Query 037988
Match_columns 468
No_of_seqs 247 out of 757
Neff 7.4
Searched_HMMs 29240
Date Mon Mar 25 10:33:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037988.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/037988hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wj2_A Probable WRKY transcrip 91.8 0.37 1.2E-05 37.3 6.1 41 113-153 37-77 (78)
2 2ayd_A WRKY transcription fact 91.8 0.35 1.2E-05 37.2 5.9 41 113-153 34-74 (76)
3 1q1v_A DEK protein; winged-hel 75.4 11 0.00038 28.2 7.2 53 157-210 10-65 (70)
4 1pdn_C Protein (PRD paired); p 46.2 29 0.00098 27.7 5.2 37 166-203 82-123 (128)
5 3hot_A Transposable element ma 45.1 2E+02 0.007 27.1 15.9 34 167-206 76-109 (345)
6 2rpr_A Flywch-type zinc finger 42.0 37 0.0013 26.1 5.0 45 102-153 26-74 (87)
7 1k78_A Paired box protein PAX5 40.9 37 0.0012 28.4 5.2 45 158-203 90-138 (149)
8 2ahq_A Sigma-54, RNA polymeras 40.7 56 0.0019 24.8 5.6 48 158-206 15-65 (76)
9 2k27_A Paired box protein PAX- 34.4 65 0.0022 27.2 5.9 40 166-205 90-133 (159)
10 1ex4_A Integrase; SH3-like dom 34.0 46 0.0016 30.2 5.1 18 381-398 94-111 (239)
11 2p5k_A Arginine repressor; DNA 32.0 67 0.0023 22.3 4.7 37 168-205 10-46 (64)
12 3l3u_A POL polyprotein; DNA in 27.3 1E+02 0.0035 25.6 5.9 36 256-298 10-45 (163)
No 1
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=91.83 E-value=0.37 Score=37.26 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=34.7
Q ss_pred ceEEEEEecCCCCcEEEEEEecCCCeEEEEeccCCCCCCCc
Q 037988 113 KRFKAKCLNKGCPWFIYAAQVEYGTKSIIQKLNKVHECNGV 153 (468)
Q Consensus 113 ~r~~~~C~~~~CpWri~as~~~~~~~~~I~~~~~~HtC~~~ 153 (468)
-|--.+|...+|+.+-+..+........+.+|.++|||+..
T Consensus 37 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 77 (78)
T 1wj2_A 37 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP 77 (78)
T ss_dssp CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred eeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCCC
Confidence 45568999999999999998876677778899999999863
No 2
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=91.78 E-value=0.35 Score=37.19 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=35.3
Q ss_pred ceEEEEEecCCCCcEEEEEEecCCCeEEEEeccCCCCCCCc
Q 037988 113 KRFKAKCLNKGCPWFIYAAQVEYGTKSIIQKLNKVHECNGV 153 (468)
Q Consensus 113 ~r~~~~C~~~~CpWri~as~~~~~~~~~I~~~~~~HtC~~~ 153 (468)
-|--.+|...+|+.+-+..+..+....-+.+|.++|||+..
T Consensus 34 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 74 (76)
T 2ayd_A 34 PRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDMP 74 (76)
T ss_dssp CEEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCCC
T ss_pred ceeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCCC
Confidence 45568999999999999998877777788999999999864
No 3
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=75.40 E-value=11 Score=28.25 Aligned_cols=53 Identities=13% Similarity=0.191 Sum_probs=40.6
Q ss_pred ccccHHHHHHHHHHHhhc-CC-CCCHHHHHHHHHHhh-CCcCCHHHHHHHHHHHHHH
Q 037988 157 KEASYKWIASQFERTLEN-NP-KMHVKAMKDELVSNL-GIKANMKKMYRAKKRAMDK 210 (468)
Q Consensus 157 ~~~ts~~ia~~~~~~i~~-~p-~~~~~~I~~~v~~~~-g~~vSy~k~~raK~~a~~~ 210 (468)
..+|...|...+++.|+. +. +++.+.|...|.++| |+++|-.+.+ .++.+...
T Consensus 10 ~~Psd~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dLs~kK~~-I~~~I~~~ 65 (70)
T 1q1v_A 10 KPPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDF-IKTTVKEL 65 (70)
T ss_dssp CCCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCSHHHHH-HHHHHHHH
T ss_pred CCcCHHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCChHHHHH-HHHHHHHH
Confidence 468889999999999984 54 688999999999999 9999955443 34434333
No 4
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5
Probab=46.17 E-value=29 Score=27.66 Aligned_cols=37 Identities=16% Similarity=0.403 Sum_probs=30.4
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHhhCC-----cCCHHHHHHH
Q 037988 166 SQFERTLENNPKMHVKAMKDELVSNLGI-----KANMKKMYRA 203 (468)
Q Consensus 166 ~~~~~~i~~~p~~~~~~I~~~v~~~~g~-----~vSy~k~~ra 203 (468)
..+...+..+|.+++.+|...+.+. |+ .+|++.++|.
T Consensus 82 ~~i~~~~~~~~~~s~~~i~~~l~~~-g~~~~~~~~s~~tv~r~ 123 (128)
T 1pdn_C 82 NRIEEYKRSSPGMFSWEIREKLIRE-GVCDRSTAPSVSAISRL 123 (128)
T ss_dssp HHHHHTTTTCTTCCHHHHHHHHHHT-SSSCSTTCCCHHHHHHH
T ss_pred HHHHHHHHhCcchHHHHHHHHHHHc-CCccccCCcCHHHHHHH
Confidence 3456667788999999999999876 88 6999999875
No 5
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=45.11 E-value=2e+02 Score=27.10 Aligned_cols=34 Identities=9% Similarity=0.256 Sum_probs=25.2
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHHhhCCcCCHHHHHHHHHH
Q 037988 167 QFERTLENNPKMHVKAMKDELVSNLGIKANMKKMYRAKKR 206 (468)
Q Consensus 167 ~~~~~i~~~p~~~~~~I~~~v~~~~g~~vSy~k~~raK~~ 206 (468)
.+...+..+|.++..+|.+.+ .+|.+.++|.-..
T Consensus 76 ~i~~~v~~~~~~t~~~ia~~l------~vs~~tV~r~L~~ 109 (345)
T 3hot_A 76 ELQALLDEDDAQTQKQLAEQL------EVSQQAVSNRLRE 109 (345)
T ss_dssp HHHHHHHHCSCCCHHHHHHHT------TSCHHHHHHHHHH
T ss_pred HHHHHHHhCccchHHHHHHHH------CCCHHHHHHHHHH
Confidence 344556779999999988765 5888888887544
No 6
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=42.00 E-value=37 Score=26.06 Aligned_cols=45 Identities=18% Similarity=0.228 Sum_probs=30.1
Q ss_pred ceE-EEEEecCCceEEEEEec---CCCCcEEEEEEecCCCeEEEEeccCCCCCCCc
Q 037988 102 QHF-IRVIKNDNKRFKAKCLN---KGCPWFIYAAQVEYGTKSIIQKLNKVHECNGV 153 (468)
Q Consensus 102 ~~~-~~~~ksd~~r~~~~C~~---~~CpWri~as~~~~~~~~~I~~~~~~HtC~~~ 153 (468)
.++ |...+....+.-=+|.. .+|+.||.... +. |. ....|||++.
T Consensus 26 ~Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~----~~--~~-~~~~HnH~p~ 74 (87)
T 2rpr_A 26 ESFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG----HR--IM-VMRSHCHQPD 74 (87)
T ss_dssp TTEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET----TE--EE-ECSCCSSCCC
T ss_pred CCEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC----CC--EE-CCCCcCCCCc
Confidence 345 65555556667788987 48999987653 22 22 4577999875
No 7
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=40.92 E-value=37 Score=28.39 Aligned_cols=45 Identities=18% Similarity=0.274 Sum_probs=33.8
Q ss_pred cccHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhh----CCcCCHHHHHHH
Q 037988 158 EASYKWIASQFERTLENNPKMHVKAMKDELVSNL----GIKANMKKMYRA 203 (468)
Q Consensus 158 ~~ts~~ia~~~~~~i~~~p~~~~~~I~~~v~~~~----g~~vSy~k~~ra 203 (468)
.++.... ..+...+..+|.+++.+|...+.++. |+.+|++.++|.
T Consensus 90 ~~~~~~~-~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r~ 138 (149)
T 1k78_A 90 VATPKVV-EKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRI 138 (149)
T ss_dssp SSCHHHH-HHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHH
T ss_pred CCCHHHH-HHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHHH
Confidence 3554433 34556677789999999999887776 888999998875
No 8
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=40.73 E-value=56 Score=24.79 Aligned_cols=48 Identities=10% Similarity=0.178 Sum_probs=38.5
Q ss_pred cccHHHHHHHHHHHhhc-CCC--CCHHHHHHHHHHhhCCcCCHHHHHHHHHH
Q 037988 158 EASYKWIASQFERTLEN-NPK--MHVKAMKDELVSNLGIKANMKKMYRAKKR 206 (468)
Q Consensus 158 ~~ts~~ia~~~~~~i~~-~p~--~~~~~I~~~v~~~~g~~vSy~k~~raK~~ 206 (468)
.+|+..|-..+++.|.. +|. ++-..|.+.|.++ |+.++..++-+.|+.
T Consensus 15 ~~S~~~Ik~~Ik~lI~~Ed~~kPlSD~~I~~~L~~~-Gi~IaRRTVaKYRe~ 65 (76)
T 2ahq_A 15 GLTQGELMKLIKEIVENEDKRKPYSDQEIANILKEK-GFKVARRTVAKYREM 65 (76)
T ss_dssp SCCHHHHHHHHHHHGGGCCSSSCCCHHHHHHHHTTT-SSCCCHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHc-CCCccHHHHHHHHHH
Confidence 46888888899999985 443 6668899988776 999999998887764
No 9
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=34.43 E-value=65 Score=27.17 Aligned_cols=40 Identities=15% Similarity=0.261 Sum_probs=31.2
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHhh----CCcCCHHHHHHHHH
Q 037988 166 SQFERTLENNPKMHVKAMKDELVSNL----GIKANMKKMYRAKK 205 (468)
Q Consensus 166 ~~~~~~i~~~p~~~~~~I~~~v~~~~----g~~vSy~k~~raK~ 205 (468)
..+...+..+|.+++.+|...+.++. |+.+|++.++|.-.
T Consensus 90 ~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r~L~ 133 (159)
T 2k27_A 90 EKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIR 133 (159)
T ss_dssp HHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHHHHH
T ss_pred HHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHHHHH
Confidence 34556667789999999999888765 67899999987643
No 10
>1ex4_A Integrase; SH3-like domain, nonspecific DNA binding beta sheet, CIS-Pro viral protein; HET: CPS; 2.80A {Human immunodeficiency virus 1} SCOP: b.34.7.1 c.55.3.2 PDB: 1qmc_A 1ihv_A 1ihw_A
Probab=34.00 E-value=46 Score=30.18 Aligned_cols=18 Identities=22% Similarity=0.261 Sum_probs=12.6
Q ss_pred eeeecCcchhhhhHHhhh
Q 037988 381 VDHVTNNLTESWNNWLNE 398 (468)
Q Consensus 381 ~~~~t~N~~Es~N~~i~~ 398 (468)
+.-.+|-.+|++|..|+.
T Consensus 94 ~~P~~NG~vEr~n~tlk~ 111 (239)
T 1ex4_A 94 YNPQSQGVVESMNKELKK 111 (239)
T ss_dssp ---CSSHHHHHHHHHHHH
T ss_pred CCcccchHHHHHHHHHHH
Confidence 344567789999999976
No 11
>2p5k_A Arginine repressor; DNA-binding domain, winged helix-turn-helix (WHTH), DNA binding protein; 1.00A {Bacillus subtilis} SCOP: a.4.5.3 PDB: 2p5l_C*
Probab=31.99 E-value=67 Score=22.31 Aligned_cols=37 Identities=19% Similarity=0.225 Sum_probs=29.0
Q ss_pred HHHHhhcCCCCCHHHHHHHHHHhhCCcCCHHHHHHHHH
Q 037988 168 FERTLENNPKMHVKAMKDELVSNLGIKANMKKMYRAKK 205 (468)
Q Consensus 168 ~~~~i~~~p~~~~~~I~~~v~~~~g~~vSy~k~~raK~ 205 (468)
+...+..++.+++.+|.+.+.+. |..+|..+++|.-+
T Consensus 10 i~~ll~~~~~~t~~el~~~l~~~-~~~vs~~Tv~R~L~ 46 (64)
T 2p5k_A 10 IREIITSNEIETQDELVDMLKQD-GYKVTQATVSRDIK 46 (64)
T ss_dssp HHHHHHHSCCCSHHHHHHHHHHT-TCCCCHHHHHHHHH
T ss_pred HHHHHHcCCCCCHHHHHHHHHHh-CCCcCHHHHHHHHH
Confidence 34455667788999999999765 78899999998754
No 12
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease, polynucleotidyl transferase, DNA binding, viral protein; 1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A 3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A 1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A 1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Probab=27.31 E-value=1e+02 Score=25.55 Aligned_cols=36 Identities=25% Similarity=0.324 Sum_probs=22.3
Q ss_pred eEEEeccccccCCCCCceEEEEeecCCCceEEeeEeeeccccc
Q 037988 256 WFMGLDDCHLNGPFGGVLLLAMALDAKNENFPIAVCICESECA 298 (468)
Q Consensus 256 ~vi~lD~t~l~~~y~g~Ll~avg~D~n~~~~piA~aiv~~E~~ 298 (468)
.++.+|.|++.|+ ..++-+|.... +++++.+ ..++.
T Consensus 10 ~~w~~D~t~~~g~-----y~~~~iD~~sr-~~~~~~~-~~~~~ 45 (163)
T 3l3u_A 10 GIWQLDCTHLEGK-----VILVAVHVASG-YIEAEVI-PAETG 45 (163)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTC-CEEEEEE-SSCCH
T ss_pred CEEEEEecccCCc-----EEEEEEecCCC-cEEEEEe-CCCcH
Confidence 4788999998764 34555666554 3466665 33443
Done!