RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy313
(93 letters)
>gnl|CDD|241513 cd13359, PH_ELMO1_CED-12, Engulfment and cell motility protein 1
pleckstrin homology (PH) domain. DOCK2 (Dedicator of
cytokinesis 2), a hematopoietic cell-specific, atypical
GEF, controls lymphocyte migration through Rac
activation. A DOCK2-ELMO1 complex s necessary for
DOCK2-mediated Rac signaling. DOCK2 contains a SH3
domain at its N-terminus, followed by a lipid binding
DHR1 domain, and a Rac-binding DHR2 domain at its
C-terminus. ELMO1, a mammalian homolog of C. elegans
CED-12, contains the N-terminal RhoG-binding region, the
ELMO domain, the PH domain, and the C-terminal sequence
with three PxxP motifs. The C-terminal region of ELMO1,
including the Pro-rich sequence, binds the
SH3-containing region of DOCK2 forming a intermolecular
five-helix bundle along with the PH domain of ELMO1.
Autoinhibition of ELMO1 and DOCK2 is accomplished by the
interactions of the EID and EAD domains and SH3 and DHR2
domains, respectively. The interaction of DOCK2 and
ELMO1 mutually relieve their autoinhibition and results
in the activation of Rac1. The PH domain of ELMO1 does
not bind phosphoinositides due to the absence of key
binding residues. It more closely resembles the FERM
domain rather than other 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 = 126
Score = 64.6 bits (158), Expect = 5e-15
Identities = 23/39 (58%), Positives = 29/39 (74%), Gaps = 2/39 (5%)
Query: 6 DIAFSLTLDSVEITSLDFVAPDEEVFDYWTDGINALLGN 44
+AFS+ D E SL+FVAP++ VFD WTDG+NALLG
Sbjct: 90 SLAFSILYDPDE--SLNFVAPNKTVFDIWTDGLNALLGK 126
>gnl|CDD|241279 cd01248, PH_PLC_ELMO1, Phospholipase C and Engulfment and cell
motility protein 1 pleckstrin homology domain. The
C-terminal region of ELMO1, the PH domain and Pro-rich
sequences, binds the SH3-containing region of DOCK2
forming a intermolecular five-helix bundle allowing for
DOCK mediated Rac1 activation. ELMO1, a mammalian
homolog of C. elegans CED-12, contains an N-terminal
RhoG-binding region, a ELMO domain, a PH domain, and a
C-terminal sequence with three PxxP motifs. 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 which are are classified
into six isotypes (beta, gamma, delta, epsilon, zeta,
eta). All PLCs, except for PLCzeta, have a PH domain
which is for most part N-terminally located, though
lipid binding specificity is not conserved between them.
In addition PLC gamma contains a split PH domain within
its catalytic domain that is separated by 2 SH2 domains
and a single SH3 domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 108
Score = 35.4 bits (82), Expect = 6e-04
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 20 SLDFVAPDEEVFDYWTDGINALL 42
+LD VAP E+ + W +G+ ALL
Sbjct: 86 TLDLVAPSEDEANLWVEGLRALL 108
>gnl|CDD|241519 cd13365, PH_PLC_plant-like, Plant-like Phospholipase C (PLC)
pleckstrin homology (PH) domain. PLC-gamma (PLCgamma)
was the second class of PLC discovered. PLC-gamma
consists of an N-terminal PH domain, a EF hand domain, a
catalytic domain split into X and Y halves internal to
which is a PH domain split by two SH2 domains and a
single SH3 domain, and a C-terminal C2 domain. 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). This cd contains PLC members from
fungi and plants. PH domains have diverse functions, but
in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 115
Score = 34.9 bits (81), Expect = 0.001
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 9 FSLTLDSVEITSLDFVAPDEEVFDYWTDGINALL 42
FS+ E SLD D + FD W G+ ALL
Sbjct: 82 FSIIYADGE-RSLDLTCKDRQEFDTWFTGLRALL 114
>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 = 32.2 bits (74), Expect = 0.015
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 14 DSVEITSLDFVAPDEEVFDYWTDGINALLGN 44
D V ++ ++FVA +EV WT+G+ L N
Sbjct: 89 DLVNLSFINFVAESKEVAKIWTEGLLKLAHN 119
>gnl|CDD|234179 TIGR03355, VI_chp_2, type VI secretion protein, EvpB/VC_A0108
family. Work by Mougous, et al. (2006), describes
IAHP-related loci as a type VI secretion system
(PMID:16763151). This protein family is associated with
type VI secretion loci, although not treated explicitly
by Mougous, et al [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 473
Score = 28.8 bits (65), Expect = 0.31
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 17 EITSLDFVAPDEEVFDYWTDGINALLGN--KMTSKEADNDLETLLSMEIKI-RLLDAEGV 73
I +A +EE +D DG++A L K T + T+ M +I RL+ +
Sbjct: 7 SILEETRLAREEEAYDRAKDGVSAFLTEALKGTVVVERDLKATIDEMIAEIDRLISRQLD 66
Query: 74 EIPHHP 79
I H P
Sbjct: 67 AILHAP 72
>gnl|CDD|235472 PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate
reductoisomerase; Provisional.
Length = 385
Score = 27.7 bits (63), Expect = 0.70
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 12/40 (30%)
Query: 3 KIPDIAFSLT-----------LDSVEITSLDFVAPDEEVF 31
++P IA++L LD ++ +L F PD E F
Sbjct: 265 RLP-IAYALAYPERVPSGVKPLDLTKLGTLTFEPPDFERF 303
>gnl|CDD|241517 cd13363, PH_PLC_delta, Phospholipase C-delta (PLC-delta) pleckstrin
homology (PH) domain. The PLC-delta (PLCdelta) consists
of three family members, delta 1, 2, and 3. PLC-delta1
is the most well studied. PLC-delta is activated by high
calcium levels generated by other PLC family members,
and functions as a calcium amplifier within the cell.
PLC-delta consists of an N-terminal PH domain, a EF hand
domain, a catalytic domain split into X and Y halves,
and a C-terminal C2 domain. The PH domain binds PIP2 and
promotes activation of the catalytic core as well as
tethering the enzyme to the plasma membrane. The C2
domain has been shown to mediate calcium-dependent
phospholipid binding as well. The PH and C2 domains
operate in concert as a "tether and fix" apparatus
necessary for processive catalysis by the enzyme. Its
leucine-rich nuclear export signal (NES) in its EF hand
motif, as well as a Nuclear localization signal within
its linker region allow PLC-delta 1 to actively
translocate into and out of 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.
Length = 117
Score = 27.3 bits (61), Expect = 0.77
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 20 SLDFVAPDEEVFDYWTDGINALLGN--KMTSKE 50
+LD +A EE +W G+ L+ M+ +E
Sbjct: 85 NLDLIASSEEEAQHWVRGLRKLIARLTNMSQRE 117
>gnl|CDD|222027 pfam13288, DXPR_C, DXP reductoisomerase C-terminal domain. This
is the C-terminal domain of the
1-deoxy-D-xylulose-5-phosphate reductoisomerase enzyme.
This domain forms a left handed super-helix.
Length = 118
Score = 26.6 bits (60), Expect = 1.1
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 12/40 (30%)
Query: 3 KIPDIAFSLT-----------LDSVEITSLDFVAPDEEVF 31
++P IA++L+ LD ++ SL F PD E F
Sbjct: 6 RLP-IAYALSYPERLPSGVEPLDLTKLGSLTFEEPDLERF 44
>gnl|CDD|237919 PRK15193, PRK15193, outer membrane usher protein; Provisional.
Length = 876
Score = 26.4 bits (58), Expect = 2.8
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 32 DYWTDGINALL------GNKMTSKEADNDLE 56
+ W +GINALL G AD+D
Sbjct: 174 ERWDEGINALLLNYSFSGANSIHSSADSDSG 204
>gnl|CDD|224064 COG1141, Fer, Ferredoxin [Energy production and conversion].
Length = 68
Score = 24.7 bits (54), Expect = 3.5
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 23 FVAPDEEVFDYWTDGINALLGNKMTSKEADNDLE 56
VAPD VFDY +GI +L + E +LE
Sbjct: 18 AVAPD--VFDYDDEGIAFVLDGNIGEGEVPEELE 49
>gnl|CDD|132031 TIGR02986, restrict_Alw26I, type II restriction endonuclease,
Alw26I/Eco31I/Esp3I family. Members of this family are
type II restriction endonucleases of the
Alw26I/Eco31I/Esp3I family. Characterized specificities
of three members are GGTCTC, CGTCTC, and the shared
subsequence GTCTC [DNA metabolism,
Restriction/modification].
Length = 424
Score = 25.9 bits (57), Expect = 3.6
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 27 DEEVFDYWTDG----INALLGNKMTSKEADND 54
D F+YW+DG + L+G ++ + +
Sbjct: 218 DRRAFEYWSDGNWAAADQLMGKAGFNRCSIPE 249
>gnl|CDD|99847 cd06144, REX4_like, DEDDh 3'-5' exonuclease domain of RNA
exonuclease 4, XPMC2, Interferon Stimulated Gene
product of 20 kDa, and similar proteins. This
subfamily is composed of RNA exonuclease 4 (REX4 or
Rex4p), XPMC2, Interferon (IFN) Stimulated Gene product
of 20 kDa (ISG20), and similar proteins. REX4 is
involved in pre-rRNA processing. It controls the ratio
between the two forms of 5.8S rRNA in yeast. XPMC2 is a
Xenopus gene which was identified through its ability
to correct a mitotic defect in fission yeast. The human
homolog of XPMC2 (hPMC2) may be involved in angiotensin
II-induced adrenal cell cycle progression and cell
proliferation. ISG20 is an IFN-induced antiviral
exonuclease with a strong preference for
single-stranded RNA and minor activity towards
single-stranded DNA. These proteins are DEDDh-type
DnaQ-like 3'-5' exonucleases containing three conserved
sequence motifs termed ExoI, ExoII and ExoIII, with a
specific Hx(4)D conserved pattern at ExoIII. These
motifs are clustered around the active site and contain
four conserved acidic residues that serve as ligands
for the two metal ions required for catalysis. REX
proteins function in the processing and maturation of
many RNA species, similar to the function of Escherchia
coli RNase T.
Length = 152
Score = 25.2 bits (56), Expect = 4.9
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 3/40 (7%)
Query: 23 FVAPDEEVFDY--WTDGIN-ALLGNKMTSKEADNDLETLL 59
+V P E V DY GI L + +E + LL
Sbjct: 36 YVKPQEPVTDYRTAVSGIRPEHLKDAPDFEEVQKKVAELL 75
>gnl|CDD|241514 cd13360, PH_PLC_fungal, Fungal Phospholipase C (PLC) pleckstrin
homology (PH) domain. Fungal PLC have mostly been
characterized in the yeast Saccharomyces cerevisiae via
deletion studies which resulted in a pleiotropic
phenotype, with defects in growth, carbon source
utilization, and sensitivity to osmotic stress and high
temperature. Unlike Saccharomyces several other fungi
including Neurospora crassa, Cryphonectria parasitica ,
and Magnaporthe oryzae (Mo) have several PLC proteins,
some of which lack a PH domain, with varied functions.
MoPLC1-mediated regulation of Ca2+ level is important
for conidiogenesis and appressorium formation while both
MoPLC2 and MoPLC3 are required for asexual reproduction,
cell wall integrity, appressorium development, and
pathogenicity. The fungal PLCs in this hierarchy contain
an N-terminal PH domain, a EF hand domain, a catalytic
domain split into X and Y halves, and a C-terminal C2
domain. 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.
Length = 118
Score = 24.8 bits (55), Expect = 5.9
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 21 LDFVAPDEEVFDYWTDGINALL 42
L +A EE F WT + L+
Sbjct: 87 LHLIADTEEDFKLWTTTLEGLV 108
>gnl|CDD|99848 cd06145, REX1_like, DEDDh 3'-5' exonuclease domain of RNA
exonuclease 1, -3 and similar eukaryotic proteins.
This subfamily is composed of RNA exonuclease 1 (REX1
or Rex1p), REX3 (or Rex3p), and similar eukaryotic
proteins. In yeast, REX1 and REX3 are required for 5S
rRNA and MRP (mitochondrial RNA processing) RNA
maturation, respectively. They are DEDDh-type DnaQ-like
3'-5' exonucleases containing three conserved sequence
motifs termed ExoI, ExoII and ExoIII, with a specific
Hx(4)D conserved pattern at ExoIII. These motifs are
clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. REX1 is the
major exonuclease responsible for pre-tRNA trail
trimming and may also be involved in nuclear CCA
turnover. REX proteins function in the processing and
maturation of many RNA species, similar to the function
of Escherichia coli RNase T.
Length = 150
Score = 24.8 bits (55), Expect = 6.3
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 23 FVAPDEEVFDYWTD--GINA--LLGNKMTSKEADNDLETLLS 60
V PD E+ DY T GI L T ++ L +L+S
Sbjct: 33 LVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLIS 74
>gnl|CDD|183543 PRK12466, PRK12466, isopropylmalate isomerase large subunit;
Provisional.
Length = 471
Score = 25.3 bits (56), Expect = 6.7
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 23 FVAPDEEVFDY 33
+APDE FDY
Sbjct: 234 LIAPDETTFDY 244
>gnl|CDD|215242 PLN02441, PLN02441, cytokinin dehydrogenase.
Length = 525
Score = 24.9 bits (55), Expect = 7.4
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 15/62 (24%)
Query: 24 VAPDEEVFDYWTDGINALLGNKMTSKEADNDLETLLS--MEIKIRLLDAEGVEI----PH 77
V PDE++F Y + ALL + + S +DLE LL+ EI +R + G+ + PH
Sbjct: 430 VIPDEDIF-Y----LVALLRSALPSG---DDLEHLLAQNKEI-LRFCEKAGIGVKQYLPH 480
Query: 78 HP 79
+
Sbjct: 481 YT 482
>gnl|CDD|176874 cd08865, SRPBCC_10, Ligand-binding SRPBCC domain of an
uncharacterized subfamily of proteins. Uncharacterized
group of the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily. SRPBCC domains have a deep hydrophobic
ligand-binding pocket and they bind diverse ligands.
SRPBCC domains include the steroidogenic acute
regulatory protein (StAR)-related lipid transfer
(START) domains of mammalian STARD1-STARD15, the
C-terminal catalytic domains of the alpha oxygenase
subunit of Rieske-type non-heme iron aromatic
ring-hydroxylating oxygenases (RHOs_alpha_C), Class I
and II phosphatidylinositol transfer proteins (PITPs),
Bet v 1 (the major pollen allergen of white birch,
Betula verrucosa), CoxG, CalC, and related proteins.
Other members of the superfamily include PYR/PYL/RCAR
plant proteins, the aromatase/cyclase (ARO/CYC) domains
of proteins such as Streptomyces glaucescens
tetracenomycin, and the SRPBCC domains of Streptococcus
mutans Smu.440 and related proteins.
Length = 140
Score = 24.6 bits (54), Expect = 7.4
Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 5/26 (19%)
Query: 15 SVEITSLDFVAPDEEVFDYWTDGINA 40
S+ I P EEVF Y D NA
Sbjct: 4 SIVIE-----RPVEEVFAYLADFENA 24
>gnl|CDD|181344 PRK08273, PRK08273, thiamine pyrophosphate protein; Provisional.
Length = 597
Score = 24.5 bits (54), Expect = 9.5
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 28 EEVFDYWTDGINALLG 43
VF Y DGIN LLG
Sbjct: 19 RRVFGYPGDGINGLLG 34
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 0.137 0.397
Gapped
Lambda K H
0.267 0.0880 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,937,421
Number of extensions: 407093
Number of successful extensions: 350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 30
Length of query: 93
Length of database: 10,937,602
Length adjustment: 60
Effective length of query: 33
Effective length of database: 8,276,362
Effective search space: 273119946
Effective search space used: 273119946
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: 42 (22.0 bits)
S2: 53 (23.9 bits)