Query 003494
Match_columns 815
No_of_seqs 128 out of 130
Neff 3.9
Searched_HMMs 29240
Date Tue Mar 26 17:46:44 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/003494.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1544-1548//hhsearch_pdb/003494hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wj7_A Hypothetical protein (R 1.0 1 1 84.7 5.0 55 22-76 37-95 (104)
2 2dhy_A CUE domain-containing p 1.0 1 1 43.7 6.1 46 17-62 11-57 (67)
3 1wgl_A TOLL-interacting protei 1.0 1 1 43.2 4.9 45 19-63 4-49 (59)
4 1vg5_A RSGI RUH-014, rhomboid 1.0 1 1 42.7 5.0 44 19-63 24-67 (73)
5 1otr_A Protein CUE2; protein-p 1.0 1 1 40.7 4.0 42 22-63 2-44 (49)
6 2cp9_A EF-TS, EF-TSMT, elongat 1.0 1 1 40.5 5.1 43 17-62 5-47 (64)
7 1ify_A HHR23A, UV excision rep 1.0 1 1 39.8 3.8 41 22-63 6-46 (49)
8 2knz_A Ubiquilin-4; cytoplasm, 1.0 1 1 38.9 4.4 41 22-63 9-50 (53)
9 1wr1_B Ubiquitin-like protein 1.0 1 1 38.5 4.1 41 22-63 15-56 (58)
10 2dah_A Ubiquilin-3; UBA domain 1.0 1 1 37.4 4.4 40 22-62 7-47 (54)
No 1
>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1
Probab=1.00 E-value=1 Score=84.65 Aligned_cols=55 Identities=29% Similarity=0.386 Sum_probs=49.5
Q ss_pred CCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHCCC----CCCEEECCCCCC
Q ss_conf 4159998854301388857899998730799779998551599----840210232111
Q 003494 22 AGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQD----PFHEVKSKRDKR 76 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~~~seedi~~aL~ecn~D~n~av~rLl~q~----~f~EVkkKr~kk 76 (815)
.+++++|+.|+|+++++++++..||.+||+|+++||.+|+++. .|++|+|||.+.
T Consensus 37 ~d~eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg~~~~~~W~~~~kKk~~~ 95 (104)
T 1wj7_A 37 ADFEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNPDTHSWEMVGKKKGVS 95 (104)
T ss_dssp HHHHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCSSSCSSCSSCCCCCCSS
T ss_pred CCHHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCC
T ss_conf 12789999999862989999999999949989999999982898678245522444456
No 2
>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=43.70 Aligned_cols=46 Identities=13% Similarity=0.140 Sum_probs=41.5
Q ss_pred CCCCCCCHHHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHHHHHHHC
Q ss_conf 5458941599988543013-888578999987307997799985515
Q 003494 17 ISSIPAGSRKIVQSLKEIV-NCPESEIYAMLKECNMDPNEAVNRLLS 62 (815)
Q Consensus 17 ~~~ip~~~rk~Vq~ikEi~-~~seedi~~aL~ecn~D~n~av~rLl~ 62 (815)
...--..+++.|+.||+|| +...+.|-.+|+.|++|++.||+.||.
T Consensus 11 ~~~~~~~~~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~ 57 (67)
T 2dhy_A 11 RQVRRLEFNQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQ 57 (67)
T ss_dssp CCCCCCCSHHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 33037878999999999878899999999999949978999999982
No 3
>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4
Probab=1.00 E-value=1 Score=43.19 Aligned_cols=45 Identities=18% Similarity=0.285 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 58941599988543013-8885789999873079977999855159
Q 003494 19 SIPAGSRKIVQSLKEIV-NCPESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 19 ~ip~~~rk~Vq~ikEi~-~~seedi~~aL~ecn~D~n~av~rLl~q 63 (815)
..|.-+++.|+.|+|+| +..++-|-.+|+.|++|++.||+.||+.
T Consensus 4 ~~~~~~ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m 49 (59)
T 1wgl_A 4 GSSGCSEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQM 49 (59)
T ss_dssp CSSSSCHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHS
T ss_pred CCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHCC
T ss_conf 8888789999999998799999999999999499789999999817
No 4
>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1
Probab=1.00 E-value=1 Score=42.70 Aligned_cols=44 Identities=25% Similarity=0.262 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 589415999885430138885789999873079977999855159
Q 003494 19 SIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 19 ~ip~~~rk~Vq~ikEi~~~seedi~~aL~ecn~D~n~av~rLl~q 63 (815)
.....++++|++|.|| +++++++..||+.|++|++.|++.|+.+
T Consensus 24 ~~~~~~ee~I~~L~eM-GF~r~~a~~AL~~~~~nve~Ave~Ll~~ 67 (73)
T 1vg5_A 24 GRVAASEEQIQKLVAM-GFDRTQVEVALAAADDDLTVAVEILMSQ 67 (73)
T ss_dssp CCSCCCHHHHHHHHTT-TCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred CCCCCCHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHC
T ss_conf 6784249999999983-9999999999999389999999999977
No 5
>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4
Probab=1.00 E-value=1 Score=40.69 Aligned_cols=42 Identities=19% Similarity=0.227 Sum_probs=38.9
Q ss_pred CCHHHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 41599988543013-8885789999873079977999855159
Q 003494 22 AGSRKIVQSLKEIV-NCPESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~-~~seedi~~aL~ecn~D~n~av~rLl~q 63 (815)
.+.+++|+.|.||| .++.++|-.+|..|+||.++|++-||+.
T Consensus 2 ~~~e~~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~ 44 (49)
T 1otr_A 2 DDHESKLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLLKE 44 (49)
T ss_dssp CSHHHHHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf 2258899999987899989999999999299899999999835
No 6
>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2
Probab=1.00 E-value=1 Score=40.46 Aligned_cols=43 Identities=16% Similarity=0.163 Sum_probs=37.4
Q ss_pred CCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHC
Q ss_conf 5458941599988543013888578999987307997799985515
Q 003494 17 ISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLS 62 (815)
Q Consensus 17 ~~~ip~~~rk~Vq~ikEi~~~seedi~~aL~ecn~D~n~av~rLl~ 62 (815)
...|+ .+.|+.|+|.++.+..||..||.||++|.+.||..|-+
T Consensus 5 ~~~it---~~~Vk~LRe~TGag~~dcKkAL~e~~GDi~~Ai~~Lr~ 47 (64)
T 2cp9_A 5 SSGSS---KELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHK 47 (64)
T ss_dssp SSCCC---CHHHHHHHHHHCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred CCCCC---HHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 56579---99999999996988999999999949999999999999
No 7
>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=1.00 E-value=1 Score=39.85 Aligned_cols=41 Identities=17% Similarity=0.323 Sum_probs=38.0
Q ss_pred CCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 415999885430138885789999873079977999855159
Q 003494 22 AGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~~~seedi~~aL~ecn~D~n~av~rLl~q 63 (815)
...+++|++|.+| +++++++..||+.|++|++.|++.|+++
T Consensus 6 ~~~~~~i~~L~~M-GF~~~~a~~AL~~~~~n~e~A~e~L~~g 46 (49)
T 1ify_A 6 SEYETMLTEIMSM-GYERERVVAALRASYNNPHRAVEYLLTG 46 (49)
T ss_dssp HHHHHHHHHHHHT-TCCHHHHHHHHHTTTSCSHHHHHHHHHC
T ss_pred CCCHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHC
T ss_conf 5479999999992-9999999999999399999999999867
No 8
>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=38.87 Aligned_cols=41 Identities=20% Similarity=0.230 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHCCCC-CHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 4159998854301388-85789999873079977999855159
Q 003494 22 AGSRKIVQSLKEIVNC-PESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~~~-seedi~~aL~ecn~D~n~av~rLl~q 63 (815)
..++++|++|++| +. .++.+..||+.|++|++.||+.|++.
T Consensus 9 ~~~~~~l~~L~~M-GF~~~~~~~~AL~~t~gnve~Ave~L~~~ 50 (53)
T 2knz_A 9 VRFQQQLEQLNSM-GFINREANLQALIATGGDINAAIERLLGS 50 (53)
T ss_dssp HHHHHHHHHHHTT-TCCCHHHHHHHHHHHTSCHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHC-CCCCHHHHHHHHHHHCCCHHHHHHHHHHC
T ss_conf 4799999999981-89989999999999199999999999976
No 9
>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1
Probab=1.00 E-value=1 Score=38.46 Aligned_cols=41 Identities=15% Similarity=0.141 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHCCCCC-HHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 41599988543013888-5789999873079977999855159
Q 003494 22 AGSRKIVQSLKEIVNCP-ESEIYAMLKECNMDPNEAVNRLLSQ 63 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~~~s-eedi~~aL~ecn~D~n~av~rLl~q 63 (815)
..++++|++|++| +.+ ++.+..||+.|++|++.||++|+..
T Consensus 15 ~~~~~qi~~L~~M-GF~d~~~~~~AL~~~~gnve~Ave~L~~~ 56 (58)
T 1wr1_B 15 ERYEHQLRQLNDM-GFFDFDRNVAALRRSGGSVQGALDSLLNG 56 (58)
T ss_dssp HHTHHHHHHHHHH-TCCCHHHHHHHHHHHTSCHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHC-CCCCHHHHHHHHHHHCCCHHHHHHHHHHC
T ss_conf 7899999999981-89969999999999099999999999828
No 10
>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=1.00 E-value=1 Score=37.40 Aligned_cols=40 Identities=18% Similarity=0.169 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHCCCCCHHH-HHHHHHHCCCCHHHHHHHHHC
Q ss_conf 41599988543013888578-999987307997799985515
Q 003494 22 AGSRKIVQSLKEIVNCPESE-IYAMLKECNMDPNEAVNRLLS 62 (815)
Q Consensus 22 ~~~rk~Vq~ikEi~~~seed-i~~aL~ecn~D~n~av~rLl~ 62 (815)
..++++|++|++| +.++++ +..||+.|++|++.||++|+.
T Consensus 7 ~~~~~~l~~L~~M-GF~d~~~n~~AL~~~~Gdv~~Ave~L~~ 47 (54)
T 2dah_A 7 GHFQVQLEQLRSM-GFLNREANLQALIATGGDVDAAVEKLRQ 47 (54)
T ss_dssp CSSHHHHHHHHHH-TCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 6679999999985-9995899999999919999999999984
Done!