RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15494
(149 letters)
>gnl|CDD|215647 pfam00002, 7tm_2, 7 transmembrane receptor (Secretin family). This
family is known as Family B, the secretin-receptor
family or family 2 of the G-protein-coupled receptors
(GCPRs).They have been described in many animal species,
but not in plants, fungi or prokaryotes. Three distinct
sub-families are recognised. Subfamily B1 contains
classical hormone receptors, such as receptors for
secretin and glucagon, that are all involved in
cAMP-mediated signalling pathways. Subfamily B2 contains
receptors with long extracellular N-termini, such as the
leukocyte cell-surface antigen CD97 ;
calcium-independent receptors for latrotoxin, and
brain-specific angiogenesis inhibitors amongst others.
Subfamily B3 includes Methuselah and other Drosophila
proteins. Other than the typical seven-transmembrane
region, characteristic structural features include an
amino-terminal extracellular domain involved in ligand
binding, and an intracellular loop (IC3) required for
specific G-protein coupling.
Length = 239
Score = 79.2 bits (196), Expect = 7e-19
Identities = 37/103 (35%), Positives = 53/103 (51%), Gaps = 3/103 (2%)
Query: 1 MDCWM-NDAHSRWILTVPVCLSILVNLAILMNVLRVLLTKLHSNSTNPAPIGIRKAARAA 59
CW+ N+ WI PV L ILVN +N+LR+L+ KL S ++ A++
Sbjct: 139 PGCWLSNNGGFWWIFKGPVLLVILVNFIFFINILRILVQKLRSPDMGETDQYRKRLAKST 198
Query: 60 LILVPLFGLHHILLPFRPEPKSPWEMVYDVFSAVLVSSQGLCV 102
L+L+PL G+ IL F PE +V+ A+L S QG V
Sbjct: 199 LVLLPLLGITWILFLFAPEDD--VSIVFLYLFAILNSFQGFFV 239
>gnl|CDD|221913 pfam13087, AAA_12, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 195
Score = 27.9 bits (63), Expect = 1.7
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 120 MFYRLQRRGTHSTMVLHTNY-CH 141
+F RLQ G + ++L T Y H
Sbjct: 5 LFERLQEAGPEAVVMLDTQYRMH 27
>gnl|CDD|238233 cd00400, Voltage_gated_ClC, CLC voltage-gated chloride channel. The
ClC chloride channels catalyse the selective flow of Cl-
ions across cell membranes, thereby regulating
electrical excitation in skeletal muscle and the flow of
salt and water across epithelial barriers. This domain
is found in the halogen ions (Cl-, Br- and I-) transport
proteins of the ClC family. The ClC channels are found
in all three kingdoms of life and perform a variety of
functions including cellular excitability regulation,
cell volume regulation, membrane potential
stabilization, acidification of intracellular
organelles, signal transduction, transepithelial
transport in animals, and the extreme acid resistance
response in eubacteria. They lack any structural or
sequence similarity to other known ion channels and
exhibit unique properties of ion permeation and gating.
Unlike cation-selective ion channels, which form
oligomers containing a single pore along the axis of
symmetry, the ClC channels form two-pore homodimers with
one pore per subunit without axial symmetry. Although
lacking the typical voltage-sensor found in cation
channels, all studied ClC channels are gated (opened and
closed) by transmembrane voltage. The gating is
conferred by the permeating ion itself, acting as the
gating charge. In addition, eukaryotic and some
prokaryotic ClC channels have two additional C-terminal
CBS (cystathionine beta synthase) domains of putative
regulatory function.
Length = 383
Score = 27.9 bits (63), Expect = 2.3
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 4/63 (6%)
Query: 58 AALILVPLFGLHHILLPFRPEPKSPWEMVYDVFSAVLVSSQGLCVSILFCFANVDVHGAF 117
AAL+ LFG +P S E+ + +L V +LF + F
Sbjct: 179 AALVSRLLFGAEPAFGVPLYDPLSLLELPLYLLLGLLAG----LVGVLFVRLLYKIERLF 234
Query: 118 RKM 120
R++
Sbjct: 235 RRL 237
>gnl|CDD|220281 pfam09531, Ndc1_Nup, Nucleoporin protein Ndc1-Nup. Ndc1 is a
nucleoporin protein that is a component of the Nuclear
Pore Complex, and, in fungi, also of the Spindle Pole
Body. It consists of six transmembrane segments, three
lumenal loops, both concentrated at the N-terminus and
cytoplasmic domains largely at the C-terminus, all of
which are well conserved.
Length = 557
Score = 27.3 bits (61), Expect = 4.1
Identities = 18/79 (22%), Positives = 25/79 (31%), Gaps = 9/79 (11%)
Query: 53 RKAARAALILVPLFGLHHILLPFRPEPKSPWEMVYDVFSAVLVSSQGLCVSILFCFANVD 112
A+ L+L L L +LL W S L S + L F +
Sbjct: 9 NYASALLLLLSYLLLLVFLLLS-----NISWSS----GSWSLFPSGYTGIRSLLLFLALL 59
Query: 113 VHGAFRKMFYRLQRRGTHS 131
+ G RK + R S
Sbjct: 60 LIGILRKNQLHVGYRPYSS 78
>gnl|CDD|224661 COG1747, COG1747, Uncharacterized N-terminal domain of the
transcription elongation factor GreA [Function unknown].
Length = 711
Score = 26.8 bits (59), Expect = 5.4
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 75 FRPEPKSPWEMVYDVFSAVLVSSQGLCVSILFCF-ANVDVHGAFRKMF-YRL 124
R S E + F A + + + + F + D+H + +MF Y
Sbjct: 424 VRSCGVSLEEKLAVKFKASKNFFKRIKILNTYMFVRDTDLH-SELEMFDYFN 474
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 0.140 0.460
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,439,978
Number of extensions: 658807
Number of successful extensions: 841
Number of sequences better than 10.0: 1
Number of HSP's gapped: 834
Number of HSP's successfully gapped: 27
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 54 (24.4 bits)