Query 002554
Match_columns 908
No_of_seqs 252 out of 506
Neff 3.3
Searched_HMMs 29240
Date Tue Mar 26 17:19:37 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/002554.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1272-1275//hhsearch_pdb/002554hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wid_A DNA-binding protein RAV 1.0 1 1 198.5 13.2 120 348-470 3-127 (130)
2 2l7p_A Histone-lysine N-methyl 1.0 1 1 144.8 3.4 62 587-649 22-87 (100)
3 2e61_A Zinc finger CW-type PWW 1.0 1 1 128.2 3.1 53 586-639 11-68 (69)
4 4i1k_A B3 domain-containing tr 1.0 1 1 120.0 11.8 98 355-460 45-143 (146)
5 1yel_A AT1G16640; CESG, protei 1.0 1 1 98.7 10.9 95 355-459 7-101 (104)
6 4gut_A Lysine-specific histone 1.0 1 1 48.9 -0.9 31 77-107 89-138 (776)
7 1na6_A Ecorii, restriction end 1.0 1 1 33.4 7.4 91 356-446 18-123 (404)
8 3kv5_D JMJC domain-containing 1.0 1 1 28.9 0.0 42 79-121 50-91 (488)
9 2ri7_A Nucleosome-remodeling f 1.0 1 1 26.4 0.1 40 81-121 23-62 (174)
10 1wee_A PHD finger family prote 1.0 1 1 25.8 2.6 30 590-619 28-62 (72)
No 1
>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2
Probab=1.00 E-value=1 Score=198.48 Aligned_cols=120 Identities=38% Similarity=0.717 Sum_probs=105.3
Q ss_pred CCCCCCCCCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCC---CCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCC
Q ss_conf 2899873011099855504479999698402325200999999---9983399996999939999999299998550123
Q 002554 348 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQ---PEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE 424 (908)
Q Consensus 348 sgd~ns~~~~LFeKvLT~SDVgslgRLVIPKk~AEs~FPpLd~---~~Gv~L~VkD~~GK~WtFRfsfw~NN~SR~YVLt 424 (908)
+|..+....++|+|+||+|||++++||+||+++|+.|||.++. .+++.|.++|.+|++|+|+|+|| +.+++|+|+
T Consensus 3 ~~~~~~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~--~~~~~~~Lt 80 (130)
T 1wid_A 3 SGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW--NSSQSYVLT 80 (130)
T ss_dssp -----CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEE--TTTTEEEEE
T ss_pred CCCCCCCCCCEEEEEEEHHHCCCCCEEEECHHHHHHHCCCCCCCCCCCCEEEEEEECCCCEEEEEEEEE--CCCCCEEEC
T ss_conf 877899986249999855771897779967899996688654445788389999958999999999997--899963883
Q ss_pred -CCHHHHHCCCCCCCCEEEEEEEC-CCCEEEEEEEECCCCCCCCCHHH
Q ss_conf -82236420588789889999745-99829999994799878630100
Q 002554 425 -GVTPCIQNMQLQAGDIVTFSRLE-PEGKLVMGFRKASSASASDQDNE 470 (908)
Q Consensus 425 -GWs~FVRsKkLkaGDtVVF~R~e-~nGkL~IGVRRas~~~~s~q~~~ 470 (908)
||..||++|+|++||+|+|++.+ .+++|+|++||+.... ++|++.
T Consensus 81 ~GW~~FV~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~~~-~~~~~~ 127 (130)
T 1wid_A 81 KGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD-LDASGP 127 (130)
T ss_dssp SSHHHHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCSCS-SCC---
T ss_pred CCHHHHHHHCCCCCCCEEEEEEECCCCCEEEEEEEECCCCC-CCCCCC
T ss_conf 77488778719988989999995389968999999899998-665688
No 2
>2l7p_A Histone-lysine N-methyltransferase ASHH2; CW-domain; NMR {Arabidopsis thaliana}
Probab=1.00 E-value=1 Score=144.76 Aligned_cols=62 Identities=32% Similarity=0.776 Sum_probs=56.0
Q ss_pred CCCCCCEEECCCCCCCCCCCCCC----CCCCCCEEECCCCCCCCCCCCCCCCCCHHHHHHHHCCCCC
Q ss_conf 78858659536761001568998----8999927624998989998881101553668767299991
Q 002554 587 VGEKIQWVQCEDCSKWRKVPANA----RLPSKWTCSGNLWDPERSVCSVAQELREEQLEDLIAPNNP 649 (908)
Q Consensus 587 ~ge~~~WVQCD~C~KWRkLP~~~----~lP~kW~CsmN~WDp~~~sCsaPEE~~~~el~~LL~~~y~ 649 (908)
.....+|||||.|+|||+||..+ .+|++|||+||+ |+.+++|++|||.++++|+.+|+++..
T Consensus 22 ~~~~~~WVQCD~C~KWRrLP~~~~~~~~~pd~W~C~mN~-D~~~nsCs~PEE~~~~ei~~~l~~~~~ 87 (100)
T 2l7p_A 22 YSTESAWVRCDDCFKWRRIPASVVGSIDESSRWICMNNS-DKRFADCSKSQEMSNEEINEELGIGQD 87 (100)
T ss_dssp CSSSSEEEECTTTCCEEEECHHHHTTSTTSSCCCGGGSS-CSSSCSTTSCCSSCHHHHHHHHTCCCC
T ss_pred CCCCCEEEEECCCCCCCCCCHHHCCCCCCCCCCEECCCC-CCCCCCCCCCCCCCHHHHHHHHCCCCC
T ss_conf 787880784078783111886675254899876607899-987788888657898999988660523
No 3
>2e61_A Zinc finger CW-type PWWP domain protein 1; ZF-CW domain, structural genomics, NPPSFA, national project protein structural and functional analyses; NMR {Homo sapiens} PDB: 2rr4_A*
Probab=1.00 E-value=1 Score=128.19 Aligned_cols=53 Identities=34% Similarity=0.864 Sum_probs=47.9
Q ss_pred CCCCCCCEEECC--CCCCCCCCCCCC---CCCCCCEEECCCCCCCCCCCCCCCCCCHHH
Q ss_conf 878858659536--761001568998---899992762499898999888110155366
Q 002554 586 NVGEKIQWVQCE--DCSKWRKVPANA---RLPSKWTCSGNLWDPERSVCSVAQELREEQ 639 (908)
Q Consensus 586 ~~ge~~~WVQCD--~C~KWRkLP~~~---~lP~kW~CsmN~WDp~~~sCsaPEE~~~~e 639 (908)
..++..+||||| .|+|||+||..+ .+|++|||+||+ |+.+++|++|||.++..
T Consensus 11 ~~~~~~~WVQCd~p~C~KWR~LP~~~~~~~lpd~W~C~mN~-d~~~~~Cs~pEE~~~~~ 68 (69)
T 2e61_A 11 GFGQCLVWVQCSFPNCGKWRRLCGNIDPSVLPDNWSCDQNT-DVQYNRCDIPEETWTGL 68 (69)
T ss_dssp SCCCCCCEEECSSTTTCCEEECCSSCCTTTSCTTCCGGGCS-CGGGCSSSSCCCCCCCC
T ss_pred CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCCCCCCCCCCCC
T ss_conf 77889817876944267104883300611289757858889-97667889875667777
No 4
>4i1k_A B3 domain-containing transcription factor VRN1; B3 domain beta-barrel, DNA binding protein; 1.60A {Arabidopsis thaliana}
Probab=1.00 E-value=1 Score=120.00 Aligned_cols=98 Identities=24% Similarity=0.288 Sum_probs=82.7
Q ss_pred CCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCC
Q ss_conf 01109985550447999969840232520099999999833999969999399999992999985501238223642058
Q 002554 355 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQ 434 (908)
Q Consensus 355 ~~~LFeKvLT~SDVgslgRLVIPKk~AEs~FPpLd~~~Gv~L~VkD~~GK~WtFRfsfw~NN~SR~YVLtGWs~FVRsKk 434 (908)
-.+.|.|+|++||+.+..+|.||+..++.|||.. ...+.++|. |+.|.|++.|+ + +++++..||..||++++
T Consensus 45 ~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~----~~~i~L~~~-gk~W~v~~~~~--~-~~~~ls~GW~~Fv~dn~ 116 (146)
T 4i1k_A 45 TNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGI----SGFIKVQLA-EKQWPVRCLYK--A-GRAKFSQGWYEFTLENN 116 (146)
T ss_dssp SSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTC----CSEEEEEET-TEEEEEEEEEE--T-TEEEECTTHHHHHHHTT
T ss_pred CCCEEEEEECCHHCCCCCEEEECHHHHHHHCCCC----CEEEEEEEC-CCEEEEEEEEE--C-CCEEECCCHHHHHHHCC
T ss_conf 9998999978566189867990999999748888----837999979-94789899995--8-90787776389888759
Q ss_pred CCCCCEEEEEEECCCC-EEEEEEEECC
Q ss_conf 8789889999745998-2999999479
Q 002554 435 LQAGDIVTFSRLEPEG-KLVMGFRKAS 460 (908)
Q Consensus 435 LkaGDtVVF~R~e~nG-kL~IGVRRas 460 (908)
|++||+|+|...+... .|.|.|-|+.
T Consensus 117 L~~GD~cvFeli~~~~~~f~V~IfR~~ 143 (146)
T 4i1k_A 117 LGEGDVCVFELLRTRDFVLKVTAFRVN 143 (146)
T ss_dssp CCTTCEEEEEECSSSSCEEEEEEECCC
T ss_pred CCCCCEEEEEEECCCCEEEEEEEEECC
T ss_conf 998989999993698659999999445
No 5
>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2
Probab=1.00 E-value=1 Score=98.71 Aligned_cols=95 Identities=14% Similarity=0.272 Sum_probs=77.6
Q ss_pred CCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCC
Q ss_conf 01109985550447999969840232520099999999833999969999399999992999985501238223642058
Q 002554 355 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQ 434 (908)
Q Consensus 355 ~~~LFeKvLT~SDVgslgRLVIPKk~AEs~FPpLd~~~Gv~L~VkD~~GK~WtFRfsfw~NN~SR~YVLtGWs~FVRsKk 434 (908)
-.+.|.|+|+++|.. .+|.||++.++.+.+.+ +..+.++|..|+.|.++++.+ ..+.++..||..||++++
T Consensus 7 ~~p~F~K~l~~~~~~--~~L~IP~~F~~~~~~~~----~~~v~L~~~~G~~W~v~~~~~---~~~~~l~~GW~~Fv~~~~ 77 (104)
T 1yel_A 7 GEVQFMKPFISEKSS--KSLEIPLGFNEYFPAPF----PITVDLLDYSGRSWTVRMKKR---GEKVFLTVGWENFVKDNN 77 (104)
T ss_dssp CCEEEEEECCHHHHT--TCEECCHHHHTTCCCCC----CSEEEEEETTSCEEEEEEEEE---TTEEEECTTHHHHHHHHT
T ss_pred CCCCEEEEECCCCCC--CEEECCHHHHHHCCCCC----CCEEEEECCCCCEEEEEEEEE---CCCEEECCCHHHHHHHCC
T ss_conf 898789998777755--31888999998648669----988999979999999999998---994998629499999759
Q ss_pred CCCCCEEEEEEECCCCEEEEEEEEC
Q ss_conf 8789889999745998299999947
Q 002554 435 LQAGDIVTFSRLEPEGKLVMGFRKA 459 (908)
Q Consensus 435 LkaGDtVVF~R~e~nGkL~IGVRRa 459 (908)
|++||.++|.... +..+.|-|=+.
T Consensus 78 L~~GD~lvF~~~~-~~~f~V~If~~ 101 (104)
T 1yel_A 78 LEDGKYLQFIYDR-DRTFYVIIYGH 101 (104)
T ss_dssp CCTTCEEEEEECS-SSEEEEEEECS
T ss_pred CCCCCEEEEEECC-CCEEEEEEECC
T ss_conf 9989899999858-97699999789
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=48.92 Aligned_cols=31 Identities=23% Similarity=0.450 Sum_probs=19.5
Q ss_pred CCCCCCCCC--CCCC----------------CEEECHHHHHH-HHHHHCC
Q ss_conf 899742232--4798----------------10000020013-4554215
Q 002554 77 NASGWRCCE--SCGK----------------RVHCGCITSVH-AFTLLDA 107 (908)
Q Consensus 77 ~~sGWR~C~--~CgK----------------rlHCGCIaS~~-~~~LLD~ 107 (908)
.-+=|-.|. .||| +.-|||+...+ .++..|.
T Consensus 89 ~l~~~~~c~~~~c~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ 138 (776)
T 4gut_A 89 QLPYWVQCTKPECRKWRQLTKEIQLTPQIAKTYRCGMKPNTAIKPETSDH 138 (776)
T ss_dssp TSCCEEECCCTTTCCEEECCTTCCCCHHHHHHCCTTCCCC-------CCG
T ss_pred CCCHHHHCCCCCCCCHHHCCCCCCCCHHHHHEEECCCCCCCCCCCCCCCC
T ss_conf 37673524853455332078767778413025665685676533466887
No 7
>1na6_A Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli} SCOP: b.142.1.1 c.52.1.22 PDB: 3hqg_A 3hqf_A
Probab=1.00 E-value=1 Score=33.45 Aligned_cols=91 Identities=15% Similarity=0.155 Sum_probs=63.9
Q ss_pred CCEEEEECCCCCCCCC----CCEEEEHHHHHHCCCCCCCC----CCCEEEE--EECCCCEEEEEEEECCC----CCCCCC
Q ss_conf 1109985550447999----96984023252009999999----9833999--96999939999999299----998550
Q 002554 356 TPLFEKMLSASDAGRI----GRLVLPKKCAEAYFPPISQP----EGLPLKV--QDSKGKEWIFQFRFWPN----NNSRMY 421 (908)
Q Consensus 356 ~~LFeKvLT~SDVgsl----gRLVIPKk~AEs~FPpLd~~----~Gv~L~V--kD~~GK~WtFRfsfw~N----N~SR~Y 421 (908)
...|.|.|++.|++.. ..+.+||..+..+||.|..+ +.+.+.+ -|-..-.+.++++|.-| ..+..|
T Consensus 18 ~~v~~K~LSAnDtgatgshQ~gi~ipk~~l~~lfp~lg~~~e~~~~~~~~~~l~d~d~p~td~~~twYn~R~~~~tRnEy 97 (404)
T 1na6_A 18 YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNEK 97 (404)
T ss_dssp EEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCEE
T ss_pred CHHEEEECCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCEEEEEEEEECCCCCCCCCCCE
T ss_conf 04135772244578877764445785689998635489865567763157784168884277899983264668988745
Q ss_pred CCCCCH-HHHHCCCCCCCCEEEEEEE
Q ss_conf 123822-3642058878988999974
Q 002554 422 VLEGVT-PCIQNMQLQAGDIVTFSRL 446 (908)
Q Consensus 422 VLtGWs-~FVRsKkLkaGDtVVF~R~ 446 (908)
-++.|. .+.-.....+||.++|.+.
T Consensus 98 RLt~~~~~~~~~~~a~~GDLlvia~~ 123 (404)
T 1na6_A 98 RITRWGRGSPLQDPENTGALTLLAFK 123 (404)
T ss_dssp EEECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred EEEECCCCCCCCCCCCCCCEEEEEEE
T ss_conf 88402789865466888788999872
No 8
>3kv5_D JMJC domain-containing histone demethylation protein 1D; epigenetics, histone CODE, jumonji lysine demethylase, metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo sapiens} PDB: 3kv6_A*
Probab=1.00 E-value=1 Score=28.90 Aligned_cols=42 Identities=19% Similarity=0.320 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCCEEECHHHHHHHHHHHCCCCCCEECCCCCCCC
Q ss_conf 9742232479810000020013455421588430012112442
Q 002554 79 SGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVL 121 (908)
Q Consensus 79 sGWR~C~~CgKrlHCGCIaS~~~~~LLD~GGv~C~~Ca~~~~~ 121 (908)
.-|-.|..|..-.|..|+--.. -..-+.+---|-.|..+.+.
T Consensus 50 ~~MIqCd~C~~WfH~~Cvgl~~-~~~~~~~~~~C~~C~~~~~~ 91 (488)
T 3kv5_D 50 RFMIECDICKDWFHGSCVGVEE-HHAVDIDLYHCPNCAVLHGS 91 (488)
T ss_dssp SCEEEBTTTCCEEEHHHHTCCG-GGGGGEEEBCCHHHHHHHCS
T ss_pred CCEEECCCCCCCEEEEECCCCC-CCCCCCCEEECCCCCCCCCC
T ss_conf 8768746888756421067574-43468887988998677685
No 9
>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*
Probab=1.00 E-value=1 Score=26.43 Aligned_cols=40 Identities=15% Similarity=0.341 Sum_probs=19.4
Q ss_pred CCCCCCCCCCEEECHHHHHHHHHHHCCCCCCEECCCCCCCC
Q ss_conf 42232479810000020013455421588430012112442
Q 002554 81 WRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVL 121 (908)
Q Consensus 81 WR~C~~CgKrlHCGCIaS~~~~~LLD~GGv~C~~Ca~~~~~ 121 (908)
|-.|..|..-.|-.|+--. ..+.-..+---|..|..+...
T Consensus 23 mi~Cd~C~~WfH~~Cv~~~-~~~~~~~~~~~C~~C~~~~~~ 62 (174)
T 2ri7_A 23 YIGCDRCQNWYHGRCVGIL-QSEAELIDEYVCPQCQSTEDA 62 (174)
T ss_dssp EEECTTTCCEEEHHHHTCC-HHHHTTCSSCCCHHHHHHHHH
T ss_pred EEECCCCCCHHCHHHCCCC-HHHCCCCCCEECCCCCCHHCC
T ss_conf 8678999802086326975-112257667564899412113
No 10
>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2
Probab=1.00 E-value=1 Score=25.80 Aligned_cols=30 Identities=27% Similarity=0.715 Sum_probs=20.9
Q ss_pred CCCEEECCCCCCCCCCCC-C----CCCCCCCEEEC
Q ss_conf 586595367610015689-9----88999927624
Q 002554 590 KIQWVQCEDCSKWRKVPA-N----ARLPSKWTCSG 619 (908)
Q Consensus 590 ~~~WVQCD~C~KWRkLP~-~----~~lP~kW~Csm 619 (908)
...|||||.|..|-.+.= + ..+|++|+|..
T Consensus 28 g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~ 62 (72)
T 1wee_A 28 GERMLACDGCGVWHHTRCIGINNADALPSKFLCFR 62 (72)
T ss_dssp SSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHH
T ss_pred CCCEEECCCCCCCCCCEEECCCCCCCCCCCEECCC
T ss_conf 98578778878765784466675545898589988
Done!