Query 027837
Match_columns 218
No_of_seqs 122 out of 185
Neff 3.3
Searched_HMMs 29240
Date Tue Mar 26 18:03:35 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/027837.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2206-2209//hhsearch_pdb/027837hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1hme_A High mobility group pro 1.0 1 1 43.6 5.3 48 126-173 2-49 (77)
2 2co9_A Thymus high mobility gr 1.0 1 1 43.6 5.5 48 126-173 13-60 (102)
3 1wgf_A Upstream binding factor 1.0 1 1 43.4 4.9 49 125-173 15-63 (90)
4 1wz6_A HMG-box transcription f 1.0 1 1 43.4 5.0 48 126-173 3-50 (82)
5 1k99_A Upstream binding factor 1.0 1 1 43.3 5.2 48 126-173 6-53 (99)
6 2e6o_A HMG box-containing prot 1.0 1 1 43.2 5.0 49 125-173 12-60 (87)
7 4euw_A Transcription factor SO 1.0 1 1 43.0 5.4 49 125-173 24-72 (106)
8 2cs1_A PMS1 protein homolog 1; 1.0 1 1 42.7 5.7 47 127-173 4-50 (92)
9 2crj_A SWI/SNF-related matrix- 1.0 1 1 42.6 5.8 48 126-173 3-50 (92)
10 1cg7_A Protein (NON histone pr 1.0 1 1 42.6 1.7 49 125-173 15-63 (93)
No 1
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A 1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Probab=1.00 E-value=1 Score=43.56 Aligned_cols=48 Identities=23% Similarity=0.425 Sum_probs=42.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 998546888525459899999898812999997899999998211498
Q 027837 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
|-|.+..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 2 kdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls 49 (77)
T 1hme_A 2 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA 49 (77)
T ss_dssp CCSSCCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 799989899889999999999999988879989999999999998699
No 2
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box domain, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=43.56 Aligned_cols=48 Identities=29% Similarity=0.477 Sum_probs=43.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 998546888525459899999898812999997899999998211498
Q 027837 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 13 kdp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls 60 (102)
T 2co9_A 13 KDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLG 60 (102)
T ss_dssp CCCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCC
T ss_conf 898989999999999999999999999789999999999999986099
No 3
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1
Probab=1.00 E-value=1 Score=43.40 Aligned_cols=49 Identities=22% Similarity=0.365 Sum_probs=43.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8998546888525459899999898812999997899999998211498
Q 027837 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.+.|.+--|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 15 ~kdp~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls 63 (90)
T 1wgf_A 15 KGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLS 63 (90)
T ss_dssp SSCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 8998989999989999999999999998789989999999999997199
No 4
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=43.39 Aligned_cols=48 Identities=21% Similarity=0.295 Sum_probs=42.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 998546888525459899999898812999997899999998211498
Q 027837 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.+|.+-.|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+
T Consensus 3 ~~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls 50 (82)
T 1wz6_A 3 SGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLD 50 (82)
T ss_dssp SSCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 999989999889999999999999988789999999999999881099
No 5
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1
Probab=1.00 E-value=1 Score=43.29 Aligned_cols=48 Identities=17% Similarity=0.384 Sum_probs=42.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 998546888525459899999898812999997899999998211498
Q 027837 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
|.|.+--|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 6 kdp~~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls 53 (99)
T 1k99_A 6 KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP 53 (99)
T ss_dssp SSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 997979899889999999999999988879988999999999998299
No 6
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription factor 1, high mobility group box transcription factor 1, structural genomics; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=43.22 Aligned_cols=49 Identities=18% Similarity=0.243 Sum_probs=43.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8998546888525459899999898812999997899999998211498
Q 027837 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.+.|.+..|-++||..|+++.-+.|++++|+++..|.-+.++..|+..+
T Consensus 12 ~kdp~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls 60 (87)
T 2e6o_A 12 ATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMK 60 (87)
T ss_dssp CCCCSSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 8999979899989999999998999988789889999999999996299
No 7
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain, activator, DNA-binding, NUC transcription; HET: DNA; 2.77A {Homo sapiens}
Probab=1.00 E-value=1 Score=42.97 Aligned_cols=49 Identities=12% Similarity=0.245 Sum_probs=43.9
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8998546888525459899999898812999997899999998211498
Q 027837 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.|.|.+-.|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+
T Consensus 24 ~k~~~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls 72 (106)
T 4euw_A 24 SKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLN 72 (106)
T ss_dssp ----CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCC
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCC
T ss_conf 5798969899989999999999999988789999999999999998599
No 8
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=42.74 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=41.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 98546888525459899999898812999997899999998211498
Q 027837 127 PPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 127 PPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.|.+-.|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 4 ~p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls 50 (92)
T 2cs1_A 4 GSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLS 50 (92)
T ss_dssp CCSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSC
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCC
T ss_conf 99989799979999999999999988789999999999999982199
No 9
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; structural DNA-binding protein BRAF35, DNA-bending; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=42.59 Aligned_cols=48 Identities=17% Similarity=0.421 Sum_probs=42.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 998546888525459899999898812999997899999998211498
Q 027837 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
|-|.+--|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 3 kdp~~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls 50 (92)
T 2crj_A 3 SGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQ 50 (92)
T ss_dssp CCCSSSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCC
T ss_conf 999879899989999999999999988789988999999999998399
No 10
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A 1lwm_A
Probab=1.00 E-value=1 Score=42.58 Aligned_cols=49 Identities=22% Similarity=0.457 Sum_probs=43.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8998546888525459899999898812999997899999998211498
Q 027837 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173 (218)
Q Consensus 125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P 173 (218)
.+.|.+--|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus 15 ~kdp~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls 63 (93)
T 1cg7_A 15 KKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALT 63 (93)
T ss_dssp CCCSSCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf 8999989899989999999999999988789989999999999997599
Done!