RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3982
(185 letters)
>gnl|CDD|215646 pfam00001, 7tm_1, 7 transmembrane receptor (rhodopsin family).
This family contains, amongst other G-protein-coupled
receptors (GCPRs), members of the opsin family, which
have been considered to be typical members of the
rhodopsin superfamily. They share several motifs, mainly
the seven transmembrane helices, GCPRs of the rhodopsin
superfamily. All opsins bind a chromophore, such as
11-cis-retinal. The function of most opsins other than
the photoisomerases is split into two steps: light
absorption and G-protein activation. Photoisomerases, on
the other hand, are not coupled to G-proteins - they are
thought to generate and supply the chromophore that is
used by visual opsins.
Length = 251
Score = 87.4 bits (217), Expect = 2e-21
Identities = 36/141 (25%), Positives = 62/141 (43%), Gaps = 14/141 (9%)
Query: 6 VPEGNLTACGTDYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQ 65
V EGN+T C D+ + RSY + + +PL++I+ Y I+R + + Q
Sbjct: 122 VEEGNVTTCLIDFPEESTK-RSYTLLSTLLGFVLPLLVILVCYTLILRTLRKRARSGASQ 180
Query: 66 AKKMNVATLRSGDQSGTSAEIKLAKVALMTISLWFLAWTPYLVINF---GGILEMVEINP 122
A+ + S E K AK+ L+ + ++ L W PY ++ L + + P
Sbjct: 181 ARAKRSS----------SKERKAAKMLLVVVVVFVLCWLPYHIVLLLDSLCPLSIWRLLP 230
Query: 123 LITIWGSVFAKANAVYNPIVY 143
+ A N+ NPI+Y
Sbjct: 231 TALLITLWLAYVNSCLNPIIY 251
>gnl|CDD|222418 pfam13853, 7tm_4, Olfactory receptor. The members of this family
are transmembrane olfactory receptors.
Length = 142
Score = 31.4 bits (72), Expect = 0.13
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 28 YLIFYGFFVYFVPLILIIYAYYFIVRAV 55
L+ + F+ F + I+ +Y I RAV
Sbjct: 57 LLLVFSGFLGFGCFVFIVISYVQIFRAV 84
>gnl|CDD|233109 TIGR00739, yajC, preprotein translocase, YajC subunit. While
this protein is part of the preprotein translocase in
Escherichia coli, it is not essential for viability or
protein secretion. The N-terminus region contains a
predicted membrane-spanning region followed by a region
consisting almost entirely of residues with charged
(acidic, basic, or zwitterionic) side chains. This
small protein is about 100 residues in length, and is
restricted to bacteria; however, this protein is absent
from some lineages, including spirochetes and
Mycoplasmas [Protein fate, Protein and peptide
secretion and trafficking].
Length = 84
Score = 29.2 bits (66), Expect = 0.31
Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 33 GFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI--KLAK 90
F +PL+LI +YF++ + ++ R +A K + +L+ GD+ T I + K
Sbjct: 1 SFLTTLLPLVLIFLIFYFLI----IRPQRKRRKAHKKLIESLKKGDKVLTIGGIIGTVTK 56
Query: 91 VALMTISL 98
+A TI +
Sbjct: 57 IAENTIVI 64
>gnl|CDD|218520 pfam05241, EBP, Emopamil binding protein. Emopamil binding protein
(EBP) is as a gene that encodes a non-glycosylated type
I integral membrane protein of endoplasmic reticulum and
shows high level expression in epithelial tissues. The
EBP protein has emopamil binding domains, including the
sterol acceptor site and the catalytic centre, which
show Delta8-Delta7 sterol isomerase activity. Human
sterol isomerase, a homologue of mouse EBP, is suggested
not only to play a role in cholesterol biosynthesis, but
also to affect lipoprotein internalisation. In humans,
mutations of EBP are known to cause the genetic disorder
of X-linked dominant chondrodysplasia punctata (CDPX2).
This syndrome of humans is lethal in most males, and
affected females display asymmetric hyperkeratotic skin
and skeletal abnormalities.
Length = 193
Score = 29.6 bits (67), Expect = 0.66
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 11/58 (18%)
Query: 14 CGTDYLTKDWHHRSY-----LIFYGFFVYF------VPLILIIYAYYFIVRAVSVHEK 60
T++L H R + L F+ +FV+ +P +L+ ++ + A S EK
Sbjct: 135 FATEWLDGFVHGREFSTPEPLYFWFYFVFMNSLWIVIPSLLLWQSWKELAAAFSQPEK 192
>gnl|CDD|216633 pfam01660, Vmethyltransf, Viral methyltransferase. This RNA
methyltransferase domain is found in a wide range of
ssRNA viruses, including Hordei-, Tobra-, Tobamo-,
Bromo-, Clostero- and Caliciviruses. This
methyltransferase is involved in mRNA capping. Capping
of mRNA enhances its stability. This usually occurs in
the nucleus. Therefore, many viruses that replicate in
the cytoplasm encode their own. This is a specific
guanine-7-methyltransferase domain involved in viral
mRNA cap0 synthesis. Specificity for guanine 7 position
is shown by NMR in and in vivo role in cap synthesis.
Based on secondary structure prediction, the basic fold
is believed to be similar to the common AdoMet-dependent
methyltransferase fold. A curious feature of this
methyltransferase domain is that it together with
flanking sequences seems to have guanylyltransferase
activity coupled to the methyltransferase activity. The
domain is found throughout the so-called Alphavirus
superfamily, (including alphaviruses and several other
groups). It forms the defining, unique feature of this
superfamily.
Length = 305
Score = 28.4 bits (64), Expect = 1.8
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 5 YVPEGNLTACGT-DYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIV 52
+ P+G+L T W S + G F Y V + A++
Sbjct: 183 FYPDGHLGGSYTHPLNLLSWLTTSKITLPGGFTYTVERLESRGAHHLFK 231
>gnl|CDD|233214 TIGR00967, 3a0501s007, preprotein translocase, SecY subunit.
Members of this protein family are the SecY component of
the SecYEG translocon, or protein translocation pore,
which is driven by the ATPase SecA. This model does not
discriminate bacterial from archaeal forms [Protein
fate, Protein and peptide secretion and trafficking].
Length = 410
Score = 27.6 bits (62), Expect = 4.1
Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 11/105 (10%)
Query: 15 GTDYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVAT- 73
G + S G +Y ILII+ +F V + ++ + M + KK +
Sbjct: 278 GGAWFLNPILSLSLSDPIGAILYL---ILIIFFSFFYV-ELQLNPEDMAKNLKKQGMFIP 333
Query: 74 -LRSGDQSGTSAEIK--LAKVALM-TISLWFLAWTPYLVINFGGI 114
+R G T +K + ++ + ++ L +A P + GG+
Sbjct: 334 GIRPG--KMTEKYLKRVIPRLTFVGSLFLGLIALLPNFLGAIGGL 376
>gnl|CDD|224775 COG1862, YajC, Preprotein translocase subunit YajC [Intracellular
trafficking and secretion].
Length = 97
Score = 26.4 bits (59), Expect = 4.5
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 9/65 (13%)
Query: 30 IFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI--K 87
+ V + I Y+ I+R K+M+E + +N +L+ GD+ T I
Sbjct: 7 SGLVLLLPLVLIFAIF--YFLIIRP---QRKRMKEHQELLN--SLKKGDEVVTIGGIVGT 59
Query: 88 LAKVA 92
+ KV
Sbjct: 60 VTKVG 64
>gnl|CDD|227699 COG5412, COG5412, Phage-related protein [Function unknown].
Length = 637
Score = 27.0 bits (60), Expect = 6.2
Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 94 MTISLWFLAWTPYLVINFGGILEMVEINPLITIWGSVFAKANAVYNPIV 142
IS+ ++ G I+++ I P+I+ V PI+
Sbjct: 355 NIISIITRIID-FVRTIIGTIIDV--IGPIISTIADVIKIIFDGVKPII 400
>gnl|CDD|218288 pfam04842, DUF639, Plant protein of unknown function (DUF639).
Plant protein of unknown function.
Length = 682
Score = 27.2 bits (60), Expect = 6.5
Identities = 11/38 (28%), Positives = 16/38 (42%)
Query: 27 SYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMRE 64
S +IF G+ Y +P+ LI A + R K
Sbjct: 526 STIIFRGWLGYVLPVSLIFVAIGMLTRRQFRLGKLFGI 563
>gnl|CDD|226157 COG3630, OadG, Na+-transporting methylmalonyl-CoA/oxaloacetate
decarboxylase, gamma subunit [Energy production and
conversion].
Length = 84
Score = 25.5 bits (56), Expect = 7.2
Identities = 9/45 (20%), Positives = 16/45 (35%)
Query: 28 YLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVA 72
L+ G F+ L ++IYA + V + + A
Sbjct: 12 TLMVLGMGFVFLFLSILIYAMRGMGAVVRRFVPEEVPAPETKEAA 56
>gnl|CDD|187765 cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the
Tellurite-resistance/Dicarboxylate Transporter (TDT)
family. This subfamily contains bacterial
C4-dicarboxylate transporters, which is part of the
Tellurite-resistance/Dicarboxylate Transporter (TDT)
family. It includes Tellurite resistance protein tehA;
the tehA gene encodes an integral membrane protein that
has been shown to have efflux activity of quaternary
ammonium compounds. TehA protein of Escherichia coli
functions as a tellurite-resistance uptake permease.
Length = 293
Score = 26.7 bits (60), Expect = 7.5
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 27 SYLIFY-GFFVYFVPLILIIYAYYFI 51
+ F+ GF Y + L L++Y I
Sbjct: 147 GQIAFWFGFVAYLILLPLVLYRLVKI 172
>gnl|CDD|191331 pfam05645, RNA_pol_Rpc82, RNA polymerase III subunit RPC82. This
family consists of several DNA-directed RNA polymerase
III polypeptides which are related to the Saccharomyces
cerevisiae RPC82 protein. RNA polymerase C (III)
promotes the transcription of tRNA and 5S RNA genes. In
Saccharomyces cerevisiae, the enzyme is composed of 15
subunits, ranging from 160 to about 10 kDa.
Length = 215
Score = 26.6 bits (59), Expect = 7.8
Identities = 22/125 (17%), Positives = 47/125 (37%), Gaps = 8/125 (6%)
Query: 50 FIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEIKLAKVALMTISLWFLAWTPYLVI 109
F++R S H + + + ++ LRS +S T++EIK A + +
Sbjct: 11 FLIRVPSPHFRPIGDLWNQLYEEHLRSTPRSSTTSEIKRRAEAKVKAKTELRD-----LR 65
Query: 110 NFGGILEMVEINPLITIWGSVFA--KANAVYNPIVYAISHPKFRQAL-DKKFPSLVCGTV 166
IL L + + + +V+ ++ +F + L D+ L +
Sbjct: 66 ESPEILLKGLGRSLADDTDNPTGKKRTKILDPGLVWRVNLERFHKHLRDEALVDLAKSRI 125
Query: 167 ESDSS 171
S ++
Sbjct: 126 GSTTA 130
>gnl|CDD|148412 pfam06791, TMP_2, Prophage tail length tape measure protein. This
family represents a conserved region located towards the
N-terminal end of prophage tail length tape measure
protein (TMP). TMP is important for assembly of phage
tails and involved in tail length determination. Mutated
forms TMP cause tail fibres to be shortened.
Length = 210
Score = 26.2 bits (58), Expect = 8.6
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 12/47 (25%)
Query: 46 YAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEIKLAKVA 92
YAYY Q ++A N A + +G+ +G +A +LA +A
Sbjct: 89 YAYY-----------QGAKEASAFNKALILTGNAAGVTAS-QLADMA 123
>gnl|CDD|214599 smart00283, MA, Methyl-accepting chemotaxis-like domains
(chemotaxis sensory transducer). Thought to undergo
reversible methylation in response to attractants or
repellants during bacterial chemotaxis.
Length = 262
Score = 26.5 bits (59), Expect = 8.7
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 51 IVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI 86
+ AV EQA+++ R + S + E+
Sbjct: 2 VSEAVEEIAAGAEEQAEELEELAERMEELSASIEEV 37
>gnl|CDD|225345 COG2731, EbgC, Beta-galactosidase, beta subunit [Carbohydrate
transport and metabolism].
Length = 154
Score = 26.1 bits (58), Expect = 9.1
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 5/52 (9%)
Query: 139 NPIVYAISHPKFRQALD----KKFPSLVCGTVESDSSSA-ASVQTNVTDDKA 185
+Y ++A+D L G E D + +V + T +
Sbjct: 8 QLRLYKGLPKALQRAIDFLENTDLAELPPGKYEIDGDNIFYNVMEDETQEAE 59
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
0.324 0.136 0.413
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,303,171
Number of extensions: 852029
Number of successful extensions: 1664
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1653
Number of HSP's successfully gapped: 67
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.3 bits)