Query 029660
Match_columns 190
No_of_seqs 128 out of 184
Neff 3.3
Searched_HMMs 29240
Date Tue Mar 26 18:16:41 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/029660.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2281-2284//hhsearch_pdb/029660hhsearch_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 42.7 5.6 49 110-158 2-50 (77)
2 2co9_A Thymus high mobility gr 1.0 1 1 42.6 5.8 50 109-158 12-61 (102)
3 1wz6_A HMG-box transcription f 1.0 1 1 42.6 5.4 49 110-158 3-51 (82)
4 1wgf_A Upstream binding factor 1.0 1 1 42.5 5.1 50 109-158 15-64 (90)
5 1k99_A Upstream binding factor 1.0 1 1 42.5 5.0 49 110-158 6-54 (99)
6 4euw_A Transcription factor SO 1.0 1 1 42.0 5.8 50 109-158 24-73 (106)
7 2e6o_A HMG box-containing prot 1.0 1 1 41.9 5.3 50 109-158 12-61 (87)
8 2cs1_A PMS1 protein homolog 1; 1.0 1 1 41.9 6.0 48 111-158 4-51 (92)
9 2crj_A SWI/SNF-related matrix- 1.0 1 1 41.7 6.2 49 110-158 3-51 (92)
10 1cg7_A Protein (NON histone pr 1.0 1 1 41.7 1.4 50 109-158 15-64 (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=42.66 Aligned_cols=49 Identities=24% Similarity=0.436 Sum_probs=43.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9999789996143499999999988509999878899999972035974
Q 029660 110 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 110 kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
|-|.+..|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
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 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=42.63 Aligned_cols=50 Identities=26% Similarity=0.469 Sum_probs=44.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 99999789996143499999999988509999878899999972035974
Q 029660 109 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 109 ~kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 12 ~kdp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls~ 61 (102)
T 2co9_A 12 KKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGE 61 (102)
T ss_dssp CCCCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCH
T ss_conf 78989899999999999999999999997899999999999999860999
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=42.61 Aligned_cols=49 Identities=20% Similarity=0.304 Sum_probs=44.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9999789996143499999999988509999878899999972035974
Q 029660 110 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 110 kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+|.+--|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
T Consensus 3 ~~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 51 (82)
T 1wz6_A 3 SGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDP 51 (82)
T ss_dssp SSCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCCH
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 9999899998899999999999999887899999999999998810999
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=42.55 Aligned_cols=50 Identities=24% Similarity=0.380 Sum_probs=44.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 99999789996143499999999988509999878899999972035974
Q 029660 109 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 109 ~kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+.|.+..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
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=42.46 Aligned_cols=49 Identities=16% Similarity=0.374 Sum_probs=44.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9999789996143499999999988509999878899999972035974
Q 029660 110 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 110 kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
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=41.97 Aligned_cols=50 Identities=14% Similarity=0.272 Sum_probs=45.1
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 99999789996143499999999988509999878899999972035974
Q 029660 109 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 109 ~kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+.|.+-.|-+|||..|+++.-..+++++|+++..|.-+.++..|+..+.
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
>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=41.93 Aligned_cols=50 Identities=18% Similarity=0.265 Sum_probs=44.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 99999789996143499999999988509999878899999972035974
Q 029660 109 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 109 ~kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+.|.+..|-++||..|+++.-+.|++++|+++..|.-+.++..|+..+.
T Consensus 12 ~kdp~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~ 61 (87)
T 2e6o_A 12 ATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKN 61 (87)
T ss_dssp CCCCSSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
T ss_conf 89999798999899999999989999887898899999999999962999
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=41.92 Aligned_cols=48 Identities=17% Similarity=0.248 Sum_probs=43.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 999789996143499999999988509999878899999972035974
Q 029660 111 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 111 PPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.|.+-.|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus 4 ~p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~ 51 (92)
T 2cs1_A 4 GSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSE 51 (92)
T ss_dssp CCSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSCH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
T ss_conf 999897999799999999999999887899999999999999821999
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=41.72 Aligned_cols=49 Identities=16% Similarity=0.398 Sum_probs=44.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9999789996143499999999988509999878899999972035974
Q 029660 110 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 110 kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
+-|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
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
>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=41.71 Aligned_cols=50 Identities=24% Similarity=0.465 Sum_probs=44.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 99999789996143499999999988509999878899999972035974
Q 029660 109 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 158 (190)
Q Consensus 109 ~kPPEKRQRvpSaYN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ph 158 (190)
.+.|.+.-|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
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
Done!