RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13098
(81 letters)
>gnl|CDD|182681 PRK10727, PRK10727, DNA-binding transcriptional regulator GalR;
Provisional.
Length = 343
Score = 32.0 bits (73), Expect = 0.019
Identities = 11/31 (35%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 42 ADTENRARKYMDSVRKRKGLPVQDKLVAHAE 72
+D E+R + Y D++ + G+P D+LV E
Sbjct: 189 SDAEDRLQGYYDALAES-GIPANDRLVTFGE 218
>gnl|CDD|201347 pfam00619, CARD, Caspase recruitment domain. Motif contained in
proteins involved in apoptotic signaling. Predicted to
possess a DEATH (pfam00531) domain-like fold.
Length = 85
Score = 27.2 bits (61), Expect = 0.42
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 31 TEEEYLHFGDKADTENRARKYMDSVRKR 58
TEEEY ++AR+ +D V+K+
Sbjct: 32 TEEEYEKIKANTTRRDKARELLDLVQKK 59
>gnl|CDD|107285 cd06290, PBP1_LacI_like_9, Ligand-binding domain of uncharacterized
DNA-binding regulatory proteins that are members of the
LacI-GalR family of bacterial transcription repressors.
This group includes the ligand-binding domain of
uncharacterized DNA-binding regulatory proteins that are
members of the LacI-GalR family of bacterial
transcription repressors. 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 sugar-binding domain of ABC-type transport systems
that contain the type I periplasmic binding protein-like
fold. 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 = 265
Score = 27.7 bits (62), Expect = 0.55
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 40 DKADTENRARKYMDSVRKRKGLPVQDKLVAHAE 72
D +R Y ++ + GL VQ L+ +
Sbjct: 126 GHIDARDRLAGYRKALEEA-GLEVQPDLIVQGD 157
>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional.
Length = 836
Score = 26.9 bits (60), Expect = 0.96
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 8/37 (21%)
Query: 39 GDKADTENRARKYMDSVRKRKGLPVQ--------DKL 67
GD + ++A + + S+RKRKGL + DKL
Sbjct: 800 GDPLEPGSKANEIVLSIRKRKGLKPEIPDLDNYLDKL 836
>gnl|CDD|224966 COG2055, COG2055, Malate/L-lactate dehydrogenases [Energy
production and conversion].
Length = 349
Score = 26.4 bits (59), Expect = 1.4
Identities = 8/43 (18%), Positives = 17/43 (39%)
Query: 37 HFGDKADTENRARKYMDSVRKRKGLPVQDKLVAHAEKQRTVKR 79
FGD + + R Y+D +R + + E++ +
Sbjct: 277 AFGDGDEFDERLSAYLDELRASEPADGFQGVRLPGEREFAARE 319
>gnl|CDD|234438 TIGR03999, thiol_BshA, N-acetyl-alpha-D-glucosaminyl L-malate
synthase BshA. Members of this protein family are BshA,
a glycosyltransferase required for bacillithiol
biosynthesis. This enzyme combines UDP-GlcNAc and
L-malate to form N-acetyl-alpha-D-glucosaminyl L-malate
synthase. Bacillithiol is a low-molecular-weight thiol,
an analog of glutathione and mycothiol, and is found
largely in the Firmicutes [Biosynthesis of cofactors,
prosthetic groups, and carriers, Glutathione and
analogs].
Length = 374
Score = 26.4 bits (59), Expect = 1.6
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 43 DTENRARKYMDSVRKRKGLPVQDKLVAHAEKQRTVKR 79
DT+ RK +++++ G P +K++ H R VKR
Sbjct: 177 DTDRYRRKNDPALKRKLGAPEDEKVLIHISNFRPVKR 213
>gnl|CDD|235438 PRK05382, PRK05382, chorismate synthase; Validated.
Length = 359
Score = 25.4 bits (57), Expect = 3.2
Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 21/51 (41%)
Query: 42 ADTENRARKYMDSVRKRK----------------GL--PVQDKL---VAHA 71
+ E + +D +K GL PV DKL +AHA
Sbjct: 178 PEAEEEMEELIDEAKKEGDSLGGVVEVVAEGVPAGLGEPVFDKLDADLAHA 228
>gnl|CDD|137836 PRK10349, PRK10349, carboxylesterase BioH; Provisional.
Length = 256
Score = 25.4 bits (55), Expect = 3.7
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 47 RARKYMDSVRKRKGLPVQDKLVAHAEKQ 74
R Y+D + RK +P+ DKL H+E
Sbjct: 201 RLYGYLDGLVPRKVVPMLDKLWPHSESY 228
>gnl|CDD|224441 COG1524, COG1524, Uncharacterized proteins of the AP superfamily
[General function prediction only].
Length = 450
Score = 25.2 bits (55), Expect = 3.8
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 8 SVDGLRYFFWFQVINIDP 25
S+DGLR + I P
Sbjct: 45 SIDGLRADVLDRKAGILP 62
>gnl|CDD|217958 pfam04197, Birna_RdRp, Birnavirus RNA dependent RNA polymerase
(VP1). Birnaviruses are dsRNA viruses. This family
corresponds to the RNA dependent RNA polymerase. This
protein is also known as VP1. All of the birnavirus VP1
proteins contain conserved RdRp motifs that reside in
the catalytic "palm" domain of all classes of
polymerases. However, the birnavirus RdRps lack the
highly conserved Gly-Asp-Asp (GDD) sequence, a component
of the proposed catalytic site of this enzyme family
that exists in the conserved motif VI of the palm domain
of other RdRps.
Length = 855
Score = 25.2 bits (55), Expect = 4.7
Identities = 13/58 (22%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 21 INIDPYWEPRTEEEYLHFGDKADTENRA-RKYMDSVRKRKGLPVQDKLVAHAEKQRTV 77
IN DP E + + +N A R SV+ + L + E+ R
Sbjct: 742 INDDPQAEALADLATKLKPASSTVDNWASRTEELSVQLQLLLKANTLAKSQLEETREA 799
>gnl|CDD|100002 cd04962, GT1_like_5, This family is most closely related to the GT1
family of glycosyltransferases. Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. This group of glycosyltransferases
is most closely related to the previously defined
glycosyltransferase family 1 (GT1). The members of this
family may transfer UDP, ADP, GDP, or CMP linked sugars.
The diverse enzymatic activities among members of this
family reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found
mainly in bacteria, while some of them are also found in
Archaea and eukaryotes.
Length = 371
Score = 24.5 bits (54), Expect = 8.1
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 43 DTENRARKYMDSVRKRKGLPVQDKLVAHAEKQRTVKR 79
D + K +++++R G P +K++ H R VKR
Sbjct: 175 DEDRFRPKPDEALKRRLGAPEGEKVLIHISNFRPVKR 211
>gnl|CDD|185489 PTZ00160, PTZ00160, 60S ribosomal protein L27a; Provisional.
Length = 147
Score = 24.2 bits (53), Expect = 8.3
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 11 GLRYF------FWFQVINIDPYWEPRTEEEYLHFGDKADT 44
G+R+F ++ IN+D W EE + K D
Sbjct: 57 GMRHFHLKKNKYYCPTINVDKLWSLVPEETRYKYAKKGDK 96
>gnl|CDD|217540 pfam03408, Foamy_virus_ENV, Foamy virus envelope protein.
Expression of the envelope (Env) glycoprotein is
essential for viral particle egress. This feature is
unique to the Spumavirinae, a subclass of the
Retroviridae.
Length = 985
Score = 24.3 bits (53), Expect = 8.6
Identities = 6/20 (30%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 19 QVINID-PYWEPRTEEEYLH 37
+I+ + P +PR +++Y+H
Sbjct: 202 VMIDFELPLGDPRDQDQYIH 221
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
0.322 0.138 0.439
Gapped
Lambda K H
0.267 0.0631 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,075,708
Number of extensions: 314553
Number of successful extensions: 364
Number of sequences better than 10.0: 1
Number of HSP's gapped: 364
Number of HSP's successfully gapped: 14
Length of query: 81
Length of database: 10,937,602
Length adjustment: 50
Effective length of query: 31
Effective length of database: 8,719,902
Effective search space: 270316962
Effective search space used: 270316962
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 (21.9 bits)
S2: 53 (24.4 bits)