Query 005579
Match_columns 690
No_of_seqs 307 out of 1395
Neff 8.6
Searched_HMMs 29240
Date Tue Mar 26 18:01:45 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/005579.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2088-2092//hhsearch_pdb/005579hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wj2_A Probable WRKY transcrip 1.0 1 1 28.0 4.9 57 81-161 20-76 (78)
2 2ayd_A WRKY transcription fact 1.0 1 1 27.2 6.7 58 80-161 16-73 (76)
3 2rpr_A Flywch-type zinc finger 1.0 1 1 23.1 6.2 26 129-163 50-75 (87)
4 3j20_Q 30S ribosomal protein S 1.0 1 1 21.0 3.8 38 170-207 22-60 (158)
5 3hot_A Transposable element ma 1.0 1 1 20.0 7.6 58 304-364 185-253 (345)
6 3kks_A Integrase, IN; beta-str 1.0 1 1 19.7 7.6 67 292-368 2-68 (152)
7 3hph_A Integrase, IN; protein- 1.0 1 1 17.7 7.2 66 293-368 61-126 (219)
8 1c0m_A Protein (integrase); HI 1.0 1 1 17.1 8.2 71 292-367 10-80 (238)
9 1bco_A MUA domain II, bacterio 1.0 1 1 16.4 7.3 72 292-366 16-95 (327)
10 3u5c_N S27A, YS15, 40S ribosom 1.0 1 1 16.3 8.0 96 170-265 22-142 (151)
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=1.00 E-value=1 Score=28.02 Aligned_cols=57 Identities=21% Similarity=0.360 Sum_probs=37.0
Q ss_pred CCEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEECCCCCC
Q ss_conf 93899800122179806999986235665456767877788889842125553458889556481109999860676799
Q 005579 81 GFSIRKARSTESQNLGIYRRDFVCYRSGFNQPRKKANVEHPRDRKSVRCGCDAKLYLTKEIVDGVTQWYVSQFSNVHNHE 160 (690)
Q Consensus 81 GF~ir~~~s~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~r~gCpa~i~i~~~~~~~~~~w~V~~~~~~HNH~ 160 (690)
||.-|+--.+.-++...-|.+|.|+. -||+|+=.|.+.. .+....++....+|||+
T Consensus 20 Gy~WRKYGQK~ikgs~~PRsYYrCt~----------------------~gC~a~K~Ver~~--~d~~~~~~tY~G~H~H~ 75 (78)
T 1wj2_A 20 GYRWRKYGQKVVKGNPYPRSYYKCTT----------------------PGCGVRKHVERAA--TDPKAVVTTYEGKHNHD 75 (78)
T ss_dssp SSCBCCCEEECCTTCSSCEEEEEEEC----------------------SSCEEEEEEEEET--TTTSEEEEEEESCCSSC
T ss_pred CCHHHHCCCCCCCCCCCEEEEEECCC----------------------CCCCCEEEEEEEC--CCCCEEEEEEEEECCCC
T ss_conf 76132176541179967047725486----------------------7998681079975--99989999983070898
Q ss_pred C
Q ss_conf 9
Q 005579 161 L 161 (690)
Q Consensus 161 l 161 (690)
+
T Consensus 76 ~ 76 (78)
T 1wj2_A 76 L 76 (78)
T ss_dssp C
T ss_pred C
T ss_conf 9
No 2
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=1.00 E-value=1 Score=27.23 Aligned_cols=58 Identities=19% Similarity=0.393 Sum_probs=37.3
Q ss_pred CCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEECCCCC
Q ss_conf 29389980012217980699998623566545676787778888984212555345888955648110999986067679
Q 005579 80 NGFSIRKARSTESQNLGIYRRDFVCYRSGFNQPRKKANVEHPRDRKSVRCGCDAKLYLTKEIVDGVTQWYVSQFSNVHNH 159 (690)
Q Consensus 80 ~GF~ir~~~s~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~r~gCpa~i~i~~~~~~~~~~w~V~~~~~~HNH 159 (690)
-||.-|+--.+.-++...-|.+|.|+. .||||+=.|.+.. .+....++....+|||
T Consensus 16 DGy~WRKYGQK~ikgs~~PRsYYrCt~----------------------~gC~a~K~Ver~~--~d~~~~~~tY~G~H~H 71 (76)
T 2ayd_A 16 DGYRWRKYGQKSVKGSPYPRSYYRCSS----------------------PGCPVKKHVERSS--HDTKLLITTYEGKHDH 71 (76)
T ss_dssp CSSCEEEEEEECCTTCSSCEEEEEECS----------------------TTCCCEEEEEECS--SSTTEEEEEEESCCSS
T ss_pred CCCHHHHCCCCCCCCCCCCEEEEECCC----------------------CCCCCEEEEEEEC--CCCCEEEEEECCCCCC
T ss_conf 876131276631179988412807178----------------------9998462179987--9998999998138089
Q ss_pred CC
Q ss_conf 99
Q 005579 160 EL 161 (690)
Q Consensus 160 ~l 161 (690)
++
T Consensus 72 ~~ 73 (76)
T 2ayd_A 72 DM 73 (76)
T ss_dssp CC
T ss_pred CC
T ss_conf 89
No 3
>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=1.00 E-value=1 Score=23.07 Aligned_cols=26 Identities=15% Similarity=0.213 Sum_probs=16.8
Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEEECCCCCCCCC
Q ss_conf 25553458889556481109999860676799999
Q 005579 129 CGCDAKLYLTKEIVDGVTQWYVSQFSNVHNHELLE 163 (690)
Q Consensus 129 ~gCpa~i~i~~~~~~~~~~w~V~~~~~~HNH~l~~ 163 (690)
.+|+|++.... .+ + .....||||+..
T Consensus 50 ~kCrARi~T~~-----~~---~-~~~~~HnH~p~~ 75 (87)
T 2rpr_A 50 LGCRSRAITQG-----HR---I-MVMRSHCHQPDL 75 (87)
T ss_dssp SCCCCEEEEET-----TE---E-EECSCCSSCCCH
T ss_pred CCCCEEEEECC-----CC---E-ECCCCCCCCCCH
T ss_conf 99988999918-----98---8-988874898965
No 4
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=1.00 E-value=1 Score=20.96 Aligned_cols=38 Identities=21% Similarity=0.359 Sum_probs=30.5
Q ss_pred CCCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf 21112589-889999999752599836799999874098
Q 005579 170 LPAYRKIQ-EADQERILLLSKAGFPVNRIVKVLELEKGV 207 (690)
Q Consensus 170 l~s~R~l~-~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~ 207 (690)
.|+.-+.+ ++..+.|..|.+.|..|.+|=-+|+.++|+
T Consensus 22 ~P~W~~~~~eev~~~i~klakkG~~pSqIG~~LRD~~gi 60 (158)
T 3j20_Q 22 PPIWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYGI 60 (158)
T ss_dssp CCSSSCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTCC
T ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCC
T ss_conf 997758999999999999998799888862788315898
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=1.00 E-value=1 Score=20.02 Aligned_cols=58 Identities=17% Similarity=0.157 Sum_probs=36.1
Q ss_pred CCCCCEEEEEEEEECCCCEEEEEEEECC---CCCCCHHHHHHHHHHHHH----CC----CCCEEEECCCCHH
Q ss_conf 3568501268988216964889776423---787205999999999982----69----9982774242018
Q 005579 304 ITYGLLLGVWFGMDNHGKAIFFGCVLLQ---DESTHSFAWALQTFVRFM----RG----RHPQTILTDIDLG 364 (690)
Q Consensus 304 n~y~~pl~~~~gvd~~g~~~~~~~al~~---~Et~es~~w~l~~f~~~~----~~----~~p~~iitD~~~~ 364 (690)
+..+..+.++..++..| ++++.++. .-+.+.|.-+|+.++..+ +. ..+.+++.|....
T Consensus 185 ~~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~~ 253 (345)
T 3hot_A 185 NRFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPS 253 (345)
T ss_dssp CTTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCTT
T ss_pred CCCCCCEEEEEEECCCC---CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCHHHHCCCCCEEEEECCCCC
T ss_conf 67677379999971567---3456742899731599999999999999987461333178866999789986
No 6
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=1.00 E-value=1 Score=19.69 Aligned_cols=67 Identities=9% Similarity=0.170 Sum_probs=47.5
Q ss_pred CCEEEECCCCCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHH
Q ss_conf 97999836423335685012689882169648897764237872059999999999826999827742420189999
Q 005579 292 GDVVTFDTSYRSITYGLLLGVWFGMDNHGKAIFFGCVLLQDESTHSFAWALQTFVRFMRGRHPQTILTDIDLGLRDS 368 (690)
Q Consensus 292 ~dvv~~D~Ty~tn~y~~pl~~~~gvd~~g~~~~~~~al~~~Et~es~~w~l~~f~~~~~~~~p~~iitD~~~~l~~A 368 (690)
++++.+|.|+..+ .+.++.+|...+.+ +++.+ .+++.+...-+|..+....+ |..|.+|+.......
T Consensus 2 n~~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~f~s~ 68 (152)
T 3kks_A 2 SHLWQMDNTHWNK-----TIIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRYT---VLHLHSDNGPCFTAH 68 (152)
T ss_dssp CCEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHSC---CSEEEECSCHHHHSH
T ss_pred CCEEEEEEEEECC-----EEEEEEEECCCCCE-EEEEE-CCCCHHHHHHHHHHHHHHHC---CCEEECCCCHHHHHH
T ss_conf 9679985335299-----89999998689969-99980-78678999999999999849---858953995076689
No 7
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=1.00 E-value=1 Score=17.67 Aligned_cols=66 Identities=11% Similarity=0.142 Sum_probs=44.3
Q ss_pred CEEEECCCCCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHH
Q ss_conf 7999836423335685012689882169648897764237872059999999999826999827742420189999
Q 005579 293 DVVTFDTSYRSITYGLLLGVWFGMDNHGKAIFFGCVLLQDESTHSFAWALQTFVRFMRGRHPQTILTDIDLGLRDS 368 (690)
Q Consensus 293 dvv~~D~Ty~tn~y~~pl~~~~gvd~~g~~~~~~~al~~~Et~es~~w~l~~f~~~~~~~~p~~iitD~~~~l~~A 368 (690)
+++.+|.|+..++ +.++.+|...+.+ .++. +.+++.....-+|..+....| |..|.||+.......
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMFA---PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHHC---CCEEEECCCHHHHSH
T ss_pred CEEEEEEECCCCE-----EEEEEEECCCCCE-EEEE-ECCCCHHHHHHHHHHHHHHHC---CCEEEECCCCHHHHH
T ss_conf 6388988437997-----9999995789968-9998-389799999999999999859---958974898023369
No 8
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A
Probab=1.00 E-value=1 Score=17.07 Aligned_cols=71 Identities=13% Similarity=0.002 Sum_probs=48.8
Q ss_pred CCEEEECCCCCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCHHHHH
Q ss_conf 9799983642333568501268988216964889776423787205999999999982699982774242018999
Q 005579 292 GDVVTFDTSYRSITYGLLLGVWFGMDNHGKAIFFGCVLLQDESTHSFAWALQTFVRFMRGRHPQTILTDIDLGLRD 367 (690)
Q Consensus 292 ~dvv~~D~Ty~tn~y~~pl~~~~gvd~~g~~~~~~~al~~~Et~es~~w~l~~f~~~~~~~~p~~iitD~~~~l~~ 367 (690)
.+++.+|.|+.....+ -.+.++.+|...+.+. |+.+- +++.+...-+|.......+ .|.+|.||+......
T Consensus 10 ~~~w~~D~~~~~~~~g-~~yl~~~iD~~Sr~i~-~~~~~-~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 10 LQIWQTDFTLEPRMAP-RSWLAVTVDTASSAIV-VTQHG-RVTSVAVQHHWATAIAVLG--RPKAIKTDNGSCFTS 80 (238)
T ss_dssp TSEEEEEEEECGGGCS-SCEEEEEEETTTCCEE-EEEES-SCCHHHHHHHHHHHHHHHC--CCSEEEECSCHHHHS
T ss_pred CCEEEEEECCCCCCCC-CEEEEEEEECCCCCEE-EEECC-CCCHHHHHHHHHHHHHHHC--CCCEEEECCCCCCCC
T ss_conf 9889971646554699-8899999988899799-99806-8879999999999999869--995899789875546
No 9
>1bco_A MUA domain II, bacteriophage MU transposase; polynucleotidyl transferase, DNA binding, endonuclease, integrase; 2.40A {Enterobacteria phage MU} SCOP: b.48.1.1 c.55.3.3 PDB: 1bcm_A
Probab=1.00 E-value=1 Score=16.39 Aligned_cols=72 Identities=19% Similarity=0.174 Sum_probs=47.9
Q ss_pred CCEEEECCCCCCCC----CCC--EEEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCE--EEECCCCH
Q ss_conf 97999836423335----685--01268988216964889776423787205999999999982699982--77424201
Q 005579 292 GDVVTFDTSYRSIT----YGL--LLGVWFGMDNHGKAIFFGCVLLQDESTHSFAWALQTFVRFMRGRHPQ--TILTDIDL 363 (690)
Q Consensus 292 ~dvv~~D~Ty~tn~----y~~--pl~~~~gvd~~g~~~~~~~al~~~Et~es~~w~l~~f~~~~~~~~p~--~iitD~~~ 363 (690)
++++.+|.|+.... .+. ...+.+.+|.....+ +|+.+...++.++..-+|.......+ .|. .|.+|+..
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR~i-vg~~~~~~~~~~~v~~aL~~a~~~~G--~P~~~~i~sDnG~ 92 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRKI-LGWRCDVSENIDSIRLSFMDVVTRYG--IPEDFHITIDNTR 92 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTCCE-EEEEEESSCCHHHHHHHHHHHHHHHC--EESSCEEECCCTT
T ss_pred CCEEEECCCEEEEEEECCCCCCCEEEEEEEEECCCCCE-EEEEEECCCCHHHHHHHHHHHHHHCC--CCCCCEEEEECCH
T ss_conf 76899668789899987799635059999999877947-89999778799999999999998539--9997289920863
Q ss_pred HHH
Q ss_conf 899
Q 005579 364 GLR 366 (690)
Q Consensus 364 ~l~ 366 (690)
...
T Consensus 93 ~f~ 95 (327)
T 1bco_A 93 GAA 95 (327)
T ss_dssp STT
T ss_pred HHC
T ss_conf 220
No 10
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O
Probab=1.00 E-value=1 Score=16.27 Aligned_cols=96 Identities=23% Similarity=0.339 Sum_probs=55.0
Q ss_pred CCCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCC----------------CCCCCCCCCCHHHHHHH---HHH
Q ss_conf 21112589-88999999975259983679999987409889----------------99876401001138875---443
Q 005579 170 LPAYRKIQ-EADQERILLLSKAGFPVNRIVKVLELEKGVQP----------------GQLPFIEKDVRNFVRTC---KKT 229 (690)
Q Consensus 170 l~s~R~l~-~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~----------------~~~~~t~~Di~N~~~~~---rk~ 229 (690)
.|+.-+++ ++..+.|..|.+.|.+|.+|--+|+.++|+.. +-.|-...|++|++.+. |+-
T Consensus 22 ~P~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~lrkH 101 (151)
T 3u5c_N 22 APAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKH 101 (151)
T ss_dssp CCSSCCSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSCHHHHSSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 99774799999999999999879988785147721689977123244379999996799889967799999999999999
Q ss_pred HHHHH----H-HHHHCCCCHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf 20013----5-664105240999999999640279970899
Q 005579 230 VQEND----A-LLTEKRENDTLELLEACKNMAERDVDFVYD 265 (690)
Q Consensus 230 ~~~~~----~-~~~e~~~~d~~~ll~~~~~~~~~np~f~~~ 265 (690)
+.++. . ..-...++-+..|..|.++...-.|+|.|.
T Consensus 102 Le~n~kD~~sK~~L~liESkI~RL~rYYk~~~~LP~~WkY~ 142 (151)
T 3u5c_N 102 LERNRKDKDAKFRLILIESRIHRLARYYRTVAVLPPNWKYE 142 (151)
T ss_dssp HHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCC
T ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf 98765427778899999999999999998358699997177
Done!