Query 001648
Match_columns 1038
No_of_seqs 283 out of 728
Neff 3.8
Searched_HMMs 29240
Date Tue Mar 26 21:55:15 2013
Command hhsearch -i /local_scratch/syshi/lefta3m2/001648.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H2_40-44//hhsearch_pdb/001648hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2fq3_A Transcription regulator 1.0 1 1 280.1 9.6 95 148-242 10-104 (104)
2 2dce_A KIAA1915 protein; swirm 1.0 1 1 277.2 9.4 97 146-243 10-108 (111)
3 2yus_A SWI/SNF-related matrix- 1.0 1 1 112.2 9.3 58 375-432 17-74 (79)
4 2z3y_A Lysine-specific histone 1.0 1 1 88.7 5.3 87 154-242 8-98 (662)
5 2elk_A SPCC24B10.08C protein; 1.0 1 1 87.3 6.8 48 376-423 9-58 (58)
6 4gut_A Lysine-specific histone 1.0 1 1 84.1 8.5 90 145-240 213-321 (776)
7 1x41_A Transcriptional adaptor 1.0 1 1 82.7 7.3 51 374-424 6-57 (60)
8 2cqr_A RSGI RUH-043, DNAJ homo 1.0 1 1 81.2 5.1 63 360-426 5-71 (73)
9 2xag_B REST corepressor 1; ami 1.0 1 1 79.8 6.9 45 376-420 380-424 (482)
10 2iw5_B Protein corest, REST co 1.0 1 1 78.7 6.8 45 376-420 133-177 (235)
No 1
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18
Probab=1.00 E-value=1 Score=280.07 Aligned_cols=95 Identities=29% Similarity=0.596 Sum_probs=91.7
Q ss_pred EEECCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEHHHHHCCCCCCHHHHHHHHH
Q ss_conf 68658999999999999898972764237999999958999999999999971989436454431001454678999998
Q 001648 148 VHVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVME 227 (1038)
Q Consensus 148 ~iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKS~~kTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~ 227 (1038)
+-.-|+|+.||+|++||+||+++|||||+|++++|||++|++|||+||++||+||.+|||+|+||++|+|||++|+|||+
T Consensus 10 ~~~~p~~s~wF~~~~Ih~iEk~~lPEfF~g~~~~ktpe~Yl~iRN~iI~~yr~nP~~yLT~t~~r~~l~gDv~~i~RVh~ 89 (104)
T 2fq3_A 10 HGMASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSGDAAALFRLHK 89 (104)
T ss_dssp -------CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCSCHHHHHHHHH
T ss_pred CCCCCCCCCCCCCCCCCHHHHHHCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHCCCCHHHHHHHHH
T ss_conf 78799743536966288999987919756998887989999999999999985986166599999873346999999999
Q ss_pred HHHHHCCCCCCCCCC
Q ss_conf 654513312578999
Q 001648 228 FLDYWGLINFHPFPH 242 (1038)
Q Consensus 228 FLE~WGLINy~~~P~ 242 (1038)
|||+|||||||++|.
T Consensus 90 FLe~wGLIN~~v~~~ 104 (104)
T 2fq3_A 90 FLTKWGLINYQVDSK 104 (104)
T ss_dssp HHHHTTSSSSCC---
T ss_pred HHHHCCEECCCCCCC
T ss_conf 999759442588988
No 2
>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=277.16 Aligned_cols=97 Identities=25% Similarity=0.394 Sum_probs=92.5
Q ss_pred CCEEECCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEHHHHHCCC--CCCHHHHH
Q ss_conf 9568658999999999999898972764237999999958999999999999971989436454431001--45467899
Q 001648 146 SNVHVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELE--VGSLDARQ 223 (1038)
Q Consensus 146 t~~iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKS~~kTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L--~GDv~aI~ 223 (1038)
...++||+|+.||+|++||+||+++|||||+|+ ++|||++||+|||+||++||.||.+|||+|+||++| +||+++|+
T Consensus 10 ~~~~~iP~~~~wf~~~~ih~iEk~~lPefF~g~-~~ktpe~Yl~iRN~iI~~yr~np~~yLT~t~~rr~L~~~gDv~~i~ 88 (111)
T 2dce_A 10 EEELKPPEQEIEIDRNIIQEEEKQAIPEFFEGR-QAKTPERYLKIRNYILDQWEICKPKYLNKTSVRPGLKNCGDVNCIG 88 (111)
T ss_dssp CCSCCCCSSCCCCCSSCCCHHHHTTSGGGGSCC-SSCCHHHHHHHHHHHHHHHHHHTTSCCCGGGTTTTTSSSSCHHHHH
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHCHHHHCCC-CCCCHHHHHHHHHHHHHHHHHCCCCEEEHHHHHHHCCCCCCHHHHH
T ss_conf 867769983121586628899998693975588-6668899999999999999849852003999997562456899999
Q ss_pred HHHHHHHHHCCCCCCCCCCC
Q ss_conf 99986545133125789998
Q 001648 224 EVMEFLDYWGLINFHPFPHV 243 (1038)
Q Consensus 224 RVh~FLE~WGLINy~~~P~~ 243 (1038)
|||+|||+|||||||+++.+
T Consensus 89 RVh~FLe~wGLIN~~~~~~~ 108 (111)
T 2dce_A 89 RIHTYLELIGAINFGCEQAV 108 (111)
T ss_dssp HHHHHHHHHSSSSCSCTTSS
T ss_pred HHHHHHHHCCEEECCCCHHH
T ss_conf 99999997490204777664
No 3
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=112.18 Aligned_cols=58 Identities=57% Similarity=1.164 Sum_probs=54.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 8999999999999999999465979998992889989999999718868888899998
Q 001648 375 SGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQMPIEDMFLDCDDD 432 (1038)
Q Consensus 375 ~~~~WTdqEtLlLLEAIE~YGdNW~kIAEHVGTKTkeECIlHFLqLPIED~fLe~~d~ 432 (1038)
....||.+|+.+||++|++||++|.+||+||++||..||+.||+++||+|+|+...+.
T Consensus 17 ~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~~~~i~d~~~~~~~~ 74 (79)
T 2yus_A 17 AGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYLENSDS 74 (79)
T ss_dssp CSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHTTSCCCCSSCCCCCC
T ss_pred CCCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf 5899699999999999999497899999883899999999999984225653345889
No 4
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome, transcription, LSD1, alternative splicing, chromatin regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens} SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A* 3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A* 2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A
Probab=1.00 E-value=1 Score=88.70 Aligned_cols=87 Identities=20% Similarity=0.349 Sum_probs=75.0
Q ss_pred CCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEHHHHH----CCCCCCHHHHHHHHHHH
Q ss_conf 99999999999898972764237999999958999999999999971989436454431----00145467899999865
Q 001648 154 HCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLS----ELEVGSLDARQEVMEFL 229 (1038)
Q Consensus 154 ySsWFd~~~Ih~iEk~~lPEFF~gKS~~kTPe~Yl~iRN~II~~yr~nP~~yLT~T~cR----r~L~GDv~aI~RVh~FL 229 (1038)
+++.|+++..|+.|+.+|||+..+ ...+...|+.|||.|+.+|+.||..+||+..|. |.+..|..+|.+|++|+
T Consensus 8 ~~~~l~~~~l~~~E~~~~~~~~~~--~~~~~~~yl~irn~~~~~w~~~~~~~~~~~~~~~~~~r~~~~~~~~i~~~~~~~ 85 (662)
T 2z3y_A 8 FQSRLPHDRMTSQEAACFPDIISG--PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSYL 85 (662)
T ss_dssp HHTTCCTTSCCHHHHHHCHHHHTS--CHHHHHHHHHHHHHHHHHHHTCTTBCCCHHHHHHHSCTTGGGCHHHHHHHHHHH
T ss_pred HHCCCCCCCCCHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHH
T ss_conf 983999887998899874898717--507788999999999999987987426789999754787668949999999999
Q ss_pred HHHCCCCCCCCCC
Q ss_conf 4513312578999
Q 001648 230 DYWGLINFHPFPH 242 (1038)
Q Consensus 230 E~WGLINy~~~P~ 242 (1038)
..|++||++++++
T Consensus 86 ~~~~~~~~~~~~~ 98 (662)
T 2z3y_A 86 ERHGLINFGIYKR 98 (662)
T ss_dssp HHTTSSSCSSCBC
T ss_pred HHHHHHHCCCCCC
T ss_conf 8889984697444
No 5
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}
Probab=1.00 E-value=1 Score=87.26 Aligned_cols=48 Identities=38% Similarity=0.704 Sum_probs=45.4
Q ss_pred CCCCCHHHHHHHHHHHHHHC-CCHHHHHHHHC-CCCHHHHHHHHHHCCCC
Q ss_conf 99999999999999999946-59799989928-89989999999718868
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVA-TKTKAQCILHFVQMPIE 423 (1038)
Q Consensus 376 ~~~WTdqEtLlLLEAIE~YG-dNW~kIAEHVG-TKTkeECIlHFLqLPIE 423 (1038)
...||.+|+.+||++|++|| +||..||++|+ +||..||+.||.+++|.
T Consensus 9 ~~~WT~eED~~L~~~v~~~G~~~W~~IA~~~~~~Rt~~qcr~r~~~~~~~ 58 (58)
T 2elk_A 9 DENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKTYIE 58 (58)
T ss_dssp CCCCCHHHHHHHHHHHHHTTTTCHHHHHHHHCSSCCHHHHHHHHHHHTTC
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHHHHCCC
T ss_conf 99979999999999999988697999999877799999999999988349
No 6
>4gut_A Lysine-specific histone demethylase 1B; histone demethylase; HET: FAD PGE; 2.00A {Homo sapiens} PDB: 4gur_A* 4gus_A* 4guu_A* 4fwe_A* 4fwf_A* 4fwj_A* 4gu1_A*
Probab=1.00 E-value=1 Score=84.15 Aligned_cols=90 Identities=17% Similarity=0.218 Sum_probs=75.5
Q ss_pred CCCEEECCCCCCCCCC------------CCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEHHHHH
Q ss_conf 9956865899999999------------9999898972764237999999958999999999999971989436454431
Q 001648 145 DSNVHVVPTHCGWFSW------------TKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLS 212 (1038)
Q Consensus 145 qt~~iIIPSySsWFd~------------~~Ih~iEk~~lPEFF~gKS~~kTPe~Yl~iRN~II~~yr~nP~~yLT~T~cR 212 (1038)
+.+...+..|-.||-. +.++..|+..||||..+ +.+|+.|||.|+.+|+.||...||...|.
T Consensus 213 ~~~~~~~~~~~~~~~~~~~~~~a~~~~p~~~~~~e~~~fp~~~~~------~~~yl~irn~il~~w~~np~~~l~~~~~~ 286 (776)
T 4gut_A 213 SVHVPGMNRYFQPFYQPNECGKALCVRPDVMELDELYEFPEYSRD------PTMYLALRNLILALWYTNCKEALTPQKCI 286 (776)
T ss_dssp -----CCCTTCCCBCCTTCCCCSSCBCTTSCCHHHHHHCGGGSSC------CHHHHHHHHHHHHHHHHCTTSCCCHHHHG
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCHHHHHHCHHHHHC------CCEEEEEHHHHHHHHHHCCCEEEEHHHHH
T ss_conf 212234541025655777455012118886874787768277756------75566301899999987982012388853
Q ss_pred CCCC-------CCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 0014-------546789999986545133125789
Q 001648 213 ELEV-------GSLDARQEVMEFLDYWGLINFHPF 240 (1038)
Q Consensus 213 r~L~-------GDv~aI~RVh~FLE~WGLINy~~~ 240 (1038)
+.+. ..+..+.+|+.||.++|+||++..
T Consensus 287 ~~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 321 (776)
T 4gut_A 287 PHIIVRGLVRIRCVQEVERILYFMTRKGLINTGVL 321 (776)
T ss_dssp GGCCCSSTHHHHHHHHHHHHHHHHHHHTSSSCTTC
T ss_pred HHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 11355333565657899999999997423404612
No 7
>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=1.00 E-value=1 Score=82.68 Aligned_cols=51 Identities=33% Similarity=0.572 Sum_probs=46.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHC-CCHHHHHHHHCCCCHHHHHHHHHHCCCCC
Q ss_conf 7899999999999999999946-59799989928899899999997188688
Q 001648 374 VSGGKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQMPIED 424 (1038)
Q Consensus 374 ~~~~~WTdqEtLlLLEAIE~YG-dNW~kIAEHVGTKTkeECIlHFLqLPIED 424 (1038)
+....||.+|+.+||++|+.|| ++|..||++|++||..||+.||.++.+..
T Consensus 6 ~~~~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~r~~~~l~~~ 57 (60)
T 1x41_A 6 SGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP 57 (60)
T ss_dssp CCCSSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHTTCS
T ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHCCCC
T ss_conf 8899989999999999999988484999998808999999999999985688
No 8
>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3
Probab=1.00 E-value=1 Score=81.17 Aligned_cols=63 Identities=27% Similarity=0.459 Sum_probs=50.6
Q ss_pred CCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHC----CCHHHHHHHHCCCCHHHHHHHHHHCCCCCCC
Q ss_conf 999366047888887899999999999999999946----5979998992889989999999718868888
Q 001648 360 SSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYK----ENWNEIAEHVATKTKAQCILHFVQMPIEDMF 426 (1038)
Q Consensus 360 shDFikie~~e~~~~~~~~WTdqEtLlLLEAIE~YG----dNW~kIAEHVGTKTkeECIlHFLqLPIED~f 426 (1038)
..++.+.+... .....||.+|..+|+++|.+|| ++|.+||++|++||..||+.||..| ++|++
T Consensus 5 ~~~~~~~~~~~---~~~~~WT~eEd~~L~~al~~~g~~~~~rW~~IA~~vpGRT~~qcr~Ry~~L-~~d~~ 71 (73)
T 2cqr_A 5 SSGSLRKERAR---SAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL-VSGPS 71 (73)
T ss_dssp SSSCCCCCTTT---CSSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHH-HSSCC
T ss_pred CCCCCCCCCCC---CCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHH-HHCCC
T ss_conf 33446332245---578998999999999999985998875599999981899999999999999-97344
No 9
>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*
Probab=1.00 E-value=1 Score=79.83 Aligned_cols=45 Identities=27% Similarity=0.552 Sum_probs=42.5
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHC
Q ss_conf 999999999999999999465979998992889989999999718
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEtLlLLEAIE~YGdNW~kIAEHVGTKTkeECIlHFLqL 420 (1038)
...||++|.+++|+||.+||.||..||++|||||..||+.||...
T Consensus 380 ~~~WT~eE~~~f~~al~~yGkdw~~IA~~VgTKT~~Qvk~fy~~~ 424 (482)
T 2xag_B 380 NARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNY 424 (482)
T ss_dssp CSCCCHHHHHHHHHHHHHHTTCHHHHHHHHSSCCHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 899998999999999999786899999783799899999999999
No 10
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B*
Probab=1.00 E-value=1 Score=78.68 Aligned_cols=45 Identities=27% Similarity=0.552 Sum_probs=42.6
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHC
Q ss_conf 999999999999999999465979998992889989999999718
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEtLlLLEAIE~YGdNW~kIAEHVGTKTkeECIlHFLqL 420 (1038)
...||++|..++++|+..||.||..||++|++||..||+.||+..
T Consensus 133 s~~WTeEE~~lFleAl~kYGKDW~~IAk~VgTKT~~QcKnfY~~~ 177 (235)
T 2iw5_B 133 NARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNY 177 (235)
T ss_dssp CSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf 799898999999999999886899999775999999999999999
Done!