RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9950
(732 letters)
>gnl|CDD|241396 cd13242, PH_puratrophin-1, Puratrophin-1 pleckstrin homology (PH)
domain. Puratrophin-1 (also called Purkinje cell
atrophy-associated protein 1 or PLEKHG4/Pleckstrin
homology domain-containing family G member 4) contains a
spectrin repeat, a RhoGEF (DH) domain, and a PH domain.
It is thought to function in intracellular signaling and
cytoskeleton dynamics at the Golgi. Puratrophin-1 is
expressed in kidney, Leydig cells in the testis,
epithelial cells in the prostate gland and Langerhans
islet in the pancreas. A single nucleotide substitution
in the puratrophin-1 gene were once thought to result in
autosomal dominant cerebellar ataxia (ADCA), but now it
has been demonstrated that this ataxia is a result of
defects in the BEAN gene. Puratrophin contains a domain
architecture similar to that of Dbl family members Dbs
and Trio. Dbs is a guanine nucleotide exchange factor
(GEF), which contains spectrin repeats, a RhoGEF (DH)
domain and a PH domain. The Dbs PH domain participates
in binding to both the Cdc42 and RhoA GTPases. Trio
plays an essential role in regulating the actin
cytoskeleton during axonal guidance and branching. Trio
is a multidomain signaling protein that contains two
RhoGEF(DH)-PH domains in tandem. 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 = 136
Score = 257 bits (659), Expect = 2e-82
Identities = 92/139 (66%), Positives = 117/139 (84%), Gaps = 3/139 (2%)
Query: 463 RFQLRHGNDLLAMDSLRECDVNLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSK 522
+FQLRHGNDLLAMD++R CDVNLKEQG+LLRQ+EF+V QG+ KK LRHVFLFE+LILFSK
Sbjct: 1 KFQLRHGNDLLAMDAIRGCDVNLKEQGQLLRQDEFLVWQGR-KKSLRHVFLFEDLILFSK 59
Query: 523 ARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIK 582
++ P K D+YIYKHS+K +DIG+T +GDS KFEIWFR+RK +T+ LQ+ S +IK
Sbjct: 60 PKKTPGGK--DVYIYKHSIKTADIGLTENVGDSGLKFEIWFRRRKSRDTYILQATSPEIK 117
Query: 583 QAWTDELSNLLWKQALRNR 601
+AWT +++ LLWKQALRN+
Sbjct: 118 EAWTSDIAKLLWKQALRNK 136
>gnl|CDD|216028 pfam00621, RhoGEF, RhoGEF domain. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that pfam00169
domains invariably occur C-terminal to RhoGEF/DH
domains.
Length = 179
Score = 145 bits (367), Expect = 4e-40
Identities = 56/182 (30%), Positives = 92/182 (50%), Gaps = 16/182 (8%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLG 362
+++E++QTER YV+ L+ ++ ++ L I + IF NIE+I E H Q FL
Sbjct: 1 VIQELLQTERSYVRDLKILVEVFLKPLRESPILS--EEEIKTIFSNIEEILELH-QEFLE 57
Query: 363 ELEQCAN---LPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSS------FFKAK 413
ELE+ +G FL F +Y+ Y N P++ L+ + F K
Sbjct: 58 ELEERLEEWPDIQRIGDIFLKFAPFFKVYSTYCSNYPRALELLKKLRKKNPRFAKFLKEC 117
Query: 414 QLE-LADRMDLASYLLKPVQRMGKYALLLQQLMKA---SRQDVKDIKEAESMVRFQLRHG 469
+ L +DL S+L+KPVQR+ +Y LLL++L+K D +D+K+A ++
Sbjct: 118 EASPLCRGLDLNSFLIKPVQRIPRYPLLLKELLKHTPPDHPDYEDLKKALEAIKEVASQI 177
Query: 470 ND 471
N+
Sbjct: 178 NE 179
>gnl|CDD|238091 cd00160, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous
(DH) domain. It appears that PH domains invariably occur
C-terminal to RhoGEF/DH domains.
Length = 181
Score = 127 bits (321), Expect = 9e-34
Identities = 58/169 (34%), Positives = 95/169 (56%), Gaps = 14/169 (8%)
Query: 302 FIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFL 361
+++E++QTER+YV+ L+ ++ ++ L +E +P + ++FGNIE+IYEFH + FL
Sbjct: 3 EVIKELLQTERNYVRDLKLLVEVFLKPLDKELLP-LSPEEVELLFGNIEEIYEFH-RIFL 60
Query: 362 GELEQCANLPLS----VGQCFLNHENKFYLYALYNKNKPKSDALMTEY--GSSFFKA--- 412
LE+ +G FL F +Y+ Y N P + L+ + + FF+
Sbjct: 61 KSLEERVEEWDKSGPRIGDVFLKLAPFFKIYSEYCSNHPDALELLKKLKKFNKFFQEFLE 120
Query: 413 KQLELADRMDLASYLLKPVQRMGKYALLLQQLMK---ASRQDVKDIKEA 458
K R+ L S LLKPVQR+ KY LLL++L+K +D +D+K+A
Sbjct: 121 KAESECGRLKLESLLLKPVQRLTKYPLLLKELLKHTPDGHEDREDLKKA 169
>gnl|CDD|214619 smart00325, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that PH domains
invariably occur C-terminal to RhoGEF/DH domains.
Improved coverage.
Length = 180
Score = 120 bits (302), Expect = 3e-31
Identities = 56/167 (33%), Positives = 98/167 (58%), Gaps = 12/167 (7%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLG 362
+++E++QTER+YV+ L+ ++ ++ L ++++ + +FGNIE+IYEFH FL
Sbjct: 1 VLKELLQTERNYVRDLKLLVEVFLKPL-KKELKLLSPNELETLFGNIEEIYEFHRD-FLD 58
Query: 363 ELEQCANLPL----SVGQCFLNHENKFYLYALYNKNKPKSDALMTE-YGSSFFKA--KQL 415
ELE+ +G FL E F +Y+ Y N P + L+ + + F+ K++
Sbjct: 59 ELEERIEEWDDSVERIGDVFLKLEEFFKIYSEYCSNHPDALELLKKLKKNPRFQKFLKEI 118
Query: 416 ELA---DRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDIKEAE 459
E + R+ L S LLKPVQR+ KY LLL++L+K + +D +D ++ +
Sbjct: 119 ESSPQCRRLTLESLLLKPVQRLTKYPLLLKELLKHTPEDHEDREDLK 165
>gnl|CDD|241393 cd13239, PH_Obscurin, Obscurin pleckstrin homology (PH) domain.
Obscurin (also called Obscurin-RhoGEF; Obscurin-myosin
light chain kinase/Obscurin-MLCK) is a giant muscle
protein that is concentrated at the peripheries of
Z-disks and M-lines. It binds small ankyrin I, a
component of the sarcoplasmic reticulum (SR) membrane.
It is associated with the contractile apparatus through
binding with titin and sarcomeric myosin. It plays
important roles in the organization and assembly of the
myofibril and the SR. Obscurin has been observed as
alternatively-spliced isoforms. The major isoform in
sleletal muscle, approximately 800 kDa in size, is
composed of many adhesion modules and signaling domains.
It harbors 49 Ig and 2 FNIII repeats at the N-terminues,
a complex middle region with additional Ig domains, an
IQ motif, and a conserved SH3 domain near RhoGEF and PH
domains, and a non-modular C-terminus with
phosphorylation motifs. The obscurin gene also encodes
two kinase domains, which are not part of the 800 kDa
form of the protein, but is part of smaller spliced
products that present in heart muscle. 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 = 86.8 bits (215), Expect = 3e-20
Identities = 36/120 (30%), Positives = 60/120 (50%), Gaps = 11/120 (9%)
Query: 484 NLKEQGRLLRQNEFIVSQG--------KGKKCLRHVFLFEELILFSKARRFPDRKNLDLY 535
NL+ G +RQ F V +G KG RHVFLF+ I+ K +R R + Y
Sbjct: 8 NLEALGEPIRQGHFTVWEGAPGVRTSSKGHH--RHVFLFKNCIVICKPKR-DSRTDTPTY 64
Query: 536 IYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWK 595
I+K+ MK++DI + + FE+W + +TLQ+ + +K +W E+ ++ +
Sbjct: 65 IFKNKMKLNDIDVNDTVEGDDRAFELWHEREDSVRKYTLQARTIIVKNSWVKEIRDIQQR 124
>gnl|CDD|241395 cd13241, PH2_Kalirin_Trio_p63RhoGEF, p63RhoGEF pleckstrin homology
(PH) domain, repeat 2. The guanine nucleotide exchange
factor p63RhoGEF is an effector of the heterotrimeric G
protein, Galphaq and linking Galphaq-coupled receptors
(GPCRs) to the activation of RhoA. The Dbl(DH) and PH
domains of p63RhoGEF interact with the effector-binding
site and the C-terminal region of Galphaq and appear to
relieve autoinhibition of the catalytic DH domain by the
PH domain. Trio, Duet, and p63RhoGEF are shown to
constitute a family of Galphaq effectors that appear to
activate RhoA both in vitro and in intact cells. Dbs is
a guanine nucleotide exchange factor (GEF), which
contains spectrin repeats, a rhoGEF (DH) domain and a PH
domain. The Dbs PH domain participates in binding to
both the Cdc42 and RhoA GTPases. Trio plays an essential
role in regulating the actin cytoskeleton during axonal
guidance and branching. Trio is a multidomain signaling
protein that contains two RhoGEF(DH)-PH domains in
tandem. 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 = 84.6 bits (210), Expect = 2e-19
Identities = 45/136 (33%), Positives = 73/136 (53%), Gaps = 19/136 (13%)
Query: 482 DVNLKEQGRLLRQNEFIVSQG------KGKKCLRHVFLFEELILFS----KARRFPDRKN 531
D + QG+LL Q+ +VS+ KGK+ R VFLFE++I+FS K +F +
Sbjct: 8 DGKITAQGKLLLQDTLLVSEPEAGLSSKGKE--RRVFLFEQIIIFSEILGKKTQFSNPG- 64
Query: 532 LDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFR-KRKPNETFTLQSMSEDIKQAWTDELS 590
YIYK+S+K++ + + + +F + R KP E+F LQ+ S +I+Q W D ++
Sbjct: 65 ---YIYKNSIKVNKMSLEENVDGDPCRFALRSRDPNKPGESFVLQAPSPEIRQEWVDTIN 121
Query: 591 NLLWKQALRNRAMRLQ 606
+L R+ LQ
Sbjct: 122 QIL--DTQRDFLNALQ 135
>gnl|CDD|241394 cd13240, PH1_Kalirin_Trio_like, Triple functional domain pleckstrin
homology pleckstrin homology (PH) domain, repeat 1.
RhoGEFs, Kalirin and Trio, the mammalian homologs of
Drosophila Trio and Caenorhabditis elegans UNC-73
regulate a novel step in secretory granule maturation.
Their signaling modulates the extent to which regulated
cargo enter and remain in the regulated secretory
pathway. This allows for fine tuning of peptides
released by a single secretory cell type with impaired
signaling leading to pathological states. Trio plays an
essential role in regulating the actin cytoskeleton
during axonal guidance and branching. Kalirin and Trio
are encoded by separate genes in mammals and by a single
one in invertebrates. Kalirin and Trio share the same
complex multidomain structure and display several splice
variants. The longest Kalirin and Trio proteins have a
Sec14 domain, a stretch of spectrin repeats, a
RhoGEF(DH)/PH cassette (also called GEF1), an SH3
domain, a second RhoGEF(DH)/PH cassette (also called
GEF2), a second SH3 domain, Ig/FNIII domains, and a
kinase domain. The first RhoGEF(DH)/PH cassette
catalyzes exchange on Rac1 and RhoG while the second
RhoGEF(DH)/PH cassette is specific for RhoA. Kalirin and
Trio are closely related to p63RhoGEF and have PH
domains of similar function. 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.not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinases,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, cytoskeletal associated molecules,
and in lipid associated enzymes.
Length = 123
Score = 79.7 bits (197), Expect = 7e-18
Identities = 37/120 (30%), Positives = 63/120 (52%), Gaps = 6/120 (5%)
Query: 478 LRECDVNLKEQGRLLRQNEFIVSQGKG--KKCL-RHVFLFEELILFSKARRFPDRKNLDL 534
L D +L+ G ++ Q+ F V K +K RHVFLFE ++FSK + + K+
Sbjct: 2 LEGFDESLESLGEVILQDSFQVWDPKQLIRKGRERHVFLFELCLVFSKEVKDSNGKSK-- 59
Query: 535 YIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNET-FTLQSMSEDIKQAWTDELSNLL 593
YIYK + S++G+T I KF +W + ++ L++ S ++KQ W +L ++
Sbjct: 60 YIYKSKLMTSELGVTEHIEGDPCKFALWTGRVPTSDNKIVLKASSLEVKQEWVKKLREVI 119
>gnl|CDD|241261 cd01227, PH_Dbs, DBL's big sister protein pleckstrin homology (PH)
domain. Dbs (also called MCF2-transforming
sequence-like protein 2) is a guanine nucleotide
exchange factor (GEF), which contains spectrin repeats,
a rhoGEF (DH) domain and a PH domain. The Dbs PH domain
participates in binding to both the Cdc42 and RhoA
GTPases. 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 = 132
Score = 76.5 bits (188), Expect = 1e-16
Identities = 45/127 (35%), Positives = 66/127 (51%), Gaps = 16/127 (12%)
Query: 484 NLKEQGRLLRQNEFIV------SQGKGKKCLR------HVFLFEELILFSKARRFPDRKN 531
NL + G+LL Q F V K KK R H+FL+E+ +LF K R
Sbjct: 8 NLSDLGKLLMQGSFNVWTEHKKGHNKVKKLARFKPMQRHLFLYEKAVLFCKKREENGEGY 67
Query: 532 LD--LYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDEL 589
Y YK+S+KMS +GIT + + KFEIW+ R+ E + +Q+ + +IK AW +E+
Sbjct: 68 EKAPSYSYKNSLKMSAVGITENVKGDNKKFEIWYNGRE--EVYIIQAPTPEIKAAWVNEI 125
Query: 590 SNLLWKQ 596
+L Q
Sbjct: 126 RKVLTSQ 132
>gnl|CDD|241479 cd13325, PH_unc89, unc89 pleckstrin homology (PH) domain. unc89 is
a myofibrillar protein. unc89-B the largest isoform is
composed of 53 immunoglobulin (Ig) domains, 2 Fn3
domains, a triplet of SH3, DH and PH domains at its
N-terminus, and 2 protein kinase domains (PK1 and PK2)
at its C-terminus. unc-89 mutants display
disorganization of muscle A-bands, and usually lack
M-lines. The COOH-terminal region of obscurin, the human
homolog of unc89, interacts via two specific Ig-like
domains with the NH(2)-terminal Z-disk region of titin,
a protein that connects the Z line to the M line in the
sarcomere and contributes to the contraction of striated
muscle. obscurin is also thought to be involved in
Ca2+/calmodulin via its IQ domains, as well as G
protein-coupled signal transduction in the sarcomere via
its RhoGEF/DH domain. The DH-PH region of OBSCN and
unc89, the C. elegans homolog, has exchange activity for
RhoA and Rho-1 respectively, but not for the small
GTPases homologous to Cdc42 or Rac. 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 = 59.7 bits (145), Expect = 6e-11
Identities = 31/108 (28%), Positives = 59/108 (54%), Gaps = 3/108 (2%)
Query: 484 NLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKM 543
N+ + GRLLR + F V+ G+GK R++FLF+ IL +K RR + ++ ++I K +++
Sbjct: 2 NIHKLGRLLRHDWFTVTDGEGKAKERYLFLFKSRILITKVRRISEDRS--VFILKDIIRL 59
Query: 544 SDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSN 591
++ + Q D FE+ + ++ ++IK AW +E+
Sbjct: 60 PEVNVK-QHPDDERTFELQPKPAFKGYPIDFKAHKDEIKDAWLNEIEE 106
>gnl|CDD|241397 cd13243, PH_PLEKHG1_G2_G3, Pleckstrin homology domain-containing
family G members 1, 2, and 3 pleckstrin homology (PH)
domain. PLEKHG1 (also called ARHGEF41), PLEKHG2 (also
called ARHGEF42 or CLG/common-site lymphoma/leukemia
guanine nucleotide exchange factor2), and PLEKHG3 (also
called ARHGEF43) have RhoGEF DH/double-homology domains
in tandem with a PH domain which is involved in
phospholipid binding. They function as a guanine
nucleotide exchange factor (GEF) and are involved in the
regulation of Rho protein signal transduction. Mutations
in PLEKHG1 have been associated panic disorder (PD), an
anxiety disorder characterized by panic attacks and
anticipatory anxiety. 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 = 147
Score = 52.3 bits (126), Expect = 5e-08
Identities = 27/110 (24%), Positives = 50/110 (45%), Gaps = 10/110 (9%)
Query: 480 ECDVNLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKH 539
+L G L+ + F V G K R +FLF++++L +K ++ D +YK
Sbjct: 41 WLGPDLTTYGELVLEGSFRVQ---GAKNERLLFLFDKMLLITK------KREDDHLVYKT 91
Query: 540 SMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDEL 589
+ S++ + I F++ P +TLQ+ + + K+ WT L
Sbjct: 92 HIMCSNLMLVESIPKDPLSFQV-LPFDNPKAQYTLQAKNLEQKRLWTQHL 140
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 54.5 bits (131), Expect = 2e-07
Identities = 54/188 (28%), Positives = 90/188 (47%), Gaps = 20/188 (10%)
Query: 291 VQTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYI-PELTREDIPQALRGQRN-VIFGN 348
Q +K Q+ + E+I TERD+VK LEY+ +I P IP+ R +F N
Sbjct: 480 KQEIKRQEAIY----EVIYTERDFVKDLEYLRDTWIKPLEESNIIPENARRNFIKHVFAN 535
Query: 349 IEKIYEFHSQHFLGELEQCANLPLSV---GQCFLNHENKFYLYALYNKNKPKSDALMTEY 405
I +IY +S+ L L L V FL++ KF + Y ++P +
Sbjct: 536 INEIYAVNSK-LLKALTNRQCLSPIVNGIADIFLDYVPKFEPFIKYGASQPYAKYEFERE 594
Query: 406 GSS---FFK----AKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKAS---RQDVKDI 455
S F + ++L+ + +++L YL KP R+ +Y LLL++++K + D +DI
Sbjct: 595 KSVNPNFARFDHEVERLDESRKLELDGYLTKPTTRLARYPLLLEEVLKFTDPDNPDTEDI 654
Query: 456 KEAESMVR 463
+ M+R
Sbjct: 655 PKVIDMLR 662
>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 = 44.1 bits (104), Expect = 1e-05
Identities = 28/110 (25%), Positives = 46/110 (41%), Gaps = 16/110 (14%)
Query: 488 QGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIG 547
+G L ++ GK R+ LF +L+ K +K+ Y K S+ +S
Sbjct: 4 EGWLYKK----SGGGKKSWKKRYFVLFNSTLLYYK-----SKKDKKSYKPKGSIDLSGCT 54
Query: 548 ITAQIGDSSTK----FEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLL 593
+ S+K FEI RK T LQ+ SE+ ++ W + L +
Sbjct: 55 VREAPDPDSSKKPHCFEIKTSDRK---TLLLQAESEEEREKWVEALRKAI 101
>gnl|CDD|241257 cd01223, PH_Vav, Vav pleckstrin homology (PH) domain. Vav acts as
a guanosine nucleotide exchange factor (GEF) for Rho/Rac
proteins. They control processes including T cell
activation, phagocytosis, and migration of cells. The
Vav subgroup of Dbl GEFs consists of three family
members (Vav1, Vav2, and Vav3) in mammals. Vav1 is
preferentially expressed in the hematopoietic system,
while Vav2 and Vav3 are described by broader expression
patterns. Mammalian Vav proteins consist of a calponin
homology (CH) domain, an acidic region, a catalytic Dbl
homology (DH) domain, a PH domain, a zinc finger
cysteine rich domain (C1/CRD), and an SH2 domain,
flanked by two SH3 domains. In invertebrates such as
Drosophila and C. elegans, Vav is missing the N-terminal
SH3 domain. The DH domain is involved in RhoGTPase
recognition and selectivity and stimulates the
reorganization of the switch regions for GDP/GTP
exchange. The PH domain is implicated in directing
membrane localization, allosteric regulation of guanine
nucleotide exchange activity, and as a phospholipid-
dependent regulator of GEF activity. Vavs bind
RhoGTPases including Rac1, RhoA, RhoG, and Cdc42, while
other members of the GEF family are specific for a
single RhoGTPase. This promiscuity is thought to be a
result of its CRD. 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.polarized. PH domains also have
diverse functions. They are often involved in targeting
proteins to the plasma membrane, but only a few (less
than 10%) display strong specificity in binding inositol
phosphates. 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 kinases, tyrosine kinases,
regulators of G-proteins, endocytotic GTPases, adaptors,
cytoskeletal associated molecules, and in lipid
associated enzymes.
Length = 127
Score = 41.9 bits (99), Expect = 2e-04
Identities = 33/124 (26%), Positives = 53/124 (42%), Gaps = 21/124 (16%)
Query: 482 DVNLKEQGRLLRQNEF-IVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYK-- 538
+V+L + GRL E I S KK R+ FLF++++L K R D Y YK
Sbjct: 10 NVSLADYGRLKIDGELKIKSHEDQKKKDRYAFLFDKVLLVCKRLR------GDQYEYKEI 63
Query: 539 ---HSMKMSDIGITAQIGDSSTKFEIWF---RKRKPNETFTLQSMSEDIKQAW----TDE 588
K+ D + ++ F K+ +TL + +E++K+ W
Sbjct: 64 INLSEYKIEDDPSRRTLKRDK-RWSYQFLLVHKQGKT-AYTLYAKTEELKKKWMEAFEMA 121
Query: 589 LSNL 592
LSN+
Sbjct: 122 LSNI 125
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 37.8 bits (88), Expect = 0.002
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 13/89 (14%)
Query: 509 RHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIGIT----AQIGDSSTKFEIWFR 564
R+ LF+ ++L+ K + + K S+ +S +T ++ G FEI
Sbjct: 21 RYFVLFDGVLLYYKDSKKSSSR------PKGSIPLSGCQVTKVPDSEDGKRKNCFEIRTG 74
Query: 565 KRKPNETFTLQSMSEDIKQAWTDELSNLL 593
R ETF LQ+ SE+ ++ W + + +
Sbjct: 75 DR---ETFLLQAESEEERKEWVKAIRSAI 100
>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 = 36.2 bits (83), Expect = 0.006
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 488 QGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIG 547
+G L ++ + K R LF++++L+ K K K + +SD G
Sbjct: 2 EGWLKKRGGKGLKSWK----KRWFVLFDDVLLYYK------SKKDSSKKPKGLIPLSD-G 50
Query: 548 ITAQIGDSSTK---FEIWFRKRKPNETFTLQSMSEDIKQAWTD 587
+ ++ SS K FE+ R T+ LQ+ SE+ ++ W +
Sbjct: 51 LEVELVSSSGKPNCFELVTPDR--GRTYYLQAESEEEREEWLE 91
>gnl|CDD|236543 PRK09505, malS, alpha-amylase; Reviewed.
Length = 683
Score = 35.8 bits (83), Expect = 0.087
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 136 CEETLEQIRSYLGADSTHQWNTSTPLPSRRKSL-APSPSPHHTPSHACPCWD 186
C T Q R + D T Q +T + P+ S+ + SP + CP WD
Sbjct: 75 CSGTPPQWRLFRDGDYTLQIDTRSGTPTLMLSIKNAAESPVANLTRQCPVWD 126
>gnl|CDD|147874 pfam05957, DUF883, Bacterial protein of unknown function
(DUF883). This family consists of several hypothetical
bacterial proteins of unknown function.
Length = 94
Score = 32.9 bits (76), Expect = 0.096
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 29 KDLARNLRQHLRGFSERLEDTRERLEDTSRCYYLLDRAYEWALEAMKYI 77
+ A LR+ L+D RERL D + +RA + A A Y+
Sbjct: 26 GEEAEELRERAE---AALDDARERLGDAADAAA--ERARDAADAADDYV 69
>gnl|CDD|115579 pfam06933, SSP160, Special lobe-specific silk protein SSP160. This
family consists of several special lobe-specific silk
protein SSP160 sequences which appear to be specific to
Chironomus (Midge) species.
Length = 758
Score = 34.4 bits (78), Expect = 0.26
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 4/107 (3%)
Query: 626 DQISDRSISITQLNKTTPKFRNSIAVMPGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGS 685
D S S+S N T P F + + G G S + ++IS + + S SGS
Sbjct: 49 DVKSFTSLSNATANATMPGFASRV----GGGRFSGIIKASFNLIAMISANIQAIQSGSGS 104
Query: 686 MNGGGPRQTSQCSSAESGIVTDWHTTRSNSSVTSDSTSPSHQVSVKL 732
+G + S++ S + T+ ++++ TS+STS S+ S L
Sbjct: 105 ASGNSSSSANSTSNSNSTTSNNSTTSSNSTTTTSNSTSSSNSTSSGL 151
>gnl|CDD|241262 cd01228, PH_BCR-related, Breakpoint Cluster Region-related
pleckstrin homology (PH) domain. The BCR gene is one of
the two genes in the BCR-ABL complex, which is
associated with the Philadelphia chromosome, a product
of a reciprocal translocation between chromosomes 22 and
9. BCR is a GTPase-activating protein (GAP) for RAC1
(primarily) and CDC42. The Dbl region of BCR has the
most RhoGEF activity for Cdc42, and less activity
towards Rac and Rho. Since BCR possesses both GAP and
GEF activities, it may function to temporally regulate
the activity of these GTPases. It also displays
serine/threonine kinase activity. The BCR protein
contains multiple domains including an N-terminal kinase
domain, a RhoGEF domain, a PH domain, a C1 domain, a C2
domain, and a C-terminal RhoGAP domain. ABR, a related
smaller protein, is structurally similar to BCR, but
lacks the N-terminal kinase domain and has GAP activity
for both Rac and Cdc42. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 179
Score = 31.9 bits (73), Expect = 0.58
Identities = 13/37 (35%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 486 KEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSK 522
E+ +L++ F+V +G + LRH+FLF +++L +K
Sbjct: 11 GERRQLVKDG-FLVELSEGSRKLRHLFLFTDVLLCAK 46
>gnl|CDD|241539 cd13388, PH1_FGD4, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia protein 4 pleckstrin
homology (PH), N-terminal domain. In general, FGDs have
a RhoGEF (DH) domain, followed by an N-terminal PH
domain, a FYVE domain and a C-terminal PH domain. All
FGDs are guanine nucleotide exchange factors that
activates the Rho GTPase Cdc42, an important regulator
of membrane trafficking. The RhoGEF domain is
responsible for GEF catalytic activity, while the
N-terminal PH domain is involved in intracellular
targeting of the DH domain. FGD4 is one of the genes
associated with Charcot-Marie-Tooth neuropathy type 4
(CMT4), a group of progressive motor and sensory axonal
and demyelinating neuropathies that are distinguished
from other forms of CMT by autosomal recessive
inheritance. Those affected have distal muscle weakness
and atrophy associated with sensory loss and,
frequently, pes cavus foot deformity. 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 = 30.5 bits (69), Expect = 0.62
Identities = 28/102 (27%), Positives = 42/102 (41%), Gaps = 11/102 (10%)
Query: 486 KEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSD 545
K+QG+LL+ +S G RH+FLF +L+L R P YK
Sbjct: 1 KKQGKLLK-----ISSRSGDTQERHLFLFNDLLLLCSPRLIPVGS-----KYKVRALFGI 50
Query: 546 IGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTD 587
G+ GD + + E F R L + ++ K+ W D
Sbjct: 51 SGMQVLEGD-NLETENTFYVRGKQRCVELCTGTQKEKEEWID 91
>gnl|CDD|241258 cd01224, PH_Collybistin_ASEF, Collybistin/APC-stimulated guanine
nucleotide exchange factor pleckstrin homology (PH)
domain. Collybistin (also called PEM2) is homologous to
the Dbl proteins ASEF (also called ARHGEF4/RhoGEF4) and
SPATA13 (Spermatogenesis-associated protein 13; also
called ASEF2). It activates CDC42 specifically and not
any other Rho-family GTPases. Collybistin consists of an
SH3 domain, followed by a RhoGEF/DH and PH domain. In
Dbl proteins, the DH and PH domains catalyze the
exchange of GDP for GTP in Rho GTPases, allowing them to
signal to downstream effectors. It induces submembrane
clustering of the receptor-associated peripheral
membrane protein gephyrin, which is thought to form a
scaffold underneath the postsynaptic membrane linking
receptors to the cytoskeleton. It also acts as a tumor
suppressor that links adenomatous polyposis coli (APC)
protein, a negative regulator of the Wnt signaling
pathway and promotes the phosphorylation and degradation
of beta-catenin, to Cdc42. Autoinhibition of collybistin
is accomplished by the binding of its SH3 domain with
both the RhoGEF and PH domains to block access of Cdc42
to the GTPase-binding site. Inactivation promotes cancer
progression. 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 = 31.5 bits (72), Expect = 0.75
Identities = 26/109 (23%), Positives = 42/109 (38%), Gaps = 24/109 (22%)
Query: 490 RLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSM-------- 541
L+ E KGK R FLF+ +++ K D D IYK +
Sbjct: 28 ELIHSGELSKISSKGKAQERTFFLFDHQLVYCKK----DLLKRDNLIYKGRIDLDNMEIE 83
Query: 542 -----KMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAW 585
K D G+T + ++I+ + N+ + L + S + KQ W
Sbjct: 84 DLEDGKDKDSGVTVKNA-----WKIYNTSK--NKWYLLCAKSAEEKQRW 125
>gnl|CDD|241292 cd01261, PH_SOS, Son of Sevenless (SOS) Pleckstrin homology (PH)
domain. SOS is a Ras guanine nucleotide exchange
factor. SOS is thought to transmit signals from
activated receptor tyrosine kinases to the Ras signaling
pathway. SOS contains a histone domain, Dbl-homology
(DH), a PH domain, Rem domain, Cdc25 domain, and a Grb2
binding domain. The SOS PH domain binds to
phosphatidylinositol-4,5-bisphosphate (PIP2) and
phosphatidic acid (PA). SOS is dependent on Ras binding
to the allosteric site via its histone domain for both a
lower level of activity (Ras GDP) and maximal activity
(Ras GTP). The DH domain blocks the allosteric Ras
binding site in SOS. The PH domain is closely associated
with the DH domain and the action of the DH-PH unit
gates a reciprocal interaction between Ras and SOS. The
C-terminal proline-rich domain of SOS binds to the
adapter protein Grb2 which localizes the Sos protein to
the plasma membrane and diminishes the negative effect
of the C-terminal domain on the guanine nucleotide
exchange activity of the CDC25-homology domain of SOS.
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 = 109
Score = 30.4 bits (69), Expect = 1.1
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 8/63 (12%)
Query: 495 NEFI-----VSQGKGKKCL-RHVFLFEELILFSKARRFPDRKNLDLYIY--KHSMKMSDI 546
NEFI G GK+ RH+FLF+ L+L K+ + Y K + + +
Sbjct: 4 NEFIMEGTLTKVGAGKRSTERHLFLFDGLLLLCKSNQSSTASGQSKPEYRLKEKIFIRKV 63
Query: 547 GIT 549
I
Sbjct: 64 EIN 66
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 31.3 bits (71), Expect = 1.3
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 10/111 (9%)
Query: 35 LRQHLRGFSERLEDTRERLEDTSRCYYLLDRAYEWALEAMK-YISRVKPEDQTSIEPTVK 93
L+Q L E LED ER+ + L + E +K R++ + SI+ K
Sbjct: 84 LKQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLE-SLEESIKELAK 142
Query: 94 QLRQYLMAHPPLASEHFTEMIQLAKKL-NNDKLIEQCKVAQCRCEETLEQI 143
+LR+ L + E+ +L ++L + +++ + A + LEQ+
Sbjct: 143 ELRE-------LRQDLREEVEELREELERLQENLQRLQEAIQELQSLLEQL 186
>gnl|CDD|241400 cd13246, PH_Scd1, Shape and Conjugation Deficiency 1 Pleckstrin
homology (PH) domain. Fission yeast Scd1 is an exchange
factor for Cdc42 and an effector of Ras1, the homolog of
the human H-Ras. Scd2/Bem1 mediates Cdc42 activation by
binding to Scd1/Cdc24 and to Cdc42. Ras1 regulates
Scd1/Cdc24/Ral1, which is a putative guanine nucleotide
exchange factor for Cdc42, a member of the Rho family of
Ras-like proteins. Cdc42 then activates the Shk1/Orb2
protein kinase. Scd1 interacts with Klp5 and Klp6
kinesins to mediate cytokinesis. 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 = 148
Score = 30.7 bits (70), Expect = 1.3
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 484 NLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSK 522
+L + G LL + F V + ++ HV+LFE ++L K
Sbjct: 24 SLDDFGELLLHDTFTVRKDDSEREY-HVYLFERILLCCK 61
>gnl|CDD|218439 pfam05109, Herpes_BLLF1, Herpes virus major outer envelope
glycoprotein (BLLF1). This family consists of the BLLF1
viral late glycoprotein, also termed gp350/220. It is
the most abundantly expressed glycoprotein in the viral
envelope of the Herpesviruses and is the major antigen
responsible for stimulating the production of
neutralising antibodies in vivo.
Length = 830
Score = 31.7 bits (71), Expect = 1.8
Identities = 16/100 (16%), Positives = 36/100 (36%)
Query: 630 DRSISITQLNKTTPKFRNSIAVMPGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGSMNGG 689
D + S+ + + +P + L T + + + +G +SS
Sbjct: 427 DTTKSVIFVYTLVHVEPHKTTAVPTTPSLPPASTGPTVSTADPTSGTPTGTTSSTLPEDT 486
Query: 690 GPRQTSQCSSAESGIVTDWHTTRSNSSVTSDSTSPSHQVS 729
P + ++ + T TT + +S T+ TS + +
Sbjct: 487 SPTSRTTSATPNATSPTPAVTTPNATSPTTQKTSDTPNAT 526
>gnl|CDD|219286 pfam07072, DUF1342, Protein of unknown function (DUF1342). This
family consists of several hypothetical bacterial
proteins of around 250 residues in length. Members of
this family are often known as YacF after the
Escherichia coli protein. The function of this family is
unknown.
Length = 211
Score = 30.6 bits (70), Expect = 2.1
Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 17/87 (19%)
Query: 415 LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDI-KEAESMVRFQLRHGNDLL 473
LE+ +R DL S LLK ++R Q+ + + +EA + ++
Sbjct: 33 LEVLERADLKSELLKDLER--------QRQTLLKWRGNPGVDQEALEQLLDEIEQ----- 79
Query: 474 AMDSLRECDVNLKEQGRLLRQNEFIVS 500
A +L + G+ L+++EF+ S
Sbjct: 80 ASAALNAAPGRI---GQSLKEDEFLSS 103
>gnl|CDD|241472 cd13318, PH_IQSEC, IQ motif and SEC7 domain-containing protein
family Pleckstrin homology domain. The IQSEC (also
called BRAG/Brefeldin A-resistant Arf-gunanine
nucleotide exchange factor) family are a subset of Arf
GEFs that have been shown to activate Arf6, which acts
in the endocytic pathway to control the trafficking of a
subset of cargo proteins including integrins and have
key roles in the function and organization of distinct
excitatory and inhibitory synapses in the retina. The
family consists of 3 members: IQSEC1 (also called
BRAG2/GEP100), IQSEC2 (also called BRAG1), and IQSEC3
(also called SynArfGEF, BRAG3, or KIAA1110). IQSEC1
interacts with clathrin and modulates cell adhesion by
regulating integrin surface expression and in addition
to Arf6, it also activates the class II Arfs, Arf4 and
Arf5. Mutations in IQSEC2 cause non-syndromic X-linked
intellectual disability as well as reduced activation of
Arf substrates (Arf1, Arf6). IQSEC3 regulates Arf6 at
inhibitory synapses and associates with the
dystrophin-associated glycoprotein complex and S-SCAM.
These members contains a IQ domain that may bind
calmodulin, a PH domain that is thought to mediate
membrane localization by binding of phosphoinositides,
and a SEC7 domain that can promote GEF activity on ARF.
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 = 128
Score = 29.6 bits (67), Expect = 2.5
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 509 RHVFLFEELILFSKARRFPDRKNLDLYIYKHSM 541
R VFLF +L++ +K F +K+ Y ++ S
Sbjct: 28 REVFLFNDLLVVTKI--FSKKKSSVTYTFRQSF 58
>gnl|CDD|221197 pfam11739, DctA-YdbH, Dicarboxylate transport. In certain
bacterial families this protein is expressed from the
ydbH gene, and there is a suggestion that this is a form
of DctA or dicarboxylate transport protein.
Dicarboxylate transport proteins are found in aerobic
bacteria which grow on succinate or other
C4-dicarboxylates.
Length = 207
Score = 30.2 bits (69), Expect = 2.5
Identities = 27/85 (31%), Positives = 34/85 (40%), Gaps = 21/85 (24%)
Query: 273 SHLHYSQLSLDLDSASCGVQTLKTQ---KNLLFIMREMIQTERDYVKSLEYVILNYIPEL 329
+LHYSQLS LD G L + +N D V LNY E
Sbjct: 141 ENLHYSQLSSSLDYDPDGELVLGVRLKGRN------------PDLQAGRP-VNLNYNHE- 186
Query: 330 TREDIPQALRGQRNVIFGNIEKIYE 354
E++ Q LR R I N+E+ E
Sbjct: 187 --ENLLQLLRSLR--IGDNLEEQIE 207
>gnl|CDD|165564 PHA03309, PHA03309, transcriptional regulator ICP4; Provisional.
Length = 2033
Score = 31.0 bits (69), Expect = 3.2
Identities = 20/67 (29%), Positives = 26/67 (38%), Gaps = 3/67 (4%)
Query: 169 APSPSP---HHTPSHACPCWDPGDNSTLPSPSIPEECYCRTGNHSNHPLQRSCTWQYPTE 225
AP +P P P W P +TLPS S PE+ T + P R T
Sbjct: 1892 APGDAPLNLEDGPGRGRPIWTPSSATTLPSRSGPEDSVDETETEDSAPPARLAPSPLETS 1951
Query: 226 NYDEEED 232
++ ED
Sbjct: 1952 RAEDSED 1958
>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 = 28.8 bits (65), Expect = 4.2
Identities = 28/113 (24%), Positives = 56/113 (49%), Gaps = 11/113 (9%)
Query: 480 ECDVNLKEQGR-LLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYK 538
NL + GR L+++ E + K + R++FLF +++L++ P + + Y K
Sbjct: 2 RGQFNLVQPGRVLIKEGELMKVSRKEMQ-PRYLFLFNDVLLYTT----PVQSGVGKYKLK 56
Query: 539 HSMKMSDIGITAQIGDS-STKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELS 590
+ + +S + ++ + S +F+I KR +FTL + S + + W LS
Sbjct: 57 NELPLSGMKVSLPEDEEYSNEFQIESTKR----SFTLSASSAEERDEWVKALS 105
>gnl|CDD|223647 COG0574, PpsA, Phosphoenolpyruvate synthase/pyruvate phosphate
dikinase [Carbohydrate transport and metabolism].
Length = 740
Score = 30.4 bits (69), Expect = 4.5
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 60 YYLLDRAYEWALEAMKYISRVKPE-DQTSIEPTVKQLRQYL 99
+Y EWA++ YI + +PE + + P + R L
Sbjct: 297 HYGRPMDIEWAIDGKLYILQARPETVLSLLHPVEDRGRALL 337
>gnl|CDD|153426 cd07997, WGR_PARP, WGR domain of poly(ADP-ribose) polymerases. The
WGR domain is found in a variety of eukaryotic
poly(ADP-ribose) polymerases (PARPs). It has been called
WGR after the most conserved central motif of the
domain. The domain typically occurs together with a
catalytic PARP domain, and is between 70 and 80 residues
in length. It has been proposed to function as a nucleic
acid binding domain. PARPs catalyze the NAD(+)-dependent
synthesis of ADP-ribose polymers and their addition to
various nuclear proteins and histones. Higher eukaryotes
contain several PARPs and there may be up to 17 human
PARP-like proteins, with three of them (PARP-1, PARP-2,
and PARP-3) containing a WGR domain. The synthesis of
poly-ADP-ribose requires multiple enzymatic activities
for initiation, trans-ADP-ribosylation, elongation,
branching, and release of the polymer from the enzyme.
Poly-ADP-ribosylation was thought to be a reversible
post-translational covalent modification that serves as
a regulatory mechanism for protein substrates. However,
it is now known that it plays important roles in many
cellular processes including maintenance of genomic
stability, transcriptional regulation, energy
metabolism, cell death and survival, among others.
Length = 102
Score = 28.4 bits (64), Expect = 4.9
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 380 NHENKFYLYALYNKNKPKSDALMTEYG 406
N+ NKFY + P + AL T +G
Sbjct: 21 NNNNKFYKIQILESKGPNTYALFTRWG 47
>gnl|CDD|235389 PRK05287, PRK05287, hypothetical protein; Provisional.
Length = 250
Score = 29.4 bits (67), Expect = 5.6
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 20/88 (22%)
Query: 415 LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDI-KEAESMVRFQLRH-GNDL 472
L++ +R DL S LLK ++R Q+ + + +EA + +L L
Sbjct: 51 LDVLERGDLKSDLLKELER--------QRQKLQKWRGNPGVDQEALEALLQELEQASAAL 102
Query: 473 LAMDSLRECDVNLKEQGRLLRQNEFIVS 500
A + G+ LR++ F+ S
Sbjct: 103 NAAPRI----------GQSLREDRFLSS 120
>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 = 27.9 bits (63), Expect = 6.6
Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 534 LYIYKHSMKMSDIGI----TAQIGDSSTKFEIWFRKRK------PNETFTLQSMSEDIKQ 583
L+IY + G+ TA++ + S E + P ++ LQ+ SE
Sbjct: 42 LHIYSSEKDGDERGVINLSTARV-EYSPDQEALLGRPNVFAVYTPTNSYLLQARSEKEMH 100
Query: 584 AWTDELSNLL 593
W + LL
Sbjct: 101 DWLYAIDPLL 110
>gnl|CDD|219500 pfam07655, Secretin_N_2, Secretin N-terminal domain. This is a
short domain found in bacterial type II/III secretory
system proteins. The architecture of these proteins
suggest that this family may be functionally analogous
to pfam03958.
Length = 95
Score = 27.7 bits (62), Expect = 7.0
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 670 SIISVSSSSGGSSSGSMNGGGPRQTSQCSSAESGIVTDWHTTRSNSSVTSDSTS 723
S+ S S SS GS+S S + S SS+ + S + +T++S S
Sbjct: 20 SVTSGSVSSSGSNSSSSSSNSSNGGSSSSSSSG-------DSSSGTRITTESES 66
>gnl|CDD|152960 pfam12526, DUF3729, Protein of unknown function (DUF3729). This
family of proteins is found in viruses. Proteins in this
family are typically between 145 and 1707 amino acids in
length. The family is found in association with
pfam01443, pfam01661, pfam05417, pfam01660, pfam00978.
There is a single completely conserved residue L that
may be functionally important.
Length = 115
Score = 28.1 bits (63), Expect = 7.0
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 3/53 (5%)
Query: 152 THQWNTS--TPLPSRRKSLAPSPSPH-HTPSHACPCWDPGDNSTLPSPSIPEE 201
T W+TS + S +S P P P P ++ P E
Sbjct: 17 TRTWSTSGFSSCFSPPESAHPDDPPPVGDPRPPVVDTPPPVSAVWVLPPPSEP 69
>gnl|CDD|200333 TIGR03878, thermo_KaiC_2, KaiC domain protein, AF_0795 family.
This KaiC domain-containing protein family occurs
sporadically across a broad taxonomic range
(Euryarchaeota, Aquificae, Dictyoglomi,
Epsilonproteobacteria, and Firmicutes), but exclusively
in thermophiles.
Length = 259
Score = 29.3 bits (66), Expect = 7.2
Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 14/99 (14%)
Query: 236 SVDNTTEGSDTGKS--GEECCEEPSENSLSKPMPPVSVNSHLHYSQLSLDLDSASCGVQT 293
SV N T SDTGKS E+ + + S P+ V+V S ++ SL L + + GV
Sbjct: 37 SVINITGVSDTGKSLMVEQFAVK--QASRGNPVLFVTVESPANFVVTSLKLRANAMGVDF 94
Query: 294 LKTQKNLLFI-------MREMIQTERDYVKSLEYVILNY 325
K + N++ I +RE + + + +L Y I Y
Sbjct: 95 EKIEDNIILIDAASSTELRENVP---NLLATLAYAIKEY 130
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 29.4 bits (66), Expect = 8.8
Identities = 24/93 (25%), Positives = 35/93 (37%), Gaps = 8/93 (8%)
Query: 641 TTPKFRNSIAVMPGSGGLSDVGGPRTRPHSIISVSSS---SGGSSSGSMNGGGPRQTSQC 697
P R + +P + + S SSS S S S G GP +S
Sbjct: 254 ECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPR 313
Query: 698 SSAESGIVTDWHTTRSNSSVTSDSTSPSHQVSV 730
+S+ S + S+SS TS S+ S +V
Sbjct: 314 ASSSSSSSRE-----SSSSSTSSSSESSRGAAV 341
Score = 29.4 bits (66), Expect = 9.2
Identities = 14/56 (25%), Positives = 19/56 (33%)
Query: 653 PGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGSMNGGGPRQTSQCSSAESGIVTDW 708
P S + R S IS S+SS + G +S SS+ W
Sbjct: 194 PPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSGCGW 249
>gnl|CDD|241515 cd13361, PH_PLC_beta, Phospholipase C-beta (PLC-beta) pleckstrin
homology (PH) domain. PLC-beta (PLCbeta) is regulated
by heterotrimeric G protein-coupled receptors through
their C2 domain and long C-terminal extension which
forms an autoinhibitory helix. There are four isoforms:
PLC-beta1-4. The PH domain of PLC-beta2 and PLC-beta3
plays a dual role, much like PLC-delta1, by binding to
the plasma membrane, as well as the interaction site for
the catalytic activator. However, PLC-beta binds to the
lipid surface independent of PIP2. PLC-beta1 seems to
play unspecified roles in cellular proliferation and
differentiation. PLC-beta consists of an N-terminal PH
domain, a EF hand domain, a catalytic domain split into
X and Y halves, a C2 domain and a C-terminal PDZ.
Members of the Rho GTPase family (e.g., Rac1, Rac2,
Rac3, and cdc42) have been implicated in their
activation by binding to an alternate site on the
N-terminal PH domain. A basic amino acid region within
the enzyme's long C-terminal tail appears to function as
a Nuclear Localization Signal for import into the
nucleus. PLCs (EC 3.1.4.3) play a role in the initiation
of cellular activation, proliferation, differentiation
and apoptosis. They are central to inositol lipid
signalling pathways, facilitating intracellular Ca2+
release and protein kinase C (PKC) activation.
Specificaly, PLCs catalyze the cleavage of
phosphatidylinositol-4,5-bisphosphate (PIP2) and result
in the release of 1,2-diacylglycerol (DAG) and inositol
1,4,5-triphosphate (IP3). These products trigger the
activation of protein kinase C (PKC) and the release of
Ca2+ from intracellular stores. There are fourteen kinds
of mammalian phospholipase C proteins which are are
classified into six isotypes (beta, gamma, delta,
epsilon, zeta, eta). 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.the plasma membrane, but only a few
(less than 10%) display strong specificity in binding
inositol phosphates. 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 kinases,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, cytoskeletal associated molecules,
and in lipid associated enzymes.
Length = 127
Score = 27.9 bits (63), Expect = 8.8
Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 569 NETFT-LQSMSEDIKQAWTDELSNLLWKQALRN 600
N +F + S+++ + WT+ L L N
Sbjct: 92 NLSFINFVAESKEVAKIWTEGLLKLAHNLLANN 124
>gnl|CDD|237756 PRK14559, PRK14559, putative protein serine/threonine phosphatase;
Provisional.
Length = 645
Score = 29.3 bits (66), Expect = 8.9
Identities = 23/116 (19%), Positives = 37/116 (31%), Gaps = 18/116 (15%)
Query: 82 PEDQTSIEPTVKQLRQYLMAHPPLASEHFTEMIQLAKKLNNDKLIEQCKVAQCRCEETLE 141
PE S+ + Q+ Q L F +I L + L + K+ +T+
Sbjct: 269 PEQPPSL-QDLGQVWQQLFTQ--SQRTQFESLIPLLQDLQSGKI------------QTIA 313
Query: 142 QIRSYLGADSTHQWNTSTPLPSRRKSLAPS-PSPHHTPSHACPCWDPGDNST--LP 194
Q+R L +T + PS + P + D T LP
Sbjct: 314 QLRLRLQELATELEAEGEAEFESTEGETTLAPSILQSDDSESPIHETEDAPTAVLP 369
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
0.315 0.130 0.383
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 36,197,853
Number of extensions: 3504980
Number of successful extensions: 3654
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3602
Number of HSP's successfully gapped: 49
Length of query: 732
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 628
Effective length of database: 6,324,786
Effective search space: 3971965608
Effective search space used: 3971965608
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 63 (28.0 bits)