Query psy15859
Match_columns 175
No_of_seqs 93 out of 104
Neff 3.9
Searched_HMMs 46136
Date Fri Aug 16 23:11:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15859.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15859hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10484 MRP-S23: Mitochondria 100.0 8.3E-56 1.8E-60 347.9 11.8 125 2-129 1-125 (127)
2 PF13741 MRP-S25: Mitochondria 100.0 2E-31 4.3E-36 227.0 4.3 131 8-152 6-179 (231)
3 COG5625 Predicted transcriptio 36.5 18 0.00039 28.6 1.1 33 11-43 52-86 (113)
4 PF01978 TrmB: Sugar-specific 28.9 16 0.00034 24.6 -0.3 31 10-42 37-67 (68)
5 PTZ00458 acyl CoA binding prot 28.7 1.9E+02 0.0042 21.5 5.4 57 65-125 23-81 (90)
6 COG1791 Uncharacterized conser 22.4 79 0.0017 27.0 2.6 27 31-75 65-91 (181)
7 PF05458 Siva: Cd27 binding pr 22.3 38 0.00082 28.2 0.7 18 9-26 35-52 (175)
8 KOG4073|consensus 21.4 49 0.0011 25.9 1.1 24 12-39 49-72 (104)
9 PF15021 DUF4521: Protein of u 20.3 1.1E+02 0.0025 26.5 3.2 50 56-108 85-137 (206)
10 COG0773 MurC UDP-N-acetylmuram 16.9 67 0.0014 30.8 1.1 37 13-49 364-402 (459)
No 1
>PF10484 MRP-S23: Mitochondrial ribosomal protein S23; InterPro: IPR023611 This entry represents a domain found in both the mitochondrial ribosomal 23S and 25S proteins. The function of this conserved region is not known. In Saccharomyces cerevisiae (Baker's yeast) the mature mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S subunit contains at least 33 different proteins and 1 molecule of RNA (15S). The 54S subunit contains at least 45 different proteins and 1 molecule of RNA (21S) [, ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome
Probab=100.00 E-value=8.3e-56 Score=347.90 Aligned_cols=125 Identities=47% Similarity=0.807 Sum_probs=119.4
Q ss_pred CCccccccchHHHHHHHHHHcCCCCCCCCCcceeeeccCCCCCCCCcCCCCCCCCCCcccchhhHHHHHHHHhhCCCCCc
Q psy15859 2 ASSRLEKIGTIFTRVTGLLRAGAMNVNEKPIWYDVYRAFPPKVEPLYSRPIADVPIKEIIYPEDSIRAKLHKALGKKMPG 81 (175)
Q Consensus 2 A~SRlek~GtIftRts~LLrsG~lk~~ekPlWYDVyaAfPPk~EP~~~rP~~~~~v~kI~Y~ED~IRAkFykqy~~~~~p 81 (175)
|||||||+|||||||+||||||+|||+|||||||||+||||++||+|+||.+..+||+|+|.||.|||+||+ |++++++
T Consensus 1 AgSRlEk~GtIftRv~~LlrsG~~k~~dkPLWyDVY~aFPP~~EP~~~rp~~~~~vr~I~Y~ED~iRAkFyk-~~~~~~~ 79 (127)
T PF10484_consen 1 AGSRLEKIGTIFTRVRGLLRSGAMKWEDKPLWYDVYEAFPPKREPRYDRPLPKKPVREIFYEEDIIRAKFYK-YGRGPEA 79 (127)
T ss_pred CCcchhhccchhHHHHHHHHcCCCCcccCCceeeehhcCCCCCCCcccCcCCCCCccccccHHHHHHHHHHH-cCCCCcc
Confidence 899999999999999999999999999999999999999999999999999999999999999999999999 6998999
Q ss_pred cccCCCCCCCchhhhhHHHHHhhhcCCCCChHHHHHHHHHHHHHhhhh
Q psy15859 82 YNLLEKNRPTVSQKIILQTLQHQKEDPSLSEDEALAKAIETYNSEIRQ 129 (175)
Q Consensus 82 ~~Ls~pk~~s~~q~F~veky~~l~q~g~Ld~Esvfq~T~~lL~~e~~~ 129 (175)
++|++++++|.||+| |++|++|+++|.+|+|. |++|.++|+++...
T Consensus 80 ~~L~~~~~~s~~Q~F-v~kY~~l~~~~~~~ee~-f~~t~k~l~~eg~~ 125 (127)
T PF10484_consen 80 FNLFDPNFKSTCQRF-VEKYQELKKEGELDEEA-FEETAKALLAEGII 125 (127)
T ss_pred eecccCCCCcHHHHH-HHHHHHHHHcCCCcHHH-HHHHHHHHHHcCcc
Confidence 999999999999999 99999999999666666 99999999887654
No 2
>PF13741 MRP-S25: Mitochondrial ribosomal protein S25
Probab=99.97 E-value=2e-31 Score=227.02 Aligned_cols=131 Identities=20% Similarity=0.429 Sum_probs=112.1
Q ss_pred ccchHHHHHHHHHHcCCCCCCCCCcceeeeccCCCCC----CCCcCCC--------------------------------
Q psy15859 8 KIGTIFTRVTGLLRAGAMNVNEKPIWYDVYRAFPPKV----EPLYSRP-------------------------------- 51 (175)
Q Consensus 8 k~GtIftRts~LLrsG~lk~~ekPlWYDVyaAfPPk~----EP~~~rP-------------------------------- 51 (175)
.+.+|+.|||++|++|+|+ ++|+||||++++||.. +|....+
T Consensus 6 ~A~~V~q~~S~~L~sG~l~--~~P~Wy~vV~~~PP~~~l~R~~~~~~~~~~~~~~~~~~~~~~~~~~~ktr~~~~~~~~~ 83 (231)
T PF13741_consen 6 NASNVLQRTSALLKSGLLK--QPPAWYDVVASIPPSTKLTRQPPPRHPSDNQRRKQLPGFSKPQNGLYKTRSNRKDKKRK 83 (231)
T ss_pred hHhHHHHHHHHHHhcCCCC--CCCchHHHHHhCCCCcccCCCCCCcCccccccccccccccccccccccccccccccccc
Confidence 5678999999999999999 9999999999999983 2221111
Q ss_pred -CCCCCCCcccchhhHHHHHHHHhhCCCCCccccCCCCCCCch-----hhhhHHHHHhhhcCC-CCChHHHHHHHHHHHH
Q psy15859 52 -IADVPIKEIIYPEDSIRAKLHKALGKKMPGYNLLEKNRPTVS-----QKIILQTLQHQKEDP-SLSEDEALAKAIETYN 124 (175)
Q Consensus 52 -~~~~~v~kI~Y~ED~IRAkFykqy~~~~~p~~Ls~pk~~s~~-----q~F~veky~~l~q~g-~Ld~Esvfq~T~~lL~ 124 (175)
...+++++|.|.||+||..||++ | ||+|++|+++.++ ++.| |++|+|.| +||||+|||+|++||+
T Consensus 84 ~~~~~rp~kI~y~ED~LR~~Fy~d----H-PWElaRPk~lvE~~g~d~~~~D---WS~l~Q~gk~ldgEsvVQRtL~Ll~ 155 (231)
T PF13741_consen 84 PSRLFRPPKIKYEEDKLRRQFYRD----H-PWELARPKILVENDGKDVQKCD---WSRLRQPGKPLDGESVVQRTLWLLN 155 (231)
T ss_pred ccccCCCCCccCcHHHHHHHHhhc----C-ChhhcCCceeeecCCCccccCC---hhhhhcCCCCCcHHHHHHHHHHHHh
Confidence 01278999999999999999999 9 9999999988544 3566 99999999 9999999999999999
Q ss_pred HhhhhhccCCCccccCCCCccccCCccc
Q psy15859 125 SEIRQVKADDIPEDFNKPKFGYYKTKPS 152 (175)
Q Consensus 125 ~e~~~~~~~~~~e~~~~~~f~~~~~~~~ 152 (175)
.. ...++.+|||.++||||.-+.+
T Consensus 156 n~----~~~~~~~AYd~Ar~EFy~LR~~ 179 (231)
T PF13741_consen 156 NV----ENLSLSEAYDQARFEFYRLRME 179 (231)
T ss_pred cc----CCCCHHHHHHHHHHHHHHHHHH
Confidence 85 7778889999999999986643
No 3
>COG5625 Predicted transcription regulator containing HTH domain [Transcription]
Probab=36.53 E-value=18 Score=28.58 Aligned_cols=33 Identities=30% Similarity=0.498 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHcCCCC-CCCCCccee-eeccCCCC
Q psy15859 11 TIFTRVTGLLRAGAMN-VNEKPIWYD-VYRAFPPK 43 (175)
Q Consensus 11 tIftRts~LLrsG~lk-~~ekPlWYD-VyaAfPPk 43 (175)
||+.+|.+|+|.|+++ .-=.--|.- ||++-||.
T Consensus 52 tvr~~v~~l~rrGll~relvqkgWvGYiya~~~P~ 86 (113)
T COG5625 52 TVRAAVAVLLRRGLLARELVQKGWVGYIYATTPPP 86 (113)
T ss_pred HHHHHHHHHHHhhHHHHHHHhccceeeEecCCCCc
Confidence 6899999999999997 111223764 78888885
No 4
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=28.93 E-value=16 Score=24.60 Aligned_cols=31 Identities=29% Similarity=0.514 Sum_probs=24.3
Q ss_pred chHHHHHHHHHHcCCCCCCCCCcceeeeccCCC
Q psy15859 10 GTIFTRVTGLLRAGAMNVNEKPIWYDVYRAFPP 42 (175)
Q Consensus 10 GtIftRts~LLrsG~lk~~ekPlWYDVyaAfPP 42 (175)
.+|+.-+..|.+.|++. ..+-...+|.|-||
T Consensus 37 ~~v~~~L~~L~~~GlV~--~~~~~~~~Y~a~~p 67 (68)
T PF01978_consen 37 STVYRALKSLEEKGLVE--REEGRPKVYRAVPP 67 (68)
T ss_dssp HHHHHHHHHHHHTTSEE--EEEECCEEEEEE-H
T ss_pred HHHHHHHHHHHHCCCEE--EEcCceEEEEEeCC
Confidence 47889999999999998 44455778888887
No 5
>PTZ00458 acyl CoA binding protein; Provisional
Probab=28.67 E-value=1.9e+02 Score=21.55 Aligned_cols=57 Identities=16% Similarity=0.119 Sum_probs=36.5
Q ss_pred hHHHHHHHHhh--CCCCCccccCCCCCCCchhhhhHHHHHhhhcCCCCChHHHHHHHHHHHHH
Q psy15859 65 DSIRAKLHKAL--GKKMPGYNLLEKNRPTVSQKIILQTLQHQKEDPSLSEDEALAKAIETYNS 125 (175)
Q Consensus 65 D~IRAkFykqy--~~~~~p~~Ls~pk~~s~~q~F~veky~~l~q~g~Ld~Esvfq~T~~lL~~ 125 (175)
|..+=.||.-| ...+ +.+...|.....-.++ ||....+++.++.++.-++=+.+|++
T Consensus 23 ~d~~L~lYalyKQAt~G-~c~~~~P~~~d~~~ra---Kw~AW~~l~~ms~~eA~~~YI~l~~~ 81 (90)
T PTZ00458 23 VEIKLDLYKYYKQSTVG-NCNIKEPSMFKYQDRK---KYEAWKSIENLNREDAKKRYVEIVTE 81 (90)
T ss_pred HHHHHHHHHHHhhhccC-CCCCCCCCcccHHHHH---HHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 44455554443 4444 6667777665555555 47777777888888877777777765
No 6
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=22.37 E-value=79 Score=26.98 Aligned_cols=27 Identities=30% Similarity=0.300 Sum_probs=21.0
Q ss_pred CcceeeeccCCCCCCCCcCCCCCCCCCCcccchhhHHHHHHHHhh
Q psy15859 31 PIWYDVYRAFPPKVEPLYSRPIADVPIKEIIYPEDSIRAKLHKAL 75 (175)
Q Consensus 31 PlWYDVyaAfPPk~EP~~~rP~~~~~v~kI~Y~ED~IRAkFykqy 75 (175)
=.|+||+.-.| ..|.+ |.+||+|++.+
T Consensus 65 yk~~Dvvsv~~--~~pk~----------------del~akF~~EH 91 (181)
T COG1791 65 YKNRDVVSVSP--SNPKL----------------DELRAKFLQEH 91 (181)
T ss_pred CceeeEEEeCC--CCccH----------------HHHHHHHHHHh
Confidence 45999998888 44544 89999999873
No 7
>PF05458 Siva: Cd27 binding protein (Siva); InterPro: IPR022773 Siva binds to the CD27 cytoplasmic tail. It has a DD homology region, a box-B-like ring finger, and a zinc finger-like domain. Overexpression of Siva in various cell lines induces apoptosis, suggesting an important role for Siva in the CD27-transduced apoptotic pathway []. Siva-1 binds to and inhibits BCL-X(L)-mediated protection against UV radiation-induced apoptosis. Indeed, the unique amphipathic helical region (SAH) present in Siva-1 is required for its binding to BCL-X(L) and sensitising cells to UV radiation. Natural complexes of Siva-1/BCL-X(L) are detected in HUT78 and murine thymocyte, suggesting a potential role for Siva-1 in regulating T cell homeostasis []. This family contains both Siva-1 and the shorter Siva-2 lacking the sequence coded by exon 2. It has been suggested that Siva-2 could regulate the function of Siva-1 [].
Probab=22.32 E-value=38 Score=28.17 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=15.1
Q ss_pred cchHHHHHHHHHHcCCCC
Q psy15859 9 IGTIFTRVTGLLRAGAMN 26 (175)
Q Consensus 9 ~GtIftRts~LLrsG~lk 26 (175)
-=-||++|..||..|+=.
T Consensus 35 mkeVyEKTkqLLF~GAka 52 (175)
T PF05458_consen 35 MKEVYEKTKQLLFRGAKA 52 (175)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 335999999999999865
No 8
>KOG4073|consensus
Probab=21.43 E-value=49 Score=25.94 Aligned_cols=24 Identities=42% Similarity=0.908 Sum_probs=17.9
Q ss_pred HHHHHHHHHHcCCCCCCCCCcceeeecc
Q psy15859 12 IFTRVTGLLRAGAMNVNEKPIWYDVYRA 39 (175)
Q Consensus 12 IftRts~LLrsG~lk~~ekPlWYDVyaA 39 (175)
.++||. |++-.+. +-|.|+.||-.
T Consensus 49 FmtrVa--l~Ae~~~--HHPew~nvynk 72 (104)
T KOG4073|consen 49 FMTRVA--LRAEKLG--HHPEWFNVYNK 72 (104)
T ss_pred HHHHHH--HHHHHhc--CCchhheeeee
Confidence 466775 5666666 99999999964
No 9
>PF15021 DUF4521: Protein of unknown function (DUF4521)
Probab=20.34 E-value=1.1e+02 Score=26.46 Aligned_cols=50 Identities=14% Similarity=0.163 Sum_probs=37.6
Q ss_pred CCCcccchhhHHHH---HHHHhhCCCCCccccCCCCCCCchhhhhHHHHHhhhcCC
Q psy15859 56 PIKEIIYPEDSIRA---KLHKALGKKMPGYNLLEKNRPTVSQKIILQTLQHQKEDP 108 (175)
Q Consensus 56 ~v~kI~Y~ED~IRA---kFykqy~~~~~p~~Ls~pk~~s~~q~F~veky~~l~q~g 108 (175)
--.+..|.+|-+|. +||+.|+..+ |-. -||-..+.||-. -+|-++|+.++
T Consensus 85 gq~e~~~EddglRkSLD~FYe~f~~pq-P~s-~dpls~svcqcL-SqkI~EL~~qe 137 (206)
T PF15021_consen 85 GQSETKEEDDGLRKSLDRFYEMFGHPQ-PAS-GDPLSASVCQCL-SQKISELRGQE 137 (206)
T ss_pred CCCCcccccchHHHHHHHHHHHhCCCC-CCC-CCcchHHHHHHH-HHHHHHHhccc
Confidence 45678999999996 7999999866 321 244445788989 88888888765
No 10
>COG0773 MurC UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]
Probab=16.87 E-value=67 Score=30.80 Aligned_cols=37 Identities=30% Similarity=0.352 Sum_probs=30.2
Q ss_pred HHHHHHHHHc--CCCCCCCCCcceeeeccCCCCCCCCcC
Q psy15859 13 FTRVTGLLRA--GAMNVNEKPIWYDVYRAFPPKVEPLYS 49 (175)
Q Consensus 13 ftRts~LLrs--G~lk~~ekPlWYDVyaAfPPk~EP~~~ 49 (175)
||||.+++.. .++...|.-+++|||+|.++..+..++
T Consensus 364 ySRt~~~~~dF~~~l~~AD~v~l~~VY~A~e~~~~g~~~ 402 (459)
T COG0773 364 YSRTRDLLDDFAKALSDADEVILLDVYAAGEEPIEGDVS 402 (459)
T ss_pred hHhHHHHHHHHHHHHhcCCEEEEecccccCCCCCcCCcc
Confidence 7899999874 566788999999999999987765444
Done!