Query psy7362
Match_columns 137
No_of_seqs 123 out of 268
Neff 2.8
Searched_HMMs 46136
Date Sat Aug 17 00:47:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7362.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7362hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3586|consensus 99.5 7.4E-15 1.6E-19 129.6 5.3 51 85-136 58-109 (437)
2 KOG3585|consensus 98.7 6.5E-09 1.4E-13 88.2 2.9 31 106-136 24-54 (328)
3 PF05742 NRDE: NRDE protein; 31.4 24 0.00051 29.0 1.0 14 121-134 51-64 (273)
4 PF10419 TFIIIC_sub6: TFIIIC s 26.1 31 0.00068 21.1 0.6 9 122-130 27-35 (35)
5 TIGR01552 phd_fam prevent-host 24.8 75 0.0016 19.3 2.2 21 114-135 12-32 (52)
6 PF04001 Vhr1: Transcription f 23.6 22 0.00048 26.8 -0.4 21 108-128 15-35 (95)
7 COG3332 Uncharacterized conser 20.1 47 0.001 28.9 0.8 25 110-134 42-66 (270)
8 PF08595 RXT2_N: RXT2-like, N- 20.0 37 0.0008 26.7 0.1 7 10-16 37-43 (149)
9 PF01056 Myc_N: Myc amino-term 18.1 41 0.00089 29.6 0.0 12 39-50 235-246 (329)
10 cd04105 SR_beta Signal recogni 16.5 1.3E+02 0.0029 22.9 2.5 50 7-56 134-185 (203)
No 1
>KOG3586|consensus
Probab=99.53 E-value=7.4e-15 Score=129.56 Aligned_cols=51 Identities=53% Similarity=0.845 Sum_probs=42.0
Q ss_pred CCCCCCcccc-cccccccccccccceeeccHhHHHHHHhccceeeeecCCCCC
Q psy7362 85 DRDSPVSKNK-IRTRCNCAELLVTECHLETKELWDKFHDLGTEMIITKTGSMV 136 (137)
Q Consensus 85 ~r~sP~~~~~-l~t~~~~~~l~~v~v~LE~~eLW~kF~qlGTEMIITKsGRRM 136 (137)
.|++|...++ .....+|. +..|+|.|+.++||++||+|||||||||+||||
T Consensus 58 ~~~~p~~~a~~~~~k~~~~-~a~i~~~Le~keLWdrFh~lGTEMIITKsGRRM 109 (437)
T KOG3586|consen 58 ERLSPEIAAAKPKVKKNCK-LAPIQVQLETKELWDRFHDLGTEMIITKSGRRM 109 (437)
T ss_pred cccCccccccCCCcCCccc-ccceEEEeehHHHHHHHHhcCceEEEecccccc
Confidence 6777766432 33444554 889999999999999999999999999999999
No 2
>KOG3585|consensus
Probab=98.72 E-value=6.5e-09 Score=88.24 Aligned_cols=31 Identities=52% Similarity=0.919 Sum_probs=30.1
Q ss_pred ccceeeccHhHHHHHHhccceeeeecCCCCC
Q psy7362 106 VTECHLETKELWDKFHDLGTEMIITKTGSMV 136 (137)
Q Consensus 106 ~v~v~LE~~eLW~kF~qlGTEMIITKsGRRM 136 (137)
.++|+|++.+||.+||.+||||||||.||||
T Consensus 24 ~~~v~l~~~eLW~~fh~~~~EmiitK~GRrm 54 (328)
T KOG3585|consen 24 QVKVSLENRELWKKFHEHGTEMIVTKRGRRM 54 (328)
T ss_pred ccEEEEechhHHHhhccCccEEEEecCCcee
Confidence 4999999999999999999999999999998
No 3
>PF05742 NRDE: NRDE protein; InterPro: IPR008551 This family is found in eukaryotes, prokaryotes and viruses and has no known function. P54797 from SWISSPROT has been found to be expressed during early embryogenesis in Mus sp [].
Probab=31.43 E-value=24 Score=28.99 Aligned_cols=14 Identities=36% Similarity=0.344 Sum_probs=12.2
Q ss_pred HhccceeeeecCCC
Q psy7362 121 HDLGTEMIITKTGS 134 (137)
Q Consensus 121 ~qlGTEMIITKsGR 134 (137)
-.-||||.||+.||
T Consensus 51 ~~gGTWlGi~~~Gr 64 (273)
T PF05742_consen 51 PEGGTWLGINKQGR 64 (273)
T ss_pred CCCCEEEEECCCCe
Confidence 44799999999997
No 4
>PF10419 TFIIIC_sub6: TFIIIC subunit; InterPro: IPR019481 This conserved domain is found in a family of proteins that function as subunits of transcription factor IIIC (TFIIIC) []. TFIIIC in yeast and humans is required for transcription of tRNA and 5 S RNA genes by RNA polymerase III. The yeast proteins in this entry are fused to phosphoglycerate mutase domain.
Probab=26.09 E-value=31 Score=21.11 Aligned_cols=9 Identities=33% Similarity=0.748 Sum_probs=7.3
Q ss_pred hccceeeee
Q psy7362 122 DLGTEMIIT 130 (137)
Q Consensus 122 qlGTEMIIT 130 (137)
-+||||+++
T Consensus 27 ~iGT~l~F~ 35 (35)
T PF10419_consen 27 TIGTELFFE 35 (35)
T ss_pred hcceeEeeC
Confidence 579999885
No 5
>TIGR01552 phd_fam prevent-host-death family protein. This model recognizes a region of about 55 amino acids toward the N-terminal end of bacterial proteins of about 85 amino acids in length. The best-characterized member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (TIGR01550) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family.
Probab=24.82 E-value=75 Score=19.32 Aligned_cols=21 Identities=33% Similarity=0.370 Sum_probs=15.9
Q ss_pred HhHHHHHHhccceeeeecCCCC
Q psy7362 114 KELWDKFHDLGTEMIITKTGSM 135 (137)
Q Consensus 114 ~eLW~kF~qlGTEMIITKsGRR 135 (137)
.++++...+-+ +++||+.|+.
T Consensus 12 ~~~l~~v~~~~-pv~It~~g~~ 32 (52)
T TIGR01552 12 GELLKRVRDGE-PVTITKRGRP 32 (52)
T ss_pred HHHHHHHHCCC-CEEEEECCcc
Confidence 45666766656 9999999974
No 6
>PF04001 Vhr1: Transcription factor Vhr1; InterPro: IPR007147 This is a family of proteins of unknown function found in yeast.
Probab=23.64 E-value=22 Score=26.77 Aligned_cols=21 Identities=19% Similarity=0.539 Sum_probs=17.6
Q ss_pred ceeeccHhHHHHHHhccceee
Q psy7362 108 ECHLETKELWDKFHDLGTEMI 128 (137)
Q Consensus 108 ~v~LE~~eLW~kF~qlGTEMI 128 (137)
+..+.+..+|.+|+..+.|+|
T Consensus 15 ~LnF~De~~WK~FSsRRLELI 35 (95)
T PF04001_consen 15 QLNFHDERKWKRFSSRRLELI 35 (95)
T ss_pred HhCCccHHHHHHHHHHHHHHH
Confidence 345678889999999999987
No 7
>COG3332 Uncharacterized conserved protein [Function unknown]
Probab=20.09 E-value=47 Score=28.93 Aligned_cols=25 Identities=32% Similarity=0.356 Sum_probs=19.1
Q ss_pred eeccHhHHHHHHhccceeeeecCCC
Q psy7362 110 HLETKELWDKFHDLGTEMIITKTGS 134 (137)
Q Consensus 110 ~LE~~eLW~kF~qlGTEMIITKsGR 134 (137)
.|-..+|=..--..||||.|||.||
T Consensus 42 VlagrDLak~~~~~GTWlG~tkeGk 66 (270)
T COG3332 42 VLAGRDLAKGSAEFGTWLGITKEGK 66 (270)
T ss_pred cccchhhhhccccccceeccccccc
Confidence 4556666555556799999999998
No 8
>PF08595 RXT2_N: RXT2-like, N-terminal; InterPro: IPR013904 The entry represents the N-terminal region of RXT2-like proteins. In Saccharomyces cerevisiae (Baker's yeast), RXT2 has been demonstrated to be involved in conjugation with cellular fusion (mating) and invasive growth []. A high throughput localisation study has localised RXT2 to the nucleus [].
Probab=19.99 E-value=37 Score=26.69 Aligned_cols=7 Identities=29% Similarity=0.662 Sum_probs=5.3
Q ss_pred hhhhHHH
Q psy7362 10 EEHNIIQ 16 (137)
Q Consensus 10 ~~~~~~~ 16 (137)
.+|+|||
T Consensus 37 ~~r~vL~ 43 (149)
T PF08595_consen 37 SERSVLQ 43 (149)
T ss_pred eeeeEee
Confidence 4678888
No 9
>PF01056 Myc_N: Myc amino-terminal region; InterPro: IPR012682 The class III basic helix-turn-helix (bHLH) transcription factors have proliferative and apoptotic roles and are characterised by the presence of a leucine zipper adjacent to the bHLH domain. The myc oncogene gene was first discovered in small-cell lung cancer cell lines where it is found to be deregulated []. Although the biochemical function of the gene product is unknown, as a nuclear protein with a short half-life it may play a direct or indirect role in controlling gene expression []. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication []. This entry represents the N-terminal domain found adjacent to the basic helix-loop-helix (bHLH) region (IPR001092 from INTERPRO).; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1EE4_C.
Probab=18.08 E-value=41 Score=29.57 Aligned_cols=12 Identities=42% Similarity=0.789 Sum_probs=0.0
Q ss_pred cCCCCccccccc
Q psy7362 39 KSKPEEEEDVEV 50 (137)
Q Consensus 39 ks~~e~deevdV 50 (137)
....+++|||||
T Consensus 235 ~eeeeeeEEIDV 246 (329)
T PF01056_consen 235 EEEEEEEEEIDV 246 (329)
T ss_dssp ------------
T ss_pred ccccCCCcceEE
Confidence 334455666654
No 10
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=16.49 E-value=1.3e+02 Score=22.95 Aligned_cols=50 Identities=18% Similarity=0.215 Sum_probs=0.0
Q ss_pred hhhhhhhHHHhhhcCCCCCCCCcccccc--cccccCCCCccccccccceecC
Q psy7362 7 IKREEHNIIQKRKQSNSTISDEDDEENE--VDEWKSKPEEEEDVEVDVEECS 56 (137)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ks~~e~deevdVdVeecS 56 (137)
+.+|-..|+..|...-..++..+++..- ....+.+.-...+..|+|.+||
T Consensus 134 le~ei~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~f~f~~~~~~v~~~~~s 185 (203)
T cd04105 134 LEKELNTLRESRSKSLSSLDGDEGSKESLGDKGGKSFEFDQLEGKVEFLEGS 185 (203)
T ss_pred HHHHHHHHHHHHhccccccccccccccccccccCcceeeccCceeEEEEEeE
Done!