RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6124
(171 letters)
>gnl|CDD|221808 pfam12851, Tet_JBP, Oxygenase domain of the 2OGFeDO superfamily. A
double-stranded beta helix (DSBH) fold domain of the
2-oxoglutarate (2OG)-Fe(II)-dependent dioxygenase
(2OGFeDO) superfamily found in various eukaryotes,
bacteria and bacteriophages. Members of this family
catalyze nucleic acid modifications, such as thymidine
hydroxylation during base J synthesis in kinetoplastids,
and the conversion of 5 methyl-cytosine (5-mC) to
5-hydroxymethyl-cytosine (hmC), or further oxidation to
5-formylcytosine (5fC) and 5-carboxylcytosine (5caC).
Metazoan TET proteins contain a cysteine-rich region
inserted into the core of the DSBH fold. Vertebrate TET
proteins are oncogenes that are mutated in various
myeloid cancers. Fungal and algal versions of this
family are linked to a predicted transposase and show
lineage-specific expansions.
Length = 162
Score = 55.8 bits (135), Expect = 2e-10
Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 18 MGGVAIALGHGSVLFECAKHELHATTALRRPNRLHPTRISLVFYQHR 64
GV A G VLF +H T + N TRISLVF+ H+
Sbjct: 117 DLGVKFAPQPGDVLFFAGNKYVHGVTPVTSSNG-DGTRISLVFFAHK 162
>gnl|CDD|220562 pfam10092, DUF2330, Uncharacterized protein conserved in bacteria
(DUF2330). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 337
Score = 30.8 bits (70), Expect = 0.29
Identities = 11/52 (21%), Positives = 16/52 (30%)
Query: 115 PVVKEVGTGGTRQIAKIPTHSTTTWTTLFPMHPCIVTGPYQESSNSTAPPAP 166
PVV EV G ++ + + PC + AP A
Sbjct: 56 PVVPEVKVGSPALFDRLDALTAPRLVEYWEQDPCAGGWGLDRGGGAGAPDAA 107
>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein. This
family consists of REP proteins from Dictyostelium
(Slime molds). REP protein is likely involved in
transcription regulation and control of DNA replication,
specifically amplification of plasmid at low copy
numbers. The formation of homomultimers may be required
for their regulatory activity.
Length = 910
Score = 28.3 bits (63), Expect = 2.4
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 81 RQRKNGTAASTGTSTTTTTTTST 103
Q +T T+TTTTTTT
Sbjct: 246 SQPSKRPNNTTTTTTTTTTTTFQ 268
>gnl|CDD|220761 pfam10451, Stn1, Telomere regulation protein Stn1. The budding
yeast protein Stn1 is a DNA-binding protein which has
specificity for telomeric DNA. Structural profiling has
predicted an OB-fold. This domain is the N-terminal part
of the molecule, which adopts the OB fold. Protection of
telomeres by multiple proteins with OB-fold domains is
conserved in eukaryotic evolution.
Length = 249
Score = 27.9 bits (62), Expect = 2.8
Identities = 10/72 (13%), Positives = 20/72 (27%), Gaps = 15/72 (20%)
Query: 14 QDSQMGGVAIALGHGSVLFECAKHELHATTALRRPNRLHPTRISLVFYQHRNLNRPKHGW 73
Q +G G+ + K ++ + + L+ +
Sbjct: 107 QLLSLGINITD-LIGNTVCVFGK--------------INLSEVELIVEFLELVRGLNSEI 151
Query: 74 DEWEEKMRQRKN 85
D W + M RK
Sbjct: 152 DHWRKTMLYRKQ 163
>gnl|CDD|233499 TIGR01631, Trypano_RHS, trypanosome RHS (retrotransposon hot spot)
family. This model describes full-length and
part-length members of the RHS (retrotransposon hot
spot) family in Trypanosoma brucei and Trypanosoma
cruzi. Members of this family are frequently interrupted
by non-LTR retrotransposons inserted at exactly the same
relative position.
Length = 760
Score = 27.9 bits (62), Expect = 3.2
Identities = 16/55 (29%), Positives = 18/55 (32%), Gaps = 11/55 (20%)
Query: 39 LHATTALRRPNRLHPTRISLVFYQHRNLNRPKHGWDE------WEEKMRQRKNGT 87
L T A R H T V L +GWDE WE Q + T
Sbjct: 674 LQYTVAGR-----HHTTTGTVRKFTEYLAAYFNGWDELSRQLVWEIIYVQHVDST 723
>gnl|CDD|216635 pfam01663, Phosphodiest, Type I phosphodiesterase / nucleotide
pyrophosphatase. This family consists of
phosphodiesterases, including human plasma-cell membrane
glycoprotein PC-1 / alkaline phosphodiesterase i /
nucleotide pyrophosphatase (nppase). These enzymes
catalyze the cleavage of phosphodiester and
phosphosulfate bonds in NAD, deoxynucleotides and
nucleotide sugars. Also in this family is ATX an
autotaxin, tumour cell motility-stimulating protein
which exhibits type I phosphodiesterases activity. The
alignment encompasses the active site. Also present with
in this family is 60-kDa Ca2+-ATPase form F. odoratum.
Length = 342
Score = 27.4 bits (61), Expect = 4.4
Identities = 15/50 (30%), Positives = 18/50 (36%), Gaps = 4/50 (8%)
Query: 108 SDIQHLLPVVKEVGTGGTRQIAKIPTHSTTTWTTLFPMHPCIVTGPYQES 157
+ L P + + G P T T FP H IVTG Y S
Sbjct: 15 DRLAGLTPNLAALAKEGVSAPYLTPVFPTLT----FPNHYTIVTGLYPGS 60
>gnl|CDD|143382 cd07877, STKc_p38alpha_MAPK14, Catalytic domain of the
Serine/Threonine Kinase, p38alpha Mitogen-Activated
Protein Kinase. Serine/Threonine Kinases (STKs),
p38alpha subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
p38alpha 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. p38 kinases are mitogen-activated protein
kinases (MAPKs), serving as important mediators of
cellular responses to extracellular signals. They are
activated by the MAPK kinases MKK3 and MKK6, which in
turn are activated by upstream MAPK kinase kinases
including TAK1, ASK1, and MLK3, in response to cellular
stresses or inflammatory cytokines. Vertebrates contain
four isoforms of p38, named alpha, beta, gamma, and
delta. p38alpha, also called MAPK14, is expressed in
most tissues and is the major isoform involved in the
immune and inflammatory response. It is the central p38
MAPK involved in myogenesis. It plays a role in
regulating cell cycle check-point transition and
promoting cell differentiation. p38alpha also regulates
cell proliferation and death through crosstalk with the
JNK pathway. Its substrates include MAPK activated
protein kinase 2 (MK2), MK5, and the transcription
factors ATF2 and Mitf.
Length = 345
Score = 27.3 bits (60), Expect = 4.5
Identities = 11/41 (26%), Positives = 17/41 (41%)
Query: 107 TSDIQHLLPVVKEVGTGGTRQIAKIPTHSTTTWTTLFPMHP 147
T I L +++ VGT G + KI + S + P
Sbjct: 221 TDHIDQLKLILRLVGTPGAELLKKISSESARNYIQSLTQMP 261
>gnl|CDD|216368 pfam01213, CAP_N, Adenylate cyclase associated (CAP) N terminal.
Length = 313
Score = 27.1 bits (60), Expect = 5.0
Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 128 IAKIPTHSTT--TWTTLFPMHPCIVTGPYQESSNSTAPPAPPANPT 171
A I H TT TW+ P+ P SS +APP PP P
Sbjct: 196 QAYIKEHHTTGLTWSKKGPVAAAKSALPAVSSSAPSAPPPPPPPPP 241
>gnl|CDD|218399 pfam05046, Img2, Mitochondrial large subunit ribosomal protein
(Img2). This family of proteins have been identified as
part of the mitochondrial large ribosomal subunit in
yeast.
Length = 85
Score = 25.7 bits (57), Expect = 5.9
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 112 HLLPVVKEVGTGGTRQIAKI 131
LPV + GGT+ I +I
Sbjct: 12 GNLPVYLDYKNGGTKIITEI 31
>gnl|CDD|115579 pfam06933, SSP160, Special lobe-specific silk protein SSP160. This
family consists of several special lobe-specific silk
protein SSP160 sequences which appear to be specific to
Chironomus (Midge) species.
Length = 758
Score = 27.0 bits (59), Expect = 6.3
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 75 EWEEKMRQRK---NGTAASTGTSTTTTTTTSTNVHTS 108
EWE + + NG+A++ TS + +T+ ST S
Sbjct: 265 EWEAILAALEAFANGSASANSTSNSNSTSNSTTNSNS 301
Score = 26.7 bits (58), Expect = 7.9
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 85 NGTAASTGTSTTTTTTTSTNVHTS 108
N T+ S TS +TT + ST S
Sbjct: 284 NSTSNSNSTSNSTTNSNSTTTTNS 307
>gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional.
Length = 387
Score = 26.6 bits (59), Expect = 7.0
Identities = 17/34 (50%), Positives = 18/34 (52%), Gaps = 8/34 (23%)
Query: 20 GVAIALGH-----GSVLFECAKHELHAT---TAL 45
G AIALGH G+ L A HEL T TAL
Sbjct: 336 GGAIALGHPVGSTGARLITTALHELERTDKSTAL 369
>gnl|CDD|183698 PRK12715, flgK, flagellar hook-associated protein FlgK;
Provisional.
Length = 649
Score = 27.0 bits (59), Expect = 7.2
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 25/92 (27%)
Query: 79 KMRQRKNGTAASTGTSTTTTTTTS-TNVHTSDIQHLLPVVKEVGTGGTRQIAKIPTHSTT 137
+M +R +A ++GT+ + + + V SD ++ + G R I K STT
Sbjct: 328 QMLKRSTASADNSGTAVLSVNISDISQVKLSDYDL---IISDTGANELRLIRKSDGTSTT 384
Query: 138 -TWTTLFPMHPCIVTGPYQESSNSTAPPAPPA 168
TW S++PPAPPA
Sbjct: 385 LTW--------------------SSSPPAPPA 396
>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional.
Length = 652
Score = 26.5 bits (60), Expect = 8.5
Identities = 8/17 (47%), Positives = 12/17 (70%), Gaps = 3/17 (17%)
Query: 67 NRP-KHGWDEWEEKMRQ 82
NRP K ++E+E K+ Q
Sbjct: 374 NRPLK--FEEFEAKVPQ 388
>gnl|CDD|206127 pfam13957, YafO_toxin, Toxin YafO, type II toxin-antitoxin
system. YafO is a toxin which inhibits protein
synthesis. It acts as a ribosome-dependent mRNA
interferase. It forms part of a type II toxin-antitoxin
system, where the YafN protein acts as an antitoxin.
This domain forms complexes with yafN antitoxins
containing pfam02604.
Length = 107
Score = 25.3 bits (56), Expect = 9.5
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 52 HPTRISLVFYQHRNLNRPKHGWDEWEEKMRQ--RKNGT 87
P +H +L + D W K+RQ R +
Sbjct: 22 RPPLAVDSGLRHIHLAIGPNDDDPWPRKLRQFRRTSDA 59
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
0.316 0.129 0.402
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,398,073
Number of extensions: 699764
Number of successful extensions: 1074
Number of sequences better than 10.0: 1
Number of HSP's gapped: 987
Number of HSP's successfully gapped: 46
Length of query: 171
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 81
Effective length of database: 6,945,742
Effective search space: 562605102
Effective search space used: 562605102
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.0 bits)