Query 005500
Match_columns 693
No_of_seqs 292 out of 1039
Neff 3.9
Searched_HMMs 29240
Date Tue Mar 26 17:54:53 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/005500.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2009-2012//hhsearch_pdb/005500hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2lk2_A Homeobox protein TGIF1; 1.0 1 1 129.5 4.9 62 366-427 10-71 (89)
2 2dmn_A Homeobox protein TGIF2L 1.0 1 1 127.1 6.1 66 361-426 7-72 (83)
3 3k2a_A Homeobox protein MEIS2; 1.0 1 1 118.7 5.0 62 366-427 3-64 (67)
4 1x2n_A Homeobox protein pknox1 1.0 1 1 118.0 6.4 65 361-425 7-71 (73)
5 1b72_B Protein (PBX1); homeodo 1.0 1 1 115.1 5.9 64 362-425 2-65 (87)
6 1le8_B Mating-type protein alp 1.0 1 1 112.1 6.0 61 364-424 5-65 (83)
7 1puf_B PRE-B-cell leukemia tra 1.0 1 1 110.6 6.3 63 362-424 2-64 (73)
8 1mnm_C Protein (MAT alpha-2 tr 1.0 1 1 110.3 7.0 61 361-421 27-87 (87)
9 1du6_A PBX1, homeobox protein 1.0 1 1 109.8 6.6 62 361-422 3-64 (64)
10 1k61_A Mating-type protein alp 1.0 1 1 105.8 5.9 58 365-422 2-59 (60)
No 1
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=129.50 Aligned_cols=62 Identities=47% Similarity=0.832 Sum_probs=58.4
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHHH
Q ss_conf 99996589999999998308999998999999999599914340010033420371447997
Q 005500 366 RGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMVEEM 427 (693)
Q Consensus 366 R~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmveem 427 (693)
.-||++++.+|++||.+|+.+|||++++|..||..|||+++||+|||+|+|+|.|++++++.
T Consensus 10 ~~l~~~~~~iL~~W~~~h~~npYPs~~ek~~LA~~tgLt~~QV~~WF~NrR~R~kk~~~~~~ 71 (89)
T 2lk2_A 10 HMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKD 71 (89)
T ss_dssp CCCCHHHHHHHHHHHHHTSGGGSCCHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 42899999999999998656899799999999999891999998999999988544778754
No 2
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=127.10 Aligned_cols=66 Identities=41% Similarity=0.818 Sum_probs=59.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHH
Q ss_conf 899999999658999999999830899999899999999959991434001003342037144799
Q 005500 361 AWRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMVEE 426 (693)
Q Consensus 361 ~kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmvee 426 (693)
++|+++.|++.++.+|+.||.+|..+|||+..+|..||..|+|++.||.+||+|+|+|.|++++++
T Consensus 7 ~rk~R~~~s~~q~~~L~~~f~~~~~~pYPs~~~r~~LA~~~gLs~~qV~~WFqNrR~r~k~~~~~~ 72 (83)
T 2dmn_A 7 GKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQ 72 (83)
T ss_dssp CCCCCSSCCHHHHHHHHHHHHHTTTTCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTHHHHTCC
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCHHHHHH
T ss_conf 998988089999999999999856689979999999999988298993697360574636788874
No 3
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=118.71 Aligned_cols=62 Identities=48% Similarity=0.955 Sum_probs=59.0
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHHH
Q ss_conf 99996589999999998308999998999999999599914340010033420371447997
Q 005500 366 RGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMVEEM 427 (693)
Q Consensus 366 R~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmveem 427 (693)
.+||+.++.+|+.||.+|+.+|||+..+|..||..+||+..||.+||+|+|+|.|++++++.
T Consensus 3 g~f~~~~~~~L~~~f~~h~~~pyp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~~~ 64 (67)
T 3k2a_A 3 GIFPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQS 64 (67)
T ss_dssp ---CHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHSCC----
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 80889999999999998054899799999999999694989812602878889857888875
No 4
>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=118.04 Aligned_cols=65 Identities=43% Similarity=0.772 Sum_probs=59.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 89999999965899999999983089999989999999995999143400100334203714479
Q 005500 361 AWRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMVE 425 (693)
Q Consensus 361 ~kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmve 425 (693)
.+|++..|++.++.+|+.||.+|..+|||+..++..||..+||++.||.+||+|+|+|.|+++++
T Consensus 7 ~rr~R~~~~~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~ 71 (73)
T 1x2n_A 7 GKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPS 71 (73)
T ss_dssp SCCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTTS
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf 99899848999999999999982799998999999999998829999879869988150565443
No 5
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P
Probab=1.00 E-value=1 Score=115.12 Aligned_cols=64 Identities=38% Similarity=0.705 Sum_probs=59.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 9999999965899999999983089999989999999995999143400100334203714479
Q 005500 362 WRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMVE 425 (693)
Q Consensus 362 kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmve 425 (693)
+|++..|++.++.+|+.||.+|..+|||+..++..||..+||++.||.+||+|+|+|+|+.+..
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~h~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~ 65 (87)
T 1b72_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGK 65 (87)
T ss_dssp -CCCCCCCHHHHHHHHHHHHTTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCGGG
T ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCC
T ss_conf 8899779999999999999985457999999999999997949999999999999885211110
No 6
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B*
Probab=1.00 E-value=1 Score=112.12 Aligned_cols=61 Identities=23% Similarity=0.455 Sum_probs=56.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHH
Q ss_conf 9999996589999999998308999998999999999599914340010033420371447
Q 005500 364 PQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMV 424 (693)
Q Consensus 364 krR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmv 424 (693)
++..|+..++.+|+.||..|+.+|||+..++..||..+||+..||.+||+|+|+|.++..+
T Consensus 5 rr~rft~~q~~~Le~~f~~h~~~~yP~~~~r~~La~~~gLt~~qV~~WFqNrR~r~kk~~~ 65 (83)
T 1le8_B 5 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITI 65 (83)
T ss_dssp CCCCCCHHHHHHHHHHHHHTSSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTSCC
T ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHCCCCCHHHHCCCCCCCC
T ss_conf 9999999999999999996089999499999999999787988723434888730110235
No 7
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Probab=1.00 E-value=1 Score=110.56 Aligned_cols=63 Identities=38% Similarity=0.710 Sum_probs=58.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHH
Q ss_conf 999999996589999999998308999998999999999599914340010033420371447
Q 005500 362 WRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKPMV 424 (693)
Q Consensus 362 kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKpmv 424 (693)
+|++..|++.++.+|+.||.+|..+|||+..++..||..+||+..||.+||+|+|.|.++.+.
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~ 64 (73)
T 1puf_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIG 64 (73)
T ss_dssp CCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCTT
T ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf 889985999999999999998065899699999999999793999999998998714163421
No 8
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=110.35 Aligned_cols=61 Identities=25% Similarity=0.421 Sum_probs=55.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCH
Q ss_conf 8999999996589999999998308999998999999999599914340010033420371
Q 005500 361 AWRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWK 421 (693)
Q Consensus 361 ~kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kK 421 (693)
++|++..|++.++.+|+.||..|+.+|||+..++..||..+||++.||.+||+|+|+|+|.
T Consensus 27 ~~k~r~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~gL~~~qV~~WFqNrR~r~k~ 87 (87)
T 1mnm_C 27 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 87 (87)
T ss_dssp SCCTTCCCCHHHHHHHHHHHHHTTSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTC
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
T ss_conf 9999983899999999999997378999599999999999796999999999999863039
No 9
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=109.77 Aligned_cols=62 Identities=37% Similarity=0.676 Sum_probs=57.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHH
Q ss_conf 89999999965899999999983089999989999999995999143400100334203714
Q 005500 361 AWRPQRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKP 422 (693)
Q Consensus 361 ~kRkrR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKp 422 (693)
.+|++..|++.++.+|+.||.+|..+|||+..++..||..+||++.||.+||+|+|.|.||+
T Consensus 3 ~rr~R~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~ 64 (64)
T 1du6_A 3 GHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 64 (64)
T ss_dssp CCCCCCSSTTTHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHTTTSSCC
T ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCC
T ss_conf 99999959999999999999871558997999999999998929999999999999876369
No 10
>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=105.79 Aligned_cols=58 Identities=26% Similarity=0.475 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHH
Q ss_conf 9999965899999999983089999989999999995999143400100334203714
Q 005500 365 QRGLPERSVSVLRAWLFEHFLHPYPKDSDKQMLAKQTGLTRSQVSNWFINARVRLWKP 422 (693)
Q Consensus 365 rR~Lpk~a~~iLr~Wf~eH~~nPYPS~~eK~~LAkqTGLS~kQVsNWFiNaR~R~kKp 422 (693)
+..|++.++.+|+.||..|+.+|||+..++..||..+||++.||.+||+|+|+|.++.
T Consensus 2 r~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~gl~~~qV~~WFqNrR~r~kk~ 59 (60)
T 1k61_A 2 GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 59 (60)
T ss_dssp CCSCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCC
T ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCC
T ss_conf 6949999999999999972899996999999999998939999999989987441448
Done!