Query 006550
Match_columns 641
No_of_seqs 273 out of 1018
Neff 3.6
Searched_HMMs 29240
Date Tue Mar 26 18:22:04 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/006550.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2178-2181//hhsearch_pdb/006550hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2lk2_A Homeobox protein TGIF1; 1.0 1 1 129.9 5.2 64 422-485 9-72 (89)
2 2dmn_A Homeobox protein TGIF2L 1.0 1 1 127.7 6.2 67 417-483 6-72 (83)
3 3k2a_A Homeobox protein MEIS2; 1.0 1 1 119.0 5.5 63 423-485 3-65 (67)
4 1x2n_A Homeobox protein pknox1 1.0 1 1 117.9 6.5 66 417-482 6-71 (73)
5 1b72_B Protein (PBX1); homeodo 1.0 1 1 114.3 6.4 64 419-482 2-65 (87)
6 1le8_B Mating-type protein alp 1.0 1 1 111.1 6.4 63 420-482 4-66 (83)
7 1puf_B PRE-B-cell leukemia tra 1.0 1 1 110.1 6.6 64 419-482 2-65 (73)
8 1mnm_C Protein (MAT alpha-2 tr 1.0 1 1 110.0 7.1 62 417-478 26-87 (87)
9 1du6_A PBX1, homeobox protein 1.0 1 1 109.5 6.6 62 418-479 3-64 (64)
10 1k61_A Mating-type protein alp 1.0 1 1 105.1 6.3 59 421-479 1-59 (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=129.93 Aligned_cols=64 Identities=47% Similarity=0.798 Sum_probs=59.4
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHHHH
Q ss_conf 9899967999999999971499999999999999995999244410001445201603169988
Q 006550 422 QRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVEEIH 485 (641)
Q Consensus 422 RR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmieE~~ 485 (641)
..-||++++.+|++||.+|+.+|||++++|..||.+|||+..||+|||+|+|+|.|++++++..
T Consensus 9 ~~~l~~~~~~iL~~W~~~h~~npYPs~~ek~~LA~~tgLt~~QV~~WF~NrR~R~kk~~~~~~~ 72 (89)
T 2lk2_A 9 SHMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKDG 72 (89)
T ss_dssp CCCCCHHHHHHHHHHHHHTSGGGSCCHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 4428999999999999986568997999999999998919999989999999885447787548
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=127.70 Aligned_cols=67 Identities=40% Similarity=0.776 Sum_probs=61.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHH
Q ss_conf 9889998999679999999999714999999999999999959992444100014452016031699
Q 006550 417 PVWRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVEE 483 (641)
Q Consensus 417 ~~kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmieE 483 (641)
..+++|+.|+++++.+|+.||.+|..||||+..+|..||..|||+..||.+||+|+|+|.|++++++
T Consensus 6 ~~rk~R~~~s~~q~~~L~~~f~~~~~~pYPs~~~r~~LA~~~gLs~~qV~~WFqNrR~r~k~~~~~~ 72 (83)
T 2dmn_A 6 SGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQ 72 (83)
T ss_dssp CCCCCCSSCCHHHHHHHHHHHHHTTTTCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTHHHHTCC
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCHHHHHH
T ss_conf 9998988089999999999999856689979999999999988298993697360574636788874
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=118.97 Aligned_cols=63 Identities=48% Similarity=0.934 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHHHHH
Q ss_conf 899967999999999971499999999999999995999244410001445201603169988
Q 006550 423 RGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVEEIH 485 (641)
Q Consensus 423 R~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmieE~~ 485 (641)
.+||++++.+|+.||.+|+.+|||+..++..||..|||+..||.+||+|+|+|.|++++++..
T Consensus 3 g~f~~~~~~~L~~~f~~h~~~pyp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~~~~ 65 (67)
T 3k2a_A 3 GIFPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQSN 65 (67)
T ss_dssp ---CHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHSCC-----
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 808899999999999980548997999999999996949898126028788898578888753
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=117.86 Aligned_cols=66 Identities=45% Similarity=0.739 Sum_probs=61.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 988999899967999999999971499999999999999995999244410001445201603169
Q 006550 417 PVWRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVE 482 (641)
Q Consensus 417 ~~kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmie 482 (641)
..+++++.|++.++.+|+.||.+|..+|||+..++..||..+||+..||.+||+|+|+|.++++++
T Consensus 6 ~~rr~R~~~~~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~ 71 (73)
T 1x2n_A 6 SGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPS 71 (73)
T ss_dssp SSCCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTTS
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf 999899848999999999999982799998999999999998829999879869988150565443
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=114.29 Aligned_cols=64 Identities=38% Similarity=0.689 Sum_probs=60.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 8999899967999999999971499999999999999995999244410001445201603169
Q 006550 419 WRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVE 482 (641)
Q Consensus 419 kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmie 482 (641)
+|+|+.|++.++.+|+.||.+|..+|||+..++..||..+||+..||.+||+|+|+|.|+.+..
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=111.08 Aligned_cols=63 Identities=24% Similarity=0.397 Sum_probs=57.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 999899967999999999971499999999999999995999244410001445201603169
Q 006550 420 RPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVE 482 (641)
Q Consensus 420 RkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmie 482 (641)
++++.|+.+++.+|+.||..|+.+|||+..++..||..+||+..||.+||+|+|+|.++..+.
T Consensus 4 krr~rft~~q~~~Le~~f~~h~~~~yP~~~~r~~La~~~gLt~~qV~~WFqNrR~r~kk~~~~ 66 (83)
T 1le8_B 4 YRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITIA 66 (83)
T ss_dssp -CCCCCCHHHHHHHHHHHHHTSSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTSCCC
T ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHCCCCCHHHHCCCCCCCCC
T ss_conf 999999999999999999960899994999999999997879887234348887301102358
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=110.15 Aligned_cols=64 Identities=38% Similarity=0.689 Sum_probs=59.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHHHHH
Q ss_conf 8999899967999999999971499999999999999995999244410001445201603169
Q 006550 419 WRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKPMVE 482 (641)
Q Consensus 419 kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKpmie 482 (641)
+|+|+.|++.++.+|+.||.+|..+|||+..++..||..+||+..||.+||+|+|+|.++.+..
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~ 65 (73)
T 1puf_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGK 65 (73)
T ss_dssp CCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCTTT
T ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf 8899859999999999999980658996999999999997939999999989987141634210
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=109.96 Aligned_cols=62 Identities=26% Similarity=0.374 Sum_probs=56.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCH
Q ss_conf 98899989996799999999997149999999999999999599924441000144520160
Q 006550 417 PVWRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWK 478 (641)
Q Consensus 417 ~~kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkK 478 (641)
..+++|+.|+++++.+|+.||..|+.+|||+..++..||..+||+..||.+||+|+|+|.+.
T Consensus 26 ~~~k~r~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~gL~~~qV~~WFqNrR~r~k~ 87 (87)
T 1mnm_C 26 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 87 (87)
T ss_dssp SSCCTTCCCCHHHHHHHHHHHHHTTSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTC
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
T ss_conf 99999983899999999999997378999599999999999796999999999999863039
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=109.50 Aligned_cols=62 Identities=37% Similarity=0.639 Sum_probs=58.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHH
Q ss_conf 88999899967999999999971499999999999999995999244410001445201603
Q 006550 418 VWRPQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKP 479 (641)
Q Consensus 418 ~kRkRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKp 479 (641)
.+++++.|++.++.+|+.||.+|..+|||+..++..||..+||+..||.+||+|+|+|.+|+
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=105.15 Aligned_cols=59 Identities=27% Similarity=0.425 Sum_probs=55.6
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCHH
Q ss_conf 99899967999999999971499999999999999995999244410001445201603
Q 006550 421 PQRGLPERAVTVLRAWLFEHFLHPYPTDTEKLMLAKQTGLSRSQVSNWFINARVRLWKP 479 (641)
Q Consensus 421 kRR~Lpkeav~iLraWl~eH~~nPYPS~~EK~~LAkqTGLS~sQVsNWFiNaRrRlkKp 479 (641)
+++.|+++++.+|+.||..|+.+|||+..++..||..+||+..||.+||+|+|+|.++.
T Consensus 1 rr~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~gl~~~qV~~WFqNrR~r~kk~ 59 (60)
T 1k61_A 1 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 59 (60)
T ss_dssp CCCSCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCC
T ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCC
T ss_conf 96949999999999999972899996999999999998939999999989987441448
Done!