RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12917
(198 letters)
>gnl|CDD|235720 PRK06156, PRK06156, hypothetical protein; Provisional.
Length = 520
Score = 30.3 bits (69), Expect = 0.70
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 11 SPEKLDRIGEYLYQRASRDISRRRNGYVVIAMEAM 45
P K+ +G+ LY R + D G +V A+ AM
Sbjct: 136 DPFKVTLVGDRLYGRGTED----DKGAIVTALYAM 166
>gnl|CDD|100026 cd02185, AroH, Chorismate mutase (AroH) is one of at least five
chorismate-utilizing enzymes present in microorganisms
that catalyze the rearrangement of chorismate to
prephenic acid, the first committed step in the
biosynthesis of aromatic amino acids. In prokaryotes,
chorismate mutase may be fused to prephenate
dehydratase, prephenate dehydrogenase, or
3-deoxy-D-arabino-heptulosonat-7-phosphate (DAHP) as
part of a bifunctional enzyme. The AroH domain forms a
homotrimer with three-fold symmetry.
Length = 117
Score = 28.3 bits (64), Expect = 1.1
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 133 IRGIQGVIRKTVSDDLVENIWESTH--MEKII 162
+RGI+G TV ++ E I E+T +E+II
Sbjct: 1 VRGIRGAT--TVEENTAEEILEATRELLEEII 30
>gnl|CDD|225290 COG2441, COG2441, Predicted butyrate kinase [Energy production and
conversion].
Length = 374
Score = 29.1 bits (65), Expect = 1.3
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 55 QTLNLFVESFLKIVQKLLESLDPDLQILATNSFVRFANIEEDTPSYHRRYDFFVSKF 111
+T N +E +K V LL S PD L+ RF+ I + S +
Sbjct: 252 ETYNALIEGVVKDVFTLLPSTYPDAIYLSG----RFSRIPRFFSDVKEKLRDAFSSY 304
>gnl|CDD|107255 cd01542, PBP1_TreR_like, Ligand-binding domain of DNA transcription
repressor specific for trehalose (TreR) which is a
member of the LacI-GalR family of bacterial
transcription regulators. Ligand-binding domain of DNA
transcription repressor specific for trehalose (TreR)
which is a member of the LacI-GalR family of bacterial
transcription regulators. The ligand-binding domain of
TreR is structurally homologous to the periplasmic
sugar-binding domain of ABC-type transporters and both
domains contain the type I periplasmic binding
protein-like fold. The LacI-GalR family repressors are
composed of two functional domains: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal ligand-binding
domain, which is homologous to the type I periplasmic
binding proteins. As also observed in the periplasmic
binding proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 259
Score = 29.1 bits (66), Expect = 1.4
Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 20/83 (24%)
Query: 17 RIGEYLYQRASRDIS-------------RRRNGYVVIAMEAMDQ--LLAACHSQTLNLFV 61
+GEYL Q+ ++I+ R+ GY ++A+ + + +T +
Sbjct: 104 ELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGY----LDALKEHGICPPNIVET-DFSY 158
Query: 62 ESFLKIVQKLLESLDPDLQILAT 84
ES + Q+LLE PD + AT
Sbjct: 159 ESAYEAAQELLEPQPPDAIVCAT 181
>gnl|CDD|224339 COG1421, COG1421, CRISPR system related protein [Defense
mechanisms].
Length = 137
Score = 27.4 bits (61), Expect = 2.8
Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 5/86 (5%)
Query: 21 YLYQRASRDISRRRNGY--VVIAMEAMDQLLAACHSQTLNLFVESFLKIVQKLLESLDPD 78
Y R N + +V+ + M LA + +E ++++++++ +D D
Sbjct: 51 KFYDYILRIDEENENSWKEIVLDLPKMKPQLAYAVGRDGKEALEGLYEVLEEMIDKIDDD 110
Query: 79 LQILATNSFVRFANIEEDTPSYHRRY 104
A F F E +YH+ Y
Sbjct: 111 NDRNAFEKFKTFF---EAIVAYHKFY 133
>gnl|CDD|193473 pfam13000, Acatn, Acetyl-coenzyme A transporter 1. The mouse Acatn
is a 61 kDa hydrophobic protein with six to 10
transmembrane domains. It appears to promote
9-O-acetylation in gangliosides.
Length = 560
Score = 28.1 bits (62), Expect = 3.2
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 117 SNYADVTKRNKLRLAGIRGIQGVIRKTVSDDLVENIWESTHMEKIIPSLL----FNMQES 172
SN D R+ RL G VI+ V D V +IW + ++ +LL M +
Sbjct: 337 SNDKDPMIRDNRRLRNSTGTNKVIKFLVGDAGVLDIWLKGFLGRLAAALLGSILVYMVSN 396
Query: 173 GHYQSPADPE 182
+Q P D E
Sbjct: 397 WKHQFPKDGE 406
>gnl|CDD|225229 COG2354, COG2354, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 303
Score = 27.8 bits (62), Expect = 4.4
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 14 KLDRIGEYLYQRASRDISRRRNGYVVIAM 42
K+D +G +L + AS + + +V AM
Sbjct: 190 KMDDLGLWLARSASSGLRQALGRGLVGAM 218
>gnl|CDD|223105 COG0026, PurK, Phosphoribosylaminoimidazole carboxylase (NCAIR
synthetase) [Nucleotide transport and metabolism].
Length = 375
Score = 27.6 bits (62), Expect = 5.0
Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 7/67 (10%)
Query: 6 FYALSSPEKLDRIGEYLYQRASRDISRRRNGY-----VVIAMEAMDQLLAACHSQTLNLF 60
F + S E+LD L A + RR GY I +A +L AA ++
Sbjct: 117 FQVVDSAEELDAAAADLGFPAV--LKTRRGGYDGKGQWRIRSDADLELRAAGLAEGGVPV 174
Query: 61 VESFLKI 67
+E F+
Sbjct: 175 LEEFVPF 181
>gnl|CDD|213393 cd12150, talin-RS, rod-segment of the talin C-terminal domain.
The talin rod-segment characterize by this model
interacts with its N-terminal FERM domain to mask its
integrin-binding site and interferes with interactions
between the FERM domain and the cellular membrane.
Talin is a large and ubiquitous cytoskeletal protein
concentrated at focal adhesion sites. It is involved in
linking integrins to the actin cytoskeleton.
Length = 172
Score = 26.4 bits (59), Expect = 7.3
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 41 AMEAMDQLLAACHSQTLNLFVESFLKIVQKLLESLDPD 78
++ A+ Q LA +L F E L V ++L+ ++P
Sbjct: 26 SLAAISQGLAPRRDNSLQGFQEQMLHSVSEILDKIEPL 63
>gnl|CDD|148510 pfam06935, DUF1284, Protein of unknown function (DUF1284). This
family consists of several hypothetical bacterial and
archaeal proteins of around 130 residues in length. The
function of this family is unknown, although it is
thought that they may be iron-sulphur binding proteins.
Length = 103
Score = 25.7 bits (57), Expect = 8.0
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 60 FVESFLKIVQKLLESLDPDLQILATNSF 87
FVE+ KIV++L P I +
Sbjct: 6 FVENMDKIVERLRAE--PGEDIELVDGP 31
>gnl|CDD|152193 pfam11757, RSS_P20, Suppressor of RNA silencing P21-like. This is
a large family of putative suppressors of RNA silencing
proteins, P20-P25, from ssRNA positive-strand viruses
such as Closterovirus, Potyvirus and Cucumovirus
families. RNA silencing is one of the major mechanisms
of defence against viruses, and, in response, some
viruses have evolved or acquired functions for
suppression of RNA silencing. These counter-defencive
viral proteins with RNA silencing suppressor (RSS)
activity were originally discovered in the members of
plant virus genera Potyvirus and Cucumovirus. Each of
the conserved blocks of amino acids found in P21-like
proteins corresponds to a computer-predicted
alpha-helix, with the most C-terminal element being 42
residues long. This suggests conservation of the
predominantly alpha-helical secondary structure in the
P21-like proteins.
Length = 137
Score = 26.0 bits (57), Expect = 9.3
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 70 KLLESLDPDLQILATNSFVRFANIEEDTPSYHRRYDFFVSKFSALCHSNYADVTKRNKLR 129
+LL +++ L+IL RF + S + FFV K+S+L H +++V R KL+
Sbjct: 50 RLLCNIEAKLRILLDIIRRRFTRDKLGCRSATDTFGFFVMKYSSLSHVPFSEVM-RTKLK 108
Query: 130 LAGIRGIQGVIR 141
L I + R
Sbjct: 109 LVVKAVISDLSR 120
>gnl|CDD|241312 cd13158, PTB_APPL, Adaptor protein containing PH domain, PTB
domain, and Leucine zipper motif (APPL; also called
DCC-interacting protein (DIP)-13alpha)
Phosphotyrosine-binding (PTB) domain. APPL interacts
with oncoprotein serine/threonine kinase AKT2, tumor
suppressor protein DCC (deleted in colorectal cancer),
Rab5, GIPC (GAIP-interacting protein, C terminus),
human follicle-stimulating hormone receptor (FSHR), and
the adiponectin receptors AdipoR1 and AdipoR2. There
are two isoforms of human APPL: APPL1 and APPL2, which
share about 50% sequence identity. APPL has a BAR and
a PH domain near its N terminus, and the two domains
are thought to function as a unit (BAR-PH domain).
C-terminal to this is a PTB domain. Lipid binding
assays show that the BAR, PH, and PTB domains can bind
phospholipids. PTB domains have a common PH-like fold
and are found in various eukaryotic signaling
molecules. This domain was initially shown to binds
peptides with a NPXY motif with differing requirements
for phosphorylation of the tyrosine, although more
recent studies have found that some types of PTB
domains can bind to peptides lack tyrosine residues
altogether. In contrast to SH2 domains, which recognize
phosphotyrosine and adjacent carboxy-terminal residues,
PTB-domain binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 135
Score = 25.8 bits (57), Expect = 9.9
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 8/47 (17%)
Query: 40 IAMEAMDQLLAA--CHSQTLNLF--VESFLKIVQKLLESLDPDLQIL 82
+ EAM Q+LAA H N+F ES L + L +DP Q+
Sbjct: 31 VIYEAMRQILAARAIH----NIFRMTESHLLVTSDCLRLIDPQTQVT 73
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
0.319 0.134 0.380
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,310,295
Number of extensions: 962445
Number of successful extensions: 921
Number of sequences better than 10.0: 1
Number of HSP's gapped: 921
Number of HSP's successfully gapped: 24
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.8 bits)