RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7238
(123 letters)
>gnl|CDD|212044 cd11474, SLC5sbd_CHT, Na(+)- and Cl(-)-dependent choline
cotransporter CHT and related proteins; solute-binding
domain. Na+/choline co-transport by CHT is Cl-
dependent. Human CHT (also called CHT1) is encoded by
the SLC5A7 gene, and is expressed in the central nervous
system. hCHT1-mediated choline uptake may be the
rate-limiting step in acetylcholine synthesis, and
essential for cholinergic transmission. Changes in this
choline uptake in cortical neurons may contribute to
Alzheimer's dementia. This subfamily belongs to the
solute carrier 5 (SLC5) transporter family.
Length = 464
Score = 114 bits (288), Expect = 3e-31
Identities = 51/118 (43%), Positives = 73/118 (61%), Gaps = 7/118 (5%)
Query: 2 EIIWVMRAAIFVTGILSTVMALTIPSIYGLWSMCSDLVYCILFPQLLMVVHFKHHCNTYG 61
E++WVMR ++ V G ++T++ALT+ SIYGL + SDL LF LL +++K NTYG
Sbjct: 354 ELLWVMRISVVVFGAIATLLALTVESIYGLVELASDLTLVGLFVPLLAGLYWKRA-NTYG 412
Query: 62 SLAAYIMAFLVRVSGGEPQLGLSPFIYYPDYDYENSRQMFPFRTMAMLMSLSTLASVS 119
+LAA I+ ++R+ GGE LGL P YD Q FPF T+AM++ +VS
Sbjct: 413 ALAAIIVGLVLRLLGGELLLGL------PGYDIPPQLQGFPFSTLAMVIGSLLPLAVS 464
>gnl|CDD|212032 cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose
transporters and related proteins; solute-binding
domain. This family represents the solute-binding
domain of SLC5 proteins (also called the sodium/glucose
cotransporter family or solute sodium symporter family)
that co-transport Na+ with sugars, amino acids,
inorganic ions or vitamins. Family members include: the
human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5),
myo-inositol (SMIT), choline (CHT), iodide (NIS),
multivitamin (SMVT), and monocarboxylate (SMCT)
cotransporters, as well as Vibrio parahaemolyticus
glucose/galactose (vSGLT), and Escherichia coli proline
(PutP) and pantothenate (PutF) cotransporters. Vibrio
parahaemolyticus Na(+)/galactose cotransporter (vSGLT)
has 13 transmembrane helices (TMs): TM-1, an inverted
topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs
numbered to conform to the solute carrier 6 family
Aquifex aeolicus LeuT). One member of this family, human
SGLT3, has been characterized as a glucose sensor and
not a transporter. Members of this family are important
in human physiology and disease.
Length = 455
Score = 36.4 bits (85), Expect = 0.001
Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 2 EIIWVMRAAIFVTGILSTVMALTIPSIYGLWSMCSDLVYCILFPQLLMVVHFKHHCNTYG 61
+++ V R A V G+L+ ++AL PSI L S+ + L+ LFP LL+ + +K G
Sbjct: 353 KLLRVGRIATVVVGVLALLLALFPPSIILLLSLAAGLLAAALFPPLLLGLFWK-RATKAG 411
Query: 62 SLAAYIMAFLV 72
++A+ I+ +V
Sbjct: 412 AIASLIVGLIV 422
>gnl|CDD|223044 PHA03325, PHA03325, nuclear-egress-membrane-like protein;
Provisional.
Length = 418
Score = 30.6 bits (69), Expect = 0.14
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 39 VYCILFPQLLMVVHFKHHCNTYGSLAAYIMAFLVRVSGGEPQLGL 83
C+LF +L +H+C+ L AY+ L + G +LG
Sbjct: 130 RVCVLFNRLTFTARLRHYCDHDSRLVAYLRDELTKRCGEGSRLGE 174
>gnl|CDD|223664 COG0591, PutP, Na+/proline symporter [Amino acid transport and
metabolism / General function prediction only].
Length = 493
Score = 30.0 bits (68), Expect = 0.27
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 2 EIIWVMRAAIFVTGILSTVMALTIPS-IYGLWSMCSDLVYCILFPQLLMVVHFKHHCNTY 60
E++ + R + V +L+ ++AL PS I GL S+ P LL+ + +K
Sbjct: 370 ELVRIGRVVVLVIALLALLLALLPPSSILGLVSLALAGFGAQFLPALLLGLFWK-RATKR 428
Query: 61 GSLAAYIMAFLV 72
G++A I +V
Sbjct: 429 GAIAGMIAGLIV 440
>gnl|CDD|212047 cd11477, SLC5sbd_u1, Uncharacterized bacterial solute carrier 5
subfamily; putative solute-binding domain. SLC5 (also
called the sodium/glucose cotransporter family or solute
sodium symporter family) is a family of proteins that
co-transports Na+ with sugars, amino acids, inorganic
ions or vitamins. Prokaryotic members of this family
include Vibrio parahaemolyticus glucose/galactose
(vSGLT), and Escherichia coli proline (PutP) and
pantothenate (PutF) cotransporters. One member of the
SLC5 family, human SGLT3, has been characterized as a
glucose sensor and not a transporter. This subfamily
belongs to the solute carrier 5 (SLC5) transporter
family.
Length = 495
Score = 29.1 bits (66), Expect = 0.51
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 2 EIIWVMRAAIFVTGILSTVMALTIPSIYGLW 32
E++ V R A + G+LS V+AL SI G +
Sbjct: 368 ELLRVGRLATVLFGLLSIVVALASDSIGGAF 398
>gnl|CDD|226109 COG3581, COG3581, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 420
Score = 28.6 bits (64), Expect = 0.81
Identities = 14/80 (17%), Positives = 30/80 (37%), Gaps = 4/80 (5%)
Query: 45 PQLLMVVHFKHHCNTYGSLAAYIMAFLVRVSGGEP-QLGLSPFIYYPDYDYENSRQMFPF 103
P++ +V Y A + ++ G E L FI Y Y+ ++ F
Sbjct: 204 PKVGLVGEILVK---YSPGANNHLVDVLEKEGIEAVVTDLEDFILYSIYNKIFDLKISGF 260
Query: 104 RTMAMLMSLSTLASVSWLSK 123
+ + L + ++++ K
Sbjct: 261 KNKSKLKKKVAITAINYFEK 280
>gnl|CDD|173624 cd00192, PTKc, Catalytic domain of Protein Tyrosine Kinases.
Protein Tyrosine Kinase (PTK) family, catalytic domain.
This PTKc family is part of a larger superfamily that
includes the catalytic domains of protein
serine/threonine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase (PI3K). PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. They can be classified
into receptor and non-receptor tyr kinases. PTKs play
important roles in many cellular processes including,
lymphocyte activation, epithelium growth and
maintenance, metabolism control, organogenesis
regulation, survival, proliferation, differentiation,
migration, adhesion, motility, and morphogenesis.
Receptor tyr kinases (RTKs) are integral membrane
proteins which contain an extracellular ligand-binding
region, a transmembrane segment, and an intracellular
tyr kinase domain. RTKs are usually activated through
ligand binding, which causes dimerization and
autophosphorylation of the intracellular tyr kinase
catalytic domain, leading to intracellular signaling.
Some RTKs are orphan receptors with no known ligands.
Non-receptor (or cytoplasmic) tyr kinases are
distributed in different intracellular compartments and
are usually multi-domain proteins containing a catalytic
tyr kinase domain as well as various regulatory domains
such as SH3 and SH2. PTKs are usually autoinhibited and
require a mechanism for activation. In many PTKs, the
phosphorylation of tyr residues in the activation loop
is essential for optimal activity. Aberrant expression
of PTKs is associated with many development
abnormalities and cancers.
Length = 262
Score = 28.3 bits (64), Expect = 1.0
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 70 FLVRVSGGEPQLGLSPFIYYPDYDYENSRQMFPFRTMA 107
+V++S GLS +Y DY + + P R MA
Sbjct: 142 LVVKISD----FGLSRDVYDDDYYRKKTGGKLPIRWMA 175
>gnl|CDD|203281 pfam05588, Botulinum_HA-17, Clostridium botulinum HA-17 protein.
This family consists of several Clostridium botulinum
hemagglutinin (HA) subcomponents. Clostridium botulinum
type D strain 4947 produces two different sizes of
progenitor toxins (M and L) as intact forms without
proteolytic processing. The M toxin is composed of
neurotoxin (NT) and nontoxic-nonhemagglutinin (NTNHA),
whereas the L toxin is composed of the M toxin and
hemagglutinin (HA) subcomponents (HA-70, HA-17, and
HA-33).
Length = 146
Score = 26.5 bits (58), Expect = 3.6
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 85 PFIYYPDYDYENSRQMFPF 103
P + P++D ENS QMF
Sbjct: 125 PLLLLPNFDIENSNQMFKL 143
>gnl|CDD|133227 cd05096, PTKc_DDR1, Catalytic domain of the Protein Tyrosine
Kinase, Discoidin Domain Receptor 1. Protein Tyrosine
Kinase (PTK) family; mammalian Discoidin Domain Receptor
1 (DDR1) and homologs; catalytic (c) domain. The PTKc
family is part of a larger superfamily that includes the
catalytic domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. DDR1 is a
member of the DDR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular discoidin
homology domain, a transmembrane segment, an extended
juxtamembrane region, and an intracellular catalytic
domain. The binding of the ligand, collagen, to DDRs
results in a slow but sustained receptor activation.
DDR1 binds to all collagens tested to date (types I-IV).
It is widely expressed in many tissues. It is abundant
in the brain and is also found in keratinocytes, colonic
mucosa epithelium, lung epithelium, thyroid follicles,
and the islets of Langerhans. During embryonic
development, it is found in the developing
neuroectoderm. DDR1 is a key regulator of cell
morphogenesis, differentiation and proliferation. It is
important in the development of the mammary gland, the
vasculator and the kidney. DDR1 is also found in human
leukocytes, where it facilitates cell adhesion,
migration, maturation, and cytokine production.
Length = 304
Score = 26.1 bits (57), Expect = 5.6
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 81 LGLSPFIYYPDYDYENSRQMFPFRTMA---MLMSLSTLASVSW 120
G+S +Y DY R + P R MA +LM T AS W
Sbjct: 182 FGMSRNLYAGDYYRIQGRAVLPIRWMAWECILMGKFTTASDVW 224
>gnl|CDD|234212 TIGR03443, alpha_am_amid, L-aminoadipate-semialdehyde dehydrogenase.
Members of this protein family are
L-aminoadipate-semialdehyde dehydrogenase (EC 1.2.1.31),
product of the LYS2 gene. It is also called
alpha-aminoadipate reductase. In fungi, lysine is
synthesized via aminoadipate. Currently, all members of
this family are fungal.
Length = 1389
Score = 26.2 bits (58), Expect = 6.1
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 7/46 (15%)
Query: 70 FLVRVSGGEPQLGLSPFIYYPDYDYENSRQMFPFRTMAMLMSLSTL 115
FL+R+ G QLGL P + N+ M P +A ++ + L
Sbjct: 1193 FLLRMLKGCIQLGLIP-------NINNTVNMVPVDHVARVVVAAAL 1231
>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This
protein, TorS, is part of a regulatory system for the
torCAD operon that encodes the pterin molybdenum
cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
reductase (TorA), a cognate chaperone (TorD), and a
penta-haem cytochrome (TorC). TorS works together with
the inducer-binding protein TorT and the response
regulator TorR. TorS contains histidine kinase ATPase
(pfam02518), HAMP (pfam00672), phosphoacceptor
(pfam00512), and phosphotransfer (pfam01627) domains and
a response regulator receiver domain (pfam00072) [Signal
transduction, Two-component systems].
Length = 968
Score = 25.9 bits (57), Expect = 6.4
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 98 RQMFPFRTMAMLMSLSTL---ASVSWLSK 123
+ + F MA L+ LS + +S ++K
Sbjct: 5 KLLLAFSVMAALLLLSVVIGVLGLSLVAK 33
>gnl|CDD|169420 PRK08387, PRK08387, putative monovalent cation/H+ antiporter
subunit B; Reviewed.
Length = 131
Score = 25.2 bits (55), Expect = 8.7
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 64 AAYIMAFLVRVSGGEPQ----LGLSPFIYYPDYDYENSRQMFPFRTMAMLMSLSTLASVS 119
AAY+M + GG Q L ++ + + Y+ R+ F RT+++L S S L V
Sbjct: 20 AAYLMLYGHLSPGGGFQAGVILAVAVILLITSHGYKKVRKRFRKRTVSLLESSSGLFIVG 79
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
0.330 0.139 0.446
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,347,975
Number of extensions: 546326
Number of successful extensions: 810
Number of sequences better than 10.0: 1
Number of HSP's gapped: 807
Number of HSP's successfully gapped: 49
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.1 bits)