Query 029682
Match_columns 189
No_of_seqs 126 out of 181
Neff 3.3
Searched_HMMs 29240
Date Tue Mar 26 18:14:56 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/029682.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2304-2308//hhsearch_pdb/029682hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2co9_A Thymus high mobility gr 1.0 1 1 42.8 5.7 49 109-157 13-61 (102)
2 1hme_A High mobility group pro 1.0 1 1 42.8 5.6 49 109-157 2-50 (77)
3 1wz6_A HMG-box transcription f 1.0 1 1 42.7 5.3 48 110-157 4-51 (82)
4 1wgf_A Upstream binding factor 1.0 1 1 42.7 5.1 50 108-157 15-64 (90)
5 1k99_A Upstream binding factor 1.0 1 1 42.6 5.0 49 109-157 6-54 (99)
6 4euw_A Transcription factor SO 1.0 1 1 42.1 5.8 50 108-157 24-73 (106)
7 2cs1_A PMS1 protein homolog 1; 1.0 1 1 42.0 6.0 47 111-157 5-51 (92)
8 1cg7_A Protein (NON histone pr 1.0 1 1 41.9 1.4 50 108-157 15-64 (93)
9 2crj_A SWI/SNF-related matrix- 1.0 1 1 41.9 6.2 49 109-157 3-51 (92)
10 2gzk_A Sex-determining region 1.0 1 1 41.8 5.8 50 108-157 83-132 (159)
No 1
>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=42.81 Aligned_cols=49 Identities=27% Similarity=0.460 Sum_probs=43.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9996679996143499999999988509999878899999972035974
Q 029682 109 NPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 109 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 13 kdp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls~ 61 (102)
T 2co9_A 13 KDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGE 61 (102)
T ss_dssp CCCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCH
T ss_conf 8989899999999999999999999997899999999999999860999
No 2
>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=42.80 Aligned_cols=49 Identities=24% Similarity=0.423 Sum_probs=43.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9996679996143499999999988509999878899999972035974
Q 029682 109 NPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 109 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
|-|.+..|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
T Consensus 2 kdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 50 (77)
T 1hme_A 2 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA 50 (77)
T ss_dssp CCSSCCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSCG
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 7999898998899999999999999888799899999999999986999
No 3
>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=42.71 Aligned_cols=48 Identities=21% Similarity=0.311 Sum_probs=43.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 996679996143499999999988509999878899999972035974
Q 029682 110 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 110 PPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
+|.+-.|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
T Consensus 4 ~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 51 (82)
T 1wz6_A 4 GSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDP 51 (82)
T ss_dssp SCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCCH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 999899998899999999999999887899999999999998810999
No 4
>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=42.70 Aligned_cols=50 Identities=24% Similarity=0.373 Sum_probs=43.8
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 89996679996143499999999988509999878899999972035974
Q 029682 108 VNPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 108 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
.+.|.+..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 15 ~kdp~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~ 64 (90)
T 1wgf_A 15 KGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSE 64 (90)
T ss_dssp SSCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 89989899999899999999999999987899899999999999971999
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=42.60 Aligned_cols=49 Identities=16% Similarity=0.361 Sum_probs=43.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9996679996143499999999988509999878899999972035974
Q 029682 109 NPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 109 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 6 kdp~~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls~ 54 (99)
T 1k99_A 6 KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPE 54 (99)
T ss_dssp SSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCS
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 9979798998899999999999999888799889999999999982999
No 6
>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=42.12 Aligned_cols=50 Identities=14% Similarity=0.246 Sum_probs=43.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 89996679996143499999999988509999878899999972035974
Q 029682 108 VNPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 108 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
.|.|.+-.|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
T Consensus 24 ~k~~~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~ 73 (106)
T 4euw_A 24 SKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNE 73 (106)
T ss_dssp ----CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
T ss_conf 57989698999899999999999999887899999999999999985999
No 7
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=41.97 Aligned_cols=47 Identities=17% Similarity=0.264 Sum_probs=41.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 96679996143499999999988509999878899999972035974
Q 029682 111 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 111 PEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
|.+-.|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 5 p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 51 (92)
T 2cs1_A 5 SSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSE 51 (92)
T ss_dssp CSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSCH
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
T ss_conf 99897999799999999999999887899999999999999821999
No 8
>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=41.86 Aligned_cols=50 Identities=24% Similarity=0.436 Sum_probs=43.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 89996679996143499999999988509999878899999972035974
Q 029682 108 VNPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 108 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
.+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 15 ~kdp~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~ 64 (93)
T 1cg7_A 15 KKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTP 64 (93)
T ss_dssp CCCSSCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTHH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 89999898999899999999999999887899899999999999975999
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=41.86 Aligned_cols=49 Identities=16% Similarity=0.406 Sum_probs=43.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9996679996143499999999988509999878899999972035974
Q 029682 109 NPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 109 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
+-|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 3 kdp~~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 51 (92)
T 2crj_A 3 SGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQP 51 (92)
T ss_dssp CCCSSSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCCT
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
T ss_conf 9998798999899999999999999887899889999999999983999
No 10
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1
Probab=1.00 E-value=1 Score=41.82 Aligned_cols=50 Identities=24% Similarity=0.415 Sum_probs=43.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 89996679996143499999999988509999878899999972035974
Q 029682 108 VNPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 157 (189)
Q Consensus 108 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 157 (189)
.+.|.+..|-+|||..|+++.-..|+.++|+++..|.-+.++..|+..+.
T Consensus 83 ~kdp~~pKrp~say~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls~ 132 (159)
T 2gzk_A 83 FKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA 132 (159)
T ss_dssp SCCTTCCCCCCCHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHSCH
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 23321111224440010485688888768799789999999999984999
Done!