RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12169
(263 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 = 94.7 bits (236), Expect = 3e-23
Identities = 38/129 (29%), Positives = 60/129 (46%), Gaps = 3/129 (2%)
Query: 2 LGSLFGCTSIWSMVMIAFDRYTVIVKGITAKP-MTIGGALLRLMFVWVHALLWTLFPFFG 60
L + G SI + I+ DRY IV + + T A + ++ VWV ALL +L P
Sbjct: 57 LFVVNGYASILLLTAISIDRYLAIVHPLRYRRIRTPRRAKVLILVVWVLALLLSLPPLLF 116
Query: 61 WNRY-VPEGNLTACGTDYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEK 119
V EGN+T C D+ + RSY + + +PL++I+ Y I+R + +
Sbjct: 117 SWLRTVEEGNVTTCLIDFPEESTK-RSYTLLSTLLGFVLPLLVILVCYTLILRTLRKRAR 175
Query: 120 QMREQAKKM 128
QA+
Sbjct: 176 SGASQARAK 184
Score = 53.1 bits (128), Expect = 2e-08
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 11/86 (12%)
Query: 145 VPEGNLTACGTDYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQ 204
V EGN+T C D+ + RSY + + +PL++I+ Y I+R + + Q
Sbjct: 122 VEEGNVTTCLIDFPEESTK-RSYTLLSTLLGFVLPLLVILVCYTLILRTLRKRARSGASQ 180
Query: 205 AKKMNVATLRSGDQSGTSAEIKLAKV 230
A+ + S E K AK+
Sbjct: 181 ARAKRSS----------SKERKAAKM 196
>gnl|CDD|222418 pfam13853, 7tm_4, Olfactory receptor. The members of this family
are transmembrane olfactory receptors.
Length = 142
Score = 31.0 bits (71), Expect = 0.30
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 87 YLIFYGFFVYFVPLILIIYAYYFIVRAV 114
L+ + F+ F + I+ +Y I RAV
Sbjct: 57 LLLVFSGFLGFGCFVFIVISYVQIFRAV 84
Score = 31.0 bits (71), Expect = 0.30
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 167 YLIFYGFFVYFVPLILIIYAYYFIVRAV 194
L+ + F+ F + I+ +Y I RAV
Sbjct: 57 LLLVFSGFLGFGCFVFIVISYVQIFRAV 84
>gnl|CDD|218288 pfam04842, DUF639, Plant protein of unknown function (DUF639).
Plant protein of unknown function.
Length = 682
Score = 31.4 bits (71), Expect = 0.54
Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 24/79 (30%)
Query: 166 SYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI 225
S +IF G+ Y +P+ LI A + R K
Sbjct: 526 STIIFRGWLGYVLPVSLIFVAIGMLTRRQFRLGKLFGI---------------------- 563
Query: 226 KLAKVRSPPTMTTMTYILV 244
VR+PP+ T+ IL
Sbjct: 564 --VSVRAPPSSNTIEQILA 580
Score = 27.5 bits (61), Expect = 9.1
Identities = 11/38 (28%), Positives = 16/38 (42%)
Query: 86 SYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMRE 123
S +IF G+ Y +P+ LI A + R K
Sbjct: 526 STIIFRGWLGYVLPVSLIFVAIGMLTRRQFRLGKLFGI 563
>gnl|CDD|221514 pfam12297, EVC2_like, Ellis van Creveld protein 2 like protein.
This family of proteins is found in eukaryotes. Proteins
in this family are typically between 571 and 1310 amino
acids in length. There are two conserved sequence
motifs: LPA and ELH. EVC2 is implicated in Ellis van
Creveld chondrodysplastic dwarfism in humans. Mutations
in this protein can give rise to this congenital
condition. LIMBIN is a protein which shares around 80%
sequence homology with EVC2 and it is implicated in a
similar condition in bovine chondrodysplastic dwarfism.
Length = 429
Score = 31.0 bits (70), Expect = 0.58
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 6/64 (9%)
Query: 132 TLRSGDQSGTSAYVPEGNLTAC-GTDYLTKDWHHRSY-LIFYGFFV-YFVPLILIIYAYY 188
T RS Q+ T+ LT K ++ L GF V + V ++L + A++
Sbjct: 30 TFRSSSQNQTANSTQ---LTTLLTITVEEKTSVLPNHGLHAAGFVVAFLVSIVLTLLAFF 86
Query: 189 FIVR 192
+ R
Sbjct: 87 LLGR 90
>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 = 28.8 bits (65), Expect = 0.67
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 172 GFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI 225
F +PL+LI +YF++ + ++ R +A K + +L+ GD+ T I
Sbjct: 1 SFLTTLLPLVLIFLIFYFLI----IRPQRKRRKAHKKLIESLKKGDKVLTIGGI 50
Score = 28.8 bits (65), Expect = 0.82
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 92 GFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGD 137
F +PL+LI +YF++ + ++ R +A K + +L+ GD
Sbjct: 1 SFLTTLLPLVLIFLIFYFLI----IRPQRKRRKAHKKLIESLKKGD 42
>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 = 28.8 bits (65), Expect = 2.4
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 11/58 (18%)
Query: 73 CGTDYLTKDWHHRSY-----LIFYGFFVYF------VPLILIIYAYYFIVRAVSVHEK 119
T++L H R + L F+ +FV+ +P +L+ ++ + A S EK
Sbjct: 135 FATEWLDGFVHGREFSTPEPLYFWFYFVFMNSLWIVIPSLLLWQSWKELAAAFSQPEK 192
Score = 28.8 bits (65), Expect = 2.4
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 11/58 (18%)
Query: 153 CGTDYLTKDWHHRSY-----LIFYGFFVYF------VPLILIIYAYYFIVRAVSVHEK 199
T++L H R + L F+ +FV+ +P +L+ ++ + A S EK
Sbjct: 135 FATEWLDGFVHGREFSTPEPLYFWFYFVFMNSLWIVIPSLLLWQSWKELAAAFSQPEK 192
>gnl|CDD|235636 PRK05886, yajC, preprotein translocase subunit YajC; Validated.
Length = 109
Score = 27.5 bits (61), Expect = 2.9
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 15/70 (21%)
Query: 94 FVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNV-----ATLRSGDQSGTSAYVPEG 148
V F+P +LI+ + + R Q K M +L+ GD+ T++ + +
Sbjct: 4 LVLFLPFLLIMGGFMYFAS---------RRQRKAMQATIDLHESLQPGDRVHTTSGL-QA 53
Query: 149 NLTACGTDYL 158
+ D +
Sbjct: 54 TIVGITDDTV 63
>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 = 28.4 bits (64), Expect = 3.5
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 190 IVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEI 225
+ AV EQA+++ R + S + E+
Sbjct: 2 VSEAVEEIAAGAEEQAEELEELAERMEELSASIEEV 37
>gnl|CDD|224775 COG1862, YajC, Preprotein translocase subunit YajC [Intracellular
trafficking and secretion].
Length = 97
Score = 26.8 bits (60), Expect = 5.1
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 169 IFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEIK 226
+ V + I Y+ I+R K+M+E + +N +L+ GD+ T I
Sbjct: 7 SGLVLLLPLVLIFAIF--YFLIIRP---QRKRMKEHQELLN--SLKKGDEVVTIGGIV 57
Score = 26.4 bits (59), Expect = 6.2
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 89 IFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQ 138
+ V + I Y+ I+R K+M+E + +N +L+ GD+
Sbjct: 7 SGLVLLLPLVLIFAIF--YFLIIRP---QRKRMKEHQELLN--SLKKGDE 49
>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 = 27.6 bits (62), Expect = 5.9
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 64 YVPEGNLTACGT-DYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIV 111
+ P+G+L T W S + G F Y V + A++
Sbjct: 183 FYPDGHLGGSYTHPLNLLSWLTTSKITLPGGFTYTVERLESRGAHHLFK 231
Score = 27.6 bits (62), Expect = 5.9
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 144 YVPEGNLTACGT-DYLTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIV 191
+ P+G+L T W S + G F Y V + A++
Sbjct: 183 FYPDGHLGGSYTHPLNLLSWLTTSKITLPGGFTYTVERLESRGAHHLFK 231
>gnl|CDD|114410 pfam05684, DUF819, Protein of unknown function (DUF819). This
family contains proteins of unknown function from
archaeal, bacterial and plant species.
Length = 379
Score = 27.7 bits (62), Expect = 6.3
Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 1/82 (1%)
Query: 172 GFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVATLRSGDQSGTSAEIKLAKVR 231
F + +IYA +F V V K+ ++ K + + L++ A +
Sbjct: 144 SVFSAALAADNVIYAVWFAVLFALVSLKRFQDHKTKADTSKLKADGNDAAKAVAYEKRNP 203
Query: 232 SPPTMTTMTYILVNFYISGASH 253
S + + I V+F I +
Sbjct: 204 S-SLVDIIFLIGVSFAIVAVAM 224
>gnl|CDD|226157 COG3630, OadG, Na+-transporting methylmalonyl-CoA/oxaloacetate
decarboxylase, gamma subunit [Energy production and
conversion].
Length = 84
Score = 25.8 bits (57), Expect = 8.6
Identities = 9/45 (20%), Positives = 16/45 (35%)
Query: 87 YLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVA 131
L+ G F+ L ++IYA + V + + A
Sbjct: 12 TLMVLGMGFVFLFLSILIYAMRGMGAVVRRFVPEEVPAPETKEAA 56
Score = 25.8 bits (57), Expect = 8.6
Identities = 9/45 (20%), Positives = 16/45 (35%)
Query: 167 YLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMNVA 211
L+ G F+ L ++IYA + V + + A
Sbjct: 12 TLMVLGMGFVFLFLSILIYAMRGMGAVVRRFVPEEVPAPETKEAA 56
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
0.328 0.140 0.445
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: 13,686,798
Number of extensions: 1299403
Number of successful extensions: 2684
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2666
Number of HSP's successfully gapped: 89
Length of query: 263
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 168
Effective length of database: 6,723,972
Effective search space: 1129627296
Effective search space used: 1129627296
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 (21.8 bits)
S2: 58 (26.1 bits)