RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8319
(330 letters)
>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 = 102 bits (257), Expect = 5e-25
Identities = 35/78 (44%), Positives = 47/78 (60%)
Query: 166 ACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGC 225
A PA ++ALEDVN +LPG++L LH DS+C+P AS +LL N P ++ C
Sbjct: 16 AALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQC 75
Query: 226 STVCTTVAEAAKMWNLVV 243
S+V VAE A WN+ V
Sbjct: 76 SSVAEFVAEVANEWNVPV 93
Score = 50.0 bits (120), Expect = 7e-07
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 23 DDIYAAINSTQFTGVSGDVAFSSQGDRIALTQIEQV--INGSYTKLGFYDTQADNLTWF 79
D ++A ST F G+SG V F G R+A E + I Y K+GF+ + L+ F
Sbjct: 296 DAVWA---STNFNGLSGPVQFDG-GRRLASPAFEIINIIGKGYRKIGFW-SSESGLSVF 349
>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 = 60.2 bits (146), Expect = 3e-10
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 1/78 (1%)
Query: 166 ACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGC 225
A +LA+ED+N LLPG L +D+ + A+ L ++ C
Sbjct: 1 QVLLAMRLAIEDINADGGLLPGITLGYEDDDTCDDSFAVAAAACLLKSKGV-VAVIGPSC 59
Query: 226 STVCTTVAEAAKMWNLVV 243
S+V VA A + + +
Sbjct: 60 SSVAIAVARLAGAFGIPM 77
Score = 33.6 bits (77), Expect = 0.11
Identities = 10/56 (17%), Positives = 20/56 (35%)
Query: 4 LKKQGKTLKSFTYTNKEIADDIYAAINSTQFTGVSGDVAFSSQGDRIALTQIEQVI 59
L + + + T + + + F G++G V F G R +E +
Sbjct: 286 LNEALRDDPNITRGLWVDGSQLLEYLRNVNFEGLTGPVQFDDNGGRRPDYSLEILN 341
>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 = 56.9 bits (138), Expect = 4e-09
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 7/94 (7%)
Query: 153 IAFCMSLNFNLPFA---CEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMY 209
+ + N + PF+ PA +LA+E VN +LLPG+ + D+EC +
Sbjct: 2 VGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAV 61
Query: 210 NLLYNNPQKLMLLAG--CSTVCTTVAEAAKMWNL 241
+L + + G C C VA A WN+
Sbjct: 62 DLYWE--HNVDAFIGPGCPYACAPVARLAAHWNI 93
Score = 28.8 bits (65), Expect = 4.0
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 10/57 (17%)
Query: 29 INSTQFTGVSGDVAFSSQGDR------IALTQIEQVINGSYTKLGFYDTQADNLTWF 79
+ + F+G++G V GDR + L G + YDT + +
Sbjct: 337 MWNRTFSGITGPVTIDENGDREGDYSLLDLD----STGGQLEVVYLYDTSSGGVRVL 389
>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 = 55.1 bits (133), Expect = 2e-08
Identities = 25/95 (26%), Positives = 37/95 (38%), Gaps = 16/95 (16%)
Query: 165 FACEPAAKLALEDV---NNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNN------ 215
AA+ L V NN DLLP L H DS C P + +LL +
Sbjct: 24 KKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLLSGEGTTPP 83
Query: 216 ------PQKLMLL-AGCSTVCTTVAEAAKMWNLVV 243
P+ + ++ G S+V VAE ++ +
Sbjct: 84 YSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQ 118
Score = 31.6 bits (72), Expect = 0.61
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 9/59 (15%)
Query: 26 YAAINSTQFTGVSGDVAFSSQGDRIALTQIEQVIN----GSYTKLGFYDTQADNLTWFD 80
Y ++ V +V F GDR+A I G + K+GF+D Q L+ +
Sbjct: 295 YNVYDA-----VYAEVKFDENGDRLASYDIINWQIFPGGGGFVKVGFWDPQGSGLSINE 348
>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 = 47.2 bits (113), Expect = 6e-06
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 160 NFNLPFA---CEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPG----LGASVMYNLL 212
N + P++ PA +A+E VN LLPG + L + DSEC+ G V +L
Sbjct: 10 NTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLY 69
Query: 213 YNNPQKLMLLAGCSTVCTTVAEAAKMWNL 241
+ + L GC VA A WN+
Sbjct: 70 FQHKPDAFLGPGCEYAAAPVARFAAHWNV 98
>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 = 46.0 bits (109), Expect = 1e-05
Identities = 18/97 (18%), Positives = 28/97 (28%), Gaps = 4/97 (4%)
Query: 151 VGIAFCMSLNFNLPFACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGAS---- 206
+G F + A AL V + LP L DS C P S
Sbjct: 2 IGGLFPLHSGGRFGEEGAFRAAAALFAVEEINNDLPNTTLGYEIYDSCCSPSDAFSAALD 61
Query: 207 VMYNLLYNNPQKLMLLAGCSTVCTTVAEAAKMWNLVV 243
+ L + ++ S+ VA ++
Sbjct: 62 LCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQ 98
>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 = 45.4 bits (108), Expect = 2e-05
Identities = 25/75 (33%), Positives = 32/75 (42%), Gaps = 15/75 (20%)
Query: 173 LALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGCSTV---- 228
LA+EDVN +LLPG+KLQ W D+ + L + + G
Sbjct: 27 LAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSD---------WWKRGVVAFIGPE 77
Query: 229 --CTTVAEAAKMWNL 241
CTT A A WNL
Sbjct: 78 CTCTTEARLAAAWNL 92
>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 = 42.9 bits (101), Expect = 1e-04
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 151 VGIAFCMSLNF-NLPFACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMY 209
+G+ F +S + A+LA+E++N A +PG KL+L D + +P +
Sbjct: 2 IGVLFPLSGPYAEYGAFRLAGAQLAVEEIN-AKGGIPGRKLELVIYDDQSDPARALAAAR 60
Query: 210 NLLYNNPQKLMLLAGCSTVCTTVAEAAKMWNLVV 243
L ++ S V VA A+ + +
Sbjct: 61 RLCQQEGVDALVGPVSSGVALAVAPVAEALKIPL 94
>gnl|CDD|107263 cd06268, PBP1_ABC_transporter_LIVBP_like, Periplasmic binding
domain of ATP-binding cassette transporter-like systems
that belong to the type I periplasmic binding fold
protein superfamily. Periplasmic binding domain of
ATP-binding cassette transporter-like systems that
belong to the type I periplasmic binding fold protein
superfamily. They are mostly present in archaea and
eubacteria, and are primarily involved in scavenging
solutes from the environment. ABC-type transporters
couple ATP hydrolysis with the uptake and efflux of a
wide range of substrates across bacterial membranes,
including amino acids, peptides, lipids and sterols, and
various drugs. These systems are comprised of
transmembrane domains, nucleotide binding domains, and
in most bacterial uptake systems, periplasmic binding
proteins (PBPs) which transfer the ligand to the
extracellular gate of the transmembrane domains. These
PBPs bind their substrates selectively and with high
affinity. Members of this group include ABC-type
Leucine-Isoleucine-Valine-Binding Proteins (LIVBP),
which are homologous to the aliphatic amidase
transcriptional repressor, AmiC, of Pseudomonas
aeruginosa. The uncharacterized periplasmic components
of various ABC-type transport systems are included in
this group.
Length = 298
Score = 40.5 bits (95), Expect = 8e-04
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 170 AAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGCSTVC 229
A+LA+E++N A +L G K++L D++ +P A+ L ++ ++ S V
Sbjct: 22 GAELAVEEINAAGGIL-GRKIELVVEDTQGDPEAAAAA-ARELVDDGVDAVIGPLSSGVA 79
Query: 230 TTVAEAAKMWNLVV 243
A A+ + +
Sbjct: 80 LAAAPVAEEAGVPL 93
>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 = 38.2 bits (89), Expect = 0.004
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 7/78 (8%)
Query: 169 PAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQK---LMLLAGC 225
PA + A + L PGF+ +H+ DS+C G +++L+ + + L+L C
Sbjct: 21 PAIEYAQRRLEANRLLFPGFRFNVHYEDSDC----GNEALFSLVDRSCARKPDLILGPVC 76
Query: 226 STVCTTVAEAAKMWNLVV 243
VA A WN+ +
Sbjct: 77 EYAAAPVARLASHWNIPM 94
>gnl|CDD|107335 cd06340, PBP1_ABC_ligand_binding_like_6, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in transport of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in transport of amino acids, peptides, or
inorganic ions. This subgroup has high sequence
similarity to members of the family of hydrophobic amino
acid transporters (HAAT), such as
leucine-isoleucine-valine-binding protein (LIVBP);
however their ligand specificity has not been determined
experimentally.
Length = 347
Score = 37.6 bits (88), Expect = 0.006
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 167 CEPAAKLALEDVNNATDL--LPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAG 224
C+ A+LA+E++N A + L G KL+L + DS+ P +GA+ L+ + ++ L G
Sbjct: 19 CKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITE--EGVVALVG 76
Query: 225 C--STVCTTVAEAA 236
S V ++ A
Sbjct: 77 AYQSAVTLAASQVA 90
>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 = 37.8 bits (88), Expect = 0.006
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 169 PAAKLALEDVNNATDLLPGFKLQLHWNDSE 198
PA + A++ VN DLLPG LQ SE
Sbjct: 22 PALERAIDRVNADPDLLPGLHLQYVLGSSE 51
>gnl|CDD|215648 pfam00003, 7tm_3, 7 transmembrane sweet-taste receptor of 3 GCPR.
This is a domain of seven transmembrane regions that
forms the C-terminus of some subclass 3
G-coupled-protein receptors. It is often associated with
a downstream cysteine-rich linker domain, NCD3G
pfam07562, which is the human sweet-taste receptor, and
the N-terminal domain, ANF_receptor pfam01094. The seven
TM regions assemble in such a way as to produce a
docking pocket into which such molecules as cyclamate
and lactisole have been found to bind and consequently
confer the taste of sweetness.
Length = 238
Score = 35.3 bits (82), Expect = 0.024
Identities = 10/40 (25%), Positives = 24/40 (60%)
Query: 117 VGILFAVGLIIFNICYRHRRVIASSHPVCNTIMLVGIAFC 156
+GIL + +++ I +R+ V+ +S + ++L+G+ C
Sbjct: 1 LGILLTLLVLVVFIRHRNTPVVKASGRELSFLLLLGLLLC 40
Score = 29.5 bits (67), Expect = 1.9
Identities = 9/32 (28%), Positives = 14/32 (43%)
Query: 244 KKVEPWKLYTMVTGLLSIDLVILLCWQFYDPL 275
K P +V GL + ++I + W DP
Sbjct: 95 LKSLPKGQLLIVLGLTLVQVIICVIWLVVDPP 126
>gnl|CDD|107341 cd06346, PBP1_ABC_ligand_binding_like_11, Type I periplasmic
ligand-binding domain of uncharacterized ABC (Atpase
Binding Cassette)-type active transport systems that are
predicted to be involved in uptake of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (Atpase Binding Cassette)-type
active transport systems that are predicted to be
involved in uptake of amino acids, peptides, or
inorganic ions. This subgroup has high sequence
similarity to members of the family of hydrophobic amino
acid transporters (HAAT), such as
leucine/isoleucine/valine binding protein (LIVBP);
however its ligand specificity has not been determined
experimentally.
Length = 312
Score = 34.5 bits (80), Expect = 0.055
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 170 AAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGCSTVC 229
AA+LA+++VN A +L G + L D++ +P G + L+ + ++ A CS V
Sbjct: 22 AAELAVKEVNAAGGVL-GEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80
Query: 230 TTVAEAAKMWNLVV 243
+ + N VV
Sbjct: 81 IAALTSVAVPNGVV 94
>gnl|CDD|177952 PLN02318, PLN02318, phosphoribulokinase/uridine kinase.
Length = 656
Score = 34.8 bits (80), Expect = 0.066
Identities = 11/56 (19%), Positives = 20/56 (35%), Gaps = 1/56 (1%)
Query: 71 TQADNLTWFDRERWIGGKVPQDRTQIRKVLRTISVPLVICMWTVATVGILFAVGLI 126
Q DNL+ E R + + +PL++ + + +GI L
Sbjct: 600 HQLDNLSNLLHESLGERSGRNRRNSRLLNVDSSQLPLILSL-AIGGIGIFLFKRLK 654
>gnl|CDD|107375 cd06380, PBP1_iGluR_AMPA, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the AMPA receptor. N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the AMPA
(alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic
acid) receptor, a member of the glutamate-receptor ion
channels (iGluRs). AMPA receptors are the major
mediators of excitatory synaptic transmission in the
central nervous system. 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. AMPA
receptors consist of four types of subunits (GluR1,
GluR2, GluR3, and GluR4) which combine to form a
tetramer and play an important roles in mediating the
rapid excitatory synaptic current.
Length = 382
Score = 33.4 bits (77), Expect = 0.14
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 24 DIYAAINSTQFTGVSGDVAFSSQGDRIALT-QIEQVINGSYTKLGFYD 70
DI A+ QF G++G+V F G R T + ++ K+G+++
Sbjct: 329 DIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWN 376
>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 = 32.8 bits (75), Expect = 0.21
Identities = 24/78 (30%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 169 PAAKLALEDVNNATDLLPGFKLQLHWNDSE----CEPGLGASVMYNL-LYNNPQKLMLLA 223
PA ++A+E + N LL G+ + L SE C L +L LY++P +
Sbjct: 22 PAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPD-VFFGP 80
Query: 224 GCSTVCTTVAEAAKMWNL 241
GC +VA A W L
Sbjct: 81 GCVYPTASVARFATHWRL 98
>gnl|CDD|107337 cd06342, PBP1_ABC_LIVBP_like, Type I periplasmic ligand-binding
domain of ABC (Atpase Binding Cassette)-type active
transport systems that are involved in the transport of
all three branched chain aliphatic amino acids (leucine,
isoleucine and valine). This subgroup includes the type
I periplasmic ligand-binding domain of ABC (Atpase
Binding Cassette)-type active transport systems that are
involved in the transport of all three branched chain
aliphatic amino acids (leucine, isoleucine and valine).
This subgroup also includes a leucine-specific binding
protein (or LivK), which is very similar in sequence and
structure to leucine-isoleucine-valine binding protein
(LIVBP). ABC-type active transport systems are
transmembrane proteins that function in the transport of
diverse sets of substrates across extra- and
intracellular membranes, including carbohydrates, amino
acids, inorganic ions, dipeptides and oligopeptides,
metabolic products, lipids and sterols, and heme, to
name a few.
Length = 334
Score = 31.4 bits (72), Expect = 0.54
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 170 AAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASV 207
A+LA+ED+N A G KL+L D + +P +V
Sbjct: 22 GAQLAVEDIN-AKGGGKGVKLELVVEDDQADPKQAVAV 58
Score = 31.0 bits (71), Expect = 0.90
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 27 AAINSTQFTGVSGDVAFSSQGDR 49
A+ F GV+G ++F ++GD
Sbjct: 302 DALRKVDFDGVTGKISFDAKGDL 324
>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 = 31.1 bits (71), Expect = 0.92
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 170 AAKLALEDVNNATDLLPGFKLQLHWNDS 197
A AL+++NN LLPG L H D+
Sbjct: 35 AMLFALDEINNDPTLLPGITLGAHILDT 62
>gnl|CDD|107330 cd06335, PBP1_ABC_ligand_binding_like_2, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in transport of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in transport of amino acids, peptides, or
inorganic ions. Members of this group are
sequence-similar to members of the family of ABC-type
hydrophobic amino acid transporters, such as
leucine-isoleucine-valine-binding protein (LIVBP);
however their ligand specificity has not been determined
experimentally.
Length = 347
Score = 30.7 bits (70), Expect = 1.1
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 171 AKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGCST 227
A+LA++++N A +L G KL+L D P G L + + + +L G T
Sbjct: 23 ARLAIDEINAAGGVL-GRKLELVERDDRGNPARGLQNAQELA-ADEKVVAVLGGLHT 77
>gnl|CDD|192535 pfam10320, 7TM_GPCR_Srsx, Serpentine type 7TM GPCR chemoreceptor
Srsx. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srsx is a solo family
amongst the superfamilies of chemoreceptors.
Chemoperception is one of the central senses of soil
nematodes like C. elegans which are otherwise 'blind'
and 'deaf'.
Length = 257
Score = 29.9 bits (68), Expect = 1.7
Identities = 9/50 (18%), Positives = 20/50 (40%), Gaps = 6/50 (12%)
Query: 91 QDRTQIRKVLRTI--SVPLVICMWTVATVGILFAVGLII----FNICYRH 134
+ +KV +++ +V + I W +T+ + L NI +
Sbjct: 177 TTNSDSKKVFKSLQVTVIIFIFGWFTSTIANTVFLLLTEDGEVENIIQMY 226
>gnl|CDD|224839 COG1928, PMT1, Dolichyl-phosphate-mannose--protein O-mannosyl
transferase [Posttranslational modification, protein
turnover, chaperones].
Length = 699
Score = 30.2 bits (68), Expect = 1.8
Identities = 10/56 (17%), Positives = 20/56 (35%), Gaps = 1/56 (1%)
Query: 111 MWTVATVGILFAVGLIIFNICYRHRRVIASSHPVCNTIMLVGIAFCMSLNFN-LPF 165
+W + + F G++I+ + R S P F + + LP+
Sbjct: 555 LWWFSVPALAFFTGIVIWRLIRWRRGYRTLSDPAIRNFHWGYFYFLVGWAAHYLPW 610
>gnl|CDD|237058 PRK12324, PRK12324, phosphoribose diphosphate:decaprenyl-phosphate
phosphoribosyltransferase; Provisional.
Length = 295
Score = 29.8 bits (68), Expect = 2.0
Identities = 14/54 (25%), Positives = 20/54 (37%)
Query: 92 DRTQIRKVLRTISVPLVICMWTVATVGILFAVGLIIFNICYRHRRVIASSHPVC 145
+ RKVL S + MWT+ +L L F +I + PV
Sbjct: 195 TGAKHRKVLEEYSPGFLDFMWTIVATAVLVTYSLYAFESGASSPWMIVTIPPVL 248
>gnl|CDD|225022 COG2111, MnhB, Multisubunit Na+/H+ antiporter, MnhB subunit
[Inorganic ion transport and metabolism].
Length = 162
Score = 29.3 bits (66), Expect = 2.0
Identities = 8/42 (19%), Positives = 21/42 (50%)
Query: 118 GILFAVGLIIFNICYRHRRVIASSHPVCNTIMLVGIAFCMSL 159
G++ A+ +I+ + + V + + ++LVG+ + L
Sbjct: 54 GVVEAIAIILLLLAFGILPVRKLFRELLDALILVGVGLLVLL 95
>gnl|CDD|219220 pfam06890, Phage_Mu_Gp45, Bacteriophage Mu Gp45 protein. This
family consists of Bacteriophage Mu Gp45 related
proteins from both phages and bacteria. The function of
this family is unknown although it has been suggested
that family members may be involved in baseplate
assembly.
Length = 162
Score = 28.9 bits (65), Expect = 2.5
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 38 SGDVA-FSSQGDRIALTQIEQVINGSYTKLGFYDTQA 73
+GDVA + +G R+ LT+ +VING+ Y Q+
Sbjct: 77 AGDVALYHDEGHRVRLTRDGRVINGACKTFTIYAAQS 113
>gnl|CDD|227034 COG4690, PepD, Dipeptidase [Amino acid transport and metabolism].
Length = 464
Score = 29.7 bits (67), Expect = 2.6
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 158 SLNFNLPFACEPAAKLALEDVNNA 181
N +LPF +P K+++EDV
Sbjct: 257 PYNSDLPFIQKPHRKISVEDVKFV 280
>gnl|CDD|217624 pfam03577, Peptidase_C69, Peptidase family C69.
Length = 400
Score = 29.2 bits (66), Expect = 3.2
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 8/42 (19%)
Query: 160 NFNLPFACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEP 201
+ +LPF +P K+++EDV L H+ + +P
Sbjct: 260 SQDLPFFRKPNRKISVEDVKFV--------LSSHYEGTPYDP 293
>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 = 28.8 bits (65), Expect = 3.9
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 170 AAKLALEDVNNATDLLPGFKL 190
A + A+E++NN+T LLPG L
Sbjct: 47 AMRFAVEEINNSTSLLPGVTL 67
>gnl|CDD|107385 cd06390, PBP1_iGluR_AMPA_GluR1, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the GluR1 subunit of the AMPA receptor.
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of the GluR1 subunit of the AMPA
(alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic
acid) receptor. The AMPA receptor is a member of the
glutamate-receptor ion channels (iGluRs) which are the
major mediators of excitatory synaptic transmission in
the central nervous system. AMPA receptors are composed
of four types of subunits (GluR1, GluR2, GluR3, and
GluR4) which combine to form a tetramer and play an
important role in mediating the rapid excitatory
synaptic current. Furthermore, this N-terminal domain of
the iGluRs has homology with LIVBP, a bacterial
periplasmic binding protein, as well as with the
structurally related glutamate-binding domain of the
G-protein-coupled metabotropic receptors (mGluRs).
Length = 364
Score = 28.8 bits (64), Expect = 4.8
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 24 DIYAAINSTQFTGVSGDVAFSSQGDRIALT 53
DI A+ +F G++G+V F+ +G R T
Sbjct: 311 DIQRALQQVRFEGLTGNVQFNEKGRRTNYT 340
>gnl|CDD|219313 pfam07155, ECF-ribofla_trS, ECF-type riboflavin transporter, S
component. This family is the substrate-binding
component (S component) of the energy coupling-factor
(ECF)-type riboflavin transporter. It is a transmembrane
protein which binds riboflavin, and is responsible for
riboflavin-uptake by cells.
Length = 169
Score = 27.9 bits (63), Expect = 4.9
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 3/70 (4%)
Query: 112 WTVATVGIL-FAVGLIIFNICYRHRRVIASSHPV--CNTIMLVGIAFCMSLNFNLPFACE 168
WT+ G+ GLI + I + N +M++G L ++ E
Sbjct: 77 WTLIISGLQGLIAGLIAKKLKKNLENGIFKLKGLVLFNIVMVIGYFIAWGLLIDILIYSE 136
Query: 169 PAAKLALEDV 178
PA K+ L+ +
Sbjct: 137 PAWKVFLQSI 146
>gnl|CDD|107374 cd06379, PBP1_iGluR_NMDA_NR1, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR1, an essential channel-forming subunit
of the NMDA receptor. N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR1, an essential channel-forming subunit
of the NMDA receptor. The ionotropic N-methyl-d-asparate
(NMDA) subtype of glutamate receptor serves critical
functions in neuronal development, functioning, and
degeneration in the mammalian central nervous system.
The functional NMDA receptor is a heterotetramer
ccomposed of two NR1 and two NR2 (A, B, C, and D) or of
NR3 (A and B) subunits. The receptor controls a cation
channel that is highly permeable to monovalent ions and
calcium and exhibits voltage-dependent inhibition by
magnesium. Dual agonists, glutamate and glycine, are
required for efficient activation of the NMDA receptor.
When co-expressed with NR1, the NR3 subunits form
receptors that are activated by glycine alone and
therefore can be classified as excitatory glycine
receptors. NR1/NR3 receptors are calcium-impermeable and
unaffected by ligands acting at the NR2
glutamate-binding site.
Length = 377
Score = 28.6 bits (64), Expect = 5.0
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 26 YAAINSTQFTGVSGDVAFSSQGDRI 50
A+ S+++ G +G V F+ GDR
Sbjct: 317 KRALMSSKYPGETGRVEFNDDGDRK 341
>gnl|CDD|226625 COG4145, PanF, Na+/panthothenate symporter [Coenzyme metabolism].
Length = 473
Score = 28.5 bits (64), Expect = 5.3
Identities = 10/57 (17%), Positives = 22/57 (38%), Gaps = 1/57 (1%)
Query: 103 ISVPLVICMWTVATVGILFAVGLIIFNICYRHRRVIASSHPVCNTIMLVGIAFCMSL 159
+ P + W + G+L + I ++ + I + TI++ + M L
Sbjct: 232 LDPPFMASFWILVCFGVLGLPHTAVRCIAFKDSKAIHRGMII-GTIVIAILMLGMHL 287
>gnl|CDD|107322 cd06327, PBP1_SBP_like_1, Periplasmic solute-binding domain of
active transport proteins that belong to the type I
periplasmic binding fold protein family. Periplasmic
solute-binding domain of active transport proteins that
belong to the type I periplasmic binding fold protein
family. Solute binding proteins are the primary specific
receptors that initiate uptake of a broad range of
solutes, including amino acids, peptides and inorganic
ions. The members are predicted to have a similar
function to an active transport system for short chain
amides and urea by sequence comparison and phylogenetic
analysis. Moreover, this binding domain has high
sequence identity to the family of hydrophobic amino
acid transporters (HAAT), and thus may also be involved
in transport of amino acids.
Length = 334
Score = 28.3 bits (64), Expect = 6.2
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 170 AAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGAS 206
AA+LA+ED + G ++L D + + + A+
Sbjct: 23 AAELAVEDFGGG---VLGRPIELVVADHQNKADVAAA 56
>gnl|CDD|150442 pfam09771, Tmemb_18A, Transmembrane protein 188. The function of
this family of transmembrane proteins has not, as yet,
been determined.
Length = 126
Score = 27.1 bits (60), Expect = 6.9
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 101 RTISVPLVICMWT--VATVGILFAVGLIIFNICYRHRRVIASS 141
T VP + +W T L + L +F I H+RV+A S
Sbjct: 53 ETFQVPFIDSLWNHPDFTFSTLTLLLLFVFGI---HKRVVAPS 92
>gnl|CDD|220669 pfam10272, Tmpp129, Putative transmembrane protein precursor. This
is a family of proteins conserved from worms to humans.
The proteins are purported to be transmembrane
protein-precursors but the function is unknown.
Length = 356
Score = 27.8 bits (62), Expect = 7.7
Identities = 8/45 (17%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 106 PLVICMWTVATVGILFAVGLIIFNICYRHRRVIASSHPVCNTIML 150
P V ++ V + + +I+ + + S+HP+ + L
Sbjct: 76 PWVWKVFLWLAVLLPLLIAALIY--YWSQKG--WSNHPIAKYLAL 116
>gnl|CDD|182037 PRK09701, PRK09701, D-allose transporter subunit; Provisional.
Length = 311
Score = 27.9 bits (62), Expect = 7.9
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 36 GVSGDV-AFSSQGD-RIALTQIEQVINGSYTKLGFYDTQADNL 76
GVS D+ A S+GD + L E + N +Y + F + NL
Sbjct: 54 GVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNL 96
>gnl|CDD|173767 cd08227, PK_STRAD_alpha, Pseudokinase domain of STE20-related
kinase adapter protein alpha. Protein Kinase family,
STE20-related kinase adapter protein (STRAD) alpha
subfamily, pseudokinase domain. The STRAD alpha
subfamily is part of a larger superfamily that includes
the catalytic domains of serine/threonine kinases
(STKs), protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. The pseudokinase domain shows
similarity to protein kinases but lacks crucial residues
for catalytic activity. STRAD forms a complex with the
scaffolding protein MO25, and the STK, LKB1, resulting
in the activation of the kinase. In the complex, LKB1
phosphorylates and activates adenosine
monophosphate-activated protein kinases (AMPKs), which
regulate cell energy metabolism and cell polarity. LKB1
is a tumor suppressor linked to the rare inherited
disease, Peutz-Jeghers syndrome, which is characterized
by a predisposition to benign polyps and
hyperpigmentation of the buccal mucosa. There are two
forms of STRAD, alpha and beta, that complex with LKB1
and MO25. The structure of STRAD-alpha is available and
shows that this protein binds ATP, has an ordered
activation loop, and adopts a closed conformation
typical of fully active protein kinases. It does not
possess activity due to nonconservative substitutions of
essential catalytic residues. ATP binding enhances the
affinity of STRAD for MO25. The conformation of
STRAD-alpha, stabilized through ATP and MO25, may be
needed to activate LKB1. A mutation which results in a
truncation of a C-terminal part of the human STRAD-alpha
pseudokinase domain and disrupts its association with
LKB1, leads to PMSE (polyhydramnios, megalencephaly,
symptomatic epilepsy) syndrome. Several splice variants
of STRAD-alpha exist which exhibit different effects on
the localization and activation of LKB1.
Length = 327
Score = 28.0 bits (62), Expect = 8.1
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 148 IMLVGIAFCMSLNFNLPFACEPAAKLALEDVNNA------TDLLPGFKLQLHWNDSECEP 201
I VGI C N ++PF PA ++ LE +N T +P +L + + S
Sbjct: 193 IYSVGITACELANGHVPFKDMPATQMLLEKLNGTVPCLLDTTTIPAEELTMKPSRSGANS 252
Query: 202 GLGAS 206
GLG S
Sbjct: 253 GLGES 257
>gnl|CDD|216883 pfam02118, Srg, Srg family chemoreceptor.
Length = 275
Score = 27.9 bits (63), Expect = 8.1
Identities = 14/67 (20%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 220 MLLAGCSTVCTTVAEAAKMWNL--VVKKVEPWKLYTMVTGLLSIDLVILLCWQFYDPLQR 277
+L T+ T++ + K+ L +K VE + T++T +S+ +++ WQ +
Sbjct: 177 FILILVFTIITSIVTSYKLAKLSKRIKSVE--RSLTIITIFISVVFLLVAAWQVLNSFAF 234
Query: 278 ITENFPL 284
P
Sbjct: 235 FFNFLPD 241
>gnl|CDD|222144 pfam13458, Peripla_BP_6, Periplasmic binding protein. This family
includes a diverse range of periplasmic binding
proteins.
Length = 343
Score = 27.6 bits (62), Expect = 9.4
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 166 ACEPAAKLALEDVNNATDLLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGC 225
+ A+LA+E++ NA + G K++L D + +P A+ L+ + + + G
Sbjct: 20 SSRAGARLAIEEI-NAAGGVLGRKIELVVADDQSDPDRAAAAARRLV--DQDGVDAIFGG 76
Query: 226 --STVCTTVAEAAK 237
S V VA +
Sbjct: 77 LTSAVALAVAPVLE 90
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 27.9 bits (62), Expect = 9.4
Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 184 LLPGFKLQLHWNDSECEPGLGASVMYNLLYNNPQKLMLLAGCSTVCTTVAEAAKMWNLVV 243
L+P + HWN +G ++YN N L+L C T+ A W+ V+
Sbjct: 918 LVPLLLVHGHWNYQR----MGYMILYNFYRNAVFVLVLFWYVLFTCFTLTTAINEWSSVL 973
Query: 244 KKVEPWKLYTMVTGLLSIDL 263
V L T+V G+L DL
Sbjct: 974 YSVIYTALPTIVVGILDKDL 993
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 0.138 0.431
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,713,421
Number of extensions: 1570512
Number of successful extensions: 1548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1539
Number of HSP's successfully gapped: 58
Length of query: 330
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 233
Effective length of database: 6,635,264
Effective search space: 1546016512
Effective search space used: 1546016512
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: 59 (26.5 bits)