RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15097
(106 letters)
>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase.
Snu114p subfamily. Snu114p is one of several proteins
that make up the U5 small nuclear ribonucleoprotein
(snRNP) particle. U5 is a component of the spliceosome,
which catalyzes the splicing of pre-mRNA to remove
introns. Snu114p is homologous to EF-2, but typically
contains an additional N-terminal domain not found in
Ef-2. This protein is part of the GTP translation factor
family and the Ras superfamily, characterized by five
G-box motifs.
Length = 213
Score = 53.0 bits (128), Expect = 8e-10
Identities = 17/29 (58%), Positives = 21/29 (72%)
Query: 18 LSPILGNVCFASTQYAMCFTLHSFASLYA 46
+SP LGNV FAS+++ CFTL SFA Y
Sbjct: 173 VSPELGNVLFASSKFGFCFTLESFAKKYG 201
>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional.
Length = 836
Score = 50.8 bits (122), Expect = 1e-08
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 18 LSPILGNVCFASTQYAMCFTLHSFASLYAQTSPTLNTQEFARRLWGDMYFNSKTK 72
+ P G V F S FTL +FA +YA+ + RLWGD +F++KTK
Sbjct: 196 VYPEKGTVAFGSGLQGWAFTLTTFARIYAKKFGV-EESKMMERLWGDNFFDAKTK 249
Score = 41.6 bits (98), Expect = 2e-05
Identities = 14/25 (56%), Positives = 21/25 (84%)
Query: 74 VEPVNPSELPKMLDGLRKVNKSYPL 98
VEP NP +LPK+++GL+++ KS PL
Sbjct: 487 VEPKNPKDLPKLVEGLKRLAKSDPL 511
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 46.6 bits (111), Expect = 3e-07
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 19 SPILGNVCFASTQYAMCFTLHSFASLYAQTSPTLNTQE--FARRLWGDMYFNSKTK 72
P G V F++ + FTL +FA +YA E RLWG+ +F+ TK
Sbjct: 203 YPEKGTVAFSAGLHGWAFTLTNFAKMYAS---KFGVDESKMMERLWGENFFDPATK 255
Score = 38.2 bits (89), Expect = 3e-04
Identities = 11/25 (44%), Positives = 20/25 (80%)
Query: 74 VEPVNPSELPKMLDGLRKVNKSYPL 98
V+ N S+LPK+++GL+++ KS P+
Sbjct: 493 VQCKNASDLPKLVEGLKRLAKSDPM 517
>gnl|CDD|206672 cd01885, EF2, Elongation Factor 2 (EF2) in 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 = 218
Score = 41.4 bits (98), Expect = 2e-05
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 11 GEEDYKYLSPILGNVCFASTQYAMCFTLHSFASLYA 46
+E + SP GNV F S FT+ FA +YA
Sbjct: 172 KQEKW-KFSPQKGNVAFGSALDGWGFTIIKFADIYA 206
>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases)
[Translation, ribosomal structure and biogenesis].
Length = 697
Score = 41.1 bits (97), Expect = 2e-05
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 74 VEPVNPSELPKMLDGLRKVNKSYPLL 99
VEP ++ K+ + L K+ + P
Sbjct: 411 VEPKTKADQEKLSEALNKLAEEDPTF 436
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 39.5 bits (93), Expect = 1e-04
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 71 TKIVEPVNPSELPKMLDGLRKVNKSYPLL 99
T +E NP +LPK+++ LR++ K P L
Sbjct: 392 TVAIEAKNPKDLPKLIEVLRQLAKEDPTL 420
>gnl|CDD|129581 TIGR00490, aEF-2, translation elongation factor aEF-2. This model
represents archaeal elongation factor 2, a protein more
similar to eukaryotic EF-2 than to bacterial EF-G, both
in sequence similarity and in sharing with eukaryotes
the property of having a diphthamide (modified His)
residue at a conserved position. The diphthamide can be
ADP-ribosylated by diphtheria toxin in the presence of
NAD [Protein synthesis, Translation factors].
Length = 720
Score = 32.2 bits (73), Expect = 0.031
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 8/41 (19%)
Query: 67 FNSKTKIVEPV--------NPSELPKMLDGLRKVNKSYPLL 99
F S I EPV N +LPK+++ LR+V K P +
Sbjct: 380 FESIKHISEPVVTVAIEAKNTKDLPKLIEVLRQVAKEDPTV 420
>gnl|CDD|219955 pfam08657, DASH_Spc34, DASH complex subunit Spc34. The DASH
complex is a ~10 subunit microtubule-binding complex
that is transferred to the kinetochore prior to mitosis.
In Saccharomyces cerevisiae DASH forms both rings and
spiral structures on microtubules in vitro. Components
of the DASH complex, including Dam1, Duo1, Spc34, Dad1
and Ask1, are essential and connect the centromere to
the plus end of spindle microtubules.
Length = 255
Score = 29.0 bits (65), Expect = 0.36
Identities = 13/67 (19%), Positives = 21/67 (31%), Gaps = 7/67 (10%)
Query: 37 TLHSFASLYAQTSPTLNTQEFARRLWGDMYFNSKTKIVEPVNPSELPKMLDGLRKVNKSY 96
T +S+ S + A L + VE N +L G ++ Y
Sbjct: 120 TESELSSVPKADSEIKQS-AVALVLGSVLTEEI---TVEEFNVEV---LLRGAEELCDVY 172
Query: 97 PLLTLLQ 103
PL +
Sbjct: 173 PLPGARE 179
>gnl|CDD|237546 PRK13889, PRK13889, conjugal transfer relaxase TraA; Provisional.
Length = 988
Score = 28.5 bits (64), Expect = 0.63
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 42 ASLYAQTSPTLNTQEFARRLWGDMYFNSKTKIVEPVNPSELPKMLDGLR 90
AS Y + P Q +A R G + +IV + P +L M DGLR
Sbjct: 725 ASDYERADPA---QSYAERR-GITFRERVAEIVRKIVPEKLRGMFDGLR 769
>gnl|CDD|236574 PRK09568, PRK09568, DNA primase large subunit; Reviewed.
Length = 306
Score = 27.1 bits (60), Expect = 1.9
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 67 FNSKTKIVEPVNPSELPKMLDGLRKV 92
N K KIVE + P L ++ + L+ +
Sbjct: 182 ENIKNKIVEMIRPLNLKEIPEKLKSL 207
>gnl|CDD|217983 pfam04241, DUF423, Protein of unknown function (DUF423). This
family of proteins with unknown function is a possible
integral membrane protein from Caenorhabditis elegans.
This family of proteins has GO references indicating
the protein is involved in nematode larval development
and is a positive regulator of growth rate.
Length = 89
Score = 24.0 bits (53), Expect = 9.9
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 21 ILGNVCFASTQYAMCFT 37
+ G + F+ + YA+ T
Sbjct: 59 LAGILLFSGSLYALALT 75
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
0.320 0.134 0.411
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,179,777
Number of extensions: 401113
Number of successful extensions: 374
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 25
Length of query: 106
Length of database: 10,937,602
Length adjustment: 71
Effective length of query: 35
Effective length of database: 7,788,468
Effective search space: 272596380
Effective search space used: 272596380
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: 53 (24.1 bits)