Query gi|255764504|ref|YP_003064930.2| DNA-methyltransferase MKpn2kI [Candidatus Liberibacter asiaticus str. psy62] Match_columns 101 No_of_seqs 120 out of 974 Neff 6.3 Searched_HMMs 33803 Date Wed Jun 1 18:43:20 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 255764504.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2c7p_A Modification methylase 98.9 1.4E-09 4.2E-14 75.2 3.9 44 1-44 152-198 (213) 2 >1g55_A DNA cytosine methyltra 98.7 1.2E-08 3.6E-13 69.8 5.1 58 1-58 148-207 (250) 3 >3g7u_A Cytosine-specific meth 98.4 1.7E-07 5E-12 63.3 3.3 25 1-25 151-175 (213) 4 >2pv0_B DNA (cytosine-5)-methy 98.3 3.6E-08 1.1E-12 67.1 -2.2 45 1-46 128-174 (205) 5 >1dct_A Protein (modification 98.2 2.3E-06 6.7E-11 56.9 5.0 25 1-25 142-166 (324) 6 >2c7p_A Modification methylase 98.0 6E-07 1.8E-11 60.2 -0.5 61 4-93 1-62 (82) 7 >2qrv_A DNA (cytosine-5)-methy 97.8 7.7E-07 2.3E-11 59.6 -3.3 30 1-30 163-195 (211) 8 >1g55_A DNA cytosine methyltra 70.9 5 0.00015 20.8 3.6 47 38-96 2-49 (93) 9 >1uhr_A SWI/SNF related, matri 52.6 4.4 0.00013 21.1 0.6 38 28-65 7-44 (47) 10 >3ke3_A Putative serine-pyruva 48.3 20 0.00059 17.3 3.4 44 56-99 4-47 (108) 11 >1v31_A Hypothetical protein R 40.4 8.2 0.00024 19.6 0.4 44 28-71 7-50 (93) 12 >1lvm_A Catalytic domain of th 29.8 42 0.0012 15.5 2.6 19 5-23 2-20 (124) 13 >2ohw_A YUEI protein; structur 23.5 57 0.0017 14.8 2.9 71 5-83 15-98 (133) No 1 >>2c7p_A Modification methylase HHAI; DNA methyltransferase, methyltransferase, base flipping, restriction system, transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus haemolyticus} (A:1-192,A:307-327) Probab=98.87 E-value=1.4e-09 Score=75.16 Aligned_cols=44 Identities=39% Similarity=0.812 Sum_probs=36.6 Q ss_pred CCHHHCCCCCCCCEEEEEEEECCC--CCCCCCCCCCCC-CCHHHHHC Q ss_conf 983435797376279999984788--875588877777-78445312 Q gi|255764504|r 1 MKACDFGVPQRRERLYIIDFLNPS--VEFKFPTPLGIK-PRLGDILE 44 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiVg~~~~~--~~f~~P~~~~~~-~~l~diL~ 44 (101) |||++||+||+|+|+|+||++++. ..|.||+|.+.. .++-++|. T Consensus 152 l~a~~~G~PQ~R~R~flva~r~~~~~~~~~~p~P~~~~~~~~~~~~~ 198 (213) T 2c7p_A 152 LNALDYGIPQKRERIYMICFRNDLNIQNFQFPKPFELNTFVVINVLQ 198 (213) T ss_dssp EEGGGGTCSBCCEEEEEEEEBGGGCCCCCCCCCCCCCCCCGCHHHHH T ss_pred ECHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHH T ss_conf 22899398616655621122367553311221222356534799999 No 2 >>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase homologue; HET: DNA SAH; 1.80A {Homo sapiens} (A:1-202,A:296-343) Probab=98.74 E-value=1.2e-08 Score=69.81 Aligned_cols=58 Identities=17% Similarity=0.323 Sum_probs=39.1 Q ss_pred CCHHHCCCCCCCCEEEEEEEECCC-CCCCCCCCCCCCCC-HHHHHCCCCCCCCCCCHHHH Q ss_conf 983435797376279999984788-87558887777778-44531256774323468899 Q gi|255764504|r 1 MKACDFGVPQRRERLYIIDFLNPS-VEFKFPTPLGIKPR-LGDILEEHIDDKSTISNKLW 58 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiVg~~~~~-~~f~~P~~~~~~~~-l~diL~~~vd~k~~ls~~~~ 58 (101) |||+|||+||+|+|+||||++++. ..|.+|........ ..-......+....+|++=+ T Consensus 148 lna~~yG~PQ~R~R~flia~r~~~~~~f~~p~~~~~~~p~~~~~~~~~~~~~~~~tp~e~ 207 (250) T 1g55_A 148 LSPTSLGIPNSRLRYFLIAKLQSEPLPFQAPGQVLMEFPKIEIHRKNQQDSDLSVTPKEI 207 (250) T ss_dssp ECGGGGTCSCCCCEEEEEEEESSSCCTTCCTTCEESSCCC------------CCCCHHHH T ss_pred CCHHHCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH T ss_conf 679990984104589999884797877668642234566410013454432233389999 No 3 >>3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding, structural genomics, protein structure initiative, PSI; 1.75A {Escherichia coli O157} (A:1-188,A:352-376) Probab=98.40 E-value=1.7e-07 Score=63.29 Aligned_cols=25 Identities=32% Similarity=0.586 Sum_probs=23.0 Q ss_pred CCHHHCCCCCCCCEEEEEEEECCCC Q ss_conf 9834357973762799999847888 Q gi|255764504|r 1 MKACDFGVPQRRERLYIIDFLNPSV 25 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiVg~~~~~~ 25 (101) |||+|||+||+|+|+|+||++++.. T Consensus 151 lna~~yG~PQ~R~R~~lia~~~~~~ 175 (213) T 3g7u_A 151 VKASDYGAPTIRTRYFFIGVKKSLK 175 (213) T ss_dssp EEGGGGTCSBCCEEEEEEEEEGGGC T ss_pred CCCCCCCCCCHHHHHEEEEEECCCC T ss_conf 4311101001454513455305877 No 4 >>2pv0_B DNA (cytosine-5)-methyltransferase 3-like; DNMT3L, unmethylated H3K4, de novo DNA methylation, transferase regulator; HET: DNA; 3.30A {Homo sapiens} PDB: 2pvc_B* (B:182-386) Probab=98.30 E-value=3.6e-08 Score=67.13 Aligned_cols=45 Identities=9% Similarity=-0.228 Sum_probs=32.8 Q ss_pred CCHHHCCCCCCCCEEEEEEEECCCCCCCCCC--CCCCCCCHHHHHCCC Q ss_conf 9834357973762799999847888755888--777777844531256 Q gi|255764504|r 1 MKACDFGVPQRRERLYIIDFLNPSVEFKFPT--PLGIKPRLGDILEEH 46 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiVg~~~~~~~f~~P~--~~~~~~~l~diL~~~ 46 (101) |||++|||||+|+|+|+||.+++. .+.+|. ......++.++|.+. T Consensus 128 l~a~~~G~pQ~R~R~~~i~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l 174 (205) T 2pv0_B 128 IPDVHGGSLQNAVRVWSNIPAIRS-RHWALVSEEELSLLAQNKQSSKL 174 (205) T ss_dssp EECCCSSSCCCEEEEEECSSSSST-TCCTTSCHHHHHHHHHHHSSSSC T ss_pred EECCCCCCCCCEEEEEECCCCCCC-CCCCCCCCCCHHHHHHHHHHCCC T ss_conf 646546665620799807767455-67898763302267777753136 No 5 >>1dct_A Protein (modification methylase HAEIII); enzyme, cytosine methylase; HET: DNA C49 5CM; 2.80A {Haemophilus aegyptus} (A:) Probab=98.18 E-value=2.3e-06 Score=56.89 Aligned_cols=25 Identities=36% Similarity=0.646 Sum_probs=23.0 Q ss_pred CCHHHCCCCCCCCEEEEEEEECCCC Q ss_conf 9834357973762799999847888 Q gi|255764504|r 1 MKACDFGVPQRRERLYIIDFLNPSV 25 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiVg~~~~~~ 25 (101) |||.+|||||+|+|+|+||++++.. T Consensus 142 l~a~~~G~pq~R~R~~~i~~~~~~~ 166 (324) T 1dct_A 142 LNANDYGVAQDRKRVFYIGFRKELN 166 (324) T ss_dssp EEGGGGTCSBCCEEEEEEEEEGGGC T ss_pred EECCCCCCCHHHCEEEEEECCCCCC T ss_conf 2033346861223156861147877 No 6 >>2c7p_A Modification methylase HHAI; DNA methyltransferase, methyltransferase, base flipping, restriction system, transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus haemolyticus} (A:193-274) Probab=98.03 E-value=6e-07 Score=60.20 Aligned_cols=61 Identities=21% Similarity=0.201 Sum_probs=40.5 Q ss_pred HHCCCCCCCCEEEEEEEECC-CCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEECC Q ss_conf 43579737627999998478-88755888777777844531256774323468899889978765553201355204348 Q gi|255764504|r 4 CDFGVPQRRERLYIIDFLNP-SVEFKFPTPLGIKPRLGDILEEHIDDKSTISNKLWEGHQKRKENNKIAGKGFGYGLFFE 82 (101) Q Consensus 4 ~dfGvPQ~ReRvfiVg~~~~-~~~f~~P~~~~~~~~l~diL~~~vd~k~~ls~~~~~~l~~~~~~~k~~g~GFg~~~~~~ 82 (101) +||||||+||||||||-.+. .....||........++.+-. .|=| ..++. T Consensus 1 KdfgvpqnreRvfiIgh~r~~~~~~vfp~~~~~~~~ig~in~----------------------------ggQG-~RVYs 51 (82) T 2c7p_A 1 KDLLLPDSEVEHLVIDRKDLVMTNQEIEQTTPKTVRLGIVGK----------------------------GGQG-ERIYS 51 (82) T ss_dssp GGTCCCGGGTGGGEECCTTCEECSCCCSSCCSSCCEEEESTT----------------------------CCTT-CEEEE T ss_pred CCCCCCCCCHHHHCCCCCCCHHHHHHHHCCCCHHHHHCCCCC----------------------------CCCC-CCCCC T ss_conf 320002331122124532200000022203513332010367----------------------------8887-74545 Q ss_pred CCCCCCCEEEC Q ss_conf 87750330104 Q gi|255764504|r 83 NSATTNTLSAR 93 (101) Q Consensus 83 ~~~~~~Ti~ar 93 (101) .+..|.||+|. T Consensus 52 ~~Gia~TLta~ 62 (82) T 2c7p_A 52 TRGIAITLSAY 62 (82) T ss_dssp TTSCBCCCCSS T ss_pred CCCCCCCCCCC T ss_conf 65565301146 No 7 >>2qrv_A DNA (cytosine-5)-methyltransferase 3A; DNA methyltransferase 3A (DNMT3A) and ITS regulatory factor; HET: DNA SAH; 2.89A {Homo sapiens} (A:1-192,A:277-295) Probab=97.80 E-value=7.7e-07 Score=59.57 Aligned_cols=30 Identities=13% Similarity=0.238 Sum_probs=22.1 Q ss_pred CCHHHCCCCCCCCEEEEE--EEECCCC-CCCCC Q ss_conf 983435797376279999--9847888-75588 Q gi|255764504|r 1 MKACDFGVPQRRERLYII--DFLNPSV-EFKFP 30 (101) Q Consensus 1 Lna~dfGvPQ~ReRvfiV--g~~~~~~-~f~~P 30 (101) |||+|||+||+|+|+|+| |++++.. .|+.| T Consensus 163 l~a~d~G~pQ~R~R~f~v~v~~~~~~~~~~~~~ 195 (211) T 2qrv_A 163 IDAKEVSAAHRARYFWGNLPGMNRPLASTVSVP 195 (211) T ss_dssp EEGGGTSSBCCEEEEEECCTTSSSCCCCCSCHH T ss_pred ECCCEECCCCCEEEEEECCCCCCCCCCCCCCHH T ss_conf 113470665620798614678888865444999 No 8 >>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase homologue; HET: DNA SAH; 1.80A {Homo sapiens} (A:203-295) Probab=70.87 E-value=5 Score=20.79 Aligned_cols=47 Identities=15% Similarity=0.115 Sum_probs=35.5 Q ss_pred CHHHHHCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCEEECCCC Q ss_conf 84453125677-432346889988997876555320135520434887750330104035 Q gi|255764504|r 38 RLGDILEEHID-DKSTISNKLWEGHQKRKENNKIAGKGFGYGLFFENSATTNTLSARYYK 96 (101) Q Consensus 38 ~l~diL~~~vd-~k~~ls~~~~~~l~~~~~~~k~~g~GFg~~~~~~~~~~~~Ti~arY~K 96 (101) .|.++|+.+++ +.|.+.++++. ..+. ..-++.|.+..|...|++|++ T Consensus 2 ~l~~~Le~~~~~~~~~vp~~~l~----------r~~~--~lDIV~p~s~rs~CFTKgY~~ 49 (93) T 1g55_A 2 MLKDFLEDDTDVNQYLLPPKSLL----------RYAL--LLDIVQPTXRRSVCFTKGYGS 49 (93) T ss_dssp CGGGGCCTTCCHHHHBCCHHHHH----------HHGG--GCCEECTTCSCCCCCCTTTTT T ss_pred CCCCCCCCCCCHHHCCCCCCCCC----------HHHH--HHHHCCCCCCCCCCCCCCCCC T ss_conf 12211246775001135763200----------0012--332015432223333556553 No 9 >>1uhr_A SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily...; structural genomics, chromatin remodeling; NMR {Mus musculus} (A:1-47) Probab=52.62 E-value=4.4 Score=21.10 Aligned_cols=38 Identities=26% Similarity=0.517 Sum_probs=32.0 Q ss_pred CCCCCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHHHH Q ss_conf 58887777778445312567743234688998899787 Q gi|255764504|r 28 KFPTPLGIKPRLGDILEEHIDDKSTISNKLWEGHQKRK 65 (101) Q Consensus 28 ~~P~~~~~~~~l~diL~~~vd~k~~ls~~~~~~l~~~~ 65 (101) .+|++......|.++|.......--+..++|+|++.+. T Consensus 7 ~~~~~~~lSp~La~ilG~~~~tR~~vvk~lW~YIK~~~ 44 (47) T 1uhr_A 7 GQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHK 44 (47) T ss_dssp SSCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTT T ss_pred CCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHC T ss_conf 99777778999999878887689999999999999847 No 10 >>3ke3_A Putative serine-pyruvate aminotransferase; structural genomics, joint center for structural genomics, JCSG; HET: LLP; 2.20A {Psychrobacter arcticus 273-4} (A:272-379) Probab=48.28 E-value=20 Score=17.35 Aligned_cols=44 Identities=7% Similarity=-0.009 Sum_probs=27.7 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCEEECCCCCCC Q ss_conf 89988997876555320135520434887750330104035876 Q gi|255764504|r 56 KLWEGHQKRKENNKIAGKGFGYGLFFENSATTNTLSARYYKDGS 99 (101) Q Consensus 56 ~~~~~l~~~~~~~k~~g~GFg~~~~~~~~~~~~Ti~arY~Kdg~ 99 (101) ..|+-+......-.+.-...|..++-+.+..|+|+||-|..+|- T Consensus 4 ~~~~Rh~~~a~~~r~~~~~lGl~~~~~~~~~s~~Vtav~~P~g~ 47 (108) T 3ke3_A 4 ILRDAQWELGNRVRKVLTDKGIESVAAEGFEAPGVVVSYTERDD 47 (108) T ss_dssp HHHHHHHHHHHHHHHHHHHTTCCBSBCTTCBCSSEEEEECSCHH T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCHHCCCEEEEEECCCCH T ss_conf 66899999876654211013443034815409759998089887 No 11 >>1v31_A Hypothetical protein RAFL11-05-P19; SWI/SNF complex subunit, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} (A:) Probab=40.44 E-value=8.2 Score=19.55 Aligned_cols=44 Identities=20% Similarity=0.357 Sum_probs=35.7 Q ss_pred CCCCCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 58887777778445312567743234688998899787655532 Q gi|255764504|r 28 KFPTPLGIKPRLGDILEEHIDDKSTISNKLWEGHQKRKENNKIA 71 (101) Q Consensus 28 ~~P~~~~~~~~l~diL~~~vd~k~~ls~~~~~~l~~~~~~~k~~ 71 (101) -+|++......|.++|........-+...+|+|++.+..-+... T Consensus 7 g~~~~~~lS~~La~~lg~~~~sr~~v~~~lw~YIk~n~Lqd~~~ 50 (93) T 1v31_A 7 GVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPND 50 (93) T ss_dssp SSCCCEECCHHHHHHSCCSEECSHHHHHHHHHHHHHTTCBCSSC T ss_pred CCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCC T ss_conf 98677048999999986787689999999999996735654667 No 12 >>1lvm_A Catalytic domain of the nuclear inclusion protein A (NIA); beta barrel, chymotrypsin-type cystein protease, enzyme- peptide complex; 1.80A {Tobacco etch virus} (A:106-229) Probab=29.83 E-value=42 Score=15.53 Aligned_cols=19 Identities=32% Similarity=0.492 Sum_probs=15.7 Q ss_pred HCCCCCCCCEEEEEEEECC Q ss_conf 3579737627999998478 Q gi|255764504|r 5 DFGVPQRRERLYIIDFLNP 23 (101) Q Consensus 5 dfGvPQ~ReRvfiVg~~~~ 23 (101) -|--|...|||+|||+.-. T Consensus 2 ~FR~P~~~e~vclVg~~fq 20 (124) T 1lvm_A 2 KFREPQREERICLVTTNFQ 20 (124) T ss_dssp CBCCCCTTCEEEEEEEECS T ss_pred CCCCCCCCCEEEEECCCCC T ss_conf 3468888999999735877 No 13 >>2ohw_A YUEI protein; structural genomics, PSI-2, protein structure initiative, NEW YORK SGX research center for structural genomics, nysgxrc; 1.40A {Bacillus subtilis} (A:) Probab=23.50 E-value=57 Score=14.75 Aligned_cols=71 Identities=11% Similarity=0.075 Sum_probs=36.2 Q ss_pred HCCCCCC------------CCEEEEEEEECCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCHHH-HHHHHHHHHHHHHH Q ss_conf 3579737------------6279999984788875588877777784453125677432346889-98899787655532 Q gi|255764504|r 5 DFGVPQR------------RERLYIIDFLNPSVEFKFPTPLGIKPRLGDILEEHIDDKSTISNKL-WEGHQKRKENNKIA 71 (101) Q Consensus 5 dfGvPQ~------------ReRvfiVg~~~~~~~f~~P~~~~~~~~l~diL~~~vd~k~~ls~~~-~~~l~~~~~~~k~~ 71 (101) =||.||. ||||++--...... .......+...|.+..+-.-.|+..+ .+.+..|..--... T Consensus 15 ~~G~p~lkPDEqr~yLGtfrERV~lalT~~qv~------~~~~~~~~~~~l~~~~~~~l~ing~l~~~~~~~YiklA~~~ 88 (133) T 2ohw_A 15 MYGPLETKPDERHLFLGSLRERVVLALTKGQVL------RSKPYKEAEHELKNSHNVTLLINGELQYQSYSSYIQMASRY 88 (133) T ss_dssp CCSCCSSHHHHHHHTTTCCGGGEEEEEEHHHHT------SSSCCHHHHHHHHTCSSEEEEEETTSCHHHHHHHHHHHHHT T ss_pred CCCCCCCCHHHHHHHCCCHHHHHHEEEEHHHHH------CCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHC T ss_conf 789998998899883441665610365299980------70069999999875879789984889877899999999986 Q ss_pred HCCCCCEEECCC Q ss_conf 013552043488 Q gi|255764504|r 72 GKGFGYGLFFEN 83 (101) Q Consensus 72 g~GFg~~~~~~~ 83 (101) |-.+.+++.. T Consensus 89 --~i~fTiV~~~ 98 (133) T 2ohw_A 89 --GVPFKIVSDL 98 (133) T ss_dssp --TCCEEEECCC T ss_pred --CCCEEEECCC T ss_conf --9986995787 Done!