RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12976
(87 letters)
>gnl|CDD|240747 cd12301, RRM1_2_PAR10_like, RNA recognition motif 1 and 2 in poly
[ADP-ribose] polymerase PARP-10, RNA recognition motif
2 in PARP-14, RNA recognition motif in N-myc-interactor
(Nmi), interferon-induced 35 kDa protein (IFP 35),
RNA-binding protein 43 (RBM43) and similar proteins.
This subfamily corresponds to the RRM1 and RRM2 of
PARP-10, RRM2 of PARP-14, RRM of N-myc-interactor
(Nmi), interferon-induced 35 kDa protein (IFP 35) and
RNA-binding protein 43 (RBM43). PARP-10 is a novel
oncoprotein c-Myc-interacting protein with
poly(ADP-ribose) polymerase activity. It is localized
to the nuclear and cytoplasmic compartments. In
addition to PARP activity, PARP-10 is also involved in
the control of cell proliferation by inhibiting c-Myc-
and E1A-mediated cotransformation of primary cells.
PARP-10 may also play a role in nuclear processes
including the regulation of chromatin, gene
transcription, and nuclear/cytoplasmic transport.
PARP-10 contains two N-terminal RNA recognition motifs
(RRMs), also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), two overlapping C-terminal
domains composed of a glycine-rich region and a region
with homology to catalytic domains of PARP enzymes
(PARP domain). In addition, PARP-10 contains two
ubiquitin-interacting motifs (UIM). PARP-14, also
termed aggressive lymphoma protein 2, is a member of
the B aggressive lymphoma (BAL) family of
macrodomain-containing PARPs. Like PARP-10, PARP-14
also includes two RRMs at the N-terminus. Nmi, also
termed N-myc and STAT interactor, is an interferon
inducible protein that interacts with c-Myc, N-Myc, Max
and c-Fos, and other transcription factors containing
bHLH-ZIP, bHLH or ZIP domains. Besides binding Myc
proteins, Nmi also associates with all the Stat family
of transcription factors except Stat2. In response to
cytokine (e.g. IL-2 and IFN-gamma) stimulation, Nmi can
enhance Stat-mediated transcriptional activity through
recruiting the Stat1 and Stat5 transcriptional
coactivators, CREB-binding protein (CBP) and p300. IFP
35 is an interferon-induced leucine zipper protein that
can specifically form homodimers. Distinct from known
bZIP proteins, IFP 35 lacks a basic domain critical for
DNA binding. In addition, IFP 35 may negatively
regulate other bZIP transcription factors by
protein-protein interaction. For instance, it can form
heterodimers with B-ATF, a member of the AP1
transcription factor family. Both Nmi and IFP35 harbor
one RRM. RBM43 is a putative RNA-binding protein
containing one RRM, but its biological function remains
unclear. .
Length = 74
Score = 26.5 bits (59), Expect = 0.83
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 7 TRVQSLKRSRCAVYTYEKKKDAE 29
TRVQ L+ A+ T+ K AE
Sbjct: 33 TRVQYLREKGSALVTFADFKVAE 55
>gnl|CDD|188475 TIGR03960, rSAM_fuse_unch, radical SAM family uncharacterized
protein. This model describes a radical SAM protein, or
protein region, regularly found paired with or fused to
a region described by TIGR03936. PSI-BLAST analysis of
TIGR03936 suggests a relationship to the tRNA
pseudouridine synthase TruA, suggesting that this system
may act in RNA modification [Unknown function, Enzymes
of unknown specificity].
Length = 605
Score = 27.2 bits (61), Expect = 0.97
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 42 KDSVKDFDCCCLTLQHS-SYLNQVLIFDL 69
+D +KDFD TLQ+ Y N + + DL
Sbjct: 91 QDPIKDFDFLGFTLQYEMCYTNILQMLDL 119
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 26.6 bits (59), Expect = 1.5
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 48 FDCCCLTLQHSSYLNQVLIFDLLILKH 74
DC L ++ L Q L F+ L H
Sbjct: 268 LDCSALWVRDKGALQQALQFNPEYLGH 294
>gnl|CDD|221125 pfam11500, Cut12, Spindle-body formation-associated protein. This
is the central coiled-coil region of cut12 also found in
other fungi, barring S. cerevisiae. The full protein has
two predicted coiled-coil regions, and one consensus
phosphorylation site for p34cdc2 and two for MAP kinase.
During fission yeast mitosis, the duplicated spindle
pole bodies (SPBs) nucleate microtubule arrays that
interdigitate to form the mitotic spindle. Cut12 is
localised to the SPB throughout the cell cycle,
predominantly around the inner face of the interphase
SPB, adjacent to the nucleus. Cut12 associates with Fin1
and is important in this context for the activity of
Plo1.
Length = 149
Score = 26.6 bits (59), Expect = 1.5
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 4 KLTTRVQSLKRSRCAVYTYEKKKDAEASG 32
++ L + + +Y KKKDAEA
Sbjct: 79 DTELEMKKLIQYKQLAKSYAKKKDAEALR 107
>gnl|CDD|235221 PRK04123, PRK04123, ribulokinase; Provisional.
Length = 548
Score = 25.2 bits (56), Expect = 4.7
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 6 TTRVQSLKRSRCA 18
TT Q + RSRCA
Sbjct: 191 TTDPQDIVRSRCA 203
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
0.323 0.133 0.383
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,925,495
Number of extensions: 285819
Number of successful extensions: 162
Number of sequences better than 10.0: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 6
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
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 (22.0 bits)
S2: 53 (24.3 bits)