Query gi|254780748|ref|YP_003065161.1| integration host factor, beta subunit [Candidatus Liberibacter asiaticus str. psy62] Match_columns 100 No_of_seqs 101 out of 3065 Neff 6.7 Searched_HMMs 33803 Date Wed Jun 1 14:10:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780748.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1p71_A DNA-binding protein HU 99.9 6.6E-25 2E-29 179.4 10.9 94 1-95 1-94 (94) 2 >1owf_B IHF-beta, integration 99.9 8.2E-25 2.4E-29 178.8 11.2 93 1-93 1-93 (94) 3 >3c4i_A DNA-binding protein HU 99.9 6.7E-24 2E-28 173.0 10.8 97 1-98 1-97 (99) 4 >2o97_B NS1, HU-1, DNA-binding 99.9 3.7E-24 1.1E-28 174.6 8.7 90 1-91 1-90 (90) 5 >1mul_A NS2, HU-2, DNA binding 99.9 5.1E-24 1.5E-28 173.8 9.0 90 1-91 1-90 (90) 6 >1b8z_A Protein (histonelike p 99.9 4.2E-24 1.2E-28 174.3 7.8 90 1-91 1-90 (90) 7 >1hue_A HU protein; DNA-bindin 99.9 6E-23 1.8E-27 166.9 8.6 90 1-91 1-90 (90) 8 >1exe_A Transcription factor 1 99.9 7.6E-24 2.3E-28 172.6 3.6 94 1-95 1-94 (99) 9 >2iie_A Integration HOST facto 99.9 1.4E-22 4.2E-27 164.6 7.7 92 1-93 47-138 (204) 10 >2iie_A Integration HOST facto 99.7 8.3E-17 2.5E-21 128.0 6.6 71 26-96 127-197 (204) 11 >1owf_A IHF-alpha, integration 99.5 4.2E-15 1.2E-19 117.2 4.6 56 41-96 1-56 (58) 12 >2np2_A HBB; protein-DNA compl 99.5 7.4E-15 2.2E-19 115.6 2.8 54 41-94 1-55 (56) 13 >1jeo_A MJ1247, hypothetical p 37.8 21 0.00062 17.6 2.2 51 1-51 1-51 (180) 14 >1w6s_A Methanol dehydrogenase 37.7 17 0.0005 18.1 1.7 19 59-77 55-73 (73) 15 >1i27_A Transcription factor I 33.1 29 0.00085 16.7 2.3 33 1-33 24-56 (73) 16 >1z67_A Hypothetical protein S 32.2 40 0.0012 15.8 5.1 40 4-44 57-96 (117) 17 >2ysk_A Hypothetical protein T 31.5 16 0.00048 18.3 0.8 41 1-42 14-55 (145) 18 >1o17_A Anthranilate PRT, anth 31.3 42 0.0012 15.7 3.6 30 1-31 1-30 (95) 19 >1nha_A TFIIF-alpha, transcrip 31.2 42 0.0012 15.7 2.8 33 1-33 33-65 (82) 20 >3g2b_A Coenzyme PQQ synthesis 28.0 48 0.0014 15.3 5.4 33 2-35 18-50 (56) 21 >2yva_A DNAA initiator-associa 27.0 39 0.0012 15.8 2.1 34 18-51 19-52 (196) 22 >2wvr_C DNA replication factor 25.7 17 0.0005 18.2 0.0 37 1-37 473-510 (546) 23 >1whu_A Polynucleotide phospho 25.4 53 0.0016 15.0 5.0 45 3-47 52-96 (104) 24 >1aip_C EF-TS, elongation fact 24.4 55 0.0016 14.9 4.0 54 1-55 1-66 (137) 25 >1brw_A PYNP, protein (pyrimid 23.4 58 0.0017 14.8 3.6 30 1-31 1-30 (191) 26 >1tk9_A Phosphoheptose isomera 22.0 48 0.0014 15.3 1.7 48 3-51 3-53 (188) 27 >2i7t_A Cleavage and polyadeny 21.8 62 0.0018 14.6 3.0 28 23-50 6-33 (186) 28 >2elc_A Trp D, anthranilate ph 21.2 63 0.0019 14.5 2.2 26 5-31 2-27 (89) 29 >3cdi_A Polynucleotide phospho 20.8 65 0.0019 14.4 5.8 43 3-45 41-83 (85) No 1 >>1p71_A DNA-binding protein HU; protein-DNA complex, DNA bending, DNA binding protein/DNA complex; 1.90A {Anabaena SP} (A:) Probab=99.92 E-value=6.6e-25 Score=179.38 Aligned_cols=94 Identities=31% Similarity=0.592 Sum_probs=91.5 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||+++ ++++++++.++|+|++.|.++|.+|+.|+|+|||+|+++.+++|.|+||+|||.+.||++++|+| T Consensus 1 MtK~eli~~ia~~~-~ls~~~v~~~i~~~~~~i~~~L~~~~~V~l~~fG~F~v~~~~~r~~~Np~Tge~i~i~~~~~v~F 79 (94) T 1p71_A 1 MNKGELVDAVAEKA-SVTKKQADAVLTAALETIIEAVSSGDKVTLVGFGSFESRERKAREGRNPKTNEKMEIPATRVPAF 79 (94) T ss_dssp CBHHHHHHHHHHHH-TCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEEEEECCEEEECTTTCCEEEECCEEEEEE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCEEEEEEEEECCCEEECCCCCCEEEECCCCCEEE T ss_conf 98899999999845-97999999999999999999986488605035269999983672328979997899648740899 Q ss_pred CCCHHHHHHHCCCCC Q ss_conf 269899997078610 Q gi|254780748|r 81 RAGKNLKERLNSPDS 95 (100) Q Consensus 81 k~sk~lk~~iN~~~~ 95 (100) +||+.|+++||+..+ T Consensus 80 kpsk~lk~~in~~~a 94 (94) T 1p71_A 80 SAGKLFREKVAPPKA 94 (94) T ss_dssp EECHHHHHHHSCCCC T ss_pred ECCHHHHHHHCCCCC T ss_conf 549899997577899 No 2 >>1owf_B IHF-beta, integration HOST factor beta-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} (B:) Probab=99.92 E-value=8.2e-25 Score=178.77 Aligned_cols=93 Identities=42% Similarity=0.669 Sum_probs=91.2 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||++++++++++++.++|+|++.|.++|.+|++|+|+|||+|+++.+++|.++||+|||.+.||++++|+| T Consensus 1 MtK~eli~~ia~~~~~~sk~~~~~~v~~~~~~i~~~L~~~~~V~l~gfG~F~~~~r~~r~~~nP~Tge~~~ip~k~~v~F 80 (94) T 1owf_B 1 MTKSELIERLATQQSHIPAKTVEDAVKEMLEHMASTLAQGERIAIRGFGSFSLHYRAPRTGRNPKTGDKVELEGKYVPHF 80 (94) T ss_dssp CBHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEEEEECCEEEECTTTCCEEEECCEEEEEE T ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE T ss_conf 97899999999876999999999999999999999997699599657379999860683333849999898648631898 Q ss_pred CCCHHHHHHHCCC Q ss_conf 2698999970786 Q gi|254780748|r 81 RAGKNLKERLNSP 93 (100) Q Consensus 81 k~sk~lk~~iN~~ 93 (100) +||+.|++.||+. T Consensus 81 kpsk~lk~~vn~~ 93 (94) T 1owf_B 81 KPGKELRDRANIY 93 (94) T ss_dssp EECHHHHHHHCCC T ss_pred ECCHHHHHHHCCC T ss_conf 1698999987559 No 3 >>3c4i_A DNA-binding protein HU homolog; dimerization by four helix bundle interaction, DNA condensation; 2.04A {Mycobacterium tuberculosis} (A:) Probab=99.91 E-value=6.7e-24 Score=172.98 Aligned_cols=97 Identities=30% Similarity=0.507 Sum_probs=93.3 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||..||+++ ++|+.++..++|+|++.|.++|.+|+.|+|+|||+|+++.+++|.++||+|||.+.+|++++|+| T Consensus 1 Mtk~eli~~ia~~~-~~s~~~v~~~i~~~~~~i~~~L~~g~~V~l~~fG~F~~~~~~~r~~~np~T~e~i~i~~k~~v~F 79 (99) T 3c4i_A 1 MNKAELIDVLTQKL-GSDRRQATAAVENVVDTIVRAVHKGDSVTITGFGVFEQRRRAARVARNPRTGETVKVKPTSVPAF 79 (99) T ss_dssp CBHHHHHHHHHHHH-TCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEEEEECSEEEECTTTCCEEEECCEEEEEE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCCEECCCEEEEEEEEECCEEEECCCCCCEEEECCCCEEEE T ss_conf 97899999999874-98999999999999999999996499613155689999875681106859998898638722899 Q ss_pred CCCHHHHHHHCCCCCCCC Q ss_conf 269899997078610012 Q gi|254780748|r 81 RAGKNLKERLNSPDSTLS 98 (100) Q Consensus 81 k~sk~lk~~iN~~~~~~~ 98 (100) +||+.|++.||....... T Consensus 80 kpsk~Lk~~in~~~~~~~ 97 (99) T 3c4i_A 80 RPGAQFKAVVSGAQRLPA 97 (99) T ss_dssp EECHHHHHHHHTSSCCCC T ss_pred ECCHHHHHHHCCCCCCCC T ss_conf 629899998666668999 No 4 >>2o97_B NS1, HU-1, DNA-binding protein HU-beta; heterodimer, DNA structure, DNA supercoiling, E. coli; 2.45A {Escherichia coli} (B:) Probab=99.91 E-value=3.7e-24 Score=174.64 Aligned_cols=90 Identities=38% Similarity=0.627 Sum_probs=88.7 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||+++ ++++++++.++|+|++.|.++|.+|++|+|+|||+|+++.+++|.++||+|||.+.+|++++|+| T Consensus 1 Mtk~eli~~ia~~~-~~t~~~v~~~v~~~~~~i~~~L~~~~~V~l~~fG~F~v~~~~~r~~~np~tge~~~i~~k~~v~F 79 (90) T 2o97_B 1 MNKSQLIDKIAAGA-DISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTGRNPQTGKEITIAAAKVPSF 79 (90) T ss_dssp CBHHHHHHHHHHTT-C-CHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEEECCC------------------CEEEE T ss_pred CCHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCEEECCCCCCEEEECCCCEEEE T ss_conf 97899999999720-99999999999999999999998076444550589999840564028899997899538622899 Q ss_pred CCCHHHHHHHC Q ss_conf 26989999707 Q gi|254780748|r 81 RAGKNLKERLN 91 (100) Q Consensus 81 k~sk~lk~~iN 91 (100) +||+.|++.|| T Consensus 80 kp~k~lk~~iN 90 (90) T 2o97_B 80 RAGKALKDAVN 90 (90) T ss_dssp EECHHHHHHCC T ss_pred ECCHHHHHHHC T ss_conf 63989997629 No 5 >>1mul_A NS2, HU-2, DNA binding protein HU-alpha; histone-like; HET: DNA; 2.30A {Escherichia coli} (A:) Probab=99.90 E-value=5.1e-24 Score=173.76 Aligned_cols=90 Identities=36% Similarity=0.573 Sum_probs=87.9 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||+++ ++++++++.++|+|++.|.++|.+|+.|.|+|||+|+++.+++|.++||+|||.+.||++++|+| T Consensus 1 Mtk~eli~~ia~~~-~~s~~~v~~~v~~~~~~i~~~L~~~~~v~l~~fG~F~v~~r~~r~~~Np~Tge~i~ip~k~~v~F 79 (90) T 1mul_A 1 MNKTQLIDVIAEKA-ELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTGRNPQTGKEIKIAAANVPAF 79 (90) T ss_dssp CCHHHHHHHHHHHT-TCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEEEEECC--------------CCEEEEEE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEEEECCCEEEECCCCCCEEEECCCCCEEE T ss_conf 97899999999704-96999999999999999999997199877203699999862884308939997899748740899 Q ss_pred CCCHHHHHHHC Q ss_conf 26989999707 Q gi|254780748|r 81 RAGKNLKERLN 91 (100) Q Consensus 81 k~sk~lk~~iN 91 (100) +||+.|+++|. T Consensus 80 rp~k~lk~~i~ 90 (90) T 1mul_A 80 VSGKALKDAVK 90 (90) T ss_dssp EECHHHHHHHC T ss_pred ECCHHHHHHHC T ss_conf 72989998639 No 6 >>1b8z_A Protein (histonelike protein HU); thermostable DNA binding protein; 1.60A {Thermotoga maritima} (A:) Probab=99.90 E-value=4.2e-24 Score=174.30 Aligned_cols=90 Identities=47% Similarity=0.707 Sum_probs=88.8 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.|++++ ++++++++.++|+|++.|.++|.+|++|+|+|||+|+++.+++|.++||+|||.+.+|++++|+| T Consensus 1 Mtk~eli~~ia~~~-~~s~~~~~~~v~~~~~~i~~~L~~~~~V~l~~fG~F~v~~~~~r~~~np~tge~i~i~~k~~v~F 79 (90) T 1b8z_A 1 MNKKELIDRVAKKA-GAKKKDVKLILDTILETITEALAKGEKVQIVGFGSFEVRKAAARKGVNPQTRKPITIPERKVPKF 79 (90) T ss_dssp CCHHHHHHHHHHHH-TCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEEC-----------------------CCEE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHCCCCEECCEEEEEEECCCCEEEECCCCCCEEEECCCCEEEE T ss_conf 97899999999854-98999999999999999999987288637466578988613544445799998898638721899 Q ss_pred CCCHHHHHHHC Q ss_conf 26989999707 Q gi|254780748|r 81 RAGKNLKERLN 91 (100) Q Consensus 81 k~sk~lk~~iN 91 (100) +||+.|++.|| T Consensus 80 k~sk~Lk~~in 90 (90) T 1b8z_A 80 KPGKALKEKVK 90 (90) T ss_dssp EECHHHHHHHC T ss_pred EECHHHHHHHC T ss_conf 73899998639 No 7 >>1hue_A HU protein; DNA-binding; NMR {Geobacillus stearothermophilus} (A:) Probab=99.88 E-value=6e-23 Score=166.93 Aligned_cols=90 Identities=37% Similarity=0.655 Sum_probs=88.0 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||..|++++ ++++++++.++|+|++.|.++|.+|++|+|+|||+|+++.+++|.++||+|||.+.+||+++|+| T Consensus 1 Mtk~~li~~i~~~~-~~s~~~v~~~i~~~~~~i~~~L~~~~~v~l~~fG~F~v~~~~~r~~~Np~Tge~~~i~~k~~vkF 79 (90) T 1hue_A 1 MNKTELINAVAETS-GLSKKDATKAVDAVFDSITEALRKGDKVQLIGFGNFEVRERAARKGRNPQTGEEMEIPASKVPAF 79 (90) T ss_dssp CBSHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHTCCCCBTTTBEECCCCCCCCEEECSSSSSEEECCCCCCCCE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCEEEEEEEECCCCCCCCCCCCEEEECCCCEEEE T ss_conf 97899999999854-98999999999999999999996598288402439999861684455839998899548741898 Q ss_pred CCCHHHHHHHC Q ss_conf 26989999707 Q gi|254780748|r 81 RAGKNLKERLN 91 (100) Q Consensus 81 k~sk~lk~~iN 91 (100) +||+.|+++|. T Consensus 80 r~sk~lk~~ik 90 (90) T 1hue_A 80 KPGKALKDAVK 90 (90) T ss_dssp ECTTHHHHHTC T ss_pred ECCHHHHHHHC T ss_conf 13989998639 No 8 >>1exe_A Transcription factor 1; beta ribbon ARMS, DNA-binding, DNA-bending protein; NMR {Bacillus phage SPO1} (A:) Probab=99.88 E-value=7.6e-24 Score=172.63 Aligned_cols=94 Identities=24% Similarity=0.354 Sum_probs=91.2 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||+++ ++++++++.++|+|+++|.++|.+|+.|+|+|||+|+++.+++|.++||+|||.+.||++++|+| T Consensus 1 Mtk~eli~~ia~~~-~~s~~~v~~~i~~~~~~i~~~L~~g~~V~l~gfG~F~v~~~~~r~~~np~Tge~i~i~~k~~v~F 79 (99) T 1exe_A 1 MNKTELIKAIAQDT-GLTQVSVSKMLASFEKIITETVAKGDKVQLTGFLNIKPVARQARKGFNPQTQEALEIAPSVGVSV 79 (99) T ss_dssp CCTTHHHHHHHHHH-CSCCTTHHHHHHHHHHHHHHHHHHTCCCCBTTTBCCCCCCCCCCCCCCSSSSSCCCCCCCCCCCC T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE T ss_conf 98899999999986-96999999999999999999996899599736789998755573447899998898428534799 Q ss_pred CCCHHHHHHHCCCCC Q ss_conf 269899997078610 Q gi|254780748|r 81 RAGKNLKERLNSPDS 95 (100) Q Consensus 81 k~sk~lk~~iN~~~~ 95 (100) +||+.|+++||.... T Consensus 80 kpsk~LK~~in~~~~ 94 (99) T 1exe_A 80 KPGESLKKAAEGLKY 94 (99) T ss_dssp CCCHHHHHHHHHHTH T ss_pred ECCHHHHHHHCCCCH T ss_conf 349899998828985 No 9 >>2iie_A Integration HOST factor; DNA kinking, bending, U-turn, intercalation, divalent, metal, recombination/DNA complex; HET: DNA; 2.41A {Escherichia coli} PDB: 2iif_A* (A:) Probab=99.87 E-value=1.4e-22 Score=164.58 Aligned_cols=92 Identities=30% Similarity=0.578 Sum_probs=75.1 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100) |||+|||+.||+++ ++++++++.++|+|++.|.++|.+|+.|.|+|||+|+++.+++|.++||+|||.+.+|++++|+| T Consensus 47 MtK~eLi~~ia~~~-glskk~a~~ii~~~~~~I~e~L~~g~~V~l~gfGtF~v~~r~~R~~rNP~Tge~i~i~~kk~vkF 125 (204) T 2iie_A 47 LTKAEMSEYLFDKL-GLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRPGRNPKTGEDIPITARRVVTF 125 (204) T ss_dssp BCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHTTCEEEETTTEEEEEEEECCBCCBCTTTCCBCCBCCEEEEEE T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE T ss_conf 35999999999986-97999999999999999999996699256511589999876471123889998898648651799 Q ss_pred CCCHHHHHHHCCC Q ss_conf 2698999970786 Q gi|254780748|r 81 RAGKNLKERLNSP 93 (100) Q Consensus 81 k~sk~lk~~iN~~ 93 (100) +||+.|+..+|.. T Consensus 126 k~~k~LK~iveaL 138 (204) T 2iie_A 126 RPGQKLKSRVENA 138 (204) T ss_dssp EECHHHHHHHHHH T ss_pred EECHHHHHHHHCC T ss_conf 9547999886413 No 10 >>2iie_A Integration HOST factor; DNA kinking, bending, U-turn, intercalation, divalent, metal, recombination/DNA complex; HET: DNA; 2.41A {Escherichia coli} PDB: 2iif_A* (A:) Probab=99.67 E-value=8.3e-17 Score=127.97 Aligned_cols=71 Identities=38% Similarity=0.630 Sum_probs=67.2 Q ss_pred HHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEECCCHHHHHHHCCCCCC Q ss_conf 99999999999864985120345788862146541025889888994687346762698999970786100 Q gi|254780748|r 26 VNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKERLNSPDST 96 (100) Q Consensus 26 vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~Fk~sk~lk~~iN~~~~~ 96 (100) .+.+++.+.++|..++.|+|+|||+|+++.+++|.||||+|||.|.||++++|+|+||+.|+++||+.... T Consensus 127 ~~k~LK~iveaL~~ge~V~i~~fG~F~~~~r~~R~grNP~Tge~i~Ipa~~~~~Fk~~k~lk~~vn~~~~~ 197 (204) T 2iie_A 127 PGQKLKSRVENAGGGERIEIRGFGSFSLHYRAPRTGRNPKTGDKVELEGKYVPHFKPGKELRDRANIYGGS 197 (204) T ss_dssp ECHHHHHHHHHHCCCCCEEETTTEEEEEEEECCEEEECTTTCCEEEECCEEEEEEEECHHHHHHHCSSCCS T ss_pred ECHHHHHHHHCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEECCCCCEEECCCHHHHHHHCCCCCC T ss_conf 54799988641344654222656889987406735619299998886597536878788999987579998 No 11 >>1owf_A IHF-alpha, integration HOST factor alpha-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} (A:42-99) Probab=99.54 E-value=4.2e-15 Score=117.17 Aligned_cols=56 Identities=30% Similarity=0.608 Sum_probs=53.4 Q ss_pred CCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEECCCHHHHHHHCCCCCC Q ss_conf 85120345788862146541025889888994687346762698999970786100 Q gi|254780748|r 41 GRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKERLNSPDST 96 (100) Q Consensus 41 ~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~Fk~sk~lk~~iN~~~~~ 96 (100) ++|.|+|||+|+++.+++|.|+||+|||.|.||++++|+|+||+.|+++||+.... T Consensus 1 ekV~l~gfGtF~~~~r~~R~grNP~Tge~i~I~ak~~v~Fk~sk~Lk~~vn~~~~~ 56 (58) T 1owf_A 1 EQVKLSGFGNFDLRDKNQRPGRNPKTGEDIPITARRVVTFRPGQKLKSRVENASPK 56 (58) T ss_dssp CCEEETTTEEEEEEEECCEEEECSSSCCEEEECCEEEEEEEECHHHHHHHHTCCCC T ss_pred CEEEECCEEEEEEEEECCCCCCCCCCCCEEEECCCCEEEEEECHHHHHHHHCCCCC T ss_conf 97995113799998766821258899988995387228997499999998078968 No 12 >>2np2_A HBB; protein-DNA complex, DNA-binding protein, DNA-bending protein, dnabii family, HU/IHF family, DNA binding protein/DNA complex; 3.02A {Borrelia burgdorferi} (A:53-108) Probab=99.50 E-value=7.4e-15 Score=115.59 Aligned_cols=54 Identities=43% Similarity=0.706 Sum_probs=51.5 Q ss_pred CCCCCEEEEEEEEECCCCC-CEECCCCCCEEEECCCCEEEECCCHHHHHHHCCCC Q ss_conf 8512034578886214654-10258898889946873467626989999707861 Q gi|254780748|r 41 GRVEIRGFGSFSVRKRAAR-LARAPLAQKVISVEEKMVPFFRAGKNLKERLNSPD 94 (100) Q Consensus 41 ~~V~i~gfGtF~~~~~~~r-~~rNP~Tge~i~i~~~~~v~Fk~sk~lk~~iN~~~ 94 (100) ++|.|+|||+|+++.+++| .||||+|||.|.||++++|+|+||+.|+++||+.. T Consensus 1 d~V~l~gFGtF~~~~r~~R~~grNP~Tge~i~I~a~~v~~Fk~~k~lk~~vn~~~ 55 (56) T 2np2_A 1 NVIEFRSFGTFEVRKRKGRLNARNPQTGEYVKVLDHHVAYFRPGKDLKERVWGIK 55 (56) T ss_dssp CEEEETTTEEEEEEEECCBSSCBCTTTCCBCCBCCEEEEEEEECHHHHHHHHSCC T ss_pred CEEEEEEEEEEEEEEECCCCCCCCCCCCCEEEECCCCCEEECCCHHHHHHHHCCC T ss_conf 9699844689999730476555388999889853875678748989999970679 No 13 >>1jeo_A MJ1247, hypothetical protein MJ1247; RUMP pathway, phosphosugar, 3-hexulose-6-phosphate isomerase, PHI, structural genomics; HET: CME CIT; 2.00A {Methanocaldococcus jannaschii} (A:) Probab=37.84 E-value=21 Score=17.58 Aligned_cols=51 Identities=14% Similarity=0.109 Sum_probs=37.3 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEE Q ss_conf 988999999999738999899999999999999999864985120345788 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSF 51 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF 51 (100) |+..|.+..+.+.....-....+.+-...++.+.+.+.+.++|.+-|.|.= T Consensus 1 mse~~~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~l~~a~~i~i~g~G~S 51 (180) T 1jeo_A 1 MSKLEELDIVSNNILILKKFYTNDEWKNKLDSLIDRIIKAKKIFIFGVGRS 51 (180) T ss_dssp ---CHHHHHHHHHHHGGGHHHHCHHHHHHHHHHHHHHHHCSSEEEECCHHH T ss_pred CCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCEEEEEECCHH T ss_conf 982258999999999999987242889999999999978993999977889 No 14 >>1w6s_A Methanol dehydrogenase subunit 1; anisotropic, electron transfer, oxidoreductase, calcium- binding, methanol utilization, PQQ; HET: PQQ; 1.2A {Methylobacterium extorquens} (A:304-376) Probab=37.66 E-value=17 Score=18.14 Aligned_cols=19 Identities=5% Similarity=-0.244 Sum_probs=16.2 Q ss_pred CCEECCCCCCEEEECCCCE Q ss_conf 4102588988899468734 Q gi|254780748|r 59 RLARAPLAQKVISVEEKMV 77 (100) Q Consensus 59 r~~rNP~Tge~i~i~~~~~ 77 (100) -.+.+|+||.++..|++.+ T Consensus 55 a~gid~ktGrPi~~p~~~t 73 (73) T 1w6s_A 55 FKSVDLKTGQPVRDPEYGT 73 (73) T ss_dssp EEEECTTTCCEEECGGGCC T ss_pred CCCCCCCCCCCCCCCCCCC T ss_conf 5542212443211730023 No 15 >>1i27_A Transcription factor IIF; general transcription factor, RAP74, RAP30, TFIIF, RNA polymerase II, winged-helix domain; 1.02A {Homo sapiens} (A:) Probab=33.09 E-value=29 Score=16.68 Aligned_cols=33 Identities=15% Similarity=0.339 Sum_probs=24.8 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH Q ss_conf 988999999999738999899999999999999 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEM 33 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i 33 (100) ||-+||+.++-.+..+++..+...++-.++.-| T Consensus 24 ~TT~eLl~KFk~k~t~l~~~e~v~~~a~ILkkI 56 (73) T 1i27_A 24 MTTKDLLKKFQTKKTGLSSEQTVNVLAQILKRL 56 (73) T ss_dssp BCHHHHHHTSCHHHHCCCHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH T ss_conf 728999999853244774488899999999972 No 16 >>1z67_A Hypothetical protein S4005; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.45A {Shigella flexneri 2a str} (A:19-135) Probab=32.25 E-value=40 Score=15.76 Aligned_cols=40 Identities=15% Similarity=0.299 Sum_probs=35.4 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 99999999973899989999999999999999986498512 Q gi|254780748|r 4 SSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVE 44 (100) Q Consensus 4 ~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~ 44 (100) .|-|..+|+++ +++..++...+-.++=.+.+.+.-+++|. T Consensus 57 ~d~i~~lA~k~-Gl~~~~~~~~La~~LP~~VD~lTP~G~~p 96 (117) T 1z67_A 57 TNAVSDLGQKL-GVDTSTASSLLAEQLPKIIDALSPQGEVS 96 (117) T ss_dssp HHHHHHHHHHH-TCCHHHHHHHHHHHHHHHHHHTCTTSCC- T ss_pred HHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 59999999998-91999999999999779997119899899 No 17 >>2ysk_A Hypothetical protein TTHA1432; conserved hypothetical, NPPSFA, national project on protein structural and functional analyses; 1.90A {Thermus thermophilus HB8} (A:) Probab=31.51 E-value=16 Score=18.25 Aligned_cols=41 Identities=7% Similarity=0.046 Sum_probs=25.7 Q ss_pred CCHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 98899999999973899-9899999999999999999864985 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKL-NYQDVEKIVNMLLEEMTQALANGGR 42 (100) Q Consensus 1 MtK~eli~~ia~~~~~l-s~~~~~~~vd~~~~~i~~~L~~~~~ 42 (100) |...++++.+.++. ++ ++.++..++.+++.++.+-|.-++. T Consensus 14 ~~~~~fl~~V~~~~-~~~~~~~A~~a~raVL~~Lr~RL~~~ea 55 (145) T 2ysk_A 14 HKTHAWLKAIMEEL-GTEDRHKAYLALRAVLHALRDRLTVEEV 55 (145) T ss_dssp HHHHHHHHHHHHHH-TCCCHHHHHHHHHHHHHHHHTTSCHHHH T ss_pred HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHCCHHHH T ss_conf 99999999999983-8998899999999999999987786789 No 18 >>1o17_A Anthranilate PRT, anthranilate phosphoribosyltransferase, TRPD; nucleoside-phosphorylases; 2.05A {Sulfolobus solfataricus} (A:1-74,A:156-176) Probab=31.25 E-value=42 Score=15.66 Aligned_cols=30 Identities=13% Similarity=0.374 Sum_probs=25.2 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 9889999999997389998999999999999 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLE 31 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~ 31 (100) |+=++++.++.+. .+||..++..+++.+++ T Consensus 1 M~~k~iL~kl~~g-~~LT~eE~~~~~~~il~ 30 (95) T 1o17_A 1 MNINEILKKLINK-SDLEINEAEELAKAIIR 30 (95) T ss_dssp CCHHHHHHHHHTT-CCCCHHHHHHHHHHHHT T ss_pred CCHHHHHHHHHCC-CCCCHHHHHHHHHHHHC T ss_conf 9889999998669-99699999999999987 No 19 >>1nha_A TFIIF-alpha, transcription initiation factor IIF, alpha subunit; transcription factor, human general transcription factor TFIIF, RAP74; NMR {Homo sapiens} (A:) Probab=31.22 E-value=42 Score=15.66 Aligned_cols=33 Identities=15% Similarity=0.339 Sum_probs=24.4 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH Q ss_conf 988999999999738999899999999999999 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEM 33 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i 33 (100) ||-.||+..+-.+..+++..+...++-.++.-| T Consensus 33 ~Tt~eLl~KFk~k~t~l~~~e~v~~~a~ILkkI 65 (82) T 1nha_A 33 MTTKDLLKKFQTKKTGLSSEQTVNVLAQILKRL 65 (82) T ss_dssp BCHHHHHHHTTSSCCSSCHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHC T ss_conf 739999999986246788599999999999970 No 20 >>3g2b_A Coenzyme PQQ synthesis protein D; helix-turn-helix, PQQ biosynthesis, biosynthetic protein; 1.66A {Xanthomonas campestris PV} (A:40-95) Probab=27.95 E-value=48 Score=15.30 Aligned_cols=33 Identities=18% Similarity=0.157 Sum_probs=28.1 Q ss_pred CHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 8899999999973899989999999999999999 Q gi|254780748|r 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQ 35 (100) Q Consensus 2 tK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~ 35 (100) |-.++++.+++++ +....++..-+..|+..+.+ T Consensus 18 tv~~I~~~L~~~y-~~~~~~~~~dv~~fl~~L~~ 50 (56) T 3g2b_A 18 SLAQIAQTLAAEF-DADASEIETDVIELTTTLHQ 50 (56) T ss_dssp CHHHHHHHHHHHT-TCCHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHH T ss_conf 5999999999996-98888999999999999998 No 21 >>2yva_A DNAA initiator-associating protein DIAA; intermolecular disulfide bonding, putative phosphosugar binding protein, DNAA binding protein; 1.85A {Escherichia coli} (A:) Probab=27.02 E-value=39 Score=15.84 Aligned_cols=34 Identities=18% Similarity=0.261 Sum_probs=26.5 Q ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEE Q ss_conf 9899999999999999999864985120345788 Q gi|254780748|r 18 NYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSF 51 (100) Q Consensus 18 s~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF 51 (100) ........++..++.+.+.|.+.++|.+-|.|+= T Consensus 19 ~~~~~~~~~~~~~~~~~~~l~~~~~I~i~G~G~S 52 (196) T 2yva_A 19 AAEALPDAISRAAMTLVQSLLNGNKILCCGNGTS 52 (196) T ss_dssp HHHHSHHHHHHHHHHHHHHHHTTCCEEEEESTHH T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCH T ss_conf 9986499999999999999987997999978801 No 22 >>2wvr_C DNA replication factor CDT1; DNA replication license, DNA replication inhibitor, phosphoprotein, UBL conjugation, DNA-binding, polymorphism; HET: DNA; 3.30A {Homo sapiens} PDB: 2klo_A* (C:) Probab=25.70 E-value=17 Score=18.18 Aligned_cols=37 Identities=14% Similarity=0.078 Sum_probs=28.2 Q ss_pred CCHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH Q ss_conf 988999999999738-9998999999999999999998 Q gi|254780748|r 1 MIKSSLIGTIAKKNP-KLNYQDVEKIVNMLLEEMTQAL 37 (100) Q Consensus 1 MtK~eli~~ia~~~~-~ls~~~~~~~vd~~~~~i~~~L 37 (100) |+..+|+..|.+.+. .++..++++.|+.+.+++-+-| T Consensus 473 ~~~~~~~~~i~~s~~~~~~~~e~~~~l~~l~~~~p~~~ 510 (546) T 2wvr_C 473 LSMEVACARMVGSCCTIMSPGEMEKHLLLLSELLPDWL 510 (546) T ss_dssp -------------------------------------- T ss_pred CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCE T ss_conf 07999999999854576999999999999998687206 No 23 >>1whu_A Polynucleotide phosphorylase; 3'-5' RNA exonuclease; pnpase, alpha-helical domain, structural genomics; NMR {Mus musculus} (A:) Probab=25.42 E-value=53 Score=15.01 Aligned_cols=45 Identities=11% Similarity=0.189 Sum_probs=28.5 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEE Q ss_conf 899999999973899989999999999999999986498512034 Q gi|254780748|r 3 KSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRG 47 (100) Q Consensus 3 K~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~g 47 (100) +.++++.++..+.+.+..++..+++.+...+...+.-.+.+.+-| T Consensus 52 k~~v~e~~~e~~~~~~~~~i~~a~~~l~k~ivR~~Il~~g~R~DG 96 (104) T 1whu_A 52 RLDTEEHLKEKFPEVDQFEIIESFNIVAKEVFRSIILNEYKRCDG 96 (104) T ss_dssp HHHHHHHHTTTCSSSCHHHHHHHHHHHHHHHHHHHHTTSSCSCCC T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 999999986311314799999999999999999999857986899 No 24 >>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding, complex of two elongation factors; 3.00A {Thermus thermophilus} (C:1-104,C:164-196) Probab=24.40 E-value=55 Score=14.89 Aligned_cols=54 Identities=15% Similarity=0.139 Sum_probs=36.7 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH------------HHHHCCCCCCCEEEEEEEEEC Q ss_conf 9889999999997389998999999999999999------------998649851203457888621 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMT------------QALANGGRVEIRGFGSFSVRK 55 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~------------~~L~~~~~V~i~gfGtF~~~~ 55 (100) |...++|+.|-+++ +.+..+++++++..-.-+. .+-+..+++.-.|+....+.. T Consensus 1 mis~e~IK~LR~~T-gagi~dCKkAL~es~gDiekAi~~Lrk~G~~kA~Kk~~r~t~eG~v~~~v~~ 66 (137) T 1aip_C 1 MSQMELIKKLREAT-GAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREGIIGHYIHH 66 (137) T ss_dssp -CHHHHHHHHHHHH-CCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHTTSCCCCCEEEEEECT T ss_pred CCCHHHHHHHHHHH-CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCEEEEEEEC T ss_conf 98479999999986-9889999999998499899999999987776777877799874100047854 No 25 >>1brw_A PYNP, protein (pyrimidine nucleoside phosphorylase); domain movement; HET: MES; 2.10A {Bacillus stearothermophilus} (A:1-94,A:156-242,A:424-433) Probab=23.37 E-value=58 Score=14.77 Aligned_cols=30 Identities=23% Similarity=0.203 Sum_probs=24.8 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 9889999999997389998999999999999 Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLE 31 (100) Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~ 31 (100) |+=.+++.++.+. ..||+.++..+++.+++ T Consensus 1 M~i~eli~kl~~G-~~Ls~eEa~~~i~~il~ 30 (191) T 1brw_A 1 MRMVDLIAKKRDG-KALTKEEIEWIVRGYTN 30 (191) T ss_dssp CCHHHHHHHHHTT-CCCCHHHHHHHHHHHHT T ss_pred CCHHHHHHHHHCC-CCCCHHHHHHHHHHHHC T ss_conf 9879999998779-99699999999999986 No 26 >>1tk9_A Phosphoheptose isomerase 1; lipopolysaccharide biosynthesis, structural genomics, NYSGXRC, LPC1_camje, PSI, protein structure initiative; 2.10A {Campylobacter jejuni} (A:) Probab=21.98 E-value=48 Score=15.30 Aligned_cols=48 Identities=21% Similarity=0.226 Sum_probs=31.7 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHH---HHHHHHHHHHHCCCCCCCEEEEEE Q ss_conf 8999999999738999899999999---999999999864985120345788 Q gi|254780748|r 3 KSSLIGTIAKKNPKLNYQDVEKIVN---MLLEEMTQALANGGRVEIRGFGSF 51 (100) Q Consensus 3 K~eli~~ia~~~~~ls~~~~~~~vd---~~~~~i~~~L~~~~~V~i~gfGtF 51 (100) -.++++.+.+.. .-....++..++ ..++.+.+.|.+.++|.+-|.|.= T Consensus 3 ~~~~~~~i~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~~~rI~~~G~G~S 53 (188) T 1tk9_A 3 LINLVEKEWQEH-QKIVQASEILKGQIAKVGELLCECLKKGGKILICGNGGS 53 (188) T ss_dssp HHHHHHHHHHHH-HHHHHHGGGGHHHHHHHHHHHHHHHHTTCCEEEEESTHH T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCC T ss_conf 699999999999-999999887199999999999999985998999916887 No 27 >>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit; metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination; 2.10A {Homo sapiens} (A:211-396) Probab=21.80 E-value=62 Score=14.57 Aligned_cols=28 Identities=21% Similarity=0.240 Sum_probs=20.7 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCEEEEE Q ss_conf 9999999999999986498512034578 Q gi|254780748|r 23 EKIVNMLLEEMTQALANGGRVEIRGFGS 50 (100) Q Consensus 23 ~~~vd~~~~~i~~~L~~~~~V~i~gfGt 50 (100) ++..+.|.+.|.++|.+|++|-||-|.. T Consensus 6 ~~~~~~l~~~I~~tl~~gG~VLIP~fa~ 33 (186) T 2i7t_A 6 EEREARFCNTVHDIVNRGGRGLIPVFAL 33 (186) T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEECCSS T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCH T ss_conf 4677888899999985698289995222 No 28 >>2elc_A Trp D, anthranilate phosphoribosyltransferase; structural genomics, NPPSFA; 1.55A {Thermus thermophilus HB8} (A:1-67,A:156-177) Probab=21.25 E-value=63 Score=14.52 Aligned_cols=26 Identities=8% Similarity=0.139 Sum_probs=20.4 Q ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 999999997389998999999999999 Q gi|254780748|r 5 SLIGTIAKKNPKLNYQDVEKIVNMLLE 31 (100) Q Consensus 5 eli~~ia~~~~~ls~~~~~~~vd~~~~ 31 (100) |+|+++.+. .+||..++..+++.+++ T Consensus 2 eiL~kl~~G-~~Ls~eEa~~~~~~i~~ 27 (89) T 2elc_A 2 DAVKKAILG-EVLEEEEAYEVMRALMA 27 (89) T ss_dssp CHHHHHHTT-CCCCHHHHHHHHHHHHT T ss_pred HHHHHHHCC-CCCCHHHHHHHHHHHHC T ss_conf 689998779-99799999999999987 No 29 >>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A (A:240-324) Probab=20.77 E-value=65 Score=14.44 Aligned_cols=43 Identities=19% Similarity=0.329 Sum_probs=33.4 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 8999999999738999899999999999999999864985120 Q gi|254780748|r 3 KSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEI 45 (100) Q Consensus 3 K~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i 45 (100) +.++++.++..+++.+..++..+++.+...+...+.-.+...+ T Consensus 41 k~~v~e~~~ee~~~~~~~~i~~~~~~l~k~~vR~~Il~~~~R~ 83 (85) T 3cdi_A 41 KSETIATLLAEDETLDENELGEILHAIEKNVVRSRVLAGEPRI 83 (85) T ss_dssp HHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHHTTCCCT T ss_pred HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 9998877503466889999999999999999999987368577 Done!