RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8570
(159 letters)
>gnl|CDD|107368 cd06373, PBP1_NPR_like, Ligand binding domain of natriuretic
peptide receptor (NPR) family. Ligand binding domain of
natriuretic peptide receptor (NPR) family which consists
of three different subtypes: type A natriuretic peptide
receptor (NPR-A, or GC-A), type B natriuretic peptide
receptors (NPR-B, or GC-B), and type C natriuretic
peptide receptor (NPR-C). There are three types of
natriuretic peptide (NP) ligands specific to the
receptors: atrial NP (ANP), brain or B-type NP (BNP),
and C-type NP (CNP). The NP family is thought to have
arisen through gene duplication during evolution and
plays an essential role in cardiovascular and body fluid
homeostasis. ANP and BNP bind mainly to NPR-A, while CNP
binds specifically to NPR-B. Both NPR-A and NPR-B have
guanylyl cyclase catalytic activity and produces
intracellular secondary messenger cGMP in response to
peptide-ligand binding. Consequently, the NPR-A
activation results in vasodilation and inhibition of
vascular smooth muscle cell proliferation. NPR-C acts as
the receptor for all the three members of NP family, and
functions as a clearance receptor. Unlike NPR-A and -B,
NPR-C lacks an intracellular guanylyl cyclase domain and
is thought to exert biological actions by sequestration
of released natriuretic peptides and/or inhibition of
adenylyl cyclase.
Length = 396
Score = 132 bits (334), Expect = 1e-37
Identities = 50/139 (35%), Positives = 78/139 (56%), Gaps = 7/139 (5%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
DAFLGP C+Y APVAR++ W +PVLTAG A F K EY TLTR S++ +G+ V
Sbjct: 74 PDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFV 133
Query: 75 QSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITSPSGSNDMKLESFDEETV 134
++ ++FNW+ A ++++ + C+FT+ VY + + FDE+
Sbjct: 134 LALHEHFNWSRAALLYHDDKND----DRPCYFTLEGVY--TVLKEENITVSDFPFDEDK- 186
Query: 135 TPEKLKEQLIAITKRARII 153
+ KE L I+K+ R++
Sbjct: 187 ELDDYKELLRDISKKGRVV 205
>gnl|CDD|107347 cd06352, PBP1_NPR_GC_like, Ligand-binding domain of membrane
guanylyl-cyclase receptors. Ligand-binding domain of
membrane guanylyl-cyclase receptors. Membrane guanylyl
cyclases (GC) have a single membrane-spanning region and
are activated by endogenous and exogenous peptides. This
family can be divided into three major subfamilies: the
natriuretic peptide receptors (NPRs), sensory
organ-specific membrane GCs, and the
enterotoxin/guanylin receptors. The binding of peptide
ligands to the receptor results in the activation of the
cytosolic catalytic domain. Three types of NPRs have
been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/
GC-B, and NPR-C. In addition, two of the GCs, GC-D and
GC-G, appear to be pseudogenes in humans. Atrial
natriuretic peptide (ANP) and brain natriuretic peptide
(BNP) are produced in the heart, and both bind to the
NPR-A. NPR-C, also termed the clearance receptor, binds
each of the natriuretic peptides and can alter
circulating levels of these peptides. The ligand binding
domain of the NPRs exhibits strong structural similarity
to the type I periplasmic binding fold protein family.
Length = 389
Score = 110 bits (278), Expect = 1e-29
Identities = 49/139 (35%), Positives = 76/139 (54%), Gaps = 9/139 (6%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
VDAF+GP C Y APVAR + W IP+++ G + + K EYPTLTR + +G+AV
Sbjct: 69 VDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAV 128
Query: 75 QSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITSPSGSNDMKLESFDEETV 134
++L+ FNW VA ++++ + NC+FT+ ++ + + F E+
Sbjct: 129 LALLRWFNWHVAVVVYSD-------DSENCFFTLEALE--AALREFNLTVSHVVFMEDNS 179
Query: 135 TPEKLKEQLIAITKRARII 153
E L E L I +R+RII
Sbjct: 180 GAEDLLEILQDIKRRSRII 198
>gnl|CDD|216296 pfam01094, ANF_receptor, Receptor family ligand binding region.
This family includes extracellular ligand binding
domains of a wide range of receptors. This family also
includes the bacterial amino acid binding proteins of
known structure.
Length = 343
Score = 81.0 bits (200), Expect = 9e-19
Identities = 33/139 (23%), Positives = 57/139 (41%), Gaps = 8/139 (5%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
V A +GP C V VAR +G +GIP+++ G K YPT R + S S +A+
Sbjct: 51 VVAVIGPSCSSVAIAVARLAGAFGIPMISYGATSPELSDKTRYPTFARTVPSDSKQARAI 110
Query: 75 QSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITSPSGSNDMKLESFDEETV 134
ILK+F W ++++ + + ++ + +
Sbjct: 111 ADILKHFGWKRVAVIYDD--------DDYGEGGLEALEDALREAGLNVVAVASEVIASDD 162
Query: 135 TPEKLKEQLIAITKRARII 153
L ++L I +AR+I
Sbjct: 163 DFTALLKELKDIKSKARVI 181
>gnl|CDD|107381 cd06386, PBP1_NPR_C_like, Ligand-binding domain of type C
natriuretic peptide receptor. Ligand-binding domain of
type C natriuretic peptide receptor (NPR-C). NPR-C is
found in atrial, mesentery, placenta, lung, kidney,
venous tissue, aortic smooth muscle, and aortic
endothelial cells. The affinity of NPR-C for natriuretic
peptides is ANP>CNP>BNP. The extracellular domain of
NPR-C is about 30% identical to NPR-A and NPR-B.
However, unlike the cyclase-linked receptors, it
contains only 37 intracellular amino acids and no
guanylyl cyclase activity. Major function of NPR-C is to
clear natriuretic peptides from the circulation or
extracellular surroundings through constitutive
receptor-mediated internalization and degradation.
Length = 387
Score = 79.5 bits (196), Expect = 4e-18
Identities = 46/140 (32%), Positives = 73/140 (52%), Gaps = 12/140 (8%)
Query: 16 DAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELK-FEYPTLTRMMGSFSLVGQAV 74
D LGPVC+Y APVAR + W IP+++AG L A F K EY LTR+ S+ +G+
Sbjct: 69 DLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETF 128
Query: 75 QSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITSPSGSNDMKLESFDEETV 134
++ + F+W A ++ + Q NC+FT+ V+ + M + FDE
Sbjct: 129 SALFERFHWRSALLVYEDDKQ-----ERNCYFTLEGVHHVFQEE--GYHMSIYPFDE--- 178
Query: 135 TPEKLKEQLI-AITKRARII 153
T + +++I AI R++
Sbjct: 179 TKDLDLDEIIRAIQASERVV 198
>gnl|CDD|107380 cd06385, PBP1_NPR_A, Ligand-binding domain of type A natriuretic
peptide receptor. Ligand-binding domain of type A
natriuretic peptide receptor (NPR-A). NPR-A is one of
three known single membrane-spanning natriuretic peptide
receptors that regulate blood volume, blood pressure,
ventricular hypertrophy, pulmonary hypertension, fat
metabolism, and long bone growth. In mammals there are
three natriuretic peptides: ANP, BNP, and CNP. NPR-A is
highly expressed in kidney, adrenal, terminal ileum,
adipose, aortic, and lung tissues. The rank order of
NPR-A activation by natriuretic peptides is
ANP>BNP>>CNP. Single allele-inactivating mutations in
the promoter of human NPR-A are associated with
hypertension and heart failure.
Length = 405
Score = 67.8 bits (166), Expect = 5e-14
Identities = 42/152 (27%), Positives = 72/152 (47%), Gaps = 19/152 (12%)
Query: 12 VVCVD--------AFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRM 63
+V VD AF+GP CDY +PVAR++ W +P++TAG F +K EY T+TR
Sbjct: 64 LVAVDLKFTHNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRT 123
Query: 64 MGSFSLVGQAVQSILKNFNWTV-AGFMFNNYGQTTGKG-NSNCWFTIASVYKIITSPSGS 121
+ +G+ V I ++F W A ++++ K + C+F + +Y +
Sbjct: 124 GPTHKKLGEFVLHIHQHFGWRSHAMLIYSD-----NKVDDRPCYFAMEGLYMEL----KK 174
Query: 122 NDMKLESFDEETVTPEKLKEQLIAITKRARII 153
N++ + E L I ++ R+I
Sbjct: 175 NNITVVDLVFEEDDLINYTTLLQDIKQKGRVI 206
>gnl|CDD|107379 cd06384, PBP1_NPR_B, Ligand-binding domain of type B natriuretic
peptide receptor. Ligand-binding domain of type B
natriuretic peptide receptor (NPR-B). NPR-B is one of
three known single membrane-spanning natriuretic peptide
receptors that have been identified. Natriuretic
peptides are family of structurally related but
genetically distinct hormones/paracrine factors that
regulate blood volume, blood pressure, ventricular
hypertrophy, pulmonary hypertension, fat metabolism, and
long bone growth. In mammals there are three natriuretic
peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B
(or GC-B) is a transmembrane guanylyl cyclase, an enzyme
that catalyzes the synthesis of cGMP. NPR-B is the
predominant natriuretic peptide receptor in the brain.
The rank of order activation of NPR-B by natriuretic
peptides is CNP>>ANP>BNP. Homozygous inactivating
mutations in human NPR-B cause a form of short-limbed
dwarfism known as acromesomelic dysplasia type
Maroteaux.
Length = 399
Score = 62.9 bits (153), Expect = 2e-12
Identities = 28/75 (37%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 16 DAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKF-EYPTLTRMMGSFSLVGQAV 74
D F GP C Y A VAR++ W +P++TAG F K EY T R S + +G+ V
Sbjct: 75 DVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFV 134
Query: 75 QSILKNFNWTVAGFM 89
+ ++FNWT +
Sbjct: 135 NHLHEHFNWTSRAAL 149
>gnl|CDD|153137 cd06269, PBP1_glutamate_receptors_like, Family C G-protein couples
receptors (GPCRs), membrane bound guanylyl cyclases such
as the family of natriuretic peptide receptors (NPRs),
and the N-terminal leucine/isoleucine/valine- binding
protein (LIVBP)-like domain of the ionotropic glutamate
receptors. This CD represents the ligand-binding domain
of the family C G-protein couples receptors (GPCRs),
membrane bound guanylyl cyclases such as the family of
natriuretic peptide receptors (NPRs), and the N-terminal
leucine/isoleucine/valine- binding protein (LIVBP)-like
domain of the ionotropic glutamate receptors, all of
which are structurally similar and related to the
periplasmic-binding fold type I family. The family C
GPCRs consist of metabotropic glutamate receptor (mGluR)
receptors, a calcium-sensing receptor (CaSR),
gamma-aminobutyric receptors (GABAb), the promiscuous
L-alpha-amino acid receptor GPR6A, families of taste and
pheromone receptors, and orphan receptors. Truncated
splicing variants of the orphan receptors are not
included in this CD. The family C GPCRs are activated by
endogenous agonists such as amino acids, ions, and sugar
based molecules. Their amino terminal ligand-binding
region is homologous to the bacterial
leucine-isoleucine-valine binding protein (LIVBP) and a
leucine binding protein (LBP). The ionotropic glutamate
receptors (iGluRs) have an integral ion channel and are
subdivided into three major groups based on their
pharmacology and structural similarities: NMDA
receptors, AMPA receptors, and kainate receptors. The
family of membrane bound guanylyl cyclases is further
divided into three subfamilies: the ANP receptor
(GC-A)/C-type natriuretic peptide receptor (GC-B), the
heat-stable enterotoxin receptor (GC-C)/sensory organ
specific membrane GCs such as retinal receptors (GC-E,
GC-F), and olfactory receptors (GC-D and GC-G).
Length = 298
Score = 54.4 bits (131), Expect = 2e-09
Identities = 22/74 (29%), Positives = 32/74 (43%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
V A +GP VA G IP ++ K ++P+ R + S S QA+
Sbjct: 72 VVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAI 131
Query: 75 QSILKNFNWTVAGF 88
+LK+F WT G
Sbjct: 132 VDLLKHFGWTWVGL 145
>gnl|CDD|107261 cd04509, PBP1_ABC_transporter_GCPR_C_like, Family C of G-protein
coupled receptors and their close homologs, the type I
periplasmic-binding proteins of ATP-binding cassette
transporter-like systems. This CD includes members of
the family C of G-protein coupled receptors and their
close homologs, the type I periplasmic-binding proteins
of ATP-binding cassette transporter-like systems. The
family C GPCR includes glutamate/glycine-gated ion
channels such as the NMDA receptor, G-protein-coupled
receptors, metabotropic glutamate, GABA-B, calcium
sensing, phermone receptors, and atrial natriuretic
peptide-guanylate cyclase receptors. The glutamate
receptors that form cation-selective ion channels,
iGluR, can be classified into three different subgroups
according to their binding-affinity for the agonists
NMDA (N-methyl-D-asparate), AMPA
(alpha-amino-3-dihydro-5-methyl-3-oxo-4-
isoxazolepropionic acid), and kainate. L-glutamate is a
major neurotransmitter in the brain of vertebrates and
acts through either mGluRs or iGluRs. mGluRs subunits
possess seven transmembrane segments and a large
N-terminal extracellular domain. ABC-type
leucine-isoleucine-valine-binding protein (LIVBP) is a
bacterial periplasmic binding protein that has homology
with the amino-terminal domain of the glutamate-receptor
ion channels (iGluRs). The extracellular regions of
iGluRs are made of two PBP-like domains in tandem, a
LIVBP-like domain that constitutes the N terminus -
which is included in this CD - followed by a domain
related to lysine-arginine-ornithine-binding protein
(LAOBP) that belongs to the type II periplasmic binding
fold protein superfamily. The uncharacterized
periplasmic components of various ABC-type transport
systems are included in this group.
Length = 299
Score = 51.3 bits (123), Expect = 2e-08
Identities = 22/79 (27%), Positives = 35/79 (44%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
VDA +GPV V VA + IP+++ G K YP L R S +A+
Sbjct: 68 VDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEAL 127
Query: 75 QSILKNFNWTVAGFMFNNY 93
+K +NW ++++
Sbjct: 128 ADYIKEYNWKKVAILYDDD 146
>gnl|CDD|153138 cd06350, PBP1_GPCR_family_C_like, Ligand-binding domain of
membrane-bound glutamate receptors that mediate
excitatory transmission on the cellular surface through
initial binding of glutamate and are categorized into
ionotropic glutamate receptors (iGluRs) and metabotropic
glutamate receptors (mGluRs). Ligand-binding domain of
membrane-bound glutamate receptors that mediate
excitatory transmission on the cellular surface through
initial binding of glutamate and are categorized into
ionotropic glutamate receptors (iGluRs) and metabotropic
glutamate receptors (mGluRs). The metabotropic glutamate
receptors (mGluR) are key receptors in the modulation of
excitatory synaptic transmission in the central nervous
system. The mGluRs are coupled to G proteins and are
thus distinct from the iGluRs which internally contain
ligand-gated ion channels. The mGluR structure is
divided into three regions: the extracellular region,
the seven-spanning transmembrane region and the
cytoplasmic region. The extracellular region is further
devided into the ligand-binding domain (LBD) and the
cysteine-rich domain. The LBD has sequence similarity to
the LIVBP, which is a bacterial periplasmic protein
(PBP), as well as to the extracellular region of both
iGluR and the gamma-aminobutyric acid (GABA)b receptor.
iGluRs are divided into three main subtypes based on
pharmacological profile: NMDA, AMPA, and kainate
receptors. All family C GPCRs have a large extracellular
N terminus that contain a domain with homology to
bacterial periplasmic amino acid-binding proteins.
Length = 348
Score = 42.4 bits (100), Expect = 3e-05
Identities = 21/70 (30%), Positives = 35/70 (50%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
V A +GP V VA G++ IP ++ G K ++P+ R + S + A+
Sbjct: 92 VVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAI 151
Query: 75 QSILKNFNWT 84
++LK+F WT
Sbjct: 152 VALLKHFGWT 161
>gnl|CDD|107346 cd06351, PBP1_iGluR_N_LIVBP_like, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NMDA, AMPA, and kainate receptor subtypes
of ionotropic glutamate receptors (iGluRs). N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NMDA, AMPA, and kainate receptor subtypes
of ionotropic glutamate receptors (iGluRs). While this
N-terminal domain belongs to the periplasmic-binding
fold type I superfamily, the glutamate-binding domain of
the iGluR is structurally homologous to the
periplasmic-binding fold type II. The LIVBP-like domain
of iGluRs is thought to play a role in the initial
assembly of iGluR subunits, but it is not well
understood how this domain is arranged and functions in
intact iGluR. Glutamate mediates the majority of
excitatory synaptic transmission in the central nervous
system via two broad classes of ionotropic receptors
characterized by their response to glutamate agonists:
N-methyl-aspartate (NMDA) and non-NMDA receptors. NMDA
receptors have intrinsically slow kinetics, are highly
permeable to Ca2+, and are blocked by extracellular Mg2+
in a voltage-dependent manner. On the other hand,
non-NMDA receptors have faster kinetics, are weakly
permeable to Ca2+, and are not blocked by extracellular
Mg2+. While non-NMDA receptors typically mediate
excitatory synaptic responses at resting membrane
potentials, NMDA receptors contribute to several forms
of synaptic plasticity and are suggested to play an
important role in the development of synaptic pathways.
Length = 328
Score = 41.3 bits (97), Expect = 7e-05
Identities = 17/79 (21%), Positives = 31/79 (39%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
V A GP + V IP ++ G K E T ++ S + A+
Sbjct: 64 VAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADAL 123
Query: 75 QSILKNFNWTVAGFMFNNY 93
+L+ +NWT ++++
Sbjct: 124 LDLLEYYNWTKFAIIYDSD 142
>gnl|CDD|107367 cd06372, PBP1_GC_G_like, Ligand-binding domain of membrane guanylyl
cyclase G. This group includes the ligand-binding
domain of membrane guanylyl cyclase G (GC-G) which is a
sperm surface receptor and might function, similar to
its sea urchin counterpart, in the early signaling event
that regulates the Ca2+ influx/efflux and subsequent
motility response in sperm. GC-G appears to be a
pseudogene in human. Furthermore, in contrast to the
other orphan receptor GCs, GC-G has a broad tissue
distribution in rat, including lung, intestine, kidney,
and skeletal muscle.
Length = 391
Score = 39.8 bits (93), Expect = 3e-04
Identities = 30/139 (21%), Positives = 58/139 (41%), Gaps = 7/139 (5%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
+ A GP C + W IP+ G A + +F Y T +++ +G+ +
Sbjct: 69 ISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVL 128
Query: 75 QSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITSPSGSNDMKLESFDEETV 134
Q L++F W G +F G + W + ++K + + + + +
Sbjct: 129 QKSLQHFGWKHIG-LFG------GSSRDSSWDEVDELWKAVENQLKFHFNITATVRYSSS 181
Query: 135 TPEKLKEQLIAITKRARII 153
P+ L+E+L I+ AR+I
Sbjct: 182 NPDLLQEKLRYISSVARVI 200
>gnl|CDD|107361 cd06366, PBP1_GABAb_receptor, Ligand-binding domain of GABAb
receptors, which are metabotropic transmembrane
receptors for gamma-aminobutyric acid (GABA).
Ligand-binding domain of GABAb receptors, which are
metabotropic transmembrane receptors for
gamma-aminobutyric acid (GABA). GABA is the major
inhibitory neurotransmitter in the mammalian CNS and,
like glutamate and other transmitters, acts via both
ligand gated ion channels (GABAa receptors) and
G-protein coupled receptors (GABAb). GABAa receptors are
members of the ionotropic receptor superfamily which
includes alpha-adrenergic and glycine receptors. The
GABAb receptor is a member of a receptor superfamily
which includes the mGlu receptors. The GABAb receptor is
coupled to G alpha_i proteins, and activation causes a
decrease in calcium, an increase in potassium membrane
conductance, and inhibition of cAMP formation. The
response is thus inhibitory and leads to
hyperpolarization and decreased neurotransmitter
release, for example.
Length = 350
Score = 38.4 bits (90), Expect = 8e-04
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVL---TAGGLVANFELKFEYPTLTRMMGSFSLVG 71
V A +GP C V VA + W +PVL +++ + +YP R S S
Sbjct: 67 VVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSS---RLQYPYFFRTTPSDSSQN 123
Query: 72 QAVQSILKNFNWT 84
A+ ++LK F W
Sbjct: 124 PAIAALLKKFGWR 136
>gnl|CDD|107248 cd01391, Periplasmic_Binding_Protein_Type_1, Type 1 periplasmic
binding fold superfamily. Type 1 periplasmic binding
fold superfamily. This model and hierarchy represent the
ligand binding domains of the LacI family of
transcriptional regulators, periplasmic binding proteins
of the ABC-type transport systems, the family C
G-protein couples receptors (GPCRs), membrane bound
guanylyl cyclases including the family of natriuretic
peptide receptors (NPRs), and the N-terminal
leucine/isoleucine/valine- binding protein (LIVBP)-like
domains of the ionotropic glutamate receptors (iGluRs).
In LacI-like transcriptional regulator and the bacterial
periplasmic binding proteins the ligands are
monosaccharides including lactose, ribose, fructose,
xylose, arabinose, galactose/glucose, and other sugars,
with a few exceptions. Periplasmic sugar binding
proteins are one of the components of ABC transporters
and are involved in the active transport of
water-soluble ligands. The LacI family of proteins
consists of transcriptional regulators related to the
lac repressor. In this case, the sugar binding domain
binds a sugar which changes the DNA binding activity of
the repressor domain. The periplasmic binding proteins
are the primary receptors for chemotaxis and transport
of many sugar based solutes. The core structures of
periplasmic binding proteins are classified into two
types, and they differ in number and order of beta
strands: type 1 has six beta strands, while type 2 has
five beta strands per sub-domain. These two structural
folds are thought to be distantly related via a common
ancestor. Notably, while the N-terminal LIVBP-like
domain of iGluRs belongs to the type 1
periplasmic-binding fold protein superfamily, the
glutamate-binding domain of the iGluR is structurally
similar to the type 2 periplasmic-binding fold.
Length = 269
Score = 37.2 bits (86), Expect = 0.002
Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 3/80 (3%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
VD +GP V + GIPV++ A YP + R+ G+A
Sbjct: 59 VDGIIGPPSSSSALAVVELAAAAGIPVVSLD---ATAPDLTGYPYVFRVGPDNEQAGEAA 115
Query: 75 QSILKNFNWTVAGFMFNNYG 94
L W ++ + G
Sbjct: 116 AEYLAEKGWKRVALIYGDDG 135
>gnl|CDD|107366 cd06371, PBP1_sensory_GC_DEF_like, Ligand-binding domain of
membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that
are specifically expressed in sensory tissues. This
group includes the ligand-binding domain of membrane
guanylyl cyclases (GC-D, GC-E, and GC-F) that are
specifically expressed in sensory tissues. They share a
similar topology with an N-terminal extracellular
ligand-binding domain, a single transmembrane domain,
and a C-terminal cytosolic region that contains
kinase-like and catalytic domains. GC-D is specifically
expressed in a subpopulation of olfactory sensory
neurons. GC-E and GC-F are colocalized within the same
photoreceptor cells of the retina and have important
roles in phototransduction. Unlike the other family
members, GC-E and GC-F have no known extracellular
ligands. Instead, they are activated under low calcium
conditions by guanylyl cyclase activating proteins
called GCAPs. GC-D expressing neurons have been
implicated in pheromone detection and GC-D is
phylogenetically more similar to the Ca2+-regulated GC-E
and GC-F than to receptor GC-A, -B and -C which are
activated by peptide ligands. Moreover, these olfactory
GCs and retinal GCs share characteristic sequence
similarity in a regulatory domain that is involved in
the binding of GCAPs, suggesting GC-D activity may be
regulated by an unknown extracellular ligand and
intracellular Ca2+. Rodent GC-D-expressing neurons have
been implicated in pheromone detection and were recently
shown to respond to atmospheric CO2 which is an
olfactory stimulus for many invertebrates and regulates
some insect innate behavior, such as the location of
food and hosts.
Length = 382
Score = 32.6 bits (75), Expect = 0.058
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
AF+GPV A + W + + G + + YPT R + S S V +
Sbjct: 67 ASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSPSRV---L 123
Query: 75 QSILKNFNW 83
++L+ F W
Sbjct: 124 FTVLRYFRW 132
>gnl|CDD|107365 cd06370, PBP1_Speract_GC_like, Ligand-binding domain of membrane
bound guanylyl cyclases. Ligand-binding domain of
membrane bound guanylyl cyclases (GCs), which are known
to be activated by sperm-activating peptides (SAPs),
such as speract or resact. These ligand peptides are
released by a range of invertebrates to stimulate the
metabolism and motility of spermatozoa and are also
potent chemoattractants. These GCs contain a single
transmembrane segment, an extracellular ligand binding
domain, and intracellular protein kinase-like and
cyclase catalytic domains. GCs of insect and nematodes,
which exhibit high sequence similarity to the speract
receptor are also included in this model.
Length = 404
Score = 29.6 bits (67), Expect = 0.61
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 12/75 (16%)
Query: 15 VDAFLGP--VCDYVIAPVARYSGVWGIPVLTAG---GLVANFELKFEYPTLTRMMGSFSL 69
V AF+GP C AR + W +P+++ V++ K +YPT R +
Sbjct: 70 VVAFIGPECTCTTE----ARLAAAWNLPMISYKCDEEPVSD---KSKYPTFARTVPPSIQ 122
Query: 70 VGQAVQSILKNFNWT 84
V ++V ++LK+FNW
Sbjct: 123 VVKSVIALLKHFNWN 137
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 28.7 bits (65), Expect = 1.3
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 68 SLVGQAVQSILKNFNWTVAGFMFNNYGQT-TGK 99
V+S+L+ +N T+ F YGQT +GK
Sbjct: 60 ETAKPLVESVLEGYNVTI--FA---YGQTGSGK 87
>gnl|CDD|107369 cd06374, PBP1_mGluR_groupI, Ligand binding domain of the group I
metabotropic glutamate receptor. Ligand binding domain
of the group I metabotropic glutamate receptor, a family
containing mGlu1R and mGlu5R, all of which stimulate
phospholipase C (PLC) hydrolysis. The metabotropic
glutamate receptor is a member of the family C of
G-protein-coupled receptors that transduce extracellular
signals into G-protein activation and ultimately into
intracellular responses. The mGluRs are classified into
three groups which comprise eight subtypes.
Length = 472
Score = 28.3 bits (63), Expect = 1.8
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 2/84 (2%)
Query: 15 VDAFLGPVCDYVIAPVARYSGVWGIPVLTAGGLVANFELKFEYPTLTRMMGSFSLVGQAV 74
+ +GP V V ++ IP + + K + R++ S +L +A+
Sbjct: 118 IVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAM 177
Query: 75 QSILKNFNWTVAGFMFN--NYGQT 96
I+K +NWT + NYG++
Sbjct: 178 LDIVKRYNWTYVSAVHTEGNYGES 201
>gnl|CDD|227699 COG5412, COG5412, Phage-related protein [Function unknown].
Length = 637
Score = 27.4 bits (61), Expect = 4.3
Identities = 14/59 (23%), Positives = 27/59 (45%)
Query: 59 TLTRMMGSFSLVGQAVQSILKNFNWTVAGFMFNNYGQTTGKGNSNCWFTIASVYKIITS 117
+ + + S + AV+++L++ + G F+ Q G NSN + +V II
Sbjct: 103 SFSNAISSLGNIIDAVKNLLESVINAIFGTAFDILSQIIGGLNSNIGGIVQAVQNIINF 161
>gnl|CDD|223720 COG0647, NagD, Predicted sugar phosphatases of the HAD superfamily
[Carbohydrate transport and metabolism].
Length = 269
Score = 26.8 bits (60), Expect = 5.3
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 132 ETVTPEKLKEQLIAITKRARII 153
T+T EKL E L+AI A I
Sbjct: 131 RTLTYEKLAEALLAIAAGAPFI 152
>gnl|CDD|114595 pfam05878, Phyto_Pns9_10, Phytoreovirus nonstructural protein
Pns9/Pns10. This family consists of the Phytoreovirus
nonstructural proteins Pns9 and Pns10. The function of
this family is unknown.
Length = 312
Score = 26.4 bits (58), Expect = 7.6
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 125 KLESFDEETVTPEKLKEQLIAITKRAR 151
KL T+ +K KEQ+ AR
Sbjct: 181 KLPDASGGTLLNQKSKEQMRVEFSNAR 207
>gnl|CDD|221233 pfam11803, UXS1_N, UDP-glucuronate decarboxylase N-terminal. The
N-terminus of the UDP-glucuronate decarboxylases may be
involved in localisation to the perinuclear Golgi
membrane.
Length = 78
Score = 24.9 bits (54), Expect = 8.0
Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 5/39 (12%)
Query: 108 IASVYKIITSPSG---SNDMKLESFDEETVTP--EKLKE 141
IASV+ + + ++K+E ETV P EK+++
Sbjct: 30 IASVWGLYLNMRSIQEGGEVKIEQKIFETVAPLREKIRD 68
>gnl|CDD|182898 PRK11010, ampG, muropeptide transporter; Validated.
Length = 491
Score = 26.5 bits (59), Expect = 8.2
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 14/42 (33%)
Query: 38 GIPV-LTAGGL-----VANFELKFEYPTLTRMMGSFSLVGQA 73
G+P+ LT+G L V N +LK +G FSLVGQA
Sbjct: 25 GLPLALTSGTLQAWMTVENIDLK--------TIGFFSLVGQA 58
>gnl|CDD|233260 TIGR01071, rplO_bact, ribosomal protein L15, bacterial/organelle.
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 145
Score = 25.7 bits (57), Expect = 9.2
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 11/60 (18%)
Query: 99 KGNSNCWFTIASVYKIITSPSGSNDMKLESF--DEETVTPEKLKEQLIAITKRARIIKSL 156
+G SN F Y + N KL + E VT E LKE ITK+ + +K L
Sbjct: 63 RGFSNKRF--KKEYAEV------NLGKLAKLFPNGEVVTLETLKE-KGLITKKIKFVKVL 113
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
0.323 0.137 0.422
Gapped
Lambda K H
0.267 0.0579 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,097,329
Number of extensions: 727092
Number of successful extensions: 700
Number of sequences better than 10.0: 1
Number of HSP's gapped: 693
Number of HSP's successfully gapped: 39
Length of query: 159
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 70
Effective length of database: 6,990,096
Effective search space: 489306720
Effective search space used: 489306720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.3 bits)