Query 004499
Match_columns 748
No_of_seqs 157 out of 324
Neff 4.4
Searched_HMMs 29240
Date Tue Mar 26 18:02:58 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/004499.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1807-1810//hhsearch_pdb/004499hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4ati_A MITF, microphthalmia-as 1.0 1 1 65.6 3.4 44 578-621 37-84 (118)
2 1am9_A Srebp-1A, protein (ster 1.0 1 1 60.8 6.2 49 578-626 16-66 (82)
3 4h10_A ARYL hydrocarbon recept 1.0 1 1 58.4 3.0 42 578-619 19-64 (73)
4 4h10_B Circadian locomoter out 1.0 1 1 57.2 5.8 45 578-622 18-63 (71)
5 1a0a_A BHLH, protein (phosphat 1.0 1 1 56.2 4.1 42 578-619 12-60 (63)
6 1an4_A Protein (upstream stimu 1.0 1 1 53.9 2.6 42 578-619 15-62 (65)
7 1nkp_B MAX protein, MYC proto- 1.0 1 1 51.8 6.1 50 578-627 12-64 (83)
8 1nkp_A C-MYC, MYC proto-oncoge 1.0 1 1 51.7 5.7 48 578-625 16-67 (88)
9 1hlo_A Protein (transcription 1.0 1 1 51.1 5.9 51 578-628 22-75 (80)
10 4f3l_A Mclock, circadian locom 1.0 1 1 50.9 5.1 44 577-620 21-65 (361)
No 1
>4ati_A MITF, microphthalmia-associated transcription factor; DNA-binding protein-DNA complex, melanoma; 2.60A {Mus musculus} PDB: 4atk_A
Probab=1.00 E-value=1 Score=65.62 Aligned_cols=44 Identities=32% Similarity=0.477 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHCCCCC----CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 115789999999985068996----33066689999989999988645
Q 004499 578 RDRQLIQDRIKELRELVPNGS----KCSIDSLLERTIKHMLFLQSITK 621 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~~----k~~i~~~l~~~i~~~~~l~~~~~ 621 (748)
|||..|++++.+|+.|||+.. |.+..++|++||.||.+||...+
T Consensus 37 rRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~ 84 (118)
T 4ati_A 37 RRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQ 84 (118)
T ss_dssp HHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 899999999999998876015766667899999999999999999999
No 2
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C
Probab=1.00 E-value=1 Score=60.80 Aligned_cols=49 Identities=33% Similarity=0.434 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHCCCC-CCCCHHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf 11578999999998506899-6330666899999899999886-4567665
Q 004499 578 RDRQLIQDRIKELRELVPNG-SKCSIDSLLERTIKHMLFLQSI-TKHADKL 626 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~-~k~~i~~~l~~~i~~~~~l~~~-~~~~dkl 626 (748)
+||+.|++++.+||.|||+. .|.+..++|.+||.||.+||.. ..+..+.
T Consensus 16 rRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~ 66 (82)
T 1am9_A 16 RYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQEN 66 (82)
T ss_dssp HHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999899999987466778889799999999999999999999999999
No 3
>4h10_A ARYL hydrocarbon receptor nuclear translocator-LI 1; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens}
Probab=1.00 E-value=1 Score=58.41 Aligned_cols=42 Identities=31% Similarity=0.412 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHCCCC----CCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 11578999999998506899----6330666899999899999886
Q 004499 578 RDRQLIQDRIKELRELVPNG----SKCSIDSLLERTIKHMLFLQSI 619 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~----~k~~i~~~l~~~i~~~~~l~~~ 619 (748)
|||.+|++++.+|+.|||.. +|.+..++|+.||.||..||.-
T Consensus 19 rRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~~ 64 (73)
T 4h10_A 19 RRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA 64 (73)
T ss_dssp HHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSCC
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC
T ss_conf 9999999999999987635566655035999999999999997467
No 4
>4h10_B Circadian locomoter output cycles protein kaput; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens}
Probab=1.00 E-value=1 Score=57.22 Aligned_cols=45 Identities=24% Similarity=0.380 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 1157899999999850689-96330666899999899999886456
Q 004499 578 RDRQLIQDRIKELRELVPN-GSKCSIDSLLERTIKHMLFLQSITKH 622 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~-~~k~~i~~~l~~~i~~~~~l~~~~~~ 622 (748)
|||.+|++++.+|+.|||. ..|.+..++|+.||.|+.+||.....
T Consensus 18 rRRd~IN~~i~eL~~LvP~~~~K~dK~sIL~~aI~yik~Lq~~~~~ 63 (71)
T 4h10_B 18 KRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAW 63 (71)
T ss_dssp HHHHHHHHHHHHHHTTSSSCCSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 6899999999999874778888776999999999999999986648
No 5
>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4); transcription factor, basic helix loop helix; HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1
Probab=1.00 E-value=1 Score=56.18 Aligned_cols=42 Identities=21% Similarity=0.267 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHCCC-------CCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 1157899999999850689-------96330666899999899999886
Q 004499 578 RDRQLIQDRIKELRELVPN-------GSKCSIDSLLERTIKHMLFLQSI 619 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~-------~~k~~i~~~l~~~i~~~~~l~~~ 619 (748)
+||.+|++++.+|+.|||+ ++|.+..++|+.||+||.+||.+
T Consensus 12 ~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~ 60 (63)
T 1a0a_A 12 ARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN 60 (63)
T ss_dssp HHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 8899999999999987789655465677665999999999999999987
No 6
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double helix, overhanging base, transcription/DNA complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1
Probab=1.00 E-value=1 Score=53.90 Aligned_cols=42 Identities=24% Similarity=0.361 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHCCCCC------CCCHHHHHHHHHHHHHHHHHH
Q ss_conf 115789999999985068996------330666899999899999886
Q 004499 578 RDRQLIQDRIKELRELVPNGS------KCSIDSLLERTIKHMLFLQSI 619 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~~------k~~i~~~l~~~i~~~~~l~~~ 619 (748)
+||+.|++++.+|+.|||... |.+..++|.+||.||.+||..
T Consensus 15 ~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~ 62 (65)
T 1an4_A 15 RRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS 62 (65)
T ss_dssp HHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 899999999999998776866655667787999999999999999987
No 7
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B
Probab=1.00 E-value=1 Score=51.82 Aligned_cols=50 Identities=24% Similarity=0.526 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHCCC--CCCCCHHHHHHHHHHHHHHHHHH-HHHHHHHH
Q ss_conf 1157899999999850689--96330666899999899999886-45676653
Q 004499 578 RDRQLIQDRIKELRELVPN--GSKCSIDSLLERTIKHMLFLQSI-TKHADKLS 627 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~--~~k~~i~~~l~~~i~~~~~l~~~-~~~~dkl~ 627 (748)
+||+.|++++.+||.+||. +.|.|..++|.+||.||.+|+.. ..+..++.
T Consensus 12 ~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~e~~ 64 (83)
T 1nkp_B 12 KRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 64 (83)
T ss_dssp HHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999877898999977999999999999999999999999999
No 8
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1
Probab=1.00 E-value=1 Score=51.74 Aligned_cols=48 Identities=19% Similarity=0.262 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHCCCC---CCCCHHHHHHHHHHHHHHHHHH-HHHHHH
Q ss_conf 11578999999998506899---6330666899999899999886-456766
Q 004499 578 RDRQLIQDRIKELRELVPNG---SKCSIDSLLERTIKHMLFLQSI-TKHADK 625 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~---~k~~i~~~l~~~i~~~~~l~~~-~~~~dk 625 (748)
+||..|++++..||.+||+. .|.|..++|.+||.||.+|+.. .++..+
T Consensus 16 ~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~ 67 (88)
T 1nkp_A 16 QRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE 67 (88)
T ss_dssp HHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 7899999999999987789988898889999999999999999999999999
No 9
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA binding, complex (transcription factor MAX/DNA), transcription/DNA complex; HET: DNA; 2.80A {Homo sapiens} SCOP: a.38.1.1
Probab=1.00 E-value=1 Score=51.11 Aligned_cols=51 Identities=22% Similarity=0.447 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHCCCC--CCCCHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Q ss_conf 11578999999998506899--6330666899999899999886-456766532
Q 004499 578 RDRQLIQDRIKELRELVPNG--SKCSIDSLLERTIKHMLFLQSI-TKHADKLSK 628 (748)
Q Consensus 578 ~~r~~i~~r~~~lr~~vp~~--~k~~i~~~l~~~i~~~~~l~~~-~~~~dkl~~ 628 (748)
+||+.|++++.+||.+||.. .|.|..++|..||.||.+||.. ..+..++.+
T Consensus 22 ~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e~~~ 75 (80)
T 1hlo_A 22 KRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDD 75 (80)
T ss_dssp HHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999998776988887629999999999999999999999999999
No 10
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=1.00 E-value=1 Score=50.89 Aligned_cols=44 Identities=25% Similarity=0.384 Sum_probs=37.8
Q ss_pred CHHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 4115789999999985068-9963306668999998999998864
Q 004499 577 PRDRQLIQDRIKELRELVP-NGSKCSIDSLLERTIKHMLFLQSIT 620 (748)
Q Consensus 577 p~~r~~i~~r~~~lr~~vp-~~~k~~i~~~l~~~i~~~~~l~~~~ 620 (748)
.|||.+||+++.+|+.||| +..|.|..++|..||.|++-++..+
T Consensus 21 ~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~ 65 (361)
T 4f3l_A 21 KKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETT 65 (361)
T ss_dssp HHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 888999889999999857888788678999999999999987540
Done!