Query psy7364
Match_columns 73
No_of_seqs 102 out of 347
Neff 5.9
Searched_HMMs 46136
Date Sat Aug 17 00:50:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7364.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7364hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3586|consensus 100.0 3.3E-36 7.2E-41 224.2 5.4 70 1-70 204-274 (437)
2 cd00182 TBOX T-box DNA binding 100.0 6.6E-35 1.4E-39 200.4 5.8 65 1-69 124-188 (188)
3 smart00425 TBOX Domain first f 100.0 9.2E-33 2E-37 189.8 6.0 65 1-69 125-189 (190)
4 PF00907 T-box: T-box; InterP 100.0 8.1E-30 1.8E-34 172.2 2.5 63 1-66 122-184 (184)
5 KOG3585|consensus 99.9 3.7E-28 8E-33 177.8 5.3 65 1-69 148-212 (328)
6 smart00811 Alpha_kinase Alpha- 48.8 6.6 0.00014 27.1 0.3 17 50-66 10-27 (198)
7 PF03376 Adeno_E3B: Adenovirus 32.2 19 0.00041 21.3 0.4 10 43-52 55-64 (67)
8 COG0634 Hpt Hypoxanthine-guani 27.5 33 0.00071 23.8 1.0 21 29-49 55-76 (178)
9 PRK06461 single-stranded DNA-b 21.3 63 0.0014 20.5 1.4 28 32-69 102-129 (129)
10 PF13516 LRR_6: Leucine Rich r 20.3 31 0.00067 15.2 -0.1 14 46-59 1-14 (24)
No 1
>KOG3586|consensus
Probab=100.00 E-value=3.3e-36 Score=224.20 Aligned_cols=70 Identities=59% Similarity=0.905 Sum_probs=62.0
Q ss_pred CCcCccEEEEEEeCCCCCCcc-cccccceEEeeecCceEEEeccccchhhhhhccccCCCCcCCCCCCCCC
Q psy7364 1 MHRYQPRIHLIKWRDQGTPIT-DLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDSSRLT 70 (73)
Q Consensus 1 mHkY~P~lhi~~~~~~~~~~~-~~~~~~~~tf~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~~~~~ 70 (73)
|||||||+|||+++....... ....+.++||+||||+|+|||||||++||+|||++|||||||||+++++
T Consensus 204 MHkYQPRvHvV~~~~~~~s~~~~~~~e~~kTF~FpET~FtAVTAYQNq~ITkLKI~sNPFAKGFRD~~~~~ 274 (437)
T KOG3586|consen 204 MHKYQPRVHVVYLDPGNDSNKYVEKNEGFKTFVFPETVFTAVTAYQNQRITKLKIESNPFAKGFRDCGRND 274 (437)
T ss_pred ccccCCceEEEEecCCCCccccccccccceeEeccceeEEEEeecccceeeeeeeccCccccccccCCccC
Confidence 999999999999997754321 2245779999999999999999999999999999999999999999985
No 2
>cd00182 TBOX T-box DNA binding domain of the T-box family of transcriptional regulators. The T-box family is an ancient group that appears to play a critical role in development in all animal species. These genes were uncovered on the basis of similarity to the DNA binding domain of murine Brachyury (T) gene product, the defining feature of the family. Common features shared by T-box family members are DNA-binding and transcriptional regulatory activity, a role in development and conserved expression patterns, most of the known genes in all species being expressed in mesoderm or mesoderm precursors.
Probab=100.00 E-value=6.6e-35 Score=200.37 Aligned_cols=65 Identities=57% Similarity=0.925 Sum_probs=58.5
Q ss_pred CCcCccEEEEEEeCCCCCCcccccccceEEeeecCceEEEeccccchhhhhhccccCCCCcCCCCCCCC
Q psy7364 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDSSRL 69 (73)
Q Consensus 1 mHkY~P~lhi~~~~~~~~~~~~~~~~~~~tf~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~~~~ 69 (73)
||||||||||+++++.... ....+++|.||||+|||||||||++||+|||++||||||||++++.
T Consensus 124 mhKY~Prl~I~~~~~~~~~----~~~~~~~f~F~eT~FiAVTaYqN~~It~lKi~~NpfAkgfr~~~~~ 188 (188)
T cd00182 124 MHKYQPRLHIVEVDDSSPF----SWRLVQTFSFPETEFIAVTAYQNQEITQLKIDNNPFAKGFRDNGRS 188 (188)
T ss_pred cceEEeEEEEEEcCCCccc----cccccEEEECCCeEEEEEEeecCHhHhhhhhcCCcccccccccCCC
Confidence 8999999999998875432 3467899999999999999999999999999999999999999863
No 3
>smart00425 TBOX Domain first found in the mice T locus (Brachyury) protein.
Probab=99.97 E-value=9.2e-33 Score=189.77 Aligned_cols=65 Identities=63% Similarity=1.032 Sum_probs=58.1
Q ss_pred CCcCccEEEEEEeCCCCCCcccccccceEEeeecCceEEEeccccchhhhhhccccCCCCcCCCCCCCC
Q psy7364 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDSSRL 69 (73)
Q Consensus 1 mHkY~P~lhi~~~~~~~~~~~~~~~~~~~tf~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~~~~ 69 (73)
||||+|||||+++++.... ..+.+++|.||||+|||||||||++|++|||++||||||||++++.
T Consensus 125 mhkY~P~l~I~~~~~~~~~----~~~~~~~f~F~eT~FiaVTaYqN~~it~lKi~~NpfAkgfr~~~~~ 189 (190)
T smart00425 125 MHKYQPRLHIVEVDDISKE----ILSQFKTFVFPETQFIAVTAYQNQKITKLKIDNNPFAKGFRDQGRR 189 (190)
T ss_pred CceEeeEEEEEEeCCcccc----cccceeEEECCceEEEEEeeecccchhhccccCCCCcCccccccCC
Confidence 8999999999999875442 2356789999999999999999999999999999999999998764
No 4
>PF00907 T-box: T-box; InterPro: IPR001699 Transcription factors of the T-box family are required both for early cell-fate decisions, such as those necessary for formation of the basic vertebrate body plan, and for differentiation and organogenesis []. The T-box is defined as the minimal region within the T-box protein that is both necessary and sufficient for sequence-specific DNA binding, all members of the family so far examined bind to the DNA consensus sequence TCACACCT. The T-box is a relatively large DNA-binding domain, generally comprising about a third of the entire protein (17-26 kDa). These genes were uncovered on the basis of similarity to the DNA binding domain [] of Mus musculus (Mouse) Brachyury (T) gene product, which similarity is the defining feature of the family. The Brachyury gene is named for its phenotype, which was identified 70 years ago as a mutant mouse strain with a short blunted tail. The gene, and its paralogues, have become a well-studied model for the family, and hence much of what is known about the T-box family is derived from the murine Brachyury gene. Consistent with its nuclear location, Brachyury protein has a sequence-specific DNA-binding activity and can act as a transcriptional regulator []. Homozygous mutants for the gene undergo extensive developmental anomalies, thus rendering the mutation lethal []. The postulated role of Brachyury is as a transcription factor, regulating the specification and differentiation of posterior mesoderm during gastrulation in a dose-dependent manner []. T-box proteins tend to be expressed in specific organs or cell types, especially during development, and they are generally required for the development of those tissues, for example, Brachyury is expressed in posterior mesoderm and in the developing notochord, and it is required for the formation of these cells in mice []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1H6F_B 4A04_A 1XBR_B 2X6V_B 2X6U_A.
Probab=99.95 E-value=8.1e-30 Score=172.17 Aligned_cols=63 Identities=52% Similarity=0.914 Sum_probs=51.5
Q ss_pred CCcCccEEEEEEeCCCCCCcccccccceEEeeecCceEEEeccccchhhhhhccccCCCCcCCCCC
Q psy7364 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDS 66 (73)
Q Consensus 1 mHkY~P~lhi~~~~~~~~~~~~~~~~~~~tf~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~ 66 (73)
||||+|||+|+++++..... ....+.+|.||||+|||||+|||++|++|||++||||||||+.
T Consensus 122 ~hkY~Pvl~I~~~~~~~~~~---~~~~~~~f~f~~t~FIaVT~Yqn~~I~~lK~~~Npfak~fr~~ 184 (184)
T PF00907_consen 122 MHKYQPVLHIYEVNSNGSPS---PNQPVHEFSFPETEFIAVTAYQNEEIRQLKIDNNPFAKGFRDK 184 (184)
T ss_dssp TEEEEEEEEEEECTTTSCCC---SCSSEEEEE-GGG-EEEESS-SSHHHHHHHHHH-GGGGGGHH-
T ss_pred ccEEEEEEEEEEcCCccccc---cccceEEeecCcCeEEeecccchhhhhhhhhccCCCccccCCC
Confidence 79999999999998764421 2357899999999999999999999999999999999999973
No 5
>KOG3585|consensus
Probab=99.95 E-value=3.7e-28 Score=177.82 Aligned_cols=65 Identities=52% Similarity=0.804 Sum_probs=57.8
Q ss_pred CCcCccEEEEEEeCCCCCCcccccccceEEeeecCceEEEeccccchhhhhhccccCCCCcCCCCCCCC
Q psy7364 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDSSRL 69 (73)
Q Consensus 1 mHkY~P~lhi~~~~~~~~~~~~~~~~~~~tf~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~~~~ 69 (73)
||||+|||||+++++.... ....+++|.||||+|||||||||+.||+|||++||||||||+.+..
T Consensus 148 mHKY~P~l~i~~~~~~~~~----~~~~~~~~~F~eT~FIaVTaYQn~~it~lKi~~Npfakgfr~~~~~ 212 (328)
T KOG3585|consen 148 MHKYQPVLHIVELDASLIS----PEISVQSFKFPETQFIAVTAYQNQEITKLKIDNNPFAKGFRDNIEG 212 (328)
T ss_pred ccceeeeEEEEEcccccCC----CccceeEEEcccceeEEeeeeecceehhhcccCCcccccccccccc
Confidence 8999999999999733322 3457999999999999999999999999999999999999998765
No 6
>smart00811 Alpha_kinase Alpha-kinase family. This family is a novel family of eukaryotic protein kinase catalytic domains, which have no detectable similarity to conventional kinases. The family contains myosin heavy chain kinases and Elongation Factor-2 kinase and a bifunctional ion channel. This family is known as the alpha-kinase family. The structure of the kinase domain revealed unexpected similarity to eukaryotic protein kinases in the catalytic core as well as to metabolic enzymes with ATP-grasp domains.
Probab=48.82 E-value=6.6 Score=27.09 Aligned_cols=17 Identities=53% Similarity=0.845 Sum_probs=13.7
Q ss_pred hhhccccCCCCcC-CCCC
Q psy7364 50 TKLKIDSNPFAKG-FRDS 66 (73)
Q Consensus 50 tqLKI~~NPfAkg-fR~~ 66 (73)
+.+||+.+|||+| +|..
T Consensus 10 ~~v~i~~~pFa~G~~R~a 27 (198)
T smart00811 10 TGVKIELKPFAKGAMRVA 27 (198)
T ss_pred EEEEEcCCccCCCceeee
Confidence 4579999999999 6654
No 7
>PF03376 Adeno_E3B: Adenovirus E3B protein; InterPro: IPR005041 Adenoviruses are medium-sized, non-enveloped viruses containing double-stranded DNA. They can cause a variety of diseases including pneumonia, cystitis, conjunctivitis and diarrhoea, all of which can be fatal to patients who are immunocompromised []. These viruses have many mechanisms to evade the host immune response, including several proteins which are expressed as part of the early transcription unit 3 (E3) []. One of the regions of E3, known as the E3B region, encodes three proteins known as 10.4K, 14.5K and 14.7K. Two of these proteins, 10.4K and 14.5K, form the RID complex (receptor internalisation and degradation) which protects the infected cell from host-induced lysis by clearing the the TNF and Fas receptors from the cell surface []. Other receptors, such as the epidermal growth factor receptor, are also known to be cleared by RID []. This entry represents the E3B region 10.4K protein, also known as the RID alpha subunit.; GO: 0016020 membrane
Probab=32.19 E-value=19 Score=21.30 Aligned_cols=10 Identities=50% Similarity=0.740 Sum_probs=8.2
Q ss_pred cccchhhhhh
Q psy7364 43 AYQNQLITKL 52 (73)
Q Consensus 43 aYqN~~ItqL 52 (73)
.|||++|..|
T Consensus 55 qYrn~~iA~L 64 (67)
T PF03376_consen 55 QYRNQQIAAL 64 (67)
T ss_pred hhcCHHHHHH
Confidence 4899999876
No 8
>COG0634 Hpt Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=27.45 E-value=33 Score=23.81 Aligned_cols=21 Identities=33% Similarity=0.488 Sum_probs=15.0
Q ss_pred EEeeec-CceEEEeccccchhh
Q psy7364 29 RTYVFP-ESVFTAVTAYQNQLI 49 (73)
Q Consensus 29 ~tf~fp-eT~FiaVTaYqN~~I 49 (73)
+.+.+| |.+||+|++|.|...
T Consensus 55 r~i~~~~e~dFm~vSSYg~~t~ 76 (178)
T COG0634 55 RAIDFPLEVDFMHVSSYGGGTS 76 (178)
T ss_pred HhcCCCceeEEEEEeccCCCcc
Confidence 333344 799999999988643
No 9
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=21.29 E-value=63 Score=20.52 Aligned_cols=28 Identities=21% Similarity=0.185 Sum_probs=20.9
Q ss_pred eecCceEEEeccccchhhhhhccccCCCCcCCCCCCCC
Q psy7364 32 VFPESVFTAVTAYQNQLITKLKIDSNPFAKGFRDSSRL 69 (73)
Q Consensus 32 ~fpeT~FiaVTaYqN~~ItqLKI~~NPfAkgfR~~~~~ 69 (73)
.++++.|+..+.|--+ -+|-|||+.+|.
T Consensus 102 ~v~~~~~i~~~~~~~~----------~~~~~~~~~~~~ 129 (129)
T PRK06461 102 EVPEAEEIPEETPEAP----------GGGGGFRGGGRR 129 (129)
T ss_pred ccCCCCccCccCcccc----------ccCcCcCCCCCC
Confidence 5777888888888543 588899988763
No 10
>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A ....
Probab=20.28 E-value=31 Score=15.25 Aligned_cols=14 Identities=21% Similarity=0.399 Sum_probs=7.7
Q ss_pred chhhhhhccccCCC
Q psy7364 46 NQLITKLKIDSNPF 59 (73)
Q Consensus 46 N~~ItqLKI~~NPf 59 (73)
|..++.|.+.+|+.
T Consensus 1 ~~~L~~L~l~~n~i 14 (24)
T PF13516_consen 1 NPNLETLDLSNNQI 14 (24)
T ss_dssp -TT-SEEE-TSSBE
T ss_pred CCCCCEEEccCCcC
Confidence 45677778877763
Done!