RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9921
(61 letters)
>gnl|CDD|107357 cd06362, PBP1_mGluR, Ligand binding domain of the metabotropic
glutamate receptors (mGluR). Ligand binding domain of
the metabotropic glutamate receptors (mGluR), which are
members of the family C of G-protein-coupled receptors
that transduce extracellular signals into G-protein
activation and ultimately into cellular responses.
mGluRs bind to glutamate and function as an excitatory
neurotransmitter; they are involved in learning, memory,
anxiety, and the perception of pain. Eight subtypes of
mGluRs have been cloned so far, and are classified into
three groups according to their sequence similarities,
transduction mechanisms, and pharmacological profiles.
Group I is composed of mGlu1R and mGlu5R that both
stimulate PLC hydrolysis. Group II includes mGlu2R and
mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R,
mGlu6R, mGlu7R, and mGlu8R, which form group III.
Length = 452
Score = 68.0 bits (167), Expect = 1e-15
Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 4/54 (7%)
Query: 12 SISNIDDTEYHCNKTQIR----KVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
S++ IDD Y + K ++GV+GA+ S SIQVANLLRLFKIPQ S+
Sbjct: 80 SLTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISY 133
>gnl|CDD|107370 cd06375, PBP1_mGluR_groupII, Ligand binding domain of the group II
metabotropic glutamate receptor. Ligand binding domain
of the group II metabotropic glutamate receptor, a
family that contains mGlu2R and mGlu3R, all of which
inhibit adenylyl cyclase. 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 = 458
Score = 59.8 bits (145), Expect = 1e-12
Identities = 25/56 (44%), Positives = 37/56 (66%), Gaps = 6/56 (10%)
Query: 12 SISNIDDTEYHC-NKTQIRK-----VISGVVGAASSVTSIQVANLLRLFKIPQASF 61
S++ +D +EY C + + + I+GV+G + S SIQVANLLRLF+IPQ S+
Sbjct: 80 SLTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISY 135
>gnl|CDD|107371 cd06376, PBP1_mGluR_groupIII, Ligand-binding domain of the group
III metabotropic glutamate receptor. Ligand-binding
domain of the group III metabotropic glutamate receptor,
a family which contains mGlu4R, mGluR6R, mGluR7, and
mGluR8; all of which inhibit adenylyl cyclase. 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 = 463
Score = 48.3 bits (115), Expect = 1e-08
Identities = 18/30 (60%), Positives = 25/30 (83%)
Query: 32 ISGVVGAASSVTSIQVANLLRLFKIPQASF 61
+ GV+GA++S SI VAN+LRLF+IPQ S+
Sbjct: 104 VVGVIGASASSVSIMVANILRLFQIPQISY 133
>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 = 44.5 bits (105), Expect = 3e-07
Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 14 SNIDDTEYHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
N D NK+ +K I GV+G SS +IQV NLL+LF IPQ ++
Sbjct: 102 VNPDGQSPGPNKS--KKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAY 147
>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 = 42.0 bits (99), Expect = 2e-06
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 10 LRSISNIDDTEYHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
L + + + T + + KV+ V+G SS S+ VA LL LFKIPQ S+
Sbjct: 71 LDLLLSGEGTTPPYSCRKQPKVV-AVIGPGSSSVSMAVAELLGLFKIPQISY 121
>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 = 36.7 bits (85), Expect = 2e-04
Identities = 13/39 (33%), Positives = 23/39 (58%)
Query: 23 CNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
C+ + + + V+G +SS ++ VA+LL IPQ S+
Sbjct: 63 CSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISY 101
>gnl|CDD|107356 cd06361, PBP1_GPC6A_like, Ligand-binding domain of the promiscuous
L-alpha-amino acid receptor GPRC6A which is a
broad-spectrum amino acid-sensing receptor. This family
includes the ligand-binding domain of the promiscuous
L-alpha-amino acid receptor GPRC6A which is a
broad-spectrum amino acid-sensing receptor, and its fish
homolog, the 5.24 chemoreceptor. GPRC6A is a member of
the family C of G-protein-coupled receptors that
transduce extracellular signals into G-protein
activation and ultimately into cellular responses.
Length = 403
Score = 36.4 bits (84), Expect = 3e-04
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 9 YLRSISNIDDT-EYHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
+L + T E+ C+ +Q I V+GA S S+ V+ +L L IPQ S+
Sbjct: 80 FLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSY 133
>gnl|CDD|107359 cd06364, PBP1_CaSR, Ligand-binding domain of the CaSR
calcium-sensing receptor, which is a member of the
family C receptors within the G-protein coupled receptor
superfamily. Ligand-binding domain of the CaSR
calcium-sensing receptor, which is a member of the
family C receptors within the G-protein coupled receptor
superfamily. CaSR provides feedback control of
extracellular calcium homeostasis by responding
sensitively to acute fluctuations in extracellular
ionized Ca2+ concentration. This ligand-binding domain
has homology to the bacterial leucine-isoleucine-valine
binding protein (LIVBP) and a leucine binding protein
(LBP). CaSR is widely expressed in mammalian tissues and
is active in tissues that are not directly involved in
extracellular calcium homeostasis. Moreover, CaSR
responds to aromatic, aliphatic, and polar amino acids,
but not to positively charged or branched chain amino
acids, which suggests that changes in plasma amino acid
levels are likely to modulate whole body calcium
metabolism. Additionally, the family C GPCRs includes at
least two receptors with broad-spectrum amino
acid-sensing properties: GPRC6A which recognizes basic
and various aliphatic amino acids, its gold-fish homolog
the 5.24 chemoreceptor, and a specific taste receptor
(T1R) which responds to aliphatic, polar, charged, and
branched amino acids, but not to aromatic amino acids.
Length = 510
Score = 36.2 bits (83), Expect = 3e-04
Identities = 21/47 (44%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 15 NIDDTEYHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
N+D+ CN ++ VVGA S S VANLL LF IPQ S+
Sbjct: 105 NLDE---FCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSY 148
>gnl|CDD|107360 cd06365, PBP1_Pheromone_receptor, Ligand-binding domain of the V2R
phermone receptor, a member of the family C receptors
within the G-protein coupled receptor superfamily.
Ligand-binding domain of the V2R phermone receptor, a
member of the family C receptors within the G-protein
coupled receptor superfamily, which also includes the
metabotropic glutamate receptor, the GABAb receptor, the
calcium-sensing receptor (CaSR), the T1R taste receptor,
and a small group of uncharacterized orphan receptors.
Length = 469
Score = 36.1 bits (84), Expect = 3e-04
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 21 YHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
Y C + Q + V V+G S S +A LL L+K PQ ++
Sbjct: 96 YSCRR-QRKSVA--VIGGPSWALSATIATLLGLYKFPQLTY 133
>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 = 34.8 bits (80), Expect = 9e-04
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 9/64 (14%)
Query: 7 GSYLRSIS-NIDDTEYHCNKTQIRKV--------ISGVVGAASSVTSIQVANLLRLFKIP 57
G L I+ +D + + + + V+G + S +I VA L F IP
Sbjct: 17 GGLLPGITLGYEDDDTCDDSFAVAAAACLLKSKGVVAVIGPSCSSVAIAVARLAGAFGIP 76
Query: 58 QASF 61
S+
Sbjct: 77 MISY 80
>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 = 27.2 bits (61), Expect = 0.43
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 32 ISGVVGAASSVTSIQVANLLRLFKIPQASF 61
+ ++G S + VA + + +P SF
Sbjct: 67 VVAIIGPQCSSVAEFVAEVANEWNVPVLSF 96
>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 = 27.2 bits (60), Expect = 0.44
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 10 LRSISNIDDTEYHCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQ 58
L + + + I++ + G++G SS +++ V L IP
Sbjct: 37 LADSQSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPV 85
>gnl|CDD|107358 cd06363, PBP1_Taste_receptor, Ligand-binding domain of the T1R
taste receptor. Ligand-binding domain of the T1R taste
receptor. The T1R is a member of the family C receptors
within the G-protein coupled receptor superfamily, which
also includes the metabotropic glutamate receptors,
GABAb receptors, the calcium-sensing receptor (CaSR),
the V2R pheromone receptors, and a small group of
uncharacterized orphan receptors.
Length = 410
Score = 26.5 bits (59), Expect = 0.71
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 23 CNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQASF 61
CN T + + V+G SS ++ VA L F IPQ S+
Sbjct: 99 CNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISY 137
>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 = 25.9 bits (57), Expect = 1.1
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 32 ISGVVGAASSVTSIQVANLLRLFKIPQ 58
+ +VG SS ++ VA + KIP
Sbjct: 68 VDALVGPVSSGVALAVAPVAEALKIPL 94
>gnl|CDD|183021 PRK11181, PRK11181, 23S rRNA (guanosine-2'-O-)-methyltransferase;
Provisional.
Length = 244
Score = 25.3 bits (56), Expect = 1.8
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 29 RKVISGVVGAASSVTSIQVANLLRLFKIPQ 58
+KV G AA +V I+V NL R ++ Q
Sbjct: 139 KKVACG---AAETVPLIRVTNLARTMRMLQ 165
>gnl|CDD|185071 PRK15116, PRK15116, sulfur acceptor protein CsdL; Provisional.
Length = 268
Score = 24.8 bits (54), Expect = 3.5
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 22 HCNKTQIRKVISGVVGAASSVTSIQVANLLRLFKIPQAS 60
+C + +I V +G G T IQV +L + + P A+
Sbjct: 141 YCRRNKIPLVTTGGAGGQIDPTQIQVVDLAKTIQDPLAA 179
>gnl|CDD|233666 TIGR01981, sufD, FeS assembly protein SufD. This protein, SufD,
forms a cytosolic complex SufBCD. This complex enhances
the cysteine desulfurase of SufSE. The system, together
with SufA, is believed to act in iron-sulfur cluster
formation during oxidative stress. SufB and SufD are
homologous. Note that SufC belongs to the family of ABC
transporter ATP binding proteins, so this protein,
encoded by an adjacent gene, has often been annotated
as a transporter component [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 275
Score = 24.1 bits (53), Expect = 5.5
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 6/45 (13%)
Query: 6 QGSYLRSISNIDDTEYHCNKTQIRKVISGVVGAASSVTSIQVANL 50
+ + L + + + +I VG +SV I+V L
Sbjct: 48 KATVLERHLSGEGDAFLNGVVEI------NVGENASVEFIKVQFL 86
>gnl|CDD|227546 COG5221, DOP1, Dopey and related predicted leucine zipper
transcription factors [Transcription].
Length = 1618
Score = 23.7 bits (51), Expect = 9.1
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 28 IRKVISGVVGAASSVTSIQVAN 49
IRKV+S V + SS ++ N
Sbjct: 1016 IRKVMSNVFSSLSSNEESKIQN 1037
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
0.321 0.133 0.386
Gapped
Lambda K H
0.267 0.0653 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,812,764
Number of extensions: 178148
Number of successful extensions: 170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 18
Length of query: 61
Length of database: 10,937,602
Length adjustment: 32
Effective length of query: 29
Effective length of database: 9,518,274
Effective search space: 276029946
Effective search space used: 276029946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)