Query 021111
Match_columns 317
No_of_seqs 152 out of 301
Neff 2.4
Searched_HMMs 29240
Date Mon Mar 25 12:54:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021111.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/021111hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2knz_A Ubiquilin-4; cytoplasm, 24.4 33 0.0011 23.9 1.6 13 90-103 11-23 (53)
2 2ay0_A Bifunctional PUTA prote 23.8 85 0.0029 22.1 3.7 36 83-123 7-42 (58)
3 1vg5_A RSGI RUH-014, rhomboid 22.1 20 0.00067 27.2 0.1 20 85-105 24-43 (73)
4 3t5v_A Nuclear mRNA export pro 21.5 29 0.00099 32.0 1.1 20 96-115 229-248 (316)
5 1uxc_A FRUR (1-57), fructose r 19.1 55 0.0019 23.4 1.9 23 84-106 28-50 (65)
6 2gpe_A Bifunctional protein PU 17.2 89 0.003 20.6 2.5 34 83-121 7-40 (52)
7 1ify_A HHR23A, UV excision rep 16.9 99 0.0034 21.1 2.8 16 89-105 7-22 (49)
8 4b0z_A RPN12, 26S proteasome r 14.1 71 0.0024 27.5 1.8 23 94-116 193-215 (229)
9 1v58_A Thiol:disulfide interch 14.0 45 0.0015 28.2 0.4 10 217-226 191-200 (241)
10 4b4t_T 26S proteasome regulato 13.8 73 0.0025 28.5 1.8 23 94-116 202-224 (274)
No 1
>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}
Probab=24.38 E-value=33 Score=23.89 Aligned_cols=13 Identities=23% Similarity=0.276 Sum_probs=8.4
Q ss_pred HHHHHHhhhhhhCC
Q 021111 90 CAARIFQLTRELGH 103 (317)
Q Consensus 90 ~A~rfF~Lqd~LGf 103 (317)
+..++-.|.+| ||
T Consensus 11 ~~~~l~~L~~M-GF 23 (53)
T 2knz_A 11 FQQQLEQLNSM-GF 23 (53)
T ss_dssp HHHHHHHHHTT-TC
T ss_pred HHHHHHHHHHc-CC
Confidence 44566667765 88
No 2
>2ay0_A Bifunctional PUTA protein; ribbon-helix-helix, DNA-binding domain, proline catabo proline utilization A, DNA binding protein; 2.10A {Escherichia coli} SCOP: a.43.1.11
Probab=23.78 E-value=85 Score=22.13 Aligned_cols=36 Identities=22% Similarity=0.325 Sum_probs=28.8
Q ss_pred eeecCHHHHHHHHhhhhhhCCCCCchHHHHHHHhchHHHHH
Q 021111 83 RIRMPALCAARIFQLTRELGHKSDGETIQWLLQQAEPSIIA 123 (317)
Q Consensus 83 RvRLs~~~A~rfF~Lqd~LGfdk~skTIeWLL~qak~AI~~ 123 (317)
-||||.+...++=.|.+.+| .+.-||+++|=.+..+
T Consensus 7 svrL~~el~~rL~~lA~~~~-----rs~s~lireAi~~yl~ 42 (58)
T 2ay0_A 7 GVMLDDATRERIKSAATRID-----RTPHWLIKQAIFSYLE 42 (58)
T ss_dssp EEEECHHHHHHHHHHHHHTT-----CCHHHHHHHHHHHHHH
T ss_pred EeECCHHHHHHHHHHHHHHC-----cCHHHHHHHHHHHHHH
Confidence 48999999999999999988 5678998776544443
No 3
>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=22.10 E-value=20 Score=27.15 Aligned_cols=20 Identities=20% Similarity=0.159 Sum_probs=12.6
Q ss_pred ecCHHHHHHHHhhhhhhCCCC
Q 021111 85 RMPALCAARIFQLTRELGHKS 105 (317)
Q Consensus 85 RLs~~~A~rfF~Lqd~LGfdk 105 (317)
+....+..++-.|.+| ||+.
T Consensus 24 ~~~~~~ee~I~~L~eM-GF~r 43 (73)
T 1vg5_A 24 GRVAASEEQIQKLVAM-GFDR 43 (73)
T ss_dssp CCSCCCHHHHHHHHTT-TCCH
T ss_pred cCCcccHHHHHHHHHc-CCCH
Confidence 4455555667777765 7764
No 4
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Probab=21.51 E-value=29 Score=31.98 Aligned_cols=20 Identities=20% Similarity=0.110 Sum_probs=17.8
Q ss_pred hhhhhhCCCCCchHHHHHHH
Q 021111 96 QLTRELGHKSDGETIQWLLQ 115 (317)
Q Consensus 96 ~Lqd~LGfdk~skTIeWLL~ 115 (317)
.|+++||||++.++++|+-.
T Consensus 229 ~L~~~L~Fds~ee~~~F~~~ 248 (316)
T 3t5v_A 229 YLENMLLFNNRQEIIEFCNY 248 (316)
T ss_dssp HHHHHTTCSSHHHHHHHHHH
T ss_pred HHHHHhCCCCHHHHHHHHHH
Confidence 48999999999999999843
No 5
>1uxc_A FRUR (1-57), fructose repressor; DNA-binding protein, LACI family, transc regulation; NMR {Escherichia coli} SCOP: a.35.1.5 PDB: 1uxd_A
Probab=19.07 E-value=55 Score=23.36 Aligned_cols=23 Identities=13% Similarity=0.291 Sum_probs=20.4
Q ss_pred eecCHHHHHHHHhhhhhhCCCCC
Q 021111 84 IRMPALCAARIFQLTRELGHKSD 106 (317)
Q Consensus 84 vRLs~~~A~rfF~Lqd~LGfdk~ 106 (317)
.+++.+++.++...-++|||..+
T Consensus 28 ~~vs~et~~rI~~aa~~lgY~pn 50 (65)
T 1uxc_A 28 YRVSDKTVEKVMAVVREHNYHPN 50 (65)
T ss_dssp TTCTTHHHHHHHHHHHHHTCCCC
T ss_pred CCCCHHHHHHHHHHHHHhCCCcc
Confidence 47899999999999999999754
No 6
>2gpe_A Bifunctional protein PUTA; ribbon-helix-helix, DNA-binding domain, proline catabo proline utilization A, DNA binding protein; 1.90A {Escherichia coli} PDB: 2rbf_A* 2jxg_A 2jxh_A 2jxi_A*
Probab=17.22 E-value=89 Score=20.64 Aligned_cols=34 Identities=24% Similarity=0.359 Sum_probs=27.2
Q ss_pred eeecCHHHHHHHHhhhhhhCCCCCchHHHHHHHhchHHH
Q 021111 83 RIRMPALCAARIFQLTRELGHKSDGETIQWLLQQAEPSI 121 (317)
Q Consensus 83 RvRLs~~~A~rfF~Lqd~LGfdk~skTIeWLL~qak~AI 121 (317)
-||||.+...++=.|....| .+..||+++|=.+-
T Consensus 7 sirl~~~l~~~l~~lA~~~~-----rs~s~lir~Ai~~y 40 (52)
T 2gpe_A 7 GVKLDDATRERIKSAATRID-----RTPHWLIKQAIFSY 40 (52)
T ss_dssp EEEEEHHHHHHHHHHHHHTT-----CCHHHHHHHHHHHH
T ss_pred EEECCHHHHHHHHHHHHHHC-----cCHHHHHHHHHHHH
Confidence 48999999999999999988 36678887764443
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=16.94 E-value=99 Score=21.07 Aligned_cols=16 Identities=6% Similarity=0.071 Sum_probs=9.5
Q ss_pred HHHHHHHhhhhhhCCCC
Q 021111 89 LCAARIFQLTRELGHKS 105 (317)
Q Consensus 89 ~~A~rfF~Lqd~LGfdk 105 (317)
.+..++-+|.+| ||+.
T Consensus 7 ~~~~~i~~L~~M-GF~~ 22 (49)
T 1ify_A 7 EYETMLTEIMSM-GYER 22 (49)
T ss_dssp HHHHHHHHHHHT-TCCH
T ss_pred cCHHHHHHHHHc-CCCH
Confidence 345556667666 7753
No 8
>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe}
Probab=14.10 E-value=71 Score=27.50 Aligned_cols=23 Identities=17% Similarity=0.024 Sum_probs=19.3
Q ss_pred HHhhhhhhCCCCCchHHHHHHHh
Q 021111 94 IFQLTRELGHKSDGETIQWLLQQ 116 (317)
Q Consensus 94 fF~Lqd~LGfdk~skTIeWLL~q 116 (317)
+-+++++|||+++.++++|+-..
T Consensus 193 l~~~~~~L~f~s~~e~~~f~~~~ 215 (229)
T 4b0z_A 193 LSNATSLLYLENTKETEKLAEER 215 (229)
T ss_dssp HHHHHHHTTCSSHHHHHHHHHHH
T ss_pred HHHHHHHhCCCCHHHHHHHHHHc
Confidence 34788999999999999998653
No 9
>1v58_A Thiol:disulfide interchange protein DSBG; reduced DSBG, redox protein, protein disulfide isomerase, thioredoxin fold; 1.70A {Escherichia coli} SCOP: c.47.1.9 d.17.3.1 PDB: 1v57_A 2h0i_A 2h0h_A 2h0g_A 2iy2_A
Probab=13.98 E-value=45 Score=28.18 Aligned_cols=10 Identities=10% Similarity=0.165 Sum_probs=6.9
Q ss_pred cccccCCCcc
Q 021111 217 YLQKMGFPGF 226 (317)
Q Consensus 217 ~~~~~gf~g~ 226 (317)
..+++|+.|+
T Consensus 191 l~~~~gv~gt 200 (241)
T 1v58_A 191 LMDDLGANVT 200 (241)
T ss_dssp HHHHHTCCSS
T ss_pred HHHHcCCCCC
Confidence 4567777776
No 10
>4b4t_T 26S proteasome regulatory subunit RPN12; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=13.76 E-value=73 Score=28.48 Aligned_cols=23 Identities=17% Similarity=0.244 Sum_probs=0.0
Q ss_pred HHhhhhhhCCCCCchHHHHHHHh
Q 021111 94 IFQLTRELGHKSDGETIQWLLQQ 116 (317)
Q Consensus 94 fF~Lqd~LGfdk~skTIeWLL~q 116 (317)
+-+++++|+|+++.++++|+...
T Consensus 202 l~~~~~~L~F~s~~e~~~F~~~~ 224 (274)
T 4b4t_T 202 LSNIKALLFFNNEKETEKFALER 224 (274)
T ss_dssp HHHHHHHHTCCSHHHHHHHHHHT
T ss_pred HHHHHHHhCCCCHHHHHHHHHHc
Done!