RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13594
(574 letters)
>gnl|CDD|238073 cd00127, DSPc, Dual specificity phosphatases (DSP); Ser/Thr and Tyr
protein phosphatases. Structurally similar to
tyrosine-specific phosphatases but with a shallower
active site cleft and a distinctive active site
signature motif, HCxxGxxR. Characterized as VHR- or
Cdc25-like.
Length = 139
Score = 72.6 bits (179), Expect = 2e-15
Identities = 31/88 (35%), Positives = 47/88 (53%), Gaps = 7/88 (7%)
Query: 53 CDEVYPNIFLSDGGTAKNKEYLKRIGITHVINAAKGKKFGMVNTTSDYYKDVGIKFLGLE 112
E+ P ++L A +KE LK++GITHV+N AK ++ +L +
Sbjct: 2 LSEITPGLYLGSYPAASDKELLKKLGITHVLNVAKEVP-------NENLFLSDFNYLYVP 54
Query: 113 LLDLPIANISCHFRDVADFIEDALENNG 140
+LDLP +IS +F + DFI+DA E G
Sbjct: 55 ILDLPSQDISKYFDEAVDFIDDAREKGG 82
>gnl|CDD|223733 COG0661, AarF, Predicted unusual protein kinase [General function
prediction only].
Length = 517
Score = 70.8 bits (174), Expect = 7e-13
Identities = 31/155 (20%), Positives = 64/155 (41%), Gaps = 25/155 (16%)
Query: 400 IEGVPVDQCVDLDYE--SRKHICKLVMELCLRELFQFRYMQTDPNWSNFFYNKDTKQLIL 457
I+G+ + L RK + +L++ LR+L + + DP+ N D +++L
Sbjct: 248 IDGIKISDIAALKSAGIDRKELAELLVRAFLRQLLRDGFFHADPHPGNILVRSD-GRIVL 306
Query: 458 LDFGATRAYSKEFMDQYIQVIKAGADGDKDKEFMDQYIQVIKAGADGDKDKVLTISRKMG 517
LDFG +F +++ A F+++ D D+V + ++G
Sbjct: 307 LDFGIVGRLDPKFRRYLAELLLA---------FLNR-----------DYDRVAELHVELG 346
Query: 518 FLTGYESKIMEEAHVNTVMILSEVFSEKIGEFDFG 552
++ + A + V L ++ + + E FG
Sbjct: 347 YVPPDTDRDPLAAAIRAV--LEPIYGKPLEEISFG 379
Score = 42.3 bits (100), Expect = 5e-04
Identities = 20/104 (19%), Positives = 44/104 (42%), Gaps = 18/104 (17%)
Query: 321 GVGTIAEVTRRTLGFGDSSLSVGTTLDSAF--INPANAERIVNTLCKVRGAALKIGQILS 378
+G + +T R +G + ++ + AER+ L ++ +K+GQILS
Sbjct: 21 LLGRLLRLTGRLALLLRLLSWLGKSKLASSEELREKRAERLRLALEELGPTFIKLGQILS 80
Query: 379 IQDSNVISPELQKAFER------------VRKLIE---GVPVDQ 407
+ +++ PE + + ++IE G P+++
Sbjct: 81 TRP-DLVPPEYAEELAKLQDRVPPFPFEEAERIIEEELGRPIEE 123
>gnl|CDD|214551 smart00195, DSPc, Dual specificity phosphatase, catalytic domain.
Length = 138
Score = 55.8 bits (135), Expect = 2e-09
Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 9/86 (10%)
Query: 55 EVYPNIFLSDGGTAKNKEYLKRIGITHVINAAKGKKFGMVNTTSDYYKDVGIKFLGLELL 114
E+ P+++L A N LK++GITHVIN Y +LG+ +
Sbjct: 3 EILPHLYLGSYSDALNLALLKKLGITHVINVTNEVPN---------YNGSDFTYLGVPID 53
Query: 115 DLPIANISCHFRDVADFIEDALENNG 140
D IS +F + +FIEDA G
Sbjct: 54 DNTETKISPYFPEAVEFIEDAESKGG 79
>gnl|CDD|216117 pfam00782, DSPc, Dual specificity phosphatase, catalytic domain.
Ser/Thr and Tyr protein phosphatases. The enzyme's
tertiary fold is highly similar to that of
tyrosine-specific phosphatases, except for a
"recognition" region.
Length = 131
Score = 45.7 bits (109), Expect = 5e-06
Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 9/82 (10%)
Query: 60 IFLSDGGTAKNKEYLKRIGITHVINAAKGKKFGMVNTTSDYYKDVGIKFLGLELLDLPIA 119
++L TA L+++GITHVIN + + + GI +LG+ + D
Sbjct: 1 LYLGSYPTASKAF-LEKLGITHVINVTREV--------PNSNLNSGILYLGIPVEDNHET 51
Query: 120 NISCHFRDVADFIEDALENNGT 141
NIS + + +FI+DA++ G
Sbjct: 52 NISKYLPEAVEFIDDAIQKGGK 73
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 36.7 bits (84), Expect = 0.035
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 276 RAPGAPKPIPKAKNKPQLNPVAKQRKVPSSRLGRMVS 312
+AP +P P ++ +PQL P ++R+VP +RL + V+
Sbjct: 211 KAPSSPPPPKQSAKEPQLPPKERERRVPMTRLRKRVA 247
>gnl|CDD|177251 MTH00208, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 628
Score = 33.4 bits (77), Expect = 0.35
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 432 FQFRYMQTDPNWSNFF 447
F YM DPN + FF
Sbjct: 126 FSHYYMSNDPNKNAFF 141
>gnl|CDD|109709 pfam00662, Oxidored_q1_N, NADH-Ubiquinone oxidoreductase (complex
I), chain 5 N-terminus. This sub-family represents an
amino terminal extension of pfam00361. Only
NADH-Ubiquinone chain 5 and eubacterial chain L are in
this family. This sub-family is part of complex I which
catalyzes the transfer of two electrons from NADH to
ubiquinone in a reaction that is associated with proton
translocation across the membrane.
Length = 62
Score = 28.7 bits (65), Expect = 1.1
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 431 LFQFRYMQTDPNWSNFFY 448
L+ YM DPN + FF
Sbjct: 41 LYSIWYMSHDPNINRFFS 58
>gnl|CDD|184849 PRK14847, PRK14847, hypothetical protein; Provisional.
Length = 333
Score = 30.0 bits (67), Expect = 3.8
Identities = 29/107 (27%), Positives = 46/107 (42%), Gaps = 12/107 (11%)
Query: 390 QKAFERVRKLIEG--VPVDQCVDLDYESRKHICKLVMELCLRELFQFRYMQTDPNWSNFF 447
Q F+ VRKLI+ +P D ++ +SR +L R F + P
Sbjct: 80 QTDFDFVRKLIDERRIPDDVTIEALTQSRP-------DLIAR---TFEALAGSPRAIVHL 129
Query: 448 YNKDTKQLILLDFGATRAYSKEFMDQYIQVIKAGADGDKDKEFMDQY 494
YN Q + FG +RA KE + I+A AD + +++ +Y
Sbjct: 130 YNPIAPQWRRIVFGMSRAEIKEIALAGTRQIRALADANPGTQWIYEY 176
>gnl|CDD|240345 PTZ00287, PTZ00287, 6-phosphofructokinase; Provisional.
Length = 1419
Score = 29.6 bits (66), Expect = 5.2
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 212 SVVL-DGVKAFVFKEAGSERDVSEFEQDSQYSEPTNLEKSKLGYKKAMELTKKKDAFAVV 270
SV+L D AF +E + + D + SE + KL KK + + K++F +V
Sbjct: 24 SVLLRDNECAFNIEENEDQNSKDQLPCDKKDSEMIDCLMQKLTSKKFLVEKETKNSFYLV 83
Query: 271 DED 273
D +
Sbjct: 84 DNE 86
>gnl|CDD|193577 cd09888, NGN_Euk, Eukaryotic N-Utilization Substance G (NusG)
N-terminal (NGN) domain, including plant KTF1 (KOW
domain-containing Transcription Factor 1). The
N-Utilization Substance G (NusG) protein and its
eukaryotic homolog, Spt5, are involved in transcription
elongation and termination. NusG contains an NGN domain
at its N-terminus and Kyrpides Ouzounis and Woese (KOW)
repeats at its C-terminus. Spt5 forms an Spt4-Spt5
complex that is an essential RNA polymerase II
elongation factor. NusG was originally discovered as an
N-dependent antitermination enhancing activity in
Escherichia coli, and has a variety of functions such as
its involvement in RNA polymerase elongation and
Rho-termination in bacteria. Orthologs of the NusG gene
exist in all bacteria, but their functions and
requirements are different. Spt5-like is homologous to
the Spt5 proteins present in all eukaryotes, which is
unique as it encodes a protein with an additional long
carboxy-terminal extension that contains WG/GW motifs.
Spt5-like, or KTF1 (KOW domain-containing Transcription
Factor 1), is a RNA-directed DNA methylation (RdDM)
pathway effector in plants.
Length = 86
Score = 27.5 bits (62), Expect = 5.5
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 211 SSVVLDGVKAFVFKEAGSERDVSEF 235
S DG+K +++ EA E V +
Sbjct: 37 SVFARDGLKGYIYIEARKEAHVKDA 61
>gnl|CDD|233050 TIGR00609, recB, exodeoxyribonuclease V, beta subunit. The RecBCD
holoenzyme is a multifunctional nuclease with potent
ATP-dependent exodeoxyribonuclease activity. Ejection of
RecD, as occurs at chi recombinational hotspots,
cripples exonuclease activity in favor of recombinagenic
helicase activity. All proteins in this family for which
functions are known are DNA-DNA helicases that are used
as part of an exonuclease-helicase complex (made up of
RecBCD homologs) that function to generate substrates
for the initiation of recombination and recombinational
repair. This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1087
Score = 29.7 bits (67), Expect = 5.7
Identities = 11/50 (22%), Positives = 20/50 (40%)
Query: 146 LKGVLKGLQLVANAGIKHQTLEIQQKWTNSSFKSLASNLDQSLKSTSTTP 195
L +L+ L A ++ Q I +K + + L + L+ TP
Sbjct: 867 LHAILESLIFSQAADLEKQRNLIAEKLKKTGLEGWEPELQEWLEKMLNTP 916
>gnl|CDD|143381 cd07876, STKc_JNK2, Catalytic domain of the Serine/Threonine
Kinase, c-Jun N-terminal Kinase 2. Serine/Threonine
Kinases (STKs), c-Jun N-terminal kinase 2 (JNK2)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
JNK2 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. JNKs are mitogen-activated protein kinases
(MAPKs) that are involved in many stress-activated
responses including those during inflammation,
neurodegeneration, apoptosis, and persistent pain
sensitization, among others. Vetebrates harbor three
different JNK genes (Jnk1, Jnk2, and Jnk3). JNK1, like
JNK2, is expressed in every cell and tissue type.
Initially it was thought that JNK1 and JNK2 were
functionally redundant as mice deficient in either genes
(Jnk1 or Jnk2) could survive but disruption of both
genes resulted in lethality. However, recent studies
have shown that JNK1 and JNK2 perform distinct functions
through specific binding partners and substrates. JNK2
is specifically translocated to the mitochondria during
dopaminergic cell death. Specific substrates include the
microtubule-associated proteins DCX and Tau, as well as
TIF-IA which is involved in ribosomal RNA synthesis
regulation. Mice deficient in Jnk2 show protection
against arthritis, type 1 diabetes, atherosclerosis,
abdominal aortic aneurysm, cardiac cell death,
TNF-induced liver damage, and tumor growth, indicating
that JNK2 may play roles in the pathogenesis of these
diseases.
Length = 359
Score = 28.8 bits (64), Expect = 7.4
Identities = 27/97 (27%), Positives = 43/97 (44%), Gaps = 13/97 (13%)
Query: 383 NVISPELQKAFERVRKL---IEGVPVDQC----VDLDYESRKHICKLVMELC-LRELFQF 434
NV +P QK+ E + + +E + + C ++LD+E ++ L LC ++ L
Sbjct: 87 NVFTP--QKSLEEFQDVYLVMELMDANLCQVIHMELDHERMSYL--LYQMLCGIKHLHSA 142
Query: 435 RYMQTDPNWSNFFYNKDTKQLILLDFGATRAYSKEFM 471
+ D SN D L +LDFG R FM
Sbjct: 143 GIIHRDLKPSNIVVKSDCT-LKILDFGLARTACTNFM 178
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 28.4 bits (64), Expect = 8.0
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 249 KSKLGYKKAMELTKKKDAFAVVDEDVARAPGAPKPIPKAKNKPQLNPVAKQRKVPSSRL 307
K+K+ ++A + KK++A E R PKP K + + + P S +
Sbjct: 107 KAKVQAQRAEQQAKKREAAGE-KEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDI 164
>gnl|CDD|206756 cd10019, 14-3-3_sigma, 14-3-3 sigma, an isoform of 14-3-3 protein.
14-3-3 protein sigma isoform, also known as stratifin or
human mammary epithelial marker (HME) 1, has been most
directly linked to tumor development. In humans, it is
expressed by the SFN gene, strictly in stratified
squamous epithelial cells in response to DNA damage
where it is transcriptionally induced in a p53-dependent
manner, subsequently causing cell-cycle arrest at the
G2/M checkpoint. Up-regulation and down-regulation of
14-3-3 sigma expression have both been described in
tumors. For example, in human breast cancer, 14-3-3
sigma is predominantly down-regulated by CpG
methylation, acting as both a tumor suppressor and a
prognostic indicator, while in human scirrhous-type
gastric carcinoma (SGC), it is up-regulated and may play
an important role in SGC carcinogenesis and progression.
Loss of 14-3-3 sigma expression sensitizes tumor cells
to treatment with conventional cytostatic drugs, making
this protein an attractive therapeutic target. 14-3-3
domains are an essential part of 14-3-3 proteins, a
ubiquitous class of regulatory,
phosphoserine/threonine-binding proteins found in all
eukaryotic cells, including yeast, protozoa and
mammalian cells.
Length = 242
Score = 28.5 bits (63), Expect = 9.8
Identities = 29/151 (19%), Positives = 68/151 (45%), Gaps = 19/151 (12%)
Query: 125 FRDVADFIEDALENNGTYVSDLKGVLK-------GLQLVA---NAGIKHQTLEIQQKWTN 174
+ D+A F++ A+E ++ + +L G Q A + I+ ++ E +
Sbjct: 19 YEDMAAFMKGAVEKGEELSNEERNLLSVAYKNVVGGQRAAWRVLSSIEQKSNEEGSEEKG 78
Query: 175 SSFKSLASNLDQSLKSTSTTPCALLNANVLKEAAERSSVVLDGVKAFVFKEAGSE-RDVS 233
+ ++ L+ T LL+++++KEA + S + F K G R ++
Sbjct: 79 PEVREYREKVETELQGVCDTVLGLLDSHLIKEAGDAES------RVFYLKMKGDYYRYLA 132
Query: 234 EFEQDSQYSEPTNLEKSKLGYKKAMELTKKK 264
E + + ++ ++ Y++AM+++KK+
Sbjct: 133 EVA--TGDDKKRIIDSARSAYQEAMDISKKE 161
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 0.134 0.378
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,877,709
Number of extensions: 2864259
Number of successful extensions: 2916
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2905
Number of HSP's successfully gapped: 27
Length of query: 574
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 472
Effective length of database: 6,413,494
Effective search space: 3027169168
Effective search space used: 3027169168
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: 62 (27.6 bits)