Query 002489
Match_columns 916
No_of_seqs 249 out of 523
Neff 3.2
Searched_HMMs 29240
Date Tue Mar 26 23:10:24 2013
Command hhsearch -i /local_scratch/syshi/lefta3m2/002489.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H2_49-53//hhsearch_pdb/002489hhsearch_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 1 199.0 13.1 120 356-478 3-127 (130)
2 2l7p_A Histone-lysine N-methyl 1.0 1 1 147.7 3.2 62 595-657 22-87 (100)
3 2e61_A Zinc finger CW-type PWW 1.0 1 1 128.5 3.1 52 594-646 11-67 (69)
4 4i1k_A B3 domain-containing tr 1.0 1 1 120.3 11.7 98 363-468 45-143 (146)
5 1yel_A AT1G16640; CESG, protei 1.0 1 1 99.0 11.1 95 363-467 7-101 (104)
6 4gut_A Lysine-specific histone 1.0 1 1 50.9 -1.1 31 77-107 89-138 (776)
7 1na6_A Ecorii, restriction end 1.0 1 1 34.8 6.4 91 364-454 18-123 (404)
8 3kv5_D JMJC domain-containing 1.0 1 1 30.2 0.2 52 59-121 40-91 (488)
9 2ri7_A Nucleosome-remodeling f 1.0 1 1 27.6 0.1 40 81-121 23-62 (174)
10 1wee_A PHD finger family prote 1.0 1 1 26.9 2.7 30 598-627 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=198.99 Aligned_cols=120 Identities=38% Similarity=0.717 Sum_probs=105.2
Q ss_pred CCCCCCCCCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCC---CCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCC
Q ss_conf 1899873021099855504479999687401324201999999---9993399996999939999999299998550113
Q 002489 356 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQ---PEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE 432 (916)
Q Consensus 356 sgd~ns~~~~LFeKvLT~SDVgslgRLVIPKk~AEa~FPpLd~---~~Gi~L~VqD~~GK~WtFRfsyw~NN~SR~YVLt 432 (916)
+|..+.+..++|+|+||+|||++.+||+||+++|++|||+++. .+++.|.++|.+|++|+|+|+|| +.+++|+|+
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-CCCEEEEEEEECCCCCCCCCHHC
Q ss_conf -82236420588789899999745-99819999996799767530000
Q 002489 433 -GVTPCIQNMQLQAGDIVTFSRLE-PEGKLVMGFRKASSASASDQDNE 478 (916)
Q Consensus 433 -GWs~FVRsK~LkaGDtVVF~R~e-~~GkL~IGVRRa~~~~~s~q~~~ 478 (916)
||..||++|+|++||+|+|++.+ .+++|+|++||+.... ++|.+.
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=147.72 Aligned_cols=62 Identities=32% Similarity=0.776 Sum_probs=56.1
Q ss_pred CCCCCCEEECCCCCCCCCCCCCC----CCCCCCEEECCCCCCCCCCCCCCCCCCHHHHHHHHCCCCC
Q ss_conf 78868648347774112468998----8999917633998989998892213774888877299992
Q 002489 595 VGEKIQWVQCEDCSKWRKVPANA----RLPSKWTCSGNLWDPERSVCSVAQELREEQLEDLIAPNNP 657 (916)
Q Consensus 595 ~ge~~~WVQCD~C~KWRrLP~~~----~lP~kW~CsmN~WDp~~~sCsaPEE~~~~el~~ll~~~~~ 657 (916)
.....+|||||.|+|||+||..+ .+|++|||+||+ |+.+++|++|||.+++||+++|++++.
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=128.54 Aligned_cols=52 Identities=35% Similarity=0.891 Sum_probs=47.2
Q ss_pred CCCCCCCEEECC--CCCCCCCCCCCC---CCCCCCEEECCCCCCCCCCCCCCCCCCHH
Q ss_conf 878868648347--774112468998---89999176339989899988922137748
Q 002489 594 NVGEKIQWVQCE--DCSKWRKVPANA---RLPSKWTCSGNLWDPERSVCSVAQELREE 646 (916)
Q Consensus 594 ~~ge~~~WVQCD--~C~KWRrLP~~~---~lP~kW~CsmN~WDp~~~sCsaPEE~~~~ 646 (916)
..++..+||||| .|+|||+||..+ .+|++|||+||+ |+.+++|++|||.++.
T Consensus 11 ~~~~~~~WVQCd~p~C~KWR~LP~~~~~~~lpd~W~C~mN~-d~~~~~Cs~pEE~~~~ 67 (69)
T 2e61_A 11 GFGQCLVWVQCSFPNCGKWRRLCGNIDPSVLPDNWSCDQNT-DVQYNRCDIPEETWTG 67 (69)
T ss_dssp SCCCCCCEEECSSTTTCCEEECCSSCCTTTSCTTCCGGGCS-CGGGCSSSSCCCCCCC
T ss_pred CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCCCCCCCCCCC
T ss_conf 77889817876944267104883300611289757858889-9766788987566777
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=120.33 Aligned_cols=98 Identities=24% Similarity=0.288 Sum_probs=82.7
Q ss_pred CCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCC
Q ss_conf 02109985550447999968740132420199999999933999969999399999992999985501138223642058
Q 002489 363 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQ 442 (916)
Q Consensus 363 ~~~LFeKvLT~SDVgslgRLVIPKk~AEa~FPpLd~~~Gi~L~VqD~~GK~WtFRfsyw~NN~SR~YVLtGWs~FVRsK~ 442 (916)
-.+.|.|+|++||+.+..+|.||+..++.|||.. ...+.++|. |+.|.|++.|+ + +++++..||..||++++
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 8789899999745998-1999999679
Q 002489 443 LQAGDIVTFSRLEPEG-KLVMGFRKAS 468 (916)
Q Consensus 443 LkaGDtVVF~R~e~~G-kL~IGVRRa~ 468 (916)
|++||+|+|...+... .|.|.|-|+.
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=99.03 Aligned_cols=95 Identities=14% Similarity=0.272 Sum_probs=77.4
Q ss_pred CCCEEEEECCCCCCCCCCCEEEEHHHHHHCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCC
Q ss_conf 02109985550447999968740132420199999999933999969999399999992999985501138223642058
Q 002489 363 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQ 442 (916)
Q Consensus 363 ~~~LFeKvLT~SDVgslgRLVIPKk~AEa~FPpLd~~~Gi~L~VqD~~GK~WtFRfsyw~NN~SR~YVLtGWs~FVRsK~ 442 (916)
-.+.|.|+|+++|.. .+|.||++.++.+.+.+ +..+.++|..|+.|.++++++ ..+.++..||..||++++
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 8789899999745998199999967
Q 002489 443 LQAGDIVTFSRLEPEGKLVMGFRKA 467 (916)
Q Consensus 443 LkaGDtVVF~R~e~~GkL~IGVRRa 467 (916)
|++||.++|.... +..+.|-|=+.
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=50.94 Aligned_cols=31 Identities=23% Similarity=0.450 Sum_probs=19.6
Q ss_pred CCCCCCCCC--CCCC----------------CEEECHHHHHH-HHHHHCC
Q ss_conf 898742232--3698----------------11010020123-5554114
Q 002489 77 NASGWRCCE--SCGK----------------RVHCGCITSVH-AFTLLDA 107 (916)
Q Consensus 77 ~~sGWR~C~--~CgK----------------rlHCGCI~S~~-~~~lLD~ 107 (916)
.-+=|-.|. .||| +.-|||+.... .++..|.
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=34.83 Aligned_cols=91 Identities=15% Similarity=0.155 Sum_probs=64.1
Q ss_pred CCEEEEECCCCCCCCC----CCEEEEHHHHHHCCCCCCCC----CCCEEEE--EECCCCEEEEEEEECCC----CCCCCC
Q ss_conf 2109985550447999----96874013242019999999----9933999--96999939999999299----998550
Q 002489 364 TPLFEKMLSASDAGRI----GRLVLPKKCAEAYFPPISQP----EGLPLKV--QDSKGKEWIFQFRFWPN----NNSRMY 429 (916)
Q Consensus 364 ~~LFeKvLT~SDVgsl----gRLVIPKk~AEa~FPpLd~~----~Gi~L~V--qD~~GK~WtFRfsyw~N----N~SR~Y 429 (916)
...|.|.|++.|++.. +.+.+|+.....+||.|..+ +...+.+ -|...-.+.++++|+-| ..+..|
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 113822-3642058878989999974
Q 002489 430 VLEGVT-PCIQNMQLQAGDIVTFSRL 454 (916)
Q Consensus 430 VLtGWs-~FVRsK~LkaGDtVVF~R~ 454 (916)
-++.|. .+.=.....+||.++|.+.
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=30.18 Aligned_cols=52 Identities=23% Similarity=0.418 Sum_probs=31.6
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 200000123321111246898742232369811010020123555411488320012222442
Q 002489 59 CVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVL 121 (916)
Q Consensus 59 c~cgsayEq~~FCe~FH~~~sGWR~C~~CgKrlHCGCI~S~~~~~lLD~GGv~C~~Ca~~~~~ 121 (916)
|.|+..|.. ..-|-.|..|..-.|..|+--.. -..-+.+---|-.|..+.+.
T Consensus 40 C~C~~~~d~----------~~~MIqCd~C~~WfH~~Cvgl~~-~~~~~~~~~~C~~C~~~~~~ 91 (488)
T 3kv5_D 40 CVCRQPYDV----------NRFMIECDICKDWFHGSCVGVEE-HHAVDIDLYHCPNCAVLHGS 91 (488)
T ss_dssp TTTTEECCT----------TSCEEEBTTTCCEEEHHHHTCCG-GGGGGEEEBCCHHHHHHHCS
T ss_pred EECCCCCCC----------CCCEEECCCCCCCEEEEECCCCC-CCCCCCCEEECCCCCCCCCC
T ss_conf 767996799----------98768746888756421067574-43468887988998677685
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=27.63 Aligned_cols=40 Identities=15% Similarity=0.341 Sum_probs=21.6
Q ss_pred CCCCCCCCCCEEECHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 42232369811010020123555411488320012222442
Q 002489 81 WRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVL 121 (916)
Q Consensus 81 WR~C~~CgKrlHCGCI~S~~~~~lLD~GGv~C~~Ca~~~~~ 121 (916)
|-.|..|..-.|-.|+--. ..+.-..+---|..|..+...
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=26.92 Aligned_cols=30 Identities=30% Similarity=0.752 Sum_probs=21.1
Q ss_pred CCCEEECCCCCCCCCCCC---C--CCCCCCCEEEC
Q ss_conf 686483477741124689---9--88999917633
Q 002489 598 KIQWVQCEDCSKWRKVPA---N--ARLPSKWTCSG 627 (916)
Q Consensus 598 ~~~WVQCD~C~KWRrLP~---~--~~lP~kW~Csm 627 (916)
...|||||.|..|-.+.= . ..+|++|+|..
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!