Query gi|254781152|ref|YP_003065565.1| hypothetical protein CLIBASIA_05295 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 155 No_of_seqs 17 out of 19 Neff 2.2 Searched_HMMs 23785 Date Wed Jun 1 01:39:18 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781152.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3go5_A Multidomain protein wit 94.9 0.035 1.5E-06 32.7 5.0 48 3-50 232-283 (285) 2 1lva_A Selenocysteine-specific 83.8 2.5 0.0001 21.9 6.2 44 7-50 12-57 (258) 3 3dkw_A DNR protein; CRP-FNR, H 79.2 2.9 0.00012 21.5 4.9 42 10-51 176-217 (227) 4 3e97_A Transcriptional regulat 79.1 2.9 0.00012 21.5 4.9 56 10-66 173-228 (231) 5 2vn2_A DNAD, chromosome replic 79.0 1.9 8.1E-05 22.5 4.0 40 4-44 44-83 (128) 6 2zdb_A Transcriptional regulat 76.8 1.7 7E-05 22.9 3.1 46 11-56 138-183 (195) 7 2v9v_A Selenocysteine-specific 74.9 4.9 0.0002 20.2 5.4 56 4-59 9-68 (135) 8 2pjp_A Selenocysteine-specific 74.8 4.9 0.00021 20.2 8.4 67 12-80 20-87 (121) 9 3d0s_A Transcriptional regulat 72.9 5.5 0.00023 19.9 5.1 45 10-54 175-219 (227) 10 3la7_A Global nitrogen regulat 72.8 5.5 0.00023 19.9 5.7 44 11-54 192-235 (243) 11 3e6c_C CPRK, cyclic nucleotide 72.8 5.5 0.00023 19.9 4.9 57 10-67 175-231 (250) 12 2gau_A Transcriptional regulat 70.2 6.3 0.00026 19.5 5.3 47 10-56 178-224 (232) 13 3edp_A LIN2111 protein; APC883 69.8 6.4 0.00027 19.5 5.6 41 5-46 27-68 (236) 14 2oz6_A Virulence factor regula 69.4 6.6 0.00028 19.4 4.8 39 12-50 164-202 (207) 15 2v79_A DNA replication protein 68.1 4.9 0.00021 20.2 3.9 38 6-44 46-83 (135) 16 1zyb_A Transcription regulator 67.4 6 0.00025 19.6 4.2 41 11-51 185-225 (232) 17 1o5l_A Transcriptional regulat 65.7 1 4.3E-05 24.1 0.0 43 11-53 163-205 (213) 18 2zcw_A TTHA1359, transcription 65.6 7.9 0.00033 19.0 4.7 51 11-62 145-195 (202) 19 3neu_A LIN1836 protein; struct 60.0 10 0.00042 18.4 5.6 41 5-46 31-71 (125) 20 2fmy_A COOA, carbon monoxide o 58.6 10 0.00044 18.3 4.1 51 10-61 165-216 (220) 21 2ek5_A Predicted transcription 57.0 11 0.00047 18.1 5.5 47 5-52 22-70 (129) 22 3bwg_A Uncharacterized HTH-typ 56.2 12 0.00049 18.0 5.7 42 4-46 22-64 (239) 23 3kcc_A Catabolite gene activat 55.3 12 0.0005 17.9 4.7 38 12-49 217-254 (260) 24 3dp7_A SAM-dependent methyltra 52.2 13 0.00057 17.6 7.0 52 8-61 48-99 (363) 25 2ra5_A Putative transcriptiona 47.8 5.3 0.00022 20.0 1.2 47 5-52 34-82 (247) 26 3dv8_A Transcriptional regulat 47.0 16 0.00069 17.1 5.4 47 9-55 166-212 (220) 27 3fx3_A Cyclic nucleotide-bindi 43.7 18 0.00077 16.8 4.2 52 10-63 176-227 (237) 28 3f2g_A Alkylmercury lyase; MER 43.5 15 0.00064 17.3 3.0 35 1-37 27-61 (220) 29 1i7f_A Heat shock protein 33; 40.5 1.3 5.5E-05 23.5 -2.9 50 5-55 213-264 (292) 30 1ft9_A Carbon monoxide oxidati 40.0 21 0.00089 16.5 3.4 50 11-61 162-212 (222) 31 2fxa_A Protease production reg 37.0 24 0.00099 16.2 3.1 85 2-102 55-143 (207) 32 3f8m_A GNTR-family protein tra 35.4 25 0.0011 16.1 5.9 41 5-46 30-70 (248) 33 3iwz_A CAP-like, catabolite ac 33.7 27 0.0011 15.9 4.9 36 14-49 189-224 (230) 34 2bgc_A PRFA; bacterial infecti 31.1 30 0.0012 15.6 5.6 47 10-56 167-214 (238) 35 1j5y_A Transcriptional regulat 29.5 32 0.0013 15.5 4.8 43 7-51 33-76 (187) 36 2h3o_A MERF; membrane protein, 28.9 10 0.00044 18.3 0.2 19 125-143 5-23 (61) 37 1v4r_A Transcriptional repress 28.4 15 0.00062 17.4 0.9 43 5-48 29-71 (102) 38 2r3s_A Uncharacterized protein 28.0 33 0.0014 15.3 5.9 49 8-58 37-85 (335) 39 3fm5_A Transcriptional regulat 28.0 34 0.0014 15.3 3.8 48 3-52 47-98 (150) 40 3eet_A Putative GNTR-family tr 27.1 35 0.0015 15.2 5.4 41 5-46 47-87 (272) 41 2l02_A Uncharacterized protein 27.0 35 0.0015 15.2 5.2 38 13-50 23-62 (82) 42 3by6_A Predicted transcription 25.6 37 0.0016 15.1 5.0 45 5-50 29-74 (126) 43 3deu_A Transcriptional regulat 25.3 38 0.0016 15.0 3.3 39 3-43 61-99 (166) 44 2z99_A Putative uncharacterize 24.0 40 0.0017 14.9 4.4 56 4-61 24-85 (219) 45 2wv0_A YVOA, HTH-type transcri 23.9 40 0.0017 14.9 5.5 45 5-50 28-73 (243) 46 3i53_A O-methyltransferase; CO 23.8 40 0.0017 14.8 5.2 50 7-58 35-85 (332) 47 3mcz_A O-methyltransferase; ad 23.6 41 0.0017 14.8 6.2 45 14-58 58-102 (352) 48 3cf4_G Acetyl-COA decarbonylas 21.9 44 0.0018 14.6 4.8 37 30-66 25-62 (170) 49 3lst_A CALO1 methyltransferase 21.4 45 0.0019 14.6 3.4 50 7-58 52-101 (348) 50 2k9l_A RNA polymerase sigma fa 20.2 48 0.002 14.4 3.5 36 4-39 40-75 (76) No 1 >3go5_A Multidomain protein with S1 RNA-binding domains; joint center for structural genomics, protein structure initiative, PSI-2; HET: MSE; 1.40A {Streptococcus pneumoniae TIGR4} Probab=94.90 E-value=0.035 Score=32.67 Aligned_cols=48 Identities=25% Similarity=0.173 Sum_probs=43.1 Q ss_pred CHHCCCCCCCCHH----HHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEE Q ss_conf 1000489875027----99977719999999999999985391899389242 Q gi|254781152|r 3 SLYDRGGSIPDND----KYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIY 50 (155) Q Consensus 3 ~MYdrGgPL~~N~----r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LW 50 (155) .|.++||.++.+| +.+....|+|++.|-+|+-.|++.++|.+.+++++ T Consensus 232 ~L~~~~g~l~~~DkS~pe~I~~~f~~SK~~fK~aiG~L~K~~~I~~~~~~i~ 283 (285) T 3go5_A 232 YLESNGGFMTLNDKSSPDDIKATFGISKGQFKKALGGLMKAGKIKQDQFGTE 283 (285) T ss_dssp HHHHTTTEESCCTTSCHHHHHHHHSSCHHHHHHHHHHHHHTTCEEEETTEEE T ss_pred HHHHCCCEEECCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCEEEEECCEEE T ss_conf 9997699160699999999999879099999998567641865999499799 No 2 >1lva_A Selenocysteine-specific elongation factor; winged-helix, translation; 2.12A {Moorella thermoacetica} SCOP: a.4.5.35 a.4.5.35 a.4.5.35 a.4.5.35 PDB: 2uwm_A 2ply_A 1wsu_A Probab=83.81 E-value=2.5 Score=21.89 Aligned_cols=44 Identities=11% Similarity=0.092 Sum_probs=34.3 Q ss_pred CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ECCCEE Q ss_conf 48987502799977719999999999999985391899--389242 Q gi|254781152|r 7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI--QEGNIY 50 (155) Q Consensus 7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l--~DG~LW 50 (155) ...+-..+..-++...|-|......+++-|...|++.. .++..| T Consensus 12 ~~~~~gl~~~e~~~~~~l~~~~~~~~L~~l~~~~~v~~~~~~~~~~ 57 (258) T 1lva_A 12 QEHREGLDWQEAATRASLSLEETRKLLQSMAAAGQVTLLRVENDLY 57 (258) T ss_dssp HTCTTCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEE T ss_pred HHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCEE T ss_conf 8575787999999995989999999999988579779995589459 No 3 >3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix, homodimer, transcription regulator; 3.60A {Pseudomonas aeruginosa} Probab=79.21 E-value=2.9 Score=21.49 Aligned_cols=42 Identities=19% Similarity=0.186 Sum_probs=36.7 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEC Q ss_conf 875027999777199999999999999853918993892421 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYN 51 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN 51 (155) |++.+-+.||.++|.|..+.-+++.-|.+.|.|...+|.+.= T Consensus 176 ~l~~t~~~lA~~lg~sr~tv~r~l~~L~~~g~I~~~~~~i~I 217 (227) T 3dkw_A 176 EIPVAKQLVAGHLSIQPETFSRIMHRLGDEGIIHLDGREISI 217 (227) T ss_dssp CCCSCTHHHHHHTTSCHHHHHHHHHHHHHHTSEEESSSCEEE T ss_pred ECCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEE T ss_conf 445059999888699899999999999978979971999998 No 4 >3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300} Probab=79.13 E-value=2.9 Score=21.49 Aligned_cols=56 Identities=14% Similarity=0.077 Sum_probs=44.8 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHHHHH Q ss_conf 875027999777199999999999999853918993892421899999997567788 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASEERQ 66 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sEer~ 66 (155) .++.+-+-||.++|+|-.+.-.++.-|.+.|.|....+.+.=.+.++ |.++.++.+ T Consensus 173 ~~~lt~~~iA~~lg~sr~tvsR~l~~l~~~giI~~~~~~i~I~d~~~-L~~la~~~~ 228 (231) T 3e97_A 173 VLPLGTQDIMARTSSSRETVSRVLKRLEAHNILEVSPRSVTLLDLAA-LEALSFEGA 228 (231) T ss_dssp EECCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSCEEESCHHH-HHHCC---- T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH-HHHHHHCCC T ss_conf 22769999998869989999999999997899997299999998999-999855166 No 5 >2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426} Probab=79.03 E-value=1.9 Score=22.52 Aligned_cols=40 Identities=18% Similarity=0.153 Sum_probs=32.7 Q ss_pred HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE Q ss_conf 00048987502799977719999999999999985391899 Q gi|254781152|r 4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI 44 (155) Q Consensus 4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l 44 (155) ..++|.+-| +.+.||..+|+|.+....++.-|++.|-|.+ T Consensus 44 ~~~~~~~~P-S~~~La~~~g~s~~~v~~~l~~L~~~gli~i 83 (128) T 2vn2_A 44 FFEEGVLFP-TPAELAERMTVSAAECMEMVRRLLQKGMIAI 83 (128) T ss_dssp HHTTTCSSC-CHHHHHHTSSSCHHHHHHHHHHHHHTTSSEE T ss_pred HHHCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE T ss_conf 987599999-9999998959499999999999998899798 No 6 >2zdb_A Transcriptional regulator, CRP family; CAMP-binding domain, winged helix-turn-helix, thermus thermophilus DNA-binding, plasmid; 2.00A {Thermus thermophilus} Probab=76.79 E-value=1.7 Score=22.89 Aligned_cols=46 Identities=13% Similarity=0.075 Sum_probs=41.0 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHH Q ss_conf 7502799977719999999999999985391899389242189999 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEK 56 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEe 56 (155) ++..-+.||.++|+|..+.-.++..|.+.|-|...+|.+.-.+.+. T Consensus 138 i~lt~~~lA~~lg~sr~tvsR~l~~L~~~g~I~~~~~~i~I~d~~~ 183 (195) T 2zdb_A 138 VTVSHEEIADATASIRESVSKVLADLRREGLIATAYRRVYLLDLAA 183 (195) T ss_dssp EECCHHHHHHTTTSCHHHHHHHHHHHHHHTSEEEETTEEEECCHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH T ss_conf 4887999998879979999999999998898997099999978999 No 7 >2v9v_A Selenocysteine-specific elongation factor; transcription, protein conformational change, transcription elongation factor SELB; 1.10A {Moorella thermoacetica} SCOP: a.4.5.35 a.4.5.35 Probab=74.94 E-value=4.9 Score=20.20 Aligned_cols=56 Identities=7% Similarity=-0.089 Sum_probs=42.1 Q ss_pred HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEE--CC--CEECHHHHHHHH Q ss_conf 000489875027999777199999999999999853918993--89--242189999999 Q gi|254781152|r 4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQ--EG--NIYNVRVEKEII 59 (155) Q Consensus 4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~--DG--~LWN~RVEeEL~ 59 (155) -+...+|-..+..-|+..+|-|.+...++++.|...|+|... ++ .+|....-+++. T Consensus 9 ~~l~~~~~gl~~~el~~~~~l~~~~l~~~L~~L~~~g~i~~~~~~~~~~~~~~~~~~~~~ 68 (135) T 2v9v_A 9 QIIQEHREGLDWQEAATRASLSLEETRKLLQSMAAAGQVTLLRVENDLYAISTERYQAWW 68 (135) T ss_dssp HHHHHCSSCEEHHHHHHHHTCCHHHHHHHHHHHHHTTCEEEEEETTEEEEEEHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCEEEECHHHHHHHH T ss_conf 999857689899999999498999999999998508958999507965998799999999 No 8 >2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli} Probab=74.76 E-value=4.9 Score=20.17 Aligned_cols=67 Identities=15% Similarity=0.076 Sum_probs=54.1 Q ss_pred CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-EECCCEECHHHHHHHHHHHHHHHHHHHHCCHHHHHHH Q ss_conf 50279997771999999999999998539189-9389242189999999756778874220111245666 Q gi|254781152|r 12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-IQEGNIYNVRVEKEIIKASEERQENGRKGGIKSSQMR 80 (155) Q Consensus 12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l~DG~LWN~RVEeEL~n~sEer~~agRkGg~~S~Q~R 80 (155) |--.+-||...|-+.+.++.++.+|.+.|.|+ +.++..+-...-.++.+..++-... .|++.-++.| T Consensus 20 Pp~v~dla~~l~~d~~~~~~~L~~l~~~G~lv~i~~~~y~~~~~~~~~~~~~~~~~~~--~~~itva~~R 87 (121) T 2pjp_A 20 PWWVRDLAKETGTDEQAMRLTLRQAAQQGIITAIVKDRYYRNDRIVEFANMIRDLDQE--CGSTCAADFR 87 (121) T ss_dssp CEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEETTEEEEHHHHHHHHHHHHHHHHH--HSSEEHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCEEEEHHHHHHHHHHHHHHHHH--CCCEEHHHHH T ss_conf 9989999989794999999999999989958995299888589999999999999987--7977199999 No 9 >3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP), dimer, inactive(APO, unliganded) form, allostery, DNA binding; 2.00A {Mycobacterium tuberculosis} PDB: 3i54_A* 3i59_A* 3h3u_A* Probab=72.85 E-value=5.5 Score=19.90 Aligned_cols=45 Identities=13% Similarity=0.014 Sum_probs=38.0 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHH Q ss_conf 875027999777199999999999999853918993892421899 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRV 54 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RV 54 (155) |++..-+.||.++|.|..+...++.-|.+.|.|...++.+.=.+. T Consensus 175 ~~~~t~~~lA~~lg~s~~tvsr~l~~L~~~g~I~~~~~~i~I~d~ 219 (227) T 3d0s_A 175 THDLTQEEIAQLVGASRETVNKALADFAHRGWIRLEGKSVLISDS 219 (227) T ss_dssp ECCCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESCH T ss_pred ECCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH T ss_conf 307899999988798999999999999988989963999998889 No 10 >3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A* Probab=72.79 E-value=5.5 Score=19.89 Aligned_cols=44 Identities=16% Similarity=0.075 Sum_probs=35.2 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHH Q ss_conf 75027999777199999999999999853918993892421899 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRV 54 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RV 54 (155) ++..-+-||.++|+|..+.-.++.-|.+.|.|...+|.+.=.+- T Consensus 192 ~~lt~~~LA~~lGisr~tvsR~L~~L~~~glI~~~~~~I~I~d~ 235 (243) T 3la7_A 192 LKLSHQAIAEAIGSTRVTVTRLLGDLREKKMISIHKKKITVHKP 235 (243) T ss_dssp SCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECC- T ss_pred CCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH T ss_conf 75259999888799999999999999978989974999998589 No 11 >3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration; HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP: a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A* 3e5q_A 2h6b_A* 2h6c_A Probab=72.75 E-value=5.5 Score=19.89 Aligned_cols=57 Identities=19% Similarity=0.170 Sum_probs=45.0 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHHHHHH Q ss_conf 8750279997771999999999999998539189938924218999999975677887 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASEERQE 67 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sEer~~ 67 (155) +++.+-+.||..+|.|..+..+++..|.+.|.|...+|.+-=.+ .++|..+.|+... T Consensus 175 ~~~lt~~~LA~~lgisr~tvsR~l~~L~~~giI~~~~~~i~I~d-~~~L~~~a~~~~~ 231 (250) T 3e6c_C 175 TMPLSQKSIGEITGVHHVTVSRVLASLKRENILDKKKNKIIVYN-LGELKHLSEQTSY 231 (250) T ss_dssp ECCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSEEEESC-HHHHHHHHTSSCC T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECC-HHHHHHHHCCCCC T ss_conf 78868999998979999999999999998898996499999878-9999998757566 No 12 >2gau_A Transcriptional regulator, CRP/FNR family; structural genomics, PSI; 1.90A {Porphyromonas gingivalis W83} SCOP: a.4.5.4 b.82.3.2 Probab=70.19 E-value=6.3 Score=19.54 Aligned_cols=47 Identities=9% Similarity=0.041 Sum_probs=38.8 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHH Q ss_conf 87502799977719999999999999985391899389242189999 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEK 56 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEe 56 (155) +++..-+.||.++|.|..+.-.++..|.+.|-|...++.+.-.+.+. T Consensus 178 ~~~~t~~~lA~~~G~sr~tvsr~l~~l~~~g~I~~~~~~i~I~d~~~ 224 (232) T 2gau_A 178 SIYLSREELATLSNMTVSNAIRTLSTFVSERMLALDGKRIKIIDCDR 224 (232) T ss_dssp SCCCCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEETTEEEESCHHH T ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECCHHH T ss_conf 34505999998879899999999999998897997099999868999 No 13 >3edp_A LIN2111 protein; APC88337, listeria innocua CLIP11262, structural genomics, PSI-2, protein structure initiative; 2.09A {Listeria innocua} Probab=69.76 E-value=6.4 Score=19.48 Aligned_cols=41 Identities=15% Similarity=0.226 Sum_probs=35.0 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC Q ss_conf 0048987502799977719999999999999985391899-38 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE 46 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D 46 (155) |.-|..||. ++-||...|+|--+-|.|++.|.+.|.|.- .+ T Consensus 27 ~~~G~~LPs-E~eLa~~~~VSr~TvR~Al~~L~~eGli~r~~g 68 (236) T 3edp_A 27 YKTGMLMPN-ETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNG 68 (236) T ss_dssp SCCCC--CC-HHHHHHHTTCCHHHHHHHHHHHHHTTSEEEETT T ss_pred CCCCCCCCC-HHHHHHHHCCCHHHHHHHHHHHHHHCCCEECCC T ss_conf 999199927-999999979599999999999997215040588 No 14 >2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP- binding proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2 Probab=69.40 E-value=6.6 Score=19.44 Aligned_cols=39 Identities=15% Similarity=0.218 Sum_probs=25.4 Q ss_pred CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEE Q ss_conf 502799977719999999999999985391899389242 Q gi|254781152|r 12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIY 50 (155) Q Consensus 12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LW 50 (155) +..-+.||.++|+|..+.-.++.-|.+.|.|...++.+. T Consensus 164 ~~t~~~iA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~ 202 (207) T 2oz6_A 164 KITRQEIGRIVGCSREMVGRVLKSLEEQGLVHVKGKTMV 202 (207) T ss_dssp ECCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEE T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEE T ss_conf 778999998879999999999999998898997799999 No 15 >2v79_A DNA replication protein DNAD; primosome, DNA remodelling, oligomerization domain, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis} Probab=68.11 E-value=4.9 Score=20.17 Aligned_cols=38 Identities=13% Similarity=0.186 Sum_probs=31.4 Q ss_pred CCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE Q ss_conf 048987502799977719999999999999985391899 Q gi|254781152|r 6 DRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI 44 (155) Q Consensus 6 drGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l 44 (155) ++|.+- -+...||..+|+|.+.-.+.+..|++.|-|.+ T Consensus 46 ~~g~~f-PS~~~La~~~g~s~~~v~~~l~~L~~kgli~i 83 (135) T 2v79_A 46 EKGSYF-PTPNQLQEGMSISVEECTNRLRMFIQKGFLFI 83 (135) T ss_dssp TTTCCS-CCHHHHHTTSSSCHHHHHHHHHHHHHHTSCEE T ss_pred HCCCCC-CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE T ss_conf 769979-89999998959499999999999998899799 No 16 >1zyb_A Transcription regulator, CRP family; NP_813211.1, structural genomics, joint center for structural genomics, JCSG; 2.15A {Bacteroides thetaiotaomicron vpi-5482} SCOP: a.4.5.4 b.82.3.2 Probab=67.44 E-value=6 Score=19.64 Aligned_cols=41 Identities=10% Similarity=-0.081 Sum_probs=32.8 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEC Q ss_conf 75027999777199999999999999853918993892421 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYN 51 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN 51 (155) ++.+-+-||.++|+|..+.-.++.-|.+.|.|....|.+-= T Consensus 185 ~~~~~~~lA~~~g~sr~tv~R~L~~L~~~glI~~~~~~i~I 225 (232) T 1zyb_A 185 FKVKMDDLARCLDDTRLNISKTLNELQDNGLIELHRKEILI 225 (232) T ss_dssp EECCHHHHHHHHTSCHHHHHHHHHHHHHTTSCEEETTEEEE T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEE T ss_conf 67899999989798999999999999988989970999998 No 17 >1o5l_A Transcriptional regulator, CRP family; TM1171, structural genomics, JCSG, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: b.82.3.2 Probab=65.68 E-value=1 Score=24.11 Aligned_cols=43 Identities=16% Similarity=0.193 Sum_probs=27.2 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHH Q ss_conf 7502799977719999999999999985391899389242189 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVR 53 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~R 53 (155) ++..-+.||..+|+|..+.-+++..|.+.|.|...++++.=.+ T Consensus 163 ~~~t~~~iA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~Il~ 205 (213) T 1o5l_A 163 LPVTLEELSRLFGCARPALSRVFQELEREGYIEKHGRRIKVLK 205 (213) T ss_dssp ------------------------------------------- T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEEEC T ss_conf 0568999999979899999999999997898998799999967 No 18 >2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus} Probab=65.57 E-value=7.9 Score=18.98 Aligned_cols=51 Identities=14% Similarity=0.113 Sum_probs=39.9 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHH Q ss_conf 7502799977719999999999999985391899389242189999999756 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKAS 62 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~s 62 (155) ++..-+.||..+|+|..+...++.-|.+.|.|...+|.+-=.+. +.|.++. T Consensus 145 ~~~t~~~iA~~lg~sr~tv~r~l~~L~~~g~I~~~~~~i~I~d~-~~L~~~a 195 (202) T 2zcw_A 145 LKATHDELAAAVGSVRETVTKVIGELAREGYIRSGYGKIQLLDL-KGLKELA 195 (202) T ss_dssp EECCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCH-HHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH-HHHHHHH T ss_conf 78879999989798899999999999988999974999999889-9999999 No 19 >3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua} Probab=59.99 E-value=10 Score=18.38 Aligned_cols=41 Identities=10% Similarity=0.126 Sum_probs=33.7 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 004898750279997771999999999999998539189938 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE 46 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D 46 (155) |..|..|| +++-||...|+|.-+-|.|+..|.+.|-|.... T Consensus 31 l~~G~~LP-ser~La~~~~VSr~tVr~Al~~L~~~Glv~~~~ 71 (125) T 3neu_A 31 WKGEDKLP-SVREMGVKLAVNPNTVSRAYQELERAGYIYAKR 71 (125) T ss_dssp SCTTCBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEET T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 99969995-499999993928899999999999889179963 No 20 >2fmy_A COOA, carbon monoxide oxidation system transcription regulator COOA-1; DNA transcription regulator, DNA binding protein; HET: HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A* Probab=58.64 E-value=10 Score=18.27 Aligned_cols=51 Identities=10% Similarity=0.014 Sum_probs=37.2 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEECHHHHHHHHHH Q ss_conf 87502799977719999999999999985391899-38924218999999975 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIYNVRVEKEIIKA 61 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LWN~RVEeEL~n~ 61 (155) +++..-+.||.++|.|..+.-.++.-|.+.|.|.. .++.+--.+ .++|.++ T Consensus 165 ~~~lt~~~lA~~lg~sr~tvsr~l~~l~~~g~I~~~~~~~i~i~d-~~~L~~~ 216 (220) T 2fmy_A 165 ELGLNTEEIALMLGTTRQTVSVLLNDFKKMGILERVNQRTLLLKD-LQKLKEF 216 (220) T ss_dssp ECSSCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEESSSSEEEESC-HHHHHHH T ss_pred EECCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC-HHHHHHH T ss_conf 707249999999799999999999999988999976999899899-9999998 No 21 >2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A Probab=57.03 E-value=11 Score=18.08 Aligned_cols=47 Identities=13% Similarity=0.139 Sum_probs=35.6 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC-CCEECH Q ss_conf 0048987502799977719999999999999985391899-38-924218 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE-GNIYNV 52 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D-G~LWN~ 52 (155) |.-|..|| +++-||...|+|.-+.|.|+..|.+.|-|.. .+ |...+. T Consensus 22 ~~pG~~LP-se~~La~~~gVSr~tVR~Al~~L~~~Glv~~~~g~G~~V~~ 70 (129) T 2ek5_A 22 LSIDQRVP-STNELAAFHRINPATARNGLTLLVEAGILYKKRGIGMFVSA 70 (129) T ss_dssp SCTTSCBC-CHHHHHHHTTCCHHHHHHHHHHHHTTTSEEEETTTEEEECT T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEEECC T ss_conf 99969987-89999989299999999999999988917996386678889 No 22 >3bwg_A Uncharacterized HTH-type transcriptional regulator YYDK; APC85486, structural genomics, PSI-2, protein structure initiative; 2.09A {Bacillus subtilis subsp} SCOP: a.4.5.6 d.190.1.2 Probab=56.17 E-value=12 Score=17.99 Aligned_cols=42 Identities=17% Similarity=0.188 Sum_probs=34.8 Q ss_pred HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC Q ss_conf 00048987502799977719999999999999985391899-38 Q gi|254781152|r 4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE 46 (155) Q Consensus 4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D 46 (155) .|.-|..|| .++.||-..|+|--+-|.|++.|.+.|.|.- .+ T Consensus 22 ~~~~G~kLP-sE~~La~~~~VSR~TvR~Al~~L~~~G~i~~~~G 64 (239) T 3bwg_A 22 QLQQGDKLP-VLETLMAQFEVSKSTITKSLELLEQKGAIFQVRG 64 (239) T ss_dssp TCCTTCBCC-CHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEETT T ss_pred CCCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHHCCEECCCC T ss_conf 999919991-6999999989599999999999997246052488 No 23 >3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA- binding, nucleotide-binding, transcription; HET: CMP; 1.66A {Escherichia coli k-12} PDB: 3fwe_A 1g6n_A* 2cgp_A* 3hif_A 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 1hw5_A* 1ruo_A* 1i6x_A* 1cgp_A* 1o3t_A* ... Probab=55.34 E-value=12 Score=17.91 Aligned_cols=38 Identities=26% Similarity=0.276 Sum_probs=22.1 Q ss_pred CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCE Q ss_conf 50279997771999999999999998539189938924 Q gi|254781152|r 12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNI 49 (155) Q Consensus 12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~L 49 (155) +..-+-||.++|+|..+.-.++.-|.+.|-|...++.+ T Consensus 217 ~lt~~~LA~~lG~sr~tvsR~l~~L~~~glI~~~~~~I 254 (260) T 3kcc_A 217 KITRQEIGQIVGCSRETVGRILKMLEDQNLISAHGKTI 254 (260) T ss_dssp ECCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSEE T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEE T ss_conf 68999999997998999999999999799199659999 No 24 >3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research, nysgxrc; 2.33A {Bacteroides vulgatus atcc 8482} Probab=52.20 E-value=13 Score=17.61 Aligned_cols=52 Identities=10% Similarity=0.047 Sum_probs=45.2 Q ss_pred CCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHH Q ss_conf 898750279997771999999999999998539189938924218999999975 Q gi|254781152|r 8 GGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKA 61 (155) Q Consensus 8 GgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~ 61 (155) ++|+ +.+-||..+|++.+.-+..+++|...|-+...+++.+++...+++... T Consensus 48 ~~~~--t~~eLa~~~g~~~~~l~rlL~~L~~~g~l~~~~~~y~lt~~s~~l~~~ 99 (363) T 3dp7_A 48 REGY--TLQEISGRTGLTRYAAQVLLEASLTIGTILLEEDRYVLAKAGWFLLND 99 (363) T ss_dssp TTCB--CHHHHHHHHTCCHHHHHHHHHHHHHHTSEEEETTEEEECHHHHHHHHC T ss_pred CCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCEEECHHHHHHHCC T ss_conf 9998--999999887909999999999998589189859928778889988079 No 25 >2ra5_A Putative transcriptional regulator; beta structure, UTRA domain, structural genomics, PSI-2, protein structure initiative; HET: SRT; 2.40A {Streptomyces coelicolor A3} SCOP: d.190.1.2 Probab=47.85 E-value=5.3 Score=19.97 Aligned_cols=47 Identities=17% Similarity=0.068 Sum_probs=36.3 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-EEC-CCEECH Q ss_conf 004898750279997771999999999999998539189-938-924218 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-IQE-GNIYNV 52 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l~D-G~LWN~ 52 (155) |..|..|| .++-||...|+|--+-|.|++.|.+.|-|. ..+ |-.+.. T Consensus 34 ~~~G~~LP-sE~~La~~~~VSR~TvR~Al~~L~~eGlI~~~~G~Gt~V~~ 82 (247) T 2ra5_A 34 LTPGSLLG-NEIELAARLGLSRPTVRQAIQSLVDKGLLVRRRGVGTQVVH 82 (247) T ss_dssp -----------------------------------CEEEEEC-------- T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC T ss_conf 89919993-89999988697989999999999976985865895699999 No 26 >3dv8_A Transcriptional regulator, CRP/FNR family; RER070207001219, structural genomics, joint center for structural genomics, JCSG; 2.55A {Eubacterium rectale atcc 33656} Probab=47.01 E-value=16 Score=17.13 Aligned_cols=47 Identities=11% Similarity=0.075 Sum_probs=36.2 Q ss_pred CCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHH Q ss_conf 98750279997771999999999999998539189938924218999 Q gi|254781152|r 9 GSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVE 55 (155) Q Consensus 9 gPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVE 55 (155) ..++..-+.||..+|+|-.+.-.++..|.+.|-|...++.+.=.+.+ T Consensus 166 ~~~~~t~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~I~d~~ 212 (220) T 3dv8_A 166 NELKITHETIANHLGSHREVITRMLRYFQVEGLVKLSRGKITILDSK 212 (220) T ss_dssp SEECCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHH T ss_conf 77789999999997989999999999999889899729999988899 No 27 >3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP regulatory protein, structural genomics, PSI-2, protein structure initiative; 2.20A {Ruegeria pomeroyi} PDB: 3h3z_A* Probab=43.73 E-value=18 Score=16.83 Aligned_cols=52 Identities=13% Similarity=0.154 Sum_probs=38.3 Q ss_pred CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHH Q ss_conf 875027999777199999999999999853918993892421899999997567 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASE 63 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sE 63 (155) .++.+-+.||.++|+|..+.-.++.-|.+.| |+..+|.+.=.+.+. |.++.| T Consensus 176 ~l~~t~~~iA~~lgisr~tvsR~l~~L~~~g-ii~~~~~i~I~d~~~-L~~~a~ 227 (237) T 3fx3_A 176 TLPYDKMLIAGRLGMKPESLSRAFSRLKAAG-VTVKRNHAEIEDIAL-LRDYAE 227 (237) T ss_dssp ECCSCTHHHHHHTTCCHHHHHHHHHHHGGGT-EECCTTEEEESCHHH-HHHHHC T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCC-CEEECCEEEECCHHH-HHHHHC T ss_conf 6788999999886998999999999999799-399799899978999-999865 No 28 >3f2g_A Alkylmercury lyase; MERB, organomercurial lyase, mercury resistance, mercuric resistance, plasmid; 1.78A {Escherichia coli} PDB: 3f2h_A 3fn8_A 1s6l_A 3f0o_A 3f0p_A 3f2f_A Probab=43.48 E-value=15 Score=17.29 Aligned_cols=35 Identities=11% Similarity=0.250 Sum_probs=29.3 Q ss_pred CCCHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHH Q ss_conf 9210004898750279997771999999999999998 Q gi|254781152|r 1 MISLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILE 37 (155) Q Consensus 1 lv~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll 37 (155) +++++++|.|....+ ||..+|.|+...+.+|+.+- T Consensus 27 llr~la~G~pv~~~~--LA~~~~~~~e~v~~~L~~~~ 61 (220) T 3f2g_A 27 LLRELAKGRPVSRTT--LAGILDWPAERVAAVLEQAT 61 (220) T ss_dssp HHHHHTTTSCBCHHH--HHHHHTCCHHHHHHHHHHCT T ss_pred HHHHHHCCCCCCHHH--HHHHHCCCHHHHHHHHHHCC T ss_conf 999997799999999--99882998999999998679 No 29 >1i7f_A Heat shock protein 33; HSP33, redox sensitive molecular chaperone; 2.70A {Escherichia coli} SCOP: d.193.1.1 PDB: 1xjh_A Probab=40.46 E-value=1.3 Score=23.51 Aligned_cols=50 Identities=18% Similarity=0.307 Sum_probs=29.3 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCC--EEEECCCEECHHHH Q ss_conf 0048987502799977719999999999999985391--89938924218999 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNK--IFIQEGNIYNVRVE 55 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GK--I~l~DG~LWN~RVE 55 (155) ++..++-....+-+...|.||..|+..+|..|-+... |+..+|.+ ...|+ T Consensus 213 f~~~~~~i~~~~~v~f~C~CS~er~~~~L~~Lg~~El~~i~~e~g~i-ev~C~ 264 (292) T 1i7f_A 213 YHEEEVTVYDPQDVEFKCTCSRERSADALKTLPDEEVDSILAEDGEI-DMHCD 264 (292) T ss_dssp HTTSCCCCCCCCCCCCCCC---------------------------------- T ss_pred HCCCCCEECCCCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHCCCCE-EEEEE T ss_conf 18688168346137879999999999999826999999998649978-99956 No 30 >1ft9_A Carbon monoxide oxidation system transcription regulator; heme sensor, catabolite gene activator protein; HET: HEM; 2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1 Probab=39.99 E-value=21 Score=16.48 Aligned_cols=50 Identities=20% Similarity=0.003 Sum_probs=37.7 Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC-CCEECHHHHHHHHHH Q ss_conf 750279997771999999999999998539189938-924218999999975 Q gi|254781152|r 11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE-GNIYNVRVEKEIIKA 61 (155) Q Consensus 11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D-G~LWN~RVEeEL~n~ 61 (155) ++..-+-||.++|.|-.+.-+++.-|.+.|.|...+ |.+.=.+ .++|... T Consensus 162 ~~lt~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~r~~i~i~d-~~~L~~~ 212 (222) T 1ft9_A 162 VDFTVEEIANLIGSSRQTTSTALNSLIKEGYISRQGRGHYTIPN-LVRLKAA 212 (222) T ss_dssp ECCCHHHHHHHHCSCHHHHHHHHHHHHHTTSSEECSTTCEECSS-HHHHHHT T ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC-HHHHHHH T ss_conf 88469999999799899999999999988999988999699899-9999998 No 31 >2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, structural genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28 Probab=37.00 E-value=24 Score=16.20 Aligned_cols=85 Identities=19% Similarity=0.134 Sum_probs=54.1 Q ss_pred CCHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-E---ECCCEECHHHHHHHHHHHHHHHHHHHHCCHHHH Q ss_conf 210004898750279997771999999999999998539189-9---389242189999999756778874220111245 Q gi|254781152|r 2 ISLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-I---QEGNIYNVRVEKEIIKASEERQENGRKGGIKSS 77 (155) Q Consensus 2 v~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l---~DG~LWN~RVEeEL~n~sEer~~agRkGg~~S~ 77 (155) ..+|..++ .+..-||..++.+.-..-.+++-|.+.|-|. . .|+|.+..+.-++=..+-++-... T Consensus 55 ~~L~~~~~---~s~~ela~~~~~~~stvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~l~~~~~~~--------- 122 (207) T 2fxa_A 55 WIAYQLNG---ASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVFWSLLEE--------- 122 (207) T ss_dssp HHHHHHTS---EEHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHHHHHHHH--------- T ss_pred HHHHHCCC---CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCEEEEEEECHHHHHHHHHHHHH--------- T ss_conf 99997699---499999999886987999999999968998872389887568988898899999999999--------- Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHC Q ss_conf 6666777655664301564786308 Q gi|254781152|r 78 QMRILSKKTNNLFQGTLKPAHVFQK 102 (155) Q Consensus 78 Q~R~~~kk~n~~fq~~~~~~~~~~~ 102 (155) .....+..|+|..+..+++-+ T Consensus 123 ----~~~~~~~~~~g~~p~~el~g~ 143 (207) T 2fxa_A 123 ----FDPTRNAVFKGSQPLYHLFGK 143 (207) T ss_dssp ----CCGGGCHHHHHTHHHHHHHSS T ss_pred ----HHHHHHHHHCCCCCHHHHHHH T ss_conf ----999999998068817999750 No 32 >3f8m_A GNTR-family protein transcriptional regulator; PHNF, HUTC, winged helix- turn-helix, UTRA, DNA-binding, transcription regulation; 1.80A {Mycobacterium smegmatis} Probab=35.43 E-value=25 Score=16.05 Aligned_cols=41 Identities=15% Similarity=0.070 Sum_probs=34.3 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 004898750279997771999999999999998539189938 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE 46 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D 46 (155) |.-|..|| .++-||..-|.|.-+-|.|++.|.+.|-|.-.+ T Consensus 30 l~~G~~LP-sE~eLa~~~~VSR~TVR~Al~~L~~eGlI~rrG 70 (248) T 3f8m_A 30 MRIGDPFP-AEREIAEQFEVARETVRQALRELLIDGRVERRG 70 (248) T ss_dssp CCTTCBCC-CHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEET T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEECCC T ss_conf 99988484-799999997979999999999999778887146 No 33 >3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum sensing, DNA-binding; 2.30A {Xanthomonas campestris PV} Probab=33.74 E-value=27 Score=15.89 Aligned_cols=36 Identities=14% Similarity=0.190 Sum_probs=17.0 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCE Q ss_conf 279997771999999999999998539189938924 Q gi|254781152|r 14 NDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNI 49 (155) Q Consensus 14 N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~L 49 (155) .-+.||.++|.|-.+.-+++.-|.+.|-|...++.+ T Consensus 189 t~~~lA~~lg~sr~tv~R~l~~l~~~giI~~~~~~I 224 (230) T 3iwz_A 189 SRQELARLVGCSREMAGRVLKKLQADGLLHARGKTV 224 (230) T ss_dssp CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEE T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEE T ss_conf 999999997998999999999999789899739999 No 34 >2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulator, transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A Probab=31.06 E-value=30 Score=15.63 Aligned_cols=47 Identities=11% Similarity=0.003 Sum_probs=38.6 Q ss_pred CCCCHHHHHHHHHCCCHHH-HHHHHHHHHHCCCEEEECCCEECHHHHH Q ss_conf 8750279997771999999-9999999985391899389242189999 Q gi|254781152|r 10 SIPDNDKYIAGVCGCSIRR-WRNIRAILEKFNKIFIQEGNIYNVRVEK 56 (155) Q Consensus 10 PL~~N~r~LAg~CGCSvKk-Fr~aLd~Ll~~GKI~l~DG~LWN~RVEe 56 (155) +++..-+.+|.++|.|.+. +-.++..|.+.|-|....+.++=.+.+. T Consensus 167 ~~~~t~~~lA~~lg~s~r~~vsR~L~~L~~~giI~~~~~~i~I~D~~~ 214 (238) T 2bgc_A 167 LDNLTMQELGYSSGIAHSSAVSRIISKLKQEKVIVYKNSCFYVQNLDY 214 (238) T ss_dssp CSCCCHHHHHHHTTCCCHHHHHHHHHHHHHTTSEEEETTEEEESCHHH T ss_pred CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH T ss_conf 247679999999689818899999999998897997699999888999 No 35 >1j5y_A Transcriptional regulator, biotin repressor family; structural genomics, TM1602, JCSG, conserved hypothetical protein, PSI; 2.30A {Thermotoga maritima} SCOP: a.4.5.1 d.94.2.1 Probab=29.47 E-value=32 Score=15.46 Aligned_cols=43 Identities=12% Similarity=-0.078 Sum_probs=34.3 Q ss_pred CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCC-EEEECCCEEC Q ss_conf 48987502799977719999999999999985391-8993892421 Q gi|254781152|r 7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNK-IFIQEGNIYN 51 (155) Q Consensus 7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GK-I~l~DG~LWN 51 (155) .++| ....-||..+|+|.++-+.-++.|.+.|. |.-..|+.+- T Consensus 33 ~~~~--vs~~eLa~~l~vS~~TIrrdi~~L~~~G~~i~~~~gGy~L 76 (187) T 1j5y_A 33 SKEP--VSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVL 76 (187) T ss_dssp CSSC--BCHHHHHHHHTSCHHHHHHHHHHHHHHTCCCEEETTEEEC T ss_pred CCCC--CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCEEE T ss_conf 5996--7699999997989999999999999779968984698896 No 36 >2h3o_A MERF; membrane protein, alpha-helix, bicelle; NMR {Morganella morganii} Probab=28.94 E-value=10 Score=18.28 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=14.5 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 8898776556787664100 Q gi|254781152|r 125 LVIALCCATDVLIHHYGIV 143 (155) Q Consensus 125 ~~~~~~~~~~~~~~~~~~~ 143 (155) .+.||||.|.+|.--.|.| T Consensus 5 vi~ALCCFTPvLVil~g~v 23 (61) T 2h3o_A 5 TLVALSSFTPVLVILLGVV 23 (61) T ss_dssp -----------CHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 9999998119999999984 No 37 >1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6 Probab=28.41 E-value=15 Score=17.39 Aligned_cols=43 Identities=14% Similarity=0.154 Sum_probs=34.7 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCC Q ss_conf 00489875027999777199999999999999853918993892 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGN 48 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~ 48 (155) |.-|..|| .++.||...|+|.-+.+.|+..|.+.|-|....|. T Consensus 29 ~~pG~~LP-ser~La~~~~vSr~tvr~Al~~L~~~Gli~~~~g~ 71 (102) T 1v4r_A 29 LAPGDTLP-SVADIRAQFGVAAKTVSRALAVLKSEGLVSSRGAL 71 (102) T ss_dssp CCTTSBCC-CHHHHHHHSSSCTTHHHHHTTTTTTSSCCEEETTT T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCC T ss_conf 99939983-79999999798779999999999988948997586 No 38 >2r3s_A Uncharacterized protein; methyltransferase domain, structural genomics, joint center structural genomics, JCSG; HET: MSE; 2.15A {Nostoc punctiforme pcc 73102} Probab=28.03 E-value=33 Score=15.32 Aligned_cols=49 Identities=16% Similarity=0.091 Sum_probs=41.4 Q ss_pred CCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH Q ss_conf 898750279997771999999999999998539189938924218999999 Q gi|254781152|r 8 GGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI 58 (155) Q Consensus 8 GgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL 58 (155) .+| ....-||..+|++.+..+..+++|...|-+...+++..|+..-+++ T Consensus 37 ~g~--~t~~eLA~~~g~~~~~l~~lL~~L~~~gll~~~~~~y~lt~~~~~~ 85 (335) T 2r3s_A 37 QGI--ESSQSLAQKCQTSERGMRMLCDYLVIIGFMTKQAEGYRLTSDSAMF 85 (335) T ss_dssp TSE--ECHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHH T ss_pred CCC--CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECHHHHHH T ss_conf 799--9999999771979999999999998789238737856516878977 No 39 >3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structural genomics, protein structure initiative; HET: GOL; 2.00A {Rhodococcus jostii RHA1} Probab=27.96 E-value=34 Score=15.31 Aligned_cols=48 Identities=8% Similarity=0.058 Sum_probs=36.9 Q ss_pred CHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EECCCEECH Q ss_conf 10004898750279997771999999999999998539189----938924218 Q gi|254781152|r 3 SLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF----IQEGNIYNV 52 (155) Q Consensus 3 ~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~----l~DG~LWN~ 52 (155) .+++.++|+. -.-||..++++.-..-.+++-|.+.|-|. ..|+|..-. T Consensus 47 ~l~~~~~~~t--~~ela~~l~~~~~~vsr~v~~L~~~glI~r~~~~~D~R~~~l 98 (150) T 3fm5_A 47 LACEQAEGVN--QRGVAATMGLDPSQIVGLVDELEERGLVVRTLDPSDRRNKLI 98 (150) T ss_dssp HHHHSTTCCC--SHHHHHHHTCCHHHHHHHHHHHHTTTSEEC-----------C T ss_pred HHHHCCCCCC--HHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCCCHHH T ss_conf 9998598989--999999978878778899998976476466018665661243 No 40 >3eet_A Putative GNTR-family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.97A {Streptomyces avermitilis} Probab=27.07 E-value=35 Score=15.21 Aligned_cols=41 Identities=15% Similarity=0.025 Sum_probs=34.0 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 004898750279997771999999999999998539189938 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE 46 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D 46 (155) |.-|..|| .++-||-..|+|--+-|.|+..|...|-|.... T Consensus 47 l~pG~rLP-sereLA~~~gVSR~TVR~Al~~L~~~Glv~~~~ 87 (272) T 3eet_A 47 LPPHTRLP-SQARIREEYGVSDTVALEARKVLMAEGLVEGRS 87 (272) T ss_dssp SCTTSBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECC T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECC T ss_conf 99929990-899999998949999999999999869938649 No 41 >2l02_A Uncharacterized protein; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Bacteroides thetaiotaomicron} Probab=27.00 E-value=35 Score=15.21 Aligned_cols=38 Identities=21% Similarity=0.090 Sum_probs=33.4 Q ss_pred CHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ECCCEE Q ss_conf 02799977719999999999999985391899--389242 Q gi|254781152|r 13 DNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI--QEGNIY 50 (155) Q Consensus 13 ~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l--~DG~LW 50 (155) -+.+-|++.++-|.+-...|+--|.++|||.. .+|.++ T Consensus 23 ~s~~eL~k~t~lsd~e~~lAiGWLaRE~KI~~e~k~g~l~ 62 (82) T 2l02_A 23 ISIPELARKVNLSVESTALAVGWLARENKVVIERKNGLIE 62 (82) T ss_dssp BCHHHHHHHHTCCHHHHHHHHHHHHTTTSEEEEEETTEEE T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHCCCEEEEEEECCEEE T ss_conf 7799999886959999999875874278068998778799 No 42 >3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, protein structure initiative, midwest center for structural genomics; 2.20A {Oenococcus oeni psu-1} Probab=25.64 E-value=37 Score=15.06 Aligned_cols=45 Identities=11% Similarity=-0.022 Sum_probs=35.0 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEE Q ss_conf 0048987502799977719999999999999985391899-389242 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIY 50 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LW 50 (155) |..|..|| .++-||...|+|.-+.+.|+..|.+.|-|.. .+.+.| T Consensus 29 l~~G~~LP-ser~La~~~~vSr~tVr~Al~~L~~~Gli~~~~g~G~~ 74 (126) T 3by6_A 29 LSANDQLP-SVRETALQEKINPNTVAKAYKELEAQKVIRTIPGKGTF 74 (126) T ss_dssp SCTTCEEC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTTEEE T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEE T ss_conf 99929990-49999999798989999999999988927997381589 No 43 >3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28 Probab=25.31 E-value=38 Score=15.02 Aligned_cols=39 Identities=13% Similarity=-0.029 Sum_probs=31.5 Q ss_pred CHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE Q ss_conf 10004898750279997771999999999999998539189 Q gi|254781152|r 3 SLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF 43 (155) Q Consensus 3 ~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~ 43 (155) .++..++++ ...-||..++++.-....+++-|.+.|-|. T Consensus 61 ~L~~~~~~~--t~~eLa~~l~i~~stvsr~v~~L~~~GlI~ 99 (166) T 3deu_A 61 NIHQLPPDQ--SQIQLAKAIGIEQPSLVRTLDQLEDKGLIS 99 (166) T ss_dssp HHHHSCSSE--EHHHHHHHHTSCHHHHHHHHHHHHHTTSEE T ss_pred HHHHCCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCCEE T ss_conf 999769897--999999997989989999999998589888 No 44 >2z99_A Putative uncharacterized protein; winged helix domain, cell cycle, cell division, chromosome partition, cytoplasm; 2.30A {Mycobacterium tuberculosis} Probab=24.00 E-value=40 Score=14.87 Aligned_cols=56 Identities=5% Similarity=-0.019 Sum_probs=37.9 Q ss_pred HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHC------CCEEEECCCEECHHHHHHHHHH Q ss_conf 000489875027999777199999999999999853------9189938924218999999975 Q gi|254781152|r 4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKF------NKIFIQEGNIYNVRVEKEIIKA 61 (155) Q Consensus 4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~------GKI~l~DG~LWN~RVEeEL~n~ 61 (155) +|..++|+ +.+.||.+++++....+.+++.|.+. |-.+..-|+-|-.+...|.-.. T Consensus 24 LF~s~epv--s~~~La~~~~~~~~~v~~~l~~L~~~y~~~~~g~~l~~~~ggy~l~t~~~~~~~ 85 (219) T 2z99_A 24 LLVIDTPV--TADALAAATEQPVYRVAAKLQLMADELTGRDSGIDLRHTSEGWRMYTRARFAPY 85 (219) T ss_dssp HHHCSSCB--CHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEEECGGGHHH T ss_pred HHHCCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCEEEEEECHHHHHH T ss_conf 99717997--999999883898899999999999987426663589996895899957566168 No 45 >2wv0_A YVOA, HTH-type transcriptional repressor YVOA; DNA-binding, transcription regulation, transcriptional regulator, GNTR/HUTC family; 2.40A {Bacillus subtilis} Probab=23.91 E-value=40 Score=14.86 Aligned_cols=45 Identities=13% Similarity=0.139 Sum_probs=34.8 Q ss_pred HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEE Q ss_conf 0048987502799977719999999999999985391899-389242 Q gi|254781152|r 5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIY 50 (155) Q Consensus 5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LW 50 (155) |--|..|| .++-||...|+|.-+-|.|++.|.+.|-|.- .+.|.| T Consensus 28 ~~~G~~LP-se~~La~~~~VSr~TVR~Al~~L~~eGli~~~~g~G~~ 73 (243) T 2wv0_A 28 LQPDMPLP-SEREYAEQFGISRMTVRQALSNLVNEGLLYRLKGRGTF 73 (243) T ss_dssp SCTTCBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSCEE T ss_pred CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCC T ss_conf 99939993-79999999796999999999999977997997884465 No 46 >3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH; 2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A* 3i5u_A* 3i64_A* Probab=23.77 E-value=40 Score=14.85 Aligned_cols=50 Identities=12% Similarity=0.065 Sum_probs=37.9 Q ss_pred CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC-CCEECHHHHHHH Q ss_conf 4898750279997771999999999999998539189938-924218999999 Q gi|254781152|r 7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE-GNIYNVRVEKEI 58 (155) Q Consensus 7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D-G~LWN~RVEeEL 58 (155) ..||+. ..-||..+|++.+..+.++.+|...|-+...+ |..-++++.+.+ T Consensus 35 ~~gp~t--~~eLA~~~g~~~~~l~rlLr~L~~~gil~~~~~g~y~~t~~s~~l 85 (332) T 3i53_A 35 AAGHRT--AAEIASAAGAHADSLDRLLRHLVAVGLFTRDGQGVYGLTEFGEQL 85 (332) T ss_dssp HTTCCB--HHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSBEEECTTGGGG T ss_pred HCCCCC--HHHHHHHHCCCHHHHHHHHHHHHHCCEEEECCCCEEECCHHHHHH T ss_conf 379999--999998879098999999999997896897088268348889987 No 47 >3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis} Probab=23.56 E-value=41 Score=14.82 Aligned_cols=45 Identities=9% Similarity=0.037 Sum_probs=39.0 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH Q ss_conf 279997771999999999999998539189938924218999999 Q gi|254781152|r 14 NDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI 58 (155) Q Consensus 14 N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL 58 (155) .-.-||..+|++.+.-+.++++|...|-+...+++..|+..-+.+ T Consensus 58 t~~eLA~~~g~~~~~l~~lLr~L~a~Gll~~~~~~y~~t~~~~~~ 102 (352) T 3mcz_A 58 TPAEVAASFGMVEGKAAILLHALAALGLLTKEGDAFRNTALTERY 102 (352) T ss_dssp CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHH T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEECCHHHHHH T ss_conf 999999882989899999999998689289989999788889988 No 48 >3cf4_G Acetyl-COA decarbonylase/synthase epsilon subunit; methanomicrobia, iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductase; 2.00A {Methanosarcina barkeri} Probab=21.93 E-value=44 Score=14.63 Aligned_cols=37 Identities=11% Similarity=0.188 Sum_probs=28.7 Q ss_pred HHHHHHHHHCCC-EEEECCCEECHHHHHHHHHHHHHHH Q ss_conf 999999985391-8993892421899999997567788 Q gi|254781152|r 30 RNIRAILEKFNK-IFIQEGNIYNVRVEKEIIKASEERQ 66 (155) Q Consensus 30 r~aLd~Ll~~GK-I~l~DG~LWN~RVEeEL~n~sEer~ 66 (155) ..+.+.|-+.-+ +++.++++|...+++++.++.|+-. T Consensus 25 e~~~~li~~akrP~ii~G~g~~~~~~~~~l~~~~~~~~ 62 (170) T 3cf4_G 25 EMAAKIISKAKRPLLMVGTLALDPELLDRVVKISKAAN 62 (170) T ss_dssp HHHHHHHHHCSSEEEEECSTTCCHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHC T ss_conf 99999999668989994665250669999999999859 No 49 >3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora} Probab=21.38 E-value=45 Score=14.56 Aligned_cols=50 Identities=12% Similarity=0.129 Sum_probs=40.9 Q ss_pred CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH Q ss_conf 4898750279997771999999999999998539189938924218999999 Q gi|254781152|r 7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI 58 (155) Q Consensus 7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL 58 (155) ..||+ ...-||..+|++.+.-+.++.+|...|-+...+|+.-+++.-+++ T Consensus 52 ~~gp~--t~~eLA~~~g~~~~~l~rlLr~L~~~Gll~~~~g~y~~t~~s~~l 101 (348) T 3lst_A 52 VDGPR--TPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAAL 101 (348) T ss_dssp TTSCB--CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECTTTGGG T ss_pred CCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEECCHHHHHH T ss_conf 18998--999999887909899999999999789889429856337888887 No 50 >2k9l_A RNA polymerase sigma factor RPON; protein, transcription; NMR {Aquifex aeolicus} Probab=20.21 E-value=48 Score=14.42 Aligned_cols=36 Identities=17% Similarity=0.361 Sum_probs=30.8 Q ss_pred HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHC Q ss_conf 000489875027999777199999999999999853 Q gi|254781152|r 4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKF 39 (155) Q Consensus 4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~ 39 (155) -.+.-|=+..+..-+|..+|||...+..++..|++. T Consensus 40 ~LD~~GyL~~~~eeia~~l~~~~~~ve~vL~~lQ~l 75 (76) T 2k9l_A 40 YLNEKGFLSKSVEEISDVLRCSVEELEKVRQKVLRL 75 (76) T ss_dssp HCTTSSTTCCCHHHHHHHHTSCHHHHHHHHHHHHTT T ss_pred HCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCC T ss_conf 359788818899999999790999999999998606 Done!