RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5746
(292 letters)
>gnl|CDD|190542 pfam03145, Sina, Seven in absentia protein family. The seven in
absentia (sina) gene was first identified in Drosophila.
The Drosophila Sina protein is essential for the
determination of the R7 pathway in photoreceptor cell
development: the loss of functional Sina results in the
transformation of the R7 precursor cell to a non-
neuronal cell type. The Sina protein contains an
N-terminal RING finger domain pfam00097. Through this
domain, Sina binds E2 ubiquitin-conjugating enzymes
(UbcD1) Sina also interacts with Tramtrack (TTK88) via
PHYL. Tramtrack is a transcriptional repressor that
blocks photoreceptor determination, while PHYL
down-regulates the activity of TTK88. In turn, the
activity of PHYL requires the activation of the
Sevenless receptor tyrosine kinase, a process essential
for R7 determination. It is thought that thus Sina
targets TTK88 for degradation, therefore promoting the
R7 pathway. Murine and human homologues of Sina have
also been identified. The human homologue Siah-1 also
binds E2 enzymes (UbcH5) and through a series of
physical interactions, targets beta-catenin for
ubiquitin degradation. Siah-1 expression is enhanced by
p53, itself promoted by DNA damage. Thus this pathway
links DNA damage to beta-catenin degradation. Sina
proteins, therefore, physically interact with a variety
of proteins. The N-terminal RING finger domain that
binds ubiquitin conjugating enzymes is described in
pfam00097, and does not form part of the alignment for
this family. The remainder C-terminal part is involved
in interactions with other proteins, and is included in
this alignment. In addition to the Drosophila protein
and mammalian homologues, whose similarity was noted
previously, this family also includes putative
homologues from Caenorhabditis elegans, Arabidopsis
thaliana.
Length = 198
Score = 33.5 bits (77), Expect = 0.079
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 88 LLRKLLTTCKYSMIGCPWCGPQHELKSHEESCAH 121
+ K+L CK++ +GCP P HEE C +
Sbjct: 9 VASKVLFPCKHAALGCPVRLPLQLKDWHEERCEY 42
>gnl|CDD|213062 cd11746, GH94N_like, N-terminal domain of glycoside hydrolase
family 94 and related domains. The glycoside hydrolase
family 94 (previously known as glycosyltransferase
family 36) includes cellobiose phosphorylase
(EC:2.4.1.20), cellodextrin phosphorylase (EC:2.4.1.49),
chitobiose phosphorylase (EC:2.4.1.-), amongst other
members. Their N-terminal domain is involved in
oligomerization and may play a role in catalysis, but it
is separate from the catalytic domain [an
(alpha/alpha)(6) barrel]. This GH64N domain also occurs
in tandem repeat arrangements (not at the N-terminus) in
cyclic beta 1-2 glucan synthetase and related proteins,
and as a standalone domain in distantly related proteins
of unknown function.
Length = 179
Score = 30.9 bits (70), Expect = 0.44
Identities = 14/72 (19%), Positives = 20/72 (27%), Gaps = 8/72 (11%)
Query: 122 PHKSGAEVME--------SLQAIETTKDIEKRLYDNLFELLSYEKIIFNELQMKPYRTDE 173
P E+ + + E L D LF+ SY+ Y +
Sbjct: 51 PPDDPGEIQRVKLTNTGDRPRELTLFPYFEWCLPDALFQGTSYDPEGGAVNCTTYYSYNI 110
Query: 174 FIHKLFYETSRF 185
FY TS
Sbjct: 111 GARPAFYATSFK 122
>gnl|CDD|222643 pfam14278, TetR_C_8, Transcriptional regulator C-terminal region.
This domain is a tetracycline repressor, domain 2, or
C-terminus.
Length = 97
Score = 29.2 bits (66), Expect = 0.86
Identities = 15/54 (27%), Positives = 19/54 (35%), Gaps = 3/54 (5%)
Query: 128 EVMESLQAIETTKDIEKRLY--DNLFELLSYEKIIFNELQMKPYRTDEFIHKLF 179
EV E+L +D L L L YE + + Y FI KL
Sbjct: 3 EVSEALDEYSIEQDNLNPLTFLTKLLPYL-YEHRDELRILLSTYGDLGFIEKLK 55
>gnl|CDD|226761 COG4311, SoxD, Sarcosine oxidase delta subunit [Amino acid
transport and metabolism].
Length = 97
Score = 27.8 bits (62), Expect = 2.6
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 99 SMIGCPWCGPQHELKSHEESCAHP 122
+I CP+CG + E + AH
Sbjct: 2 LLIPCPYCGERPEEEFTYAGDAHI 25
>gnl|CDD|236413 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated.
Length = 367
Score = 28.4 bits (64), Expect = 4.2
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 3 VIADQGISITNQIETEEPEAKKRKIEKALVKAD 35
+ D GISI ++ + E+ + D
Sbjct: 53 RLEDAGISIVDEEGNPSSAQVVEEEEEEELDND 85
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 28.0 bits (62), Expect = 7.0
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 21 EAKKRKIEKALVKADKLEQRLGGILCCAVCLDLPRSAVYQMQD 63
EA++ IE AL A++L +L I C L P A +M +
Sbjct: 630 EAERAAIESALADAEELAAQLEDIACDEEPLFSPAPAANRMGE 672
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 0.135 0.400
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,202,787
Number of extensions: 1301117
Number of successful extensions: 1159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1159
Number of HSP's successfully gapped: 9
Length of query: 292
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 196
Effective length of database: 6,679,618
Effective search space: 1309205128
Effective search space used: 1309205128
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: 59 (26.5 bits)