RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17821
(194 letters)
>gnl|CDD|241283 cd01252, PH_GRP1-like, General Receptor for
Phosphoinositides-1-like Pleckstrin homology (PH)
domain. GRP1/cytohesin3 and the related proteins ARNO
(ARF nucleotide-binding site opener)/cytohesin-2 and
cytohesin-1 are ARF exchange factors that contain a
pleckstrin homology (PH) domain thought to target these
proteins to cell membranes through binding
polyphosphoinositides. The PH domains of all three
proteins exhibit relatively high affinity for
PtdIns(3,4,5)P3. Within the Grp1 family, diglycine (2G)
and triglycine (3G) splice variants, differing only in
the number of glycine residues in the PH domain,
strongly influence the affinity and specificity for
phosphoinositides. The 2G variants selectively bind
PtdIns(3,4,5)P3 with high affinity,the 3G variants bind
PtdIns(3,4,5)P3 with about 30-fold lower affinity and
require the polybasic region for plasma membrane
targeting. These ARF-GEFs share a common, tripartite
structure consisting of an N-terminal coiled-coil
domain, a central domain with homology to the yeast
protein Sec7, a PH domain, and a C-terminal polybasic
region. The Sec7 domain is autoinhibited by conserved
elements proximal to the PH domain. GRP1 binds to the
DNA binding domain of certain nuclear receptors
(TRalpha, TRbeta, AR, ER, but not RXR), and can repress
thyroid hormone receptor (TR)-mediated transactivation
by decreasing TR-complex formation on thyroid hormone
response elements. ARNO promotes sequential activation
of Arf6, Cdc42 and Rac1 and insulin secretion. Cytohesin
acts as a PI 3-kinase effector mediating biological
responses including cell spreading and adhesion,
chemotaxis, protein trafficking, and cytoskeletal
rearrangements, only some of which appear to depend on
their ability to activate ARFs. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 118
Score = 136 bits (345), Expect = 6e-42
Identities = 53/77 (68%), Positives = 60/77 (77%), Gaps = 2/77 (2%)
Query: 2 DTGDDRQVEPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHT 61
+ D+ EPRGIIPLEN+ VREV D KP CFEL++ E IKACKTDS+GKVVEG HT
Sbjct: 35 EYTTDK--EPRGIIPLENLSVREVEDSKKPFCFELYSPSNEVIKACKTDSDGKVVEGNHT 92
Query: 62 VYRMSAATAEEKDEWIK 78
VYR+SAAT EE DEWIK
Sbjct: 93 VYRISAATEEEMDEWIK 109
>gnl|CDD|238100 cd00171, Sec7, Sec7 domain; Domain named after the S. cerevisiae
SEC7 gene product. The Sec7 domain is the central domain
of the guanine-nucleotide-exchange factors (GEFs) of the
ADP-ribosylation factor family of small GTPases (ARFs) .
It carries the exchange factor activity.
Length = 185
Score = 51.8 bits (125), Expect = 1e-08
Identities = 20/38 (52%), Positives = 28/38 (73%)
Query: 154 LLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKV 191
L + + +A+FLY+ EGLNK AIG+YLGE ++FN V
Sbjct: 29 LEDDSPKEIAKFLYETEGLNKKAIGEYLGENNEFNSLV 66
>gnl|CDD|216460 pfam01369, Sec7, Sec7 domain. The Sec7 domain is a
guanine-nucleotide-exchange-factor (GEF) for the
pfam00025 family.
Length = 188
Score = 49.9 bits (120), Expect = 6e-08
Identities = 17/37 (45%), Positives = 23/37 (62%)
Query: 156 EPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKVR 192
E +A+FL + GL+K AIG+YLG+ FN KV
Sbjct: 34 EDDPKEIAKFLRETPGLDKKAIGEYLGKNDPFNRKVL 70
>gnl|CDD|214569 smart00222, Sec7, Sec7 domain. Domain named after the S.
cerevisiae SEC7 gene product, which is required for
proper protein transport through the Golgi. The domain
facilitates guanine nucleotide exchange on the small
GTPases, ARFs (ADP ribosylation factors).
Length = 189
Score = 47.3 bits (113), Expect = 5e-07
Identities = 21/30 (70%), Positives = 22/30 (73%)
Query: 162 VAQFLYKGEGLNKTAIGDYLGERHDFNEKV 191
VA FL K EGLNK AIGDYLGE +FN V
Sbjct: 40 VADFLSKNEGLNKKAIGDYLGEHDEFNRLV 69
>gnl|CDD|215560 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 48.3 bits (115), Expect = 8e-07
Identities = 19/30 (63%), Positives = 21/30 (70%)
Query: 162 VAQFLYKGEGLNKTAIGDYLGERHDFNEKV 191
+A FL GLNKT IGDYLGER D + KV
Sbjct: 651 IAAFLKDASGLNKTLIGDYLGEREDLSLKV 680
>gnl|CDD|238194 cd00317, cyclophilin, cyclophilin: cyclophilin-type peptidylprolyl
cis- trans isomerases. This family contains eukaryotic,
bacterial and archeal proteins which exhibit a
peptidylprolyl cis- trans isomerases activity (PPIase,
Rotamase) and in addition bind the immunosuppressive
drug cyclosporin (CsA). Immunosuppression in
vertebrates is believed to be the result of the
cyclophilin A-cyclosporin protein drug complex binding
to and inhibiting the protein-phosphatase calcineurin.
PPIase is an enzyme which accelerates protein folding by
catalyzing the cis-trans isomerization of the peptide
bonds preceding proline residues. Cyclophilins are a
diverse family in terms of function and have been
implicated in protein folding processes which depend on
catalytic /chaperone-like activities. This group
contains human cyclophilin 40, a co-chaperone of the
hsp90 chaperone system; human cyclophilin A, a
chaperone in the HIV-1 infectious process and; human
cyclophilin H, a component of the U4/U6 snRNP, whose
isomerization or chaperoning activities may play a role
in RNA splicing. .
Length = 146
Score = 45.7 bits (109), Expect = 1e-06
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVVK 147
H VFG VV G +VV IE D+ RP++ V +
Sbjct: 111 HTVFGKVVEGMDVVDKIERGDTDENGRPIKPVTISD 146
>gnl|CDD|215759 pfam00160, Pro_isomerase, Cyclophilin type peptidyl-prolyl
cis-trans isomerase/CLD. The peptidyl-prolyl cis-trans
isomerases, also known as cyclophilins, share this
domain of about 109 amino acids. Cyclophilins have been
found in all organisms studied so far and catalyze
peptidyl-prolyl isomerisation during which the peptide
bond preceding proline (the peptidyl-prolyl bond) is
stabilised in the cis conformation. Mammalian
cyclophilin A (CypA) is a major cellular target for the
immunosuppressive drug cyclosporin A (CsA). Other roles
for cyclophilins may include chaperone and cell
signalling function.
Length = 144
Score = 43.8 bits (104), Expect = 7e-06
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVVKC 148
+ VFG VV G +VV IE + D RPL+DV++ C
Sbjct: 109 YTVFGRVVEGMDVVEKIEKVETDG-DRPLKDVKITSC 144
>gnl|CDD|238907 cd01926, cyclophilin_ABH_like, cyclophilin_ABH_like: Cyclophilin
A, B and H-like cyclophilin-type peptidylprolyl cis-
trans isomerase (PPIase) domain. This family represents
the archetypal cystolic cyclophilin similar to human
cyclophilins A, B and H. PPIase is an enzyme which
accelerates protein folding by catalyzing the cis-trans
isomerization of the peptide bonds preceding proline
residues. These enzymes have been implicated in protein
folding processes which depend on catalytic
/chaperone-like activities. As cyclophilins, Human
hCyP-A, human cyclophilin-B (hCyP-19), S. cerevisiae
Cpr1 and C. elegans Cyp-3, are inhibited by the
immunosuppressive drug cyclopsporin A (CsA). CsA binds
to the PPIase active site. Cyp-3. S. cerevisiae Cpr1
interacts with the Rpd3 - Sin3 complex and in addition
is a component of the Set3 complex. S. cerevisiae Cpr1
has also been shown to have a role in Zpr1p nuclear
transport. Human cyclophilin H associates with the
[U4/U6.U5] tri-snRNP particles of the splicesome.
Length = 164
Score = 43.4 bits (103), Expect = 1e-05
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVVKC 148
HVVFG VV G +VV IEN+ +P + V + C
Sbjct: 128 HVVFGKVVEGMDVVKKIENVGSGN-GKPKKKVVIADC 163
>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 = 42.2 bits (99), Expect = 1e-05
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 22/77 (28%)
Query: 5 DDRQVEPRGIIPLENIQVREVHDR---HKPHCFELFTSGFEFIKACKTDSEGKVVEGKHT 61
D + +P+G I L VRE D KPHCFE+ T
Sbjct: 38 DKKSYKPKGSIDLSGCTVREAPDPDSSKKPHCFEIKT-------------------SDRK 78
Query: 62 VYRMSAATAEEKDEWIK 78
+ A + EE+++W++
Sbjct: 79 TLLLQAESEEEREKWVE 95
>gnl|CDD|238908 cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a WD40 domain. This group consists of several
hypothetical and putative eukaryotic and bacterial
proteins which have a cyclophilin domain and a WD40
domain. Function of the protein is not known.
Length = 148
Score = 41.7 bits (98), Expect = 3e-05
Identities = 17/36 (47%), Positives = 24/36 (66%)
Query: 111 VHVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVV 146
H VFG VV G +VV IEN+ DK RP +D++++
Sbjct: 111 KHTVFGRVVKGMDVVQRIENVKTDKNDRPYEDIKII 146
>gnl|CDD|238902 cd01921, cyclophilin_RRM, cyclophilin_RRM: cyclophilin-type
peptidylprolyl cis- trans isomerase domain occuring with
a C-terminal RNA recognition motif domain (RRM). This
subfamily of the cyclophilin domain family contains a
number of eukaryotic cyclophilins having the RRM domain
including the nuclear proteins: human hCyP-57,
Arabidopsis thaliana AtCYP59, Caenorhabditis elegans
CeCyP-44 and Paramecium tetrurelia Kin241. The Kin241
protein has been shown to have a role in cell
morphogenesis.
Length = 166
Score = 40.8 bits (96), Expect = 1e-04
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 110 RVHVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRV 145
H VFG VV G +V+ I + VD RPL+D+R+
Sbjct: 118 GKHTVFGQVVEGFDVLEKINDAIVDDDGRPLKDIRI 153
>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 = 38.9 bits (90), Expect = 2e-04
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 19/75 (25%)
Query: 5 DDRQVEPRGIIPLE-NIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVY 63
D +P+G+IPL ++V V KP+CFEL T + Y
Sbjct: 35 KDSSKKPKGLIPLSDGLEVELVSSSGKPNCFELVTP------------------DRGRTY 76
Query: 64 RMSAATAEEKDEWIK 78
+ A + EE++EW++
Sbjct: 77 YLQAESEEEREEWLE 91
>gnl|CDD|238909 cd01928, Cyclophilin_PPIL3_like, Cyclophilin_PPIL3_like. Proteins
similar to Human cyclophilin-like peptidylprolyl cis-
trans isomerase (PPIL3). Members of this family lack a
key residue important for cyclosporin binding: the
tryptophan residue corresponding to W121 in human
hCyP-18a; most members have a histidine at this
position. The exact function of the protein is not
known.
Length = 153
Score = 39.3 bits (92), Expect = 2e-04
Identities = 15/34 (44%), Positives = 23/34 (67%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRV 145
+ VFG V+ G + +E LPVDK RPL+++R+
Sbjct: 115 YTVFGKVIDGFETLDTLEKLPVDKKYRPLEEIRI 148
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 38.2 bits (89), Expect = 3e-04
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 22/72 (30%)
Query: 10 EPRGIIPLENIQVREVHD---RHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMS 66
P+G IPL QV +V D + +CFE+ T G + +
Sbjct: 42 RPKGSIPLSGCQVTKVPDSEDGKRKNCFEIRT-------------------GDRETFLLQ 82
Query: 67 AATAEEKDEWIK 78
A + EE+ EW+K
Sbjct: 83 AESEEERKEWVK 94
>gnl|CDD|238904 cd01923, cyclophilin_RING, cyclophilin_RING: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a modified RING finger domain. This group
includes the nuclear proteins, Human hCyP-60 and
Caenorhabditis elegans MOG-6 which, compared to the
archetypal cyclophilin Human cyclophilin A exhibit
reduced peptidylprolyl cis- trans isomerase activity and
lack a residue important for cyclophilin binding. Human
hCyP-60 has been shown to physically interact with the
proteinase inhibitor peptide eglin c and; C. elegans
MOG-6 to physically interact with MEP-1, a nuclear zinc
finger protein. MOG-6 has been shown to function in
germline sex determination.
Length = 159
Score = 37.8 bits (88), Expect = 9e-04
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 110 RVHVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRV 145
H VFG VV G + +EN+P RP +++++
Sbjct: 112 GKHTVFGRVVGGLETLEAMENVPDPGTDRPKEEIKI 147
>gnl|CDD|241414 cd13260, PH_RASA1, RAS p21 protein activator (GTPase activating
protein) 1 Pleckstrin homology (PH) domain. RASA1
(also called RasGap1 or p120) is a member of the RasGAP
family of GTPase-activating proteins. RASA1 contains
N-terminal SH2-SH3-SH2 domains, followed by two C2
domains, a PH domain, a RasGAP domain, and a BTK
domain. Splice variants lack the N-terminal domains. It
is a cytosolic vertebrate protein that acts as a
suppressor of RAS via its C-terminal GAP domain
function, enhancing the weak intrinsic GTPase activity
of RAS proteins resulting in the inactive GDP-bound
form of RAS, allowing control of cellular proliferation
and differentiation. Additionally, it is involved in
mitogenic signal transmission towards downstream
interacting partners through its N-terminal SH2-SH3-SH2
domains. RASA1 interacts with a number of proteins
including: G3BP1, SOCS3, ANXA6, Huntingtin, KHDRBS1,
Src, EPHB3, EPH receptor B2, Insulin-like growth factor
1 receptor, PTK2B, DOK1, PDGFRB, HCK, Caveolin 2,
DNAJA3, HRAS, GNB2L1 and NCK1. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold,
which is electrostatically polarized. Less than 10% of
PH domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 103
Score = 36.5 bits (85), Expect = 0.001
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 18/74 (24%)
Query: 7 RQVEPRGIIPLENIQVREVHDRH--KPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYR 64
++ +P+G+I L V VHD +P+CF++ + T+Y
Sbjct: 40 KRTKPKGLIDLSYSSVYPVHDSLFGRPNCFQIVVRAL----------------NESTIYY 83
Query: 65 MSAATAEEKDEWIK 78
+ A TAE +W+K
Sbjct: 84 LCADTAELAQDWMK 97
>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 = 36.4 bits (85), Expect = 0.002
Identities = 18/74 (24%), Positives = 27/74 (36%), Gaps = 20/74 (27%)
Query: 5 DDRQVEPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYR 64
DR EP G+I LE V D P+ F + G Y
Sbjct: 43 GDR--EPLGVIVLEGCTVELSEDEE-PYAFAIRFDG-----------------PGSRSYV 82
Query: 65 MSAATAEEKDEWIK 78
++A + E+ + W+K
Sbjct: 83 LAAESQEDMESWMK 96
>gnl|CDD|241430 cd13276, PH_AtPH1, Arabidopsis thaliana Pleckstrin homolog (PH) 1
(AtPH1) PH domain. AtPH1 is expressed in all plant
tissue and is proposed to be the plant homolog of human
pleckstrin. Pleckstrin consists of two PH domains
separated by a linker region, while AtPH has a single PH
domain with a short N-terminal extension. AtPH1 binds
PtdIns3P specifically and is thought to be an adaptor
molecule since it has no obvious catalytic functions. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 117
Score = 35.8 bits (83), Expect = 0.003
Identities = 17/83 (20%), Positives = 30/83 (36%), Gaps = 22/83 (26%)
Query: 10 EPRGIIPLENIQVREVHDRH--KPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSA 67
EPRG+I L + + + K FE+ T + + A
Sbjct: 46 EPRGVIDLSDCLTVKSAEEATNKEFAFEVSTP--------------------ERTFYLIA 85
Query: 68 ATAEEKDEWIKYSEGKVVEGKHT 90
+ +EK+EWI +V+ +
Sbjct: 86 DSEKEKEEWISAIGRAIVKLSRS 108
Score = 26.2 bits (58), Expect = 7.2
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 85 VEGKHTVYRMSAATAEEKDEWIKCL 109
V + + A + +EK+EWI +
Sbjct: 74 VSTPERTFYLIADSEKEKEEWISAI 98
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 35.6 bits (82), Expect = 0.006
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVVKCNEL 151
HVVFG V+ G VV +E + P + V V C EL
Sbjct: 144 HVVFGKVIEGMEVVRAMEKEGT-QSGYPKKPVVVTDCGEL 182
>gnl|CDD|241253 cd01218, PH_Phafin2-like, Phafin2 (also called EAPF, FLJ13187,
ZFYVE18 or PLEKHF2) Pleckstrin Homology (PH) domain.
Phafin2 is differentially expressed in the liver cancer
cell and regulates the structure and function of the
endosomes through Rab5-dependent processes. Phafin2
modulates the cell's response to extracellular
stimulation by modulating the receptor density on the
cell surface. Phafin2 contains a PH domain and a FYVE
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 = 123
Score = 34.5 bits (80), Expect = 0.008
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 21/65 (32%)
Query: 14 IIPLENIQVREVHDRHKP-HCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSAATAEE 72
IIPLE++++ ++ D + + +++ + F VY AATA E
Sbjct: 73 IIPLEDVKIEDLEDTGELKNGWQIISPKKSF-----------------VVY---AATATE 112
Query: 73 KDEWI 77
K EW+
Sbjct: 113 KSEWM 117
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 34.9 bits (81), Expect = 0.009
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDK----MSRPLQDVRVVK 147
+ VFG VV G +VV I+N D P V+++
Sbjct: 114 YTVFGQVVEGMDVVDKIKNGDTDDSGYVQDVPADPVKILS 153
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 35.2 bits (81), Expect = 0.012
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 113 VVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRVVKCNEL 151
VVFG V +++ +E+LP+D + RPL V V C L
Sbjct: 181 VVFGKAVDDLSLLEKLESLPLDDVGRPLLPVTVSFCGAL 219
>gnl|CDD|241435 cd13281, PH_PLEKHD1, Pleckstrin homology (PH) domain containing,
family D (with coiled-coil domains) member 1 PH domain.
Human PLEKHD1 (also called UPF0639, pleckstrin
homology domain containing, family D (with M protein
repeats) member 1) is a single transcript and contains
a single PH domain. PLEKHD1 is conserved in human,
chimpanzee, , dog, cow, mouse, chicken, zebrafish, and
Caenorhabditis elegans. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold,
which is electrostatically polarized. Less than 10% of
PH domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 139
Score = 33.9 bits (78), Expect = 0.017
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 11 PRGIIPLENIQVREVHDRHKPHCFELFTSGF 41
P+G+IPL + D +P+CF + F
Sbjct: 63 PKGVIPLGGCSIEAGRDPGRPYCFLISHPDF 93
>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 = 32.7 bits (75), Expect = 0.034
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 22/79 (27%)
Query: 4 GDDRQVEPRGIIPLENIQ---VREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKH 60
D P I L Q R +++ +PH FEL +
Sbjct: 36 PDRSDRLPLLSISLGGEQCGGCRRINNTDRPHSFELILTD-------------------R 76
Query: 61 TVYRMSAATAEEKDEWIKY 79
++A E EW++
Sbjct: 77 PSLELAAPDEYEASEWLQS 95
>gnl|CDD|238901 cd01920, cyclophilin_EcCYP_like, cyclophilin_EcCYP_like:
cyclophilin-type A-like peptidylprolyl cis- trans
isomerase (PPIase) domain similar to the cytosolic E.
coli cyclophilin A and Streptomyces antibioticus
SanCyp18. Compared to the archetypal cyclophilin Human
cyclophilin A, these have reduced affinity for
cyclosporin A. E. coli cyclophilin A has a similar
peptidylprolyl cis- trans isomerase activity to the
human cyclophilin A. Most members of this subfamily
contain a phenylalanine residue at the position
equivalent to Human cyclophilin W121, where a tyrptophan
has been shown to be important for cyclophilin binding.
Length = 155
Score = 32.8 bits (75), Expect = 0.046
Identities = 12/32 (37%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 114 VFGHVVSGQNVVSHIENLPVDKMSRPLQDVRV 145
VFG V G +VV I + QDV V
Sbjct: 117 VFGEVTEGMDVVDKIAGVETYS-FGSYQDVPV 147
>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 = 31.2 bits (71), Expect = 0.10
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 8/74 (10%)
Query: 5 DDRQVEPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYR 64
D+ + +P+G IPL V+E+ P F FE I G H Y
Sbjct: 36 DEDESKPQGCIPLPGNTVKELPF--NPEEPGKFL--FEIIPG----DGGTRRSANHDSYL 87
Query: 65 MSAATAEEKDEWIK 78
+ A + E +EW+K
Sbjct: 88 LMANSQAEMEEWVK 101
Score = 28.1 bits (63), Expect = 1.5
Identities = 11/36 (30%), Positives = 16/36 (44%)
Query: 75 EWIKYSEGKVVEGKHTVYRMSAATAEEKDEWIKCLR 110
E I G H Y + A + E +EW+K +R
Sbjct: 69 EIIPGDGGTRRSANHDSYLLMANSQAEMEEWVKVIR 104
>gnl|CDD|241426 cd13272, PH_INPP4A_INPP4B, Type I inositol 3,4-bisphosphate
4-phosphatase and Type II inositol 3,4-bisphosphate
4-phosphatase Pleckstrin homology (PH) domain. INPP4A
(also called Inositol polyphosphate 4-phosphatase type
I) and INPP4B (also called Inositol polyphosphate
4-phosphatase type II) both catalyze the hydrolysis of
the 4-position phosphate of phosphatidylinositol
3,4-bisphosphate and inositol 1,3,4-trisphosphate. They
differ in that INPP4A additionally catalyzes the
hydrolysis of the 4-position phosphate of inositol
3,4-bisphosphate, while INPP4B catalyzes the hydrolysis
of the 4-position phosphate of inositol
1,4-bisphosphate. They both have a single PH domain
followed by a C2 domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold,
which is electrostatically polarized. Less than 10% of
PH domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 116
Score = 31.1 bits (71), Expect = 0.12
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 19/69 (27%)
Query: 10 EPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSAAT 69
EP G+I LEN +V+ F L F + K YR S +
Sbjct: 38 EPAGVIVLENCRVQREEPDPGGFAFSL-----VFK------------DEKK--YRFSCRS 78
Query: 70 AEEKDEWIK 78
EE+DEWI+
Sbjct: 79 EEERDEWIE 87
Score = 28.0 bits (63), Expect = 1.4
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 92 YRMSAATAEEKDEWIKCLR 110
YR S + EE+DEWI+ ++
Sbjct: 72 YRFSCRSEEERDEWIEAIK 90
>gnl|CDD|148600 pfam07086, DUF1352, Protein of unknown function (DUF1352). This
family consists of several hypothetical eukaryotic
proteins of around 190 residues in length. The function
of this family is unknown.
Length = 183
Score = 32.0 bits (73), Expect = 0.13
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 92 YRMSAATAEEKDEWIKCLRVHVVFGHVVSGQNVVSHIENLPVDKMSRPLQ 141
Y+MSA K E K + VH++ +++ + VSH+ + ++ P Q
Sbjct: 27 YQMSALL---KSELKKLIFVHLLIWVLMAAKVGVSHLLLISHLQVPMPYQ 73
>gnl|CDD|241433 cd13279, PH_Cla4_Ste20, Pleckstrin homology (PH) domain. Budding
yeast contain two main p21-activated kinases (PAKs),
Cla4 and Ste20. The yeast Ste20 protein kinase is
involved in pheromone response, though the function of
Ste20 mammalian homologs is unknown. Cla4 is involved
in budding and cytokinesis and interacts with Cdc42, a
GTPase required for polarized cell growth as is Pak.
Cla4 and Ste20 kinases share a function in localizing
cell growth with respect to the septin ring. They both
contain a PH domain, a Cdc42/Rac interactive binding
(CRIB) domain, and a C-terminal Protein Kinase
catalytic (PKc) domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold,
which is electrostatically polarized. Less than 10% of
PH domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 91
Score = 30.3 bits (69), Expect = 0.17
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 6 DRQVEPRGIIPLENIQVREVHDRHKPHCFELFTSGFE---FIKACKTDSE 52
+ IPL++I D KP+CFE+ +I + K+D E
Sbjct: 37 ESSSSASLSIPLKDISNVSRTDL-KPYCFEIVRKSSTKSIYI-SVKSDDE 84
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 31.3 bits (71), Expect = 0.19
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 102 KDEWIKCLRVHVVFGHVV-SGQNVVSHIENLPVDKMSRPLQDVRVVKCNEL 151
K +W+ HVVFG V+ G VV IEN+ +RP + +C E+
Sbjct: 138 KCDWLD--NKHVVFGRVLGDGLLVVRKIENVATGPNNRPKLACVISECGEM 186
>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 = 30.0 bits (68), Expect = 0.21
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 79 YSEGKV----VEGKHTVYRMSAATAEEKDEWIKCLR 110
YS+GK + + M A T EE DEW+K L+
Sbjct: 58 YSQGKPNCFRLVFPDRTFYMYAKTEEEADEWVKLLK 93
Score = 28.0 bits (63), Expect = 1.1
Identities = 14/49 (28%), Positives = 17/49 (34%), Gaps = 20/49 (40%)
Query: 30 KPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSAATAEEKDEWIK 78
KP+CF L + M A T EE DEW+K
Sbjct: 62 KPNCFRLVFPD--------------------RTFYMYAKTEEEADEWVK 90
>gnl|CDD|241482 cd13328, PH1_FDG_family, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia family proteins
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. Mutations in the FGD1 gene
are responsible for the X-linked disorder known as
faciogenital dysplasia (FGDY). PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 91
Score = 29.7 bits (67), Expect = 0.27
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 85 VEGKHTVYRMSAATAEEKDEWIKC 108
+EGK + A+TAEEKD WI
Sbjct: 68 IEGKQKSLELQASTAEEKDAWIDA 91
Score = 27.8 bits (62), Expect = 1.5
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 56 VEGKHTVYRMSAATAEEKDEWIK 78
+EGK + A+TAEEKD WI
Sbjct: 68 IEGKQKSLELQASTAEEKDAWID 90
>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 = 29.5 bits (67), Expect = 0.47
Identities = 9/54 (16%), Positives = 24/54 (44%), Gaps = 8/54 (14%)
Query: 5 DDRQVEPRGIIPLENIQVREVHDRH------KPHCFELFTSGFEFIKACKTDSE 52
++ + RG+I L +V + +P+ F ++T ++ +++ E
Sbjct: 47 SEKDGDERGVINLSTARVE--YSPDQEALLGRPNVFAVYTPTNSYLLQARSEKE 98
>gnl|CDD|241529 cd13378, PH_RhoGAP2, Rho GTPase activating protein 2 Pleckstrin
homology (PH) domain. RhoGAP2 (also called RhoGap22 or
ArhGap22) are involved in cell polarity, cell morphology
and cytoskeletal organization. They activate a GTPase
belonging to the RAS superfamily of small GTP-binding
proteins. The encoded protein is insulin-responsive, is
dependent on the kinase Akt, and requires the
Akt-dependent 14-3-3 binding protein which binds
sequentially to two serine residues resulting in
regulation of cell motility. Members here contain an
N-terminal PH domain followed by a RhoGAP domain and
either a BAR or TATA Binding Protein (TBP) Associated
Factor 4 (TAF4) domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 116
Score = 29.5 bits (66), Expect = 0.50
Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 12/77 (15%)
Query: 5 DDRQVEPRGIIPLENIQVREVH---DRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHT 61
D+ + +P+G I L+ QV E+ + H FE+ G + + V H
Sbjct: 36 DEEETKPQGCISLQGSQVNELPPNPEEPGKHLFEILPGG---------AGDREKVPMNHE 86
Query: 62 VYRMSAATAEEKDEWIK 78
+ + A + + ++W+K
Sbjct: 87 AFLLMANSQSDMEDWVK 103
>gnl|CDD|241537 cd13386, PH1_FGD2, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia protein 2 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. Not much is known about
FGD2. FGD1 is the best characterized member of the
group with mutations here leading to the X-linked
disorder known as faciogenital dysplasia (FGDY). PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from
other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 107
Score = 29.2 bits (65), Expect = 0.53
Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 22/78 (28%)
Query: 1 MDTGDDRQVEPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKH 60
+ G + QV R I + ++VRE+ D PH F +V GK
Sbjct: 36 IQVGAEFQVRTR--IDVAGMKVRELMDAEFPHSF--------------------LVSGKQ 73
Query: 61 TVYRMSAATAEEKDEWIK 78
+ A + EE WIK
Sbjct: 74 RTLELQARSQEEMIAWIK 91
>gnl|CDD|241540 cd13389, PH1_FGD5_FGD6, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia proteins 5 and 6
Pleckstrin Homology (PH) domain. FGD5 regulates
promotes angiogenesis of vascular endothelial growth
factor (VEGF) in vascular endothelial cells, including
network formation, permeability, directional movement,
and proliferation. The specific function of FGD6 is
unknown. In general, FGDs have a RhoGEF (DH) domain,
followed by a PH domain, a FYVE domain and a C-terminal
PH domain. All FGDs are guanine nucleotide exchange
factors that activate the Rho GTPase Cdc42, an important
regulator of membrane trafficking. The RhoGEF domain is
responsible for GEF catalytic activity, while the PH
domain is involved in intracellular targeting of the DH
domain. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 125
Score = 29.2 bits (66), Expect = 0.73
Identities = 10/15 (66%), Positives = 14/15 (93%)
Query: 95 SAATAEEKDEWIKCL 109
SA++AEE+DEW+K L
Sbjct: 90 SASSAEERDEWVKAL 104
>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 = 28.0 bits (63), Expect = 1.4
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 21/75 (28%)
Query: 5 DDRQVEPRGIIPLEN-IQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVY 63
D++ E +G I L++ V + R K CFEL ++ +GK Y
Sbjct: 52 DEKSKEAKGTIYLDSCTGVVQNSKRRK-FCFEL-----------------RMQDGK--SY 91
Query: 64 RMSAATAEEKDEWIK 78
++A + E D+WI
Sbjct: 92 VLAAESESEMDDWIS 106
>gnl|CDD|241538 cd13387, PH1_FGD3, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia protein 3 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. Both FGD1 and FGD3 are
targeted by the ubiquitin ligase SCF(FWD1/beta-TrCP)
upon phosphorylation of two serine residues in its
DSGIDS motif and subsequently degraded by the
proteasome. However, FGD1 and FGD3 induced significantly
different morphological changes in HeLa Tet-Off cells
and while FGD1 induced long finger-like protrusions,
FGD3 induced broad sheet-like protrusions when the level
of GTP-bound Cdc42 was significantly increased by the
inducible expression of FGD3. They also reciprocally
regulated cell motility in inducibly expressed in HeLa
Tet-Off cells, FGD1 stimulated cell migration while FGD3
inhibited it. FGD1 and FGD3 therefore play different
roles to regulate cellular functions, even though their
intracellular levels are tightly controlled by the same
destruction pathway through SCF(FWD1/beta-TrCP). PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 107
Score = 27.6 bits (61), Expect = 1.7
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 55 VVEGKHTVYRMSAATAEEKDEWIKYSEGKVVEGKH 89
++ GK + A T EEK EWI+ + + + K
Sbjct: 68 IITGKKRSLELQARTEEEKKEWIQVIQATIEKHKQ 102
Score = 26.9 bits (59), Expect = 3.1
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 84 VVEGKHTVYRMSAATAEEKDEWIKCLR 110
++ GK + A T EEK EWI+ ++
Sbjct: 68 IITGKKRSLELQARTEEEKKEWIQVIQ 94
>gnl|CDD|241255 cd01220, PH1_FARP1-like, FERM, RhoGEF and pleckstrin
domain-containing protein 1 and related proteins
Pleckstrin Homology (PH) domain, repeat 1. 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 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 = 123
Score = 27.7 bits (62), Expect = 2.1
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 21/68 (30%)
Query: 12 RGIIPLENIQVREV-HDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSAATA 70
G +PL + V E + PHCF ++ G + ++A++
Sbjct: 64 HGQLPLRGLMVEESEPEMGVPHCFTIY--------------------GGNRALTVAASSE 103
Query: 71 EEKDEWIK 78
EEK+ W++
Sbjct: 104 EEKERWLE 111
>gnl|CDD|241287 cd01256, PH_dynamin, Dynamin pleckstrin homology (PH) domain.
Dynamin is a GTPase that regulates endocytic vesicle
formation. It has an N-terminal GTPase domain, followed
by a PH domain, a GTPase effector domain and a
C-terminal proline arginine rich domain. Dynamin-like
proteins, which are found in metazoa, plants and yeast
have the same domain architecture as dynamin, but lack
the 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 = 112
Score = 27.3 bits (61), Expect = 2.4
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 14/74 (18%)
Query: 5 DDRQVEPRGIIPLENIQVREV--HDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTV 62
D+ + E + ++PL+N+++R+V H F LF +++ + V +
Sbjct: 38 DEEEKEKKYMLPLDNLKLRDVEKGFMSSKHIFALF------------NTDQRNVYKDYKQ 85
Query: 63 YRMSAATAEEKDEW 76
+S T EE D W
Sbjct: 86 LELSCETQEEVDSW 99
>gnl|CDD|227623 COG5307, COG5307, SEC7 domain proteins [General function prediction
only].
Length = 1024
Score = 28.5 bits (64), Expect = 2.5
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 160 MGVAQFLYKGEG-LNKTAIGDYLGERHDFNEKV 191
+A+ L EG L+K +G YLG D N V
Sbjct: 301 KSIAEILEGTEGRLDKKKLGLYLGTDDDKNNAV 333
>gnl|CDD|241456 cd13302, PH2_Pleckstrin_2, Pleckstrin 2 Pleckstrin homology (PH)
domain, repeat 2. 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 second PH domain repeat. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 109
Score = 27.5 bits (61), Expect = 2.5
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 83 KVVEGKHTVYRMSAATAEEKDEWIKCLR 110
+++ Y + AAT E+ EWIK ++
Sbjct: 79 EIITADEVHYYLQAATPAERTEWIKAIQ 106
Score = 27.1 bits (60), Expect = 3.3
Identities = 21/69 (30%), Positives = 26/69 (37%), Gaps = 12/69 (17%)
Query: 10 EPRGIIPLENIQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRMSAAT 69
+P G I L V V D P + + FE I A Y + AAT
Sbjct: 47 DPLGAIHLRGCVVTAVEDNSNPAKGSVEGNLFEIITA------------DEVHYYLQAAT 94
Query: 70 AEEKDEWIK 78
E+ EWIK
Sbjct: 95 PAERTEWIK 103
>gnl|CDD|241294 cd01263, PH_anillin, Anillin Pleckstrin homology (PH) domain.
Anillin (Rhotekin/RTKN; also called PLEKHK/Pleckstrin
homology domain-containing family K) is an actin binding
protein involved in cytokinesis. It interacts with
GTP-bound Rho proteins and results in the inhibition of
their GTPase activity. Dysregulation of the Rho signal
transduction pathway has been implicated in many forms
of cancer. Anillin proteins have a N-terminal HRI
domain/ACC (anti-parallel coiled-coil) finger domain or
Rho-binding domain binds small GTPases from the Rho
family. The C-terminal PH domain helps target 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 = 119
Score = 26.9 bits (60), Expect = 3.6
Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 14/74 (18%)
Query: 10 EPRGIIPLENIQVREVH--DR---HKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYR 64
+P G I L +V R +P+ FEL T A +D +
Sbjct: 45 KPIGSIDLRKCINEKVEPASRELCARPNTFELETL----RPAEDSDGTNEKKR-----VL 95
Query: 65 MSAATAEEKDEWIK 78
+SA T EE+ EW+
Sbjct: 96 LSADTKEERIEWLD 109
>gnl|CDD|241288 cd01257, PH_IRS, Insulin receptor substrate (IRS) pleckstrin
homology (PH) domain. Insulin receptor substrate (IRS)
molecules are mediators in insulin signaling and play a
role in maintaining basic cellular functions such as
growth and metabolism. They act as docking proteins
between the insulin receptor and a complex network of
intracellular signaling molecules containing Src
homology 2 (SH2) domains. Four members (IRS-1, IRS-2,
IRS-3, IRS-4) of this family have been identified that
differ as to tissue distribution, subcellular
localization, developmental expression, binding to the
insulin receptor, and interaction with SH2
domain-containing proteins. IRS molecules have an
N-terminal PH domain, followed by an IRS-like PTB
domain which has a PH-like fold. 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.cytoskeletal
associated molecules, and in lipid associated enzymes.
Length = 106
Score = 26.1 bits (58), Expect = 6.1
Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 21/73 (28%)
Query: 7 RQVEPRGIIPLEN-IQVREVHDRHKPHCFELFTSGFEFIKACKTDSEGKVVEGKHTVYRM 65
R EP+ +IPL + + + D H L+T K + +
Sbjct: 44 RNAEPKRVIPLSSCFNINKRADAKHKHLIALYT--------------------KDECFGL 83
Query: 66 SAATAEEKDEWIK 78
A + EE+DEW +
Sbjct: 84 VAESEEEQDEWYQ 96
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 26.7 bits (59), Expect = 6.8
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 112 HVVFGHVVSGQNVVSHIENLPVDKMSRPLQDVRV 145
+ VFG VV G +V I +P + P Q+V
Sbjct: 146 YAVFGKVVKGMDVADKISQVPTHDVG-PYQNVPS 178
>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 = 26.4 bits (59), Expect = 7.4
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 96 AATAEEKDEWIKCLRVHV 113
A + EEK +W L+ V
Sbjct: 110 ADSKEEKADWYSKLKEVV 127
>gnl|CDD|241272 cd01239, PH_PKD, Protein kinase D (PKD/PKCmu) pleckstrin homology
(PH) domain. Protein Kinase C family is composed of
three members, PKD1 (PKCmu), PKD2 and PKD3 (PKCnu).
Like the C-type protein kinases (PKCs), PKDs are
activated by diacylglycerol (DAG). They are involved in
vesicular transport, cell proliferation, survival,
migration and immune responses. PKD consists of tandem
C1 domains, followed by a PH domain and a kinase
domain. While the PKD PH domain has not been shown to
bind phosphorylated inositol lipids and is not required
for membrane translocation, it is required for nuclear
export. 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 = 25.8 bits (57), Expect = 8.7
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 6/40 (15%)
Query: 10 EPRGIIPLENI------QVREVHDRHKPHCFELFTSGFEF 43
IPL I + PHCFE+ T+ +
Sbjct: 46 RYYKEIPLSEILAVEPADNPSLPPGTPPHCFEIKTANLVY 85
>gnl|CDD|237596 PRK14053, PRK14053, methyltransferase; Provisional.
Length = 194
Score = 26.3 bits (58), Expect = 9.0
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 116 GHVVSGQNVVSHIENLPVDKMSRPLQDVRVVKCNELNNLLE 156
G +V + + IEN+ + + R Q V ++ L +L E
Sbjct: 96 GRIVGSEGAIPFIENISREAVQRFQQQVELLDRIGLTDLEE 136
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
0.317 0.135 0.402
Gapped
Lambda K H
0.267 0.0618 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,652,616
Number of extensions: 847410
Number of successful extensions: 802
Number of sequences better than 10.0: 1
Number of HSP's gapped: 791
Number of HSP's successfully gapped: 71
Length of query: 194
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 102
Effective length of database: 6,857,034
Effective search space: 699417468
Effective search space used: 699417468
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: 56 (25.6 bits)