RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14482
(95 letters)
>gnl|CDD|201954 pfam01753, zf-MYND, MYND finger.
Length = 39
Score = 42.0 bits (99), Expect = 5e-07
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 6 CGLCGETAKQ--KCSGCQLIYYCCREHQKIHWKKHKSHC 42
C +CG+ A + +CS C+ +YYC +E QK W HK C
Sbjct: 1 CAVCGKEALKLLRCSRCKSVYYCSKECQKADWPYHKKEC 39
>gnl|CDD|221933 pfam13144, SAF_2, SAF-like. The members of this family are
similar to those in the SAF family, and include
flagellar basal-body proteins and pilus-assembly
proteins.
Length = 196
Score = 27.5 bits (62), Expect = 0.82
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 51 KVLGRYYIASRSIKAGEVV 69
+V G +A+R + GEV+
Sbjct: 72 EVTGPVVVAARPLARGEVI 90
>gnl|CDD|180794 PRK07018, flgA, flagellar basal body P-ring biosynthesis protein
FlgA; Reviewed.
Length = 235
Score = 27.2 bits (61), Expect = 1.1
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 51 KVLGRYYIASRSIKAGEVV 69
+V G Y +A+R + GE +
Sbjct: 107 QVTGPYVVAARPLARGEKL 125
>gnl|CDD|222400 pfam13824, zf-Mss51, Zinc-finger of mitochondrial splicing
suppressor 51. Mss51 regulates the expression of
cytochrome oxidase, so this domain is probably
DNA-binding.
Length = 55
Score = 25.8 bits (57), Expect = 1.2
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 17 CSGCQLIYYCCREHQKIHWKKHKSHC 42
C C + +C EH + +++H+ C
Sbjct: 17 CPDCGIPTHCSEEHWEDDYEEHRELC 42
>gnl|CDD|178592 PLN03018, PLN03018, homomethionine N-hydroxylase.
Length = 534
Score = 26.1 bits (57), Expect = 3.4
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 26 CCREHQKIHWKKHKSHCRPMKLCEDKVLGRYYIASRS 62
CCRE +IH H + P +D LG Y+I S
Sbjct: 379 CCRETFRIHPSAH--YVPPHVARQDTTLGGYFIPKGS 413
>gnl|CDD|241182 cd12738, RRM1_Fusilli, RNA recognition motif 1 in Drosophila
RNA-binding protein Fusilli and similar proteins. This
subgroup corresponds to the RRM1 of RNA-binding protein
Fusilli which is encoded by Drosophila fusilli (fus)
gene. Loss of Fusilli activity causes lethality during
embryogenesis in flies. Drosophila Fusilli can regulate
endogenous fibroblast growth factor receptor 2 (FGFR2)
splicing and functions as a splicing factor. Fusilli
contains three RNA recognition motifs (RRMs), also
termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), an N-terminal domain with
unknown function and a C-terminal domain particularly
rich in alanine, glutamine, and serine. .
Length = 80
Score = 25.3 bits (55), Expect = 3.4
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 18 SGCQLIYYCCREHQKIHWKKHKSH 41
+G L+ + C EH+ + K+HK H
Sbjct: 41 NGEALVRFTCTEHRDLALKRHKHH 64
>gnl|CDD|132938 cd06607, STKc_TAO, Catalytic domain of the Protein Serine/Threonine
Kinase, Thousand-and-one amino acids proteins.
Serine/threonine kinases (STKs), thousand-and-one amino
acids (TAO) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. They activate the MAPKs, p38 and c-Jun
N-terminal kinase (JNK), by phosphorylating and
activating the respective MAP/ERK kinases (MEKs, also
known as MKKs or MAPKKs), MEK3/MEK6 and MKK4/MKK7. MAPK
signaling cascades are important in mediating cellular
responses to extracellular signals. Vertebrates contain
three TAO subfamily members, named TAO1, TAO2, and TAO3.
Length = 307
Score = 25.9 bits (57), Expect = 3.8
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 11/48 (22%)
Query: 41 HCRPMK------LCEDKVLGRYYIAS-----RSIKAGEVVLREPPLVQ 77
H +P++ +C + G Y+ S R IKAG ++L EP V+
Sbjct: 108 HKKPLQEVEIAAICHGALQGLAYLHSHERIHRDIKAGNILLTEPGTVK 155
>gnl|CDD|240951 cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif 1 in
epithelial splicing regulatory protein ESRP1, ESRP2,
Drosophila RNA-binding protein Fusilli and similar
proteins. This subfamily corresponds to the RRM1 of
ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2
(also termed RBM35B). These are epithelial-specific RNA
binding proteins that promote splicing of the
epithelial variant of the fibroblast growth factor
receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and
CTNND1 (also termed p120-Catenin) transcripts. They are
highly conserved paralogs and specifically bind to
GU-rich binding site. ESRP1 and ESRP2 contain three RNA
recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains).
The family also includes Drosophila fusilli (fus) gene
encoding RNA-binding protein Fusilli. Loss of fusilli
activity causes lethality during embryogenesis in
flies. Drosophila Fusilli can regulate endogenous
fibroblast growth factor receptor 2 (FGFR2) splicing
and functions as a splicing factor. It shows high
sequence homology to ESRPs and contains three RRMs as
well. It also has an N-terminal domain with unknown
function and a C-terminal domain particularly rich in
alanine, glutamine, and serine. .
Length = 75
Score = 24.8 bits (54), Expect = 3.8
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 18 SGCQLIYYCCREHQKIHWKKHKSH 41
+G LI + +EH+ + ++HK H
Sbjct: 41 NGEALIRFVDQEHRDLALQRHKHH 64
>gnl|CDD|150532 pfam09872, DUF2099, Uncharacterized protein conserved in archaea
(DUF2099). This domain, found in various hypothetical
prokaryotic proteins, has no known function.
Length = 257
Score = 25.3 bits (56), Expect = 5.1
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 65 AGEVVLREPPLVQGPC-QMTGPV 86
AG V+ P LVQG +M+G V
Sbjct: 100 AGTVITTNPELVQGIGGRMSGLV 122
>gnl|CDD|224088 COG1166, SpeA, Arginine decarboxylase (spermidine biosynthesis)
[Amino acid transport and metabolism].
Length = 652
Score = 25.4 bits (56), Expect = 5.3
Identities = 9/38 (23%), Positives = 22/38 (57%)
Query: 21 QLIYYCCREHQKIHWKKHKSHCRPMKLCEDKVLGRYYI 58
QL C + Q++ +K++SH + ++++ +YY+
Sbjct: 444 QLYLAICHKVQQLLRQKNRSHRPILDELQERLADKYYV 481
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic family. The glutamyl-tRNA synthetases of the
eukaryotic cytosol and of the Archaea are more similar
to glutaminyl-tRNA synthetases than to bacterial
glutamyl-tRNA synthetases. This model models just the
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 24.8 bits (54), Expect = 8.8
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 63 IKAGEVVLREPPLVQGPCQMTGPVCLGCLKAIV 95
K GEVV+R P +GP+ +G +A +
Sbjct: 89 AKMGEVVMRFAP------NPSGPLHIGHARAAI 115
>gnl|CDD|180263 PRK05799, PRK05799, coproporphyrinogen III oxidase; Provisional.
Length = 374
Score = 24.6 bits (54), Expect = 10.0
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 14 KQKCSGCQLIYYCCREH 30
KQKC C Y +E
Sbjct: 14 KQKCLYCDFPSYSGKED 30
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
0.327 0.142 0.493
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,365,582
Number of extensions: 325856
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 20
Length of query: 95
Length of database: 10,937,602
Length adjustment: 62
Effective length of query: 33
Effective length of database: 8,187,654
Effective search space: 270192582
Effective search space used: 270192582
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 (21.7 bits)
S2: 53 (24.2 bits)