RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781180|ref|YP_003065593.1| hypothetical protein
CLIBASIA_05435 [Candidatus Liberibacter asiaticus str. psy62]
(71 letters)
>gnl|CDD|133285 cd01885, EF2, EF2 (for archaea and eukarya). Translocation
requires hydrolysis of a molecule of GTP and is mediated
by EF-G in bacteria and by eEF2 in eukaryotes. The
eukaryotic elongation factor eEF2 is a GTPase involved
in the translocation of the peptidyl-tRNA from the A
site to the P site on the ribosome. The 95-kDa protein
is highly conserved, with 60% amino acid sequence
identity between the human and yeast proteins. Two
major mechanisms are known to regulate protein
elongation and both involve eEF2. First, eEF2 can be
modulated by reversible phosphorylation. Increased
levels of phosphorylated eEF2 reduce elongation rates
presumably because phosphorylated eEF2 fails to bind the
ribosomes. Treatment of mammalian cells with agents
that raise the cytoplasmic Ca2+ and cAMP levels reduce
elongation rates by activating the kinase responsible
for phosphorylating eEF2. In contrast, treatment of
cells with insulin increases elongation rates by
promoting eEF2 dephosphorylation. Second, the protein
can be post-translationally modified by
ADP-ribosylation. Various bacterial toxins perform this
reaction after modification of a specific histidine
residue to diphthamide, but there is evidence for
endogenous ADP ribosylase activity. Similar to the
bacterial toxins, it is presumed that modification by
the endogenous enzyme also inhibits eEF2 activity.
Length = 222
Score = 27.2 bits (61), Expect = 1.0
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 13 LVNNEQLTEIEEPQKV--TVDQINNAIASLIPEERRDLQDRMAKYSTRKLKPRGRVIFA 69
L+ +L+ E Q++ ++Q+N I + EE ++ D +S +K G V F
Sbjct: 138 LILELKLSPEEAYQRLARIIEQVNAIIGTYADEEFKEKDDEKWYFSPQK----GNVAFG 192
>gnl|CDD|100023 cd06059, Tubulin, The tubulin superfamily includes five distinct
families, the alpha-, beta-, gamma-, delta-, and
epsilon-tubulins and a sixth family (zeta-tubulin) which
is present only in kinetoplastid protozoa. The alpha-
and beta-tubulins are the major components of
microtubules, while gamma-tubulin plays a major role in
the nucleation of microtubule assembly. The delta- and
epsilon-tubulins are widespread but unlike the alpha,
beta, and gamma-tubulins they are not ubiquitous among
eukaryotes. The alpha/beta-tubulin heterodimer is the
structural subunit of microtubules. The alpha- and
beta-tubulins share 40% amino-acid sequence identity,
exist in several isotype forms, and undergo a variety of
posttranslational modifications. The structures of
alpha- and beta-tubulin are basically identical: each
monomer is formed by a core of two beta-sheets
surrounded by alpha-helices. The monomer structure is
very compact, but can be divided into three regions
based on function: the amino-terminal nucleotide-binding
region, an intermediate taxol-binding region and the
carboxy-terminal region which probably constitutes the
binding surface for motor proteins. Also included in
this group is the mitochondrial Misato/DML1 protein
family, involved in mitochondrial fusion and in
mitochondrial distribution and morphology..
Length = 382
Score = 26.5 bits (59), Expect = 1.6
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 7/47 (14%)
Query: 3 SIHQSTNSCDLVN---NEQL----TEIEEPQKVTVDQINNAIASLIP 42
S++ + D V NE L T + + + D +NN IA +I
Sbjct: 147 SLNHLLENSDSVILFDNEALYNILTRQLDIDEPSFDDLNNIIAQIIS 193
>gnl|CDD|33927 COG4192, COG4192, Signal transduction histidine kinase regulating
phosphoglycerate transport system [Signal transduction
mechanisms].
Length = 673
Score = 26.2 bits (57), Expect = 2.3
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 3 SIHQSTNSCDLVNNEQLTEIEEPQKVTVDQINNAIASLIPEERRDLQDRMAKYSTR 58
+IH S L + + + + QIN+ +++ I D+ R+A ++ +
Sbjct: 96 AIHALLASLPQNEQAALQQGLQELRQLLQQINDLVSARI-----DVDRRLALFAEQ 146
>gnl|CDD|36180 KOG0962, KOG0962, KOG0962, DNA repair protein RAD50, ABC-type
ATPase/SMC superfamily [Replication, recombination and
repair].
Length = 1294
Score = 26.0 bits (57), Expect = 2.5
Identities = 14/51 (27%), Positives = 21/51 (41%)
Query: 16 NEQLTEIEEPQKVTVDQINNAIASLIPEERRDLQDRMAKYSTRKLKPRGRV 66
+L E+E QI A + EER L++ K S+ K G +
Sbjct: 1014 ERKLKELERELSELDKQILEADIKSVKEERVKLEEEREKLSSEKNLLLGEM 1064
>gnl|CDD|30399 COG0050, TufB, GTPases - translation elongation factors
[Translation, ribosomal structure and biogenesis].
Length = 394
Score = 26.0 bits (57), Expect = 2.6
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 21 EIEEPQKVTVDQINNAIASLIPEERRDLQD--RMAKYSTRKLKPRGRVIF 68
E + + ++++ +A+ S IP RD+ M + RG V+
Sbjct: 180 EGDAKWEAKIEELMDAVDSYIPTPERDIDKPFLMPVEDVFSISGRGTVVT 229
>gnl|CDD|30569 COG0220, COG0220, Predicted S-adenosylmethionine-dependent
methyltransferase [General function prediction only].
Length = 227
Score = 25.3 bits (55), Expect = 3.4
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 43 EERRDLQDRMAKYSTRKLKPRGRVIFADD 71
+RR Q K RKLKP G + FA D
Sbjct: 137 HKRRLTQPEFLKLYARKLKPGGVLHFATD 165
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.314 0.129 0.353
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 781,439
Number of extensions: 30279
Number of successful extensions: 91
Number of sequences better than 10.0: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 12
Length of query: 71
Length of database: 6,263,737
Length adjustment: 42
Effective length of query: 29
Effective length of database: 5,356,159
Effective search space: 155328611
Effective search space used: 155328611
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.4 bits)