 (19%), Positives = 29/114 (25%), Gaps = 4/114 (3%)
Query: 213 SYEELPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGP 272
S E P +P PQ P P PQ P P Q P P
Sbjct: 2894 STESFALPPDQPERPPQPQAPPP---PQPQPQPPPPPQPQPPPPPPPRPQPPLAPT-TDP 2949
Query: 273 PPTSLNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPTSVQRKDKR 326
+ + +P V P + E+ + S P R
Sbjct: 2950 AGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPASSTPPLTGHSLSR 3003
Score = 28.8 bits (64), Expect = 5.6
Identities = 27/115 (23%), Positives = 40/115 (34%), Gaps = 22/115 (19%)
Query: 218 PSPHSEPPPLPQTAPPQKHISPN---NTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPP 274
P P PP P P ++P + P P M ++ G + + PPP
Sbjct: 2496 PDPGGGGPPDPDAPPAPSRLAPAILPDEPVGEPVHPRMLTWIRG--LEELASDDAGDPPP 2553
Query: 275 TSLNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPTSVQRKDKRPNV 329
LPP PP + S P + SEP +V + +RP+
Sbjct: 2554 ---------------PLPPAA-PPAAPDRSVPPPRPAPRPSEP-AVTSRARRPDA 2591
>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 = 27.7 bits (62), Expect = 3.8
Identities = 21/91 (23%), Positives = 38/91 (41%), Gaps = 7/91 (7%)
Query: 64 GGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDYT-KRKH 122
GG + + W Y ++ + +FK+ K S + A + T K+K
Sbjct: 19 GGSQKQLLKWPLRYVIIHKGCVYYFKNSQS-AKPKGVFS---LNGYNRRAAEETTSKKKF 74
Query: 123 VFRLYCT--DGSEFLFLAPSETLMEDWVNKI 151
VF++ D + F A SE M++W+ +
Sbjct: 75 VFKIIHLSKDHRTWYFSAKSEDEMKEWMESL 105
>gnl|CDD|183285 PRK11712, PRK11712, ribonuclease G; Provisional.
Length = 489
Score = 29.2 bits (66), Expect = 3.9
Identities = 12/16 (75%), Positives = 13/16 (81%)
Query: 50 EIQGVLERKHELQSGG 65
EIQ LERK EL+SGG
Sbjct: 275 EIQRALERKVELKSGG 290
>gnl|CDD|222579 pfam14179, YppG, YppG-like protein. The YppG-like protein family
includes the B. subtilis YppG protein, which is
functionally uncharacterized. This family of proteins is
found in bacteria. Proteins in this family are typically
between 115 and 181 amino acids in length. There are two
completely conserved residues (F and G) that may be
functionally important.
Length = 110
Score = 27.8 bits (62), Expect = 4.0
Identities = 11/59 (18%), Positives = 18/59 (30%), Gaps = 2/59 (3%)
Query: 221 HSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPPTSLNN 279
+ + P Q Q+ P +P + M Y P Q P +S +
Sbjct: 14 NQQQQPYQQQPYHQQMPPPPYSPPQQQQGHFMPPQPQP--YPKQSPQQQQPPQFSSFLS 70
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 28.6 bits (64), Expect = 4.1
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 9/61 (14%)
Query: 125 RLYCTDGSEFLFLAPSETLMEDWVNKISFHAQLPPSLQLLSYDDSQKVSQYTGTTIQEKK 184
L G L L P+ L E W ++ +L + V Y G + +E+
Sbjct: 48 ALKRGKGGRVLVLVPTRELAEQWAEELK---------KLGPSLGLKVVGLYGGDSKREQL 98
Query: 185 K 185
+
Sbjct: 99 R 99
>gnl|CDD|241389 cd13235, PH2_FARP1-like, FERM, RhoGEF and pleckstrin
domain-containing protein 1 and related proteins
Pleckstrin Homology (PH) domain, repeat 2. Members here
include FARP1 (also called Chondrocyte-derived
ezrin-like protein; PH domain-containing family C member
2), FARP2 (also called FIR/FERM domain including RhoGEF;
FGD1-related Cdc42-GEF/FRG), and FARP6 (also called Zinc
finger FYVE domain-containing protein 24). They are
members of the Dbl family guanine nucleotide exchange
factors (GEFs) which are upstream positive regulators of
Rho GTPases. Little is known about FARP1 and FARP6,
though FARP1 has increased expression in differentiated
chondrocytes. FARP2 is thought to regulate neurite
remodeling by mediating the signaling pathways from
membrane proteins to Rac. It is found in brain, lung,
and testis, as well as embryonic hippocampal and
cortical neurons. FARP1 and FARP2 are composed of a
N-terminal FERM domain, a proline-rich (PR) domain,
Dbl-homology (DH), and two C-terminal PH domains. FARP6
is composed of Dbl-homology (DH), and two C-terminal PH
domains separated by a FYVE domain. This hierarchy
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 = 113
Score = 27.7 bits (62), Expect = 4.2
Identities = 27/102 (26%), Positives = 44/102 (43%), Gaps = 15/102 (14%)
Query: 53 GVLERKHELQSGGKKAAVRSWKSLYTVLCGQLLCFFKD-QDDFVASKAATSPIIIFKARC 111
G L RK + +G W+ L+ V L F+K QD+F A+ P++ +
Sbjct: 22 GYLLRKFKNSNG--------WQKLWVVFTNFCLFFYKSHQDEF---PLASLPLLGYSVGL 70
Query: 112 EKAGDYTKRKHVFRL-YCTDGSEFLFLAPSETLMEDWVNKIS 152
D + +VF+L + + + F A SE E W+ I
Sbjct: 71 PSEADNIDKDYVFKLQFKS--HVYFFRAESEYTFERWMEVIR 110
>gnl|CDD|241403 cd13249, PH_anillin_2, Anillin Pleckstrin homology (PH) domain.
Anillin is an actin binding protein involved in
cytokinesis. It has a C-terminal PH domain, which has
been shown to be necessary, but not sufficient for
targetting of anillin to ectopic septin containing
foci. 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 = 26.9 bits (60), Expect = 6.1
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 71 RSWKSLYTVLCGQ-LLCFFKDQDD 93
+SW LY VL G LLC++ ++
Sbjct: 18 QSWTRLYCVLKGGNLLCYYSPEEI 41
>gnl|CDD|147776 pfam05804, KAP, Kinesin-associated protein (KAP). This family
consists of several eukaryotic kinesin-associated (KAP)
proteins. Kinesins are intracellular multimeric
transport motor proteins that move cellular cargo on
microtubule tracks. It has been shown that the sea
urchin KRP85/95 holoenzyme associates with a KAP115
non-motor protein, forming a heterotrimeric complex in
vitro, called the Kinesin-II.
Length = 708
Score = 28.7 bits (64), Expect = 6.2
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 1 MRKDLKRAESMKADLTKKPKRTPSFTTRRRT--QSFRKLQ----KLEQL 43
+ +LKR E +L KK K ++ ++ +KL+ K EQL
Sbjct: 213 IEHELKRYEFWIEELDKKKKMNEEKPILKKDYEETLKKLKGLIKKQEQL 261
>gnl|CDD|217495 pfam03326, Herpes_TAF50, Herpesvirus transcription activation
factor (transactivator). This family includes EBV BRLF1
and similar ORF 50 proteins from other herpesviruses.
Length = 500
Score = 28.2 bits (63), Expect = 6.9
Identities = 28/104 (26%), Positives = 42/104 (40%), Gaps = 8/104 (7%)
Query: 217 LPSPHSEPPPLPQTAPPQKHISPNNTPQRNPWPSDMNSYGHGTIYQNIGPPQHIGPPPTS 276
LP P S P P +A PQ+ S ++ WP+ S T + + P P++
Sbjct: 222 LPQPQSPLKPSPSSARPQQSESFSDV-----WPASTQSPREETSAEPLAPASPSSRRPST 276
Query: 277 LNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPS--ESSSESEPT 318
Q S P YV ++S RPS + S ++PT
Sbjct: 277 AQEEQIA-CSSPQAEPEQGVQSYVPQSSDSRPSCFPAPSTTQPT 319
>gnl|CDD|176040 cd08394, C2A_Munc13, C2 domain first repeat in Munc13 (mammalian
uncoordinated) proteins. C2-like domains are thought to
be involved in phospholipid binding in a Ca2+
independent manner in both Unc13 and Munc13.
Caenorabditis elegans Unc13 has a central domain with
sequence similarity to PKC, which includes C1 and
C2-related domains. Unc13 binds phorbol esters and DAG
with high affinity in a phospholipid manner. Mutations
in Unc13 results in abnormal neuronal connections and
impairment in cholinergic neurotransmission in the
nematode. Munc13 is the mammalian homolog which are
expressed in the brain. There are 3 isoforms (Munc13-1,
-2, -3) and are thought to play a role in
neurotransmitter release and are hypothesized to be
high-affinity receptors for phorbol esters. Unc13 and
Munc13 contain both C1 and C2 domains. There are two C2
related domains present, one central and one at the
carboxyl end. Munc13-1 contains a third C2-like domain.
Munc13 interacts with syntaxin, synaptobrevin, and
synaptotagmin suggesting a role for these as scaffolding
proteins. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-II topology.
Length = 127
Score = 27.0 bits (60), Expect = 7.0
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 189 FEEEVGPGGYINSDGYSNLRNNHTSYEELPSPHS 222
E GPG ++ D N++N + P+ H
Sbjct: 87 QSNEEGPGEWLTLDSEVNMKNGQIVGTKDPTFHR 120
>gnl|CDD|165268 PHA02962, PHA02962, hypothetical protein; Provisional.
Length = 722
Score = 28.0 bits (62), Expect = 9.9
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 11/86 (12%)
Query: 62 QSGGKKAAVRSWKSLYTVLCGQLLCFFKDQDDFVASKAATSPIIIFKARCEKAGDYT--- 118
S KK ++++K+ + C ++C+ + +D V A I K R DYT
Sbjct: 330 HSNDKKPKIKNFKADFFSECLMVMCYLRGYEDIVDFLIALDVESIIKNRINPFNDYTFTT 389
Query: 119 ----KRKHVFRLYCTDGSEFLFLAPS 140
K + +LY + F F+ P+
Sbjct: 390 DWFNKNTELLKLYIS----FYFIDPT 411
>gnl|CDD|132240 TIGR03196, pucD, xanthine dehydrogenase D subunit. This gene has
been characterized in B. subtilis as the molybdopterin
binding-subunit of xanthine dehydrogenase (pucD), acting
in conjunction with pucC, the FAD-binding subunit and
pucE, the FeS-binding subunit. The more common XDH
complex (GenProp0640) includes the xdhB gene which is
related to pucD. It appears that most of the relatives
of pucD outside of this narrow clade are involved in
other processes as they are found in unrelated genomic
contexts, contain the more common XDH complex and/or do
not appear to process purines to allantoin.
Length = 768
Score = 28.1 bits (62), Expect = 9.9
Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 4/61 (6%)
Query: 263 NIGPPQH-IGPPPTSLNNRQSVNNSKSSTLPPYVNPPYVKENSTRRPSESSSESEPTSVQ 321
++GP +H I P + + S LP T P + +E +Q
Sbjct: 386 DLGPLEHRIAAP---DGAAEVIEAIASRPLPKAPILKKANRAVTALPGGRPAAAECGRLQ 442
Query: 322 R 322
R
Sbjct: 443 R 443
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
0.312 0.129 0.381
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,121,595
Number of extensions: 1593530
Number of successful extensions: 1481
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1368
Number of HSP's successfully gapped: 122
Length of query: 344
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 246
Effective length of database: 6,590,910
Effective search space: 1621363860
Effective search space used: 1621363860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.7 bits)