Query gi|254780144|ref|YP_003064557.1| 50S ribosomal protein L12P [Candidatus Liberibacter asiaticus str. psy62] Match_columns 126 No_of_seqs 114 out of 1829 Neff 5.0 Searched_HMMs 23785 Date Sun May 22 12:39:50 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780144.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2ftc_E Mitochondrial ribosomal 100.0 1.2E-38 5.2E-43 252.4 13.2 123 3-126 2-137 (137) 2 2j01_L 50S ribosomal protein L 100.0 1E-38 4.2E-43 253.0 12.7 122 2-126 3-125 (125) 3 2zjq_5 50S ribosomal protein L 100.0 2.4E-38 1E-42 250.6 11.8 120 2-126 3-122 (122) 4 1rqu_A L8, 50S ribosomal prote 100.0 7.6E-38 3.2E-42 247.6 11.9 118 3-126 3-120 (120) 5 1dd3_A 50S ribosomal protein L 100.0 1.3E-38 5.5E-43 252.3 6.7 122 3-126 2-128 (128) 6 1ctf_A Ribosomal protein L7/L1 99.9 6.9E-26 2.9E-30 175.5 5.7 74 51-126 1-74 (74) 7 1dd4_C 50S ribosomal protein L 98.6 3.3E-08 1.4E-12 68.9 4.5 37 4-40 3-39 (40) 8 1rqt_A L8, 50S ribosomal prote 97.7 2.3E-05 9.5E-10 51.9 4.4 32 5-36 5-36 (37) 9 1zav_U 50S ribosomal protein L 97.0 0.00047 2E-08 44.0 4.1 29 3-31 2-30 (30) 10 1aip_C EF-TS, elongation facto 77.2 3.9 0.00016 20.3 5.1 25 72-96 4-28 (196) 11 2cp9_A EF-TS, EF-TSMT, elongat 69.1 3.3 0.00014 20.8 3.1 41 69-115 7-47 (64) 12 1xb2_B EF-TS, elongation facto 65.5 4.2 0.00018 20.1 3.1 25 72-96 5-29 (291) 13 1sy7_A Catalase 1; heme oxidat 61.9 8.6 0.00036 18.3 6.7 92 5-125 463-566 (715) 14 1efu_B Elongation factor TS; c 57.3 10 0.00043 17.8 5.2 38 71-114 4-41 (282) 15 2zkr_l 60S ribosomal protein L 36.2 20 0.00086 16.0 2.7 16 110-125 131-146 (148) 16 1mul_A NS2, HU-2, DNA binding 31.9 7.8 0.00033 18.5 -0.0 17 13-29 15-31 (90) 17 1vq8_L 50S ribosomal protein L 30.4 28 0.0012 15.2 2.7 16 110-125 128-143 (165) 18 1hue_A HU protein; DNA-binding 29.8 10 0.00042 17.8 0.2 18 13-30 15-32 (90) 19 1in0_A YAJQ protein, HI1034; a 25.4 31 0.0013 14.9 2.1 66 57-124 45-122 (163) 20 3jyw_V 60S ribosomal protein L 22.6 34 0.0014 14.6 1.9 16 110-125 126-141 (142) 21 1b8z_A Protein (histonelike pr 21.8 13 0.00056 17.1 -0.4 17 13-29 15-31 (90) No 1 >2ftc_E Mitochondrial ribosomal protein L7/12, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} Probab=100.00 E-value=1.2e-38 Score=252.39 Aligned_cols=123 Identities=33% Similarity=0.495 Sum_probs=106.6 Q ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCC------------CCCCCCCCCCCCCCCCCEEEEEECCCCCC Q ss_conf 189999999609999999999999999378710001223------------55444432222222431157774377554 Q gi|254780144|r 3 NIESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSVV------------APVAAEAGSAASEKTEFEVVLKGFDDPKK 70 (126) Q Consensus 3 ki~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~~------------~~~~~~~~~~~~EKt~fdV~L~~~~~~~~ 70 (126) |+++|+|+|++|||+|++||++.|+++|||+..++++++ +++.+..++..+|||+|||+|++|++ ++ T Consensus 2 kv~~iv~~i~~LtllE~~eL~~~le~k~gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~EKt~FdV~L~~~~~-~~ 80 (137) T 2ftc_E 2 KIQQLVQDIASLTLLEISDLNELLKKTLKIQDVGLMPMGGMVPGAAPAPTAPEAAEEDVPKQKERTHFTVRLTEAKP-VD 80 (137) T ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCEEEEEECCCCC-HH T ss_conf 68999999970989999999999999969984311221223344555445566555442100013357887324772-12 Q ss_pred CHHHHHHHHH-HCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 3357877677-6599889999998637977660999899999999999748579939 Q gi|254780144|r 71 KIAVIKEVRA-ITDLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 71 Ki~vIK~vR~-it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) ||+|||+||+ +|||||||||+|||++|++||+|+||+|||++|++|+++||+|+|+ T Consensus 81 KI~vIK~VR~~it~LgLkEAK~lVE~~P~~iKe~vsKeEAE~ik~kLe~aGA~Vele 137 (137) T 2ftc_E 81 KVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIKAALEAVGGTVVLE 137 (137) T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 678999999871799859999998808898872899999999999999859979729 No 2 >2j01_L 50S ribosomal protein L7; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} PDB: 2j03_L 3i8i_I Probab=100.00 E-value=1e-38 Score=252.95 Aligned_cols=122 Identities=55% Similarity=0.780 Sum_probs=110.1 Q ss_pred CCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCC-CCCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHH Q ss_conf 718999999960999999999999999937871000122-3554444322222224311577743775543357877677 Q gi|254780144|r 2 SNIESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSV-VAPVAAEAGSAASEKTEFEVVLKGFDDPKKKIAVIKEVRA 80 (126) Q Consensus 2 aki~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~-~~~~~~~~~~~~~EKt~fdV~L~~~~~~~~Ki~vIK~vR~ 80 (126) -++++|+|+|++||++|++||++.|+++|||++++++++ +++++++++++++|||+|||+|++|+ ++||+|||+||+ T Consensus 3 ~~~~~i~d~i~~LTllE~~eLv~~leek~gv~~~~~~~~~~~~~~~~~~~~~~Ekt~f~V~L~~~~--~kKI~vIK~vR~ 80 (125) T 2j01_L 3 LDIERIKEELSQATVLELKQLIDALKEAWGVTAAAPVAVAAAPAAGAAAAPAEEKTEFDVILKEAG--AKKLEVIKELRA 80 (125) T ss_pred CCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCC--CCCCEEHHHHHH T ss_conf 659999999960879999999999999979885421134667776666553332655589962378--765200236665 Q ss_pred HCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 6599889999998637977660999899999999999748579939 Q gi|254780144|r 81 ITDLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 81 it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) +|||||||||+|||+ |.+||+|++|+|||++|++||++||+|+|| T Consensus 81 it~LgLkEAK~lVE~-p~~vke~vsKeeAe~~K~kLe~aGA~VelK 125 (125) T 2j01_L 81 ITGLGLKEAKDLAEK-GGPVKEGVSKQEAEEIKKKLEAVGAVVELK 125 (125) T ss_pred HCCCCHHHHHHHHHC-CCHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 069988999998606-710421899999999999999859979739 No 3 >2zjq_5 50S ribosomal protein L7/L12; ribosome, ribosomal subunit, thiopeptide antibiotics, complex, translational regulation, molecular switch; 3.30A {Deinococcus radiodurans} SCOP: d.45.1.1 Probab=100.00 E-value=2.4e-38 Score=250.64 Aligned_cols=120 Identities=49% Similarity=0.692 Sum_probs=107.9 Q ss_pred CCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHH Q ss_conf 71899999996099999999999999993787100012235544443222222243115777437755433578776776 Q gi|254780144|r 2 SNIESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSVVAPVAAEAGSAASEKTEFEVVLKGFDDPKKKIAVIKEVRAI 81 (126) Q Consensus 2 aki~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~~~~~~~~~~~~~~EKt~fdV~L~~~~~~~~Ki~vIK~vR~i 81 (126) .+.++|+|+|++|||+|++||++.|+++|||+++++++++ +++++.++++|||+|||+|++|+ ++||+|||+||++ T Consensus 3 ~~~~~ive~i~~LTllE~~eLv~~lee~fgv~~~~~~~~~--~~~~~~~~~~Ekt~F~V~L~~~~--~~Ki~vIK~vR~i 78 (122) T 2zjq_5 3 YDKQALIDQLGQLTIMELADLIDGLKETWGVTAAVAVSGG--GAGAASPAAEEKTEFDVVLIDAG--ASKINVIKEIRGI 78 (122) T ss_pred CCHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCC--CCCCCCCCCCCCCEEEEEEECCC--CCCCEEEEHHHHC T ss_conf 7699999999618899999999999998599844345666--65666665555526799963278--7765366302521 Q ss_pred CCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 599889999998637977660999899999999999748579939 Q gi|254780144|r 82 TDLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 82 t~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) |||||||||+|||+ |++||+|+||+|||++|++|+++||+|+|| T Consensus 79 t~LgLkEAK~lVE~-p~~ike~vsKeeAE~ikkkLe~aGA~VeiK 122 (122) T 2zjq_5 79 TGLGLKEAKDMSEK-GGVLKEGVAKDEAEKMKAQLEAAGARVELK 122 (122) T ss_pred CCCCHHHHHHHHHC-CHHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 69988999988607-716641899999999999999859879749 No 4 >1rqu_A L8, 50S ribosomal protein L7/L12; ribosome,; NMR {Escherichia coli} SCOP: a.108.1.1 d.45.1.1 PDB: 1rqv_A 2gya_3 2gyc_3 Probab=100.00 E-value=7.6e-38 Score=247.64 Aligned_cols=118 Identities=52% Similarity=0.760 Sum_probs=106.6 Q ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHC Q ss_conf 18999999960999999999999999937871000122355444432222222431157774377554335787767765 Q gi|254780144|r 3 NIESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSVVAPVAAEAGSAASEKTEFEVVLKGFDDPKKKIAVIKEVRAIT 82 (126) Q Consensus 3 ki~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~~~~~~~~~~~~~~EKt~fdV~L~~~~~~~~Ki~vIK~vR~it 82 (126) ..++|+++|++|||+|+++|++.|+++|||++.+++++ +++++++++|||+|+|+|+.++ ++||+|||+||++| T Consensus 3 ~~~~ive~i~~LTllE~~eLv~~le~~fgv~~~~~~~~----~~~~~~~~~ekt~f~vil~~~~--~~Ki~VIK~VR~it 76 (120) T 1rqu_A 3 TKDQIIEAVAAMSVMDVVELISAMEEKFGVSAAAAVAV----AAGPVEAAEEKTEFDVILKAAG--ANKVAVIKAVRGAT 76 (120) T ss_dssp CHHHHHHHHTTSCHHHHHHHHHHHHHHTTCCCTTCCCC----CCCCCCSSCCCCCEEEEEEECC--SCHHHHHHHHHHHS T ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCC----CCCCCCCCCCCCHHHHHHHCCC--CCCCHHHHHHHHHC T ss_conf 88999999970889999999999999949996655566----7776544454316888874046--54314689998745 Q ss_pred CCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 99889999998637977660999899999999999748579939 Q gi|254780144|r 83 DLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 83 ~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) ||||+|||+|||++|++||+|++|+|||++|++|+++||+|+|| T Consensus 77 ~LgLkEAK~lVE~~P~~ike~vsKeeAe~iK~kLe~aGa~VelK 120 (120) T 1rqu_A 77 GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGAEVEVK 120 (120) T ss_dssp CCCHHHHHHHHHTCSEEEEEEECHHHHHHHHHHHHHHTCEEEEC T ss_pred CCCHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 99889999998728898871899999999999999859978629 No 5 >1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} SCOP: a.108.1.1 d.45.1.1 PDB: 1dd4_A* 1giy_I 1yl3_I Probab=100.00 E-value=1.3e-38 Score=252.25 Aligned_cols=122 Identities=59% Similarity=0.836 Sum_probs=108.3 Q ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCC--CCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHH Q ss_conf 1899999996099999999999999993787100012235--54444322222224311577743775543357877677 Q gi|254780144|r 3 NIESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSVVA--PVAAEAGSAASEKTEFEVVLKGFDDPKKKIAVIKEVRA 80 (126) Q Consensus 3 ki~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~~~--~~~~~~~~~~~EKt~fdV~L~~~~~~~~Ki~vIK~vR~ 80 (126) .+++|+|+|++|||+|+++|++.|+++|||++++++++++ +++++++++.+|||+|||+|++|+ ++||+|||+||+ T Consensus 2 t~~~ive~i~~LtllE~~eLv~~leek~gv~~~~~~~~~~~~~~~~~~~~~~~Ekt~F~V~L~~~~--~~KI~vIK~VR~ 79 (128) T 1dd3_A 2 TIDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAPVAVAAAPVAGAAAGAAQEEKTEFDVVLKSFG--QNKIQVIKVVRE 79 (128) T ss_dssp CHHHHHHHHTTSCHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEECT--TCHHHHHHHHHH T ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCC--CCCHHHHHHHHH T ss_conf 889999999719899999999999999799866310023567666665442233654699981377--654012345775 Q ss_pred HCCCCHHHHHHHHHHCCH---HHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 659988999999863797---7660999899999999999748579939 Q gi|254780144|r 81 ITDLGLKEAKELVESAPK---SLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 81 it~LgLkEAK~lVe~~P~---~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) +|||||||||+|||++|+ +||+|++|+|||++|++|+++||+|+|| T Consensus 80 it~LgLkEAK~lVE~aP~~~~viKe~vsKeeAE~iK~kLe~aGA~VelK 128 (128) T 1dd3_A 80 ITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEEAGAEVELK 128 (128) T ss_dssp HHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHHTTCEEEEC T ss_pred HCCCCHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 3699889999999717984067853889999999999999859879739 No 6 >1ctf_A Ribosomal protein L7/L12; 1.70A {Escherichia coli} SCOP: d.45.1.1 PDB: 1rqs_A 2bcw_B Probab=99.92 E-value=6.9e-26 Score=175.54 Aligned_cols=74 Identities=64% Similarity=0.887 Sum_probs=70.7 Q ss_pred CCCCCCCCEEEEEECCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEEC Q ss_conf 2222243115777437755433578776776599889999998637977660999899999999999748579939 Q gi|254780144|r 51 AASEKTEFEVVLKGFDDPKKKIAVIKEVRAITDLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVELR 126 (126) Q Consensus 51 ~~~EKt~fdV~L~~~~~~~~Ki~vIK~vR~it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~VeiK 126 (126) +++|||+|||+|++|++ +||+|||+||++|||||+|||+|||++|++|++|++|+|||++|++|+++||+|+|| T Consensus 1 aaeEkt~f~V~L~~~~~--~Ki~vIK~VR~itglgLkeAK~lVe~~P~~ike~v~keeAe~ik~~le~aGA~V~lk 74 (74) T 1ctf_A 1 AAEEKTEFDVILKAAGA--NKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGAEVEVK 74 (74) T ss_dssp ------CEEEEEEECGG--GHHHHHHHHHHHHCCCHHHHHHHHHTCSEEEEEEECHHHHHHHHHHHHHHTCEEEEC T ss_pred CCCCCCEEEEEEEECCC--CHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 98656554899831785--414799999876599999999998718899973899999999999999859889849 No 7 >1dd4_C 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; HET: TBR; 2.40A {Thermotoga maritima} SCOP: a.108.1.1 Probab=98.59 E-value=3.3e-08 Score=68.95 Aligned_cols=37 Identities=51% Similarity=0.810 Sum_probs=34.8 Q ss_pred HHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 8999999960999999999999999937871000122 Q gi|254780144|r 4 IESIVEKLSSLTLIEAAELSKRLEKEWGVSASAPVSV 40 (126) Q Consensus 4 i~~ive~i~~LTllE~~eLv~~leekfgv~~~~~~~~ 40 (126) +++|++.|++||++|++||++.+|++|||++++|++. T Consensus 3 ~e~iieaie~ltVlEl~eLvKa~EekfGVsAaAPVav 39 (40) T 1dd4_C 3 IDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAPVAV 39 (40) T ss_dssp HHHHHHHHTTSCHHHHHHHHHHHHHHTCCCSCC---- T ss_pred HHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 9999999984749999999999999858651444144 No 8 >1rqt_A L8, 50S ribosomal protein L7/L12; protein L7/L12,ribosome,; NMR {Escherichia coli} SCOP: a.108.1.1 Probab=97.75 E-value=2.3e-05 Score=51.90 Aligned_cols=32 Identities=31% Similarity=0.672 Sum_probs=30.3 Q ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCC Q ss_conf 99999996099999999999999993787100 Q gi|254780144|r 5 ESIVEKLSSLTLIEAAELSKRLEKEWGVSASA 36 (126) Q Consensus 5 ~~ive~i~~LTllE~~eLv~~leekfgv~~~~ 36 (126) ++|++.|.+||++++.||+..+|+||||++++ T Consensus 5 e~ILeaia~mSVmdvveLisaMEeKFGVs~~~ 36 (37) T 1rqt_A 5 DQIIEAVAAMSVMDVVELISAMEEKFGVSAAA 36 (37) T ss_dssp HHHHHHHTTSCHHHHHHHHHHHHHHTTCCCSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 99999998832999999999999984877467 No 9 >1zav_U 50S ribosomal protein L7/L12; ribosome structure and function, L10-L12 complex structure, L10E structure, L7/12 ribosomal stalk; 1.90A {Thermotoga maritima} SCOP: a.108.1.1 PDB: 1zaw_U 1zax_U 1dd3_C Probab=97.05 E-value=0.00047 Score=43.97 Aligned_cols=29 Identities=45% Similarity=0.737 Sum_probs=27.8 Q ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHC Q ss_conf 18999999960999999999999999937 Q gi|254780144|r 3 NIESIVEKLSSLTLIEAAELSKRLEKEWG 31 (126) Q Consensus 3 ki~~ive~i~~LTllE~~eLv~~leekfg 31 (126) .+++|++.|..||+-|++|||+.++++|| T Consensus 2 ~~eeiv~aiekltvaelaelvk~ledkfg 30 (30) T 1zav_U 2 TIDEIIEAIEKLTVSELAELVKKLEDKFG 30 (30) T ss_dssp CHHHHHHHHHHSBHHHHHHHHHHHHHHTC T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 79999999999619999999999876648 No 10 >1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding, complex of two elongation factors; 3.00A {Thermus thermophilus} SCOP: a.5.2.2 d.43.1.1 Probab=77.24 E-value=3.9 Score=20.33 Aligned_cols=25 Identities=32% Similarity=0.551 Sum_probs=14.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHC Q ss_conf 3578776776599889999998637 Q gi|254780144|r 72 IAVIKEVRAITDLGLKEAKELVESA 96 (126) Q Consensus 72 i~vIK~vR~it~LgLkEAK~lVe~~ 96 (126) +..||.+|+.||-|+++.|+....+ T Consensus 4 ~~lvk~LR~~Tgag~~dcKkAL~e~ 28 (196) T 1aip_C 4 MELIKKLREATGAGMMDVKRALEDA 28 (196) T ss_dssp HHHHHHHHHHHCCCHHHHHHHHHHT T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHC T ss_conf 7999999998797999999999984 No 11 >2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2 Probab=69.11 E-value=3.3 Score=20.80 Aligned_cols=41 Identities=17% Similarity=0.202 Sum_probs=30.8 Q ss_pred CCCHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHH Q ss_conf 54335787767765998899999986379776609998999999999 Q gi|254780144|r 69 KKKIAVIKEVRAITDLGLKEAKELVESAPKSLKTGLSKDEANEMKKK 115 (126) Q Consensus 69 ~~Ki~vIK~vR~it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~ 115 (126) ..-+..||.+|+.||.|+.+.|...+.+ +-+-+.|.++-.+ T Consensus 7 ~~s~elik~LR~~Tga~~~dcK~AL~e~------~gD~ekA~~~Lr~ 47 (64) T 2cp9_A 7 GSSKELLMKLRRKTGYSFVNCKKALETC------GGDLKQAEIWLHK 47 (64) T ss_dssp CCCCHHHHHHHHHHCCCHHHHHHHHHHH------TSCHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHC------CCCHHHHHHHHHH T ss_conf 1309999999999798899999999992------8999999999999 No 12 >1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT; protein-protein complex, translation; HET: MSE; 2.20A {Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1 Probab=65.45 E-value=4.2 Score=20.12 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=12.6 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHC Q ss_conf 3578776776599889999998637 Q gi|254780144|r 72 IAVIKEVRAITDLGLKEAKELVESA 96 (126) Q Consensus 72 i~vIK~vR~it~LgLkEAK~lVe~~ 96 (126) ...||.+|..||.|+++.|+..+.+ T Consensus 5 ~~lIK~LR~~TgagmmdCKkAL~e~ 29 (291) T 1xb2_B 5 KELLMKLRRKTGYSFINCKKALETC 29 (291) T ss_dssp HHHHHHHHHHHCCCHHHHHHHHHHT T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHC T ss_conf 9999999988698699999999985 No 13 >1sy7_A Catalase 1; heme oxidation, singlet oxygen, oxidoreductase; HET: HDD HEM; 1.75A {Neurospora crassa} SCOP: c.23.16.3 Probab=61.86 E-value=8.6 Score=18.26 Aligned_cols=92 Identities=12% Similarity=0.097 Sum_probs=55.3 Q ss_pred HHHHHHHHHCCHH---HHH---------HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCH Q ss_conf 9999999609999---999---------9999999993787100012235544443222222243115777437755433 Q gi|254780144|r 5 ESIVEKLSSLTLI---EAA---------ELSKRLEKEWGVSASAPVSVVAPVAAEAGSAASEKTEFEVVLKGFDDPKKKI 72 (126) Q Consensus 5 ~~ive~i~~LTll---E~~---------eLv~~leekfgv~~~~~~~~~~~~~~~~~~~~~EKt~fdV~L~~~~~~~~Ki 72 (126) +.|...+++.+-- +.. +|-..+.+.+|+++..+......... ......++|.-....+ . .+|| T Consensus 463 ~n~~~~l~~~~~~~i~~~~~~~~~~~d~~~~~~v~~~lg~~~p~~~~~~~~~~~---~~~~s~~~~~~~~~tl-~-grKV 537 (715) T 1sy7_A 463 NAFGFELDHCEDPVVYGRMVQRLADIDLGLAQTIAEMVGGEAPTTTNHPNHGRK---TINLSQTEFPPATPTI-K-SRRV 537 (715) T ss_dssp HHHHHHHHTCCCHHHHHHHHHHHTTTCHHHHHHHHHHHCSCCCSCCSSCCCCCC---CSSCSGGGCCCSSSCC-T-TCEE T ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCC---CCCCCHHHCCCCCCCC-C-CCEE T ss_conf 999998628995899999999998629999999999749999987778998888---9773400047766345-6-7679 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHHHHHHCCCEEEE Q ss_conf 57877677659988999999863797766099989999999999974857993 Q gi|254780144|r 73 AVIKEVRAITDLGLKEAKELVESAPKSLKTGLSKDEANEMKKKLEDAGATVEL 125 (126) Q Consensus 73 ~vIK~vR~it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~~Le~aGa~Vei 125 (126) .|+ +-.|....|+..++..|+++|+.|.| T Consensus 538 aIL------------------------vadGfEe~E~~~~~~~L~~aG~~V~v 566 (715) T 1sy7_A 538 AII------------------------IADGYDNVAYDAAYAAISANQAIPLV 566 (715) T ss_dssp EEE------------------------CCTTBCHHHHHHHHHHHHHTTCEEEE T ss_pred EEE------------------------ECCCCCHHHHHHHHHHHHHCCCEEEE T ss_conf 998------------------------16873489999999999977996799 No 14 >1efu_B Elongation factor TS; complex (TWO elongation factors); 2.50A {Escherichia coli} SCOP: a.5.2.2 d.43.1.1 d.43.1.1 Probab=57.29 E-value=10 Score=17.78 Aligned_cols=38 Identities=24% Similarity=0.308 Sum_probs=27.2 Q ss_pred CHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHCCCHHHHHHHHH Q ss_conf 33578776776599889999998637977660999899999999 Q gi|254780144|r 71 KIAVIKEVRAITDLGLKEAKELVESAPKSLKTGLSKDEANEMKK 114 (126) Q Consensus 71 Ki~vIK~vR~it~LgLkEAK~lVe~~P~~ike~v~keeAE~ik~ 114 (126) -.+.||.+|..||.|+++.|+..+.+.. +-+.|.+|-. T Consensus 4 ta~lik~LR~~Tga~~~~CKkAL~~~~g------D~e~A~~~Lr 41 (282) T 1efu_B 4 TASLVKELRERTGAGMMDCKKALTEANG------DIELAIENMR 41 (282) T ss_dssp CHHHHHHHHHHHCCCHHHHHHHHHHTTT------CHHHHHHHHH T ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHCCC------CHHHHHHHHH T ss_conf 8999999998869869999999998589------8999999999 No 15 >2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Probab=36.16 E-value=20 Score=15.99 Aligned_cols=16 Identities=19% Similarity=0.418 Sum_probs=13.5 Q ss_pred HHHHHHHHHCCCEEEE Q ss_conf 9999999974857993 Q gi|254780144|r 110 NEMKKKLEDAGATVEL 125 (126) Q Consensus 110 E~ik~~Le~aGa~Vei 125 (126) +..+.++|.+|++|+| T Consensus 131 ~sA~ekIE~aGG~V~l 146 (148) T 2zkr_l 131 RRAEEKIKSVGGACVL 146 (148) T ss_dssp HHHHHHHHHTTCEEEE T ss_pred HHHHHHHHHCCCEEEE T ss_conf 8999999986988999 No 16 >1mul_A NS2, HU-2, DNA binding protein HU-alpha; histone-like; HET: DNA; 2.30A {Escherichia coli} SCOP: a.55.1.1 PDB: 2o97_A Probab=31.92 E-value=7.8 Score=18.52 Aligned_cols=17 Identities=12% Similarity=0.001 Sum_probs=8.1 Q ss_pred HCCHHHHHHHHHHHHHH Q ss_conf 09999999999999999 Q gi|254780144|r 13 SLTLIEAAELSKRLEKE 29 (126) Q Consensus 13 ~LTllE~~eLv~~leek 29 (126) ++|-.++.++++.+-+. T Consensus 15 ~~~~~~~~~~v~~~~~~ 31 (90) T 1mul_A 15 ELSKTQAKAALESTLAA 31 (90) T ss_dssp TCCHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHH T ss_conf 97999999999999999 No 17 >1vq8_L 50S ribosomal protein L15P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.12.1.1 PDB: 1vq4_L* 1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L* 1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L* 1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ... Probab=30.40 E-value=28 Score=15.18 Aligned_cols=16 Identities=44% Similarity=0.709 Sum_probs=12.6 Q ss_pred HHHHHHHHHCCCEEEE Q ss_conf 9999999974857993 Q gi|254780144|r 110 NEMKKKLEDAGATVEL 125 (126) Q Consensus 110 E~ik~~Le~aGa~Vei 125 (126) +..+.++|.+|++|+| T Consensus 128 ~sA~ekIE~aGG~v~l 143 (165) T 1vq8_L 128 EGAREKVEGAGGSVEL 143 (165) T ss_dssp HHHHHHHHHTTCEEEE T ss_pred HHHHHHHHHCCCEEEE T ss_conf 9999999984998999 No 18 >1hue_A HU protein; DNA-binding; NMR {Geobacillus stearothermophilus} SCOP: a.55.1.1 PDB: 1huu_A Probab=29.84 E-value=10 Score=17.85 Aligned_cols=18 Identities=11% Similarity=0.060 Sum_probs=10.7 Q ss_pred HCCHHHHHHHHHHHHHHH Q ss_conf 099999999999999993 Q gi|254780144|r 13 SLTLIEAAELSKRLEKEW 30 (126) Q Consensus 13 ~LTllE~~eLv~~leekf 30 (126) +||--++.++++.+-+.. T Consensus 15 ~l~~~~~~~~v~~~~~~i 32 (90) T 1hue_A 15 GLSKKDATKAVDAVFDSI 32 (90) T ss_dssp CCCHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHHH T ss_conf 989999999999999999 No 19 >1in0_A YAJQ protein, HI1034; alpha and beta sandwich, structural genomics, structure 2 function project, S2F, unknown function; 2.14A {Haemophilus influenzae} SCOP: d.58.49.1 d.58.49.1 Probab=25.40 E-value=31 Score=14.93 Aligned_cols=66 Identities=12% Similarity=0.166 Sum_probs=38.1 Q ss_pred CCEEEEEECCCCCCCHHHHHHH-HH-H--CCCCHHHHH-HHHHH-------CCHHHHHCCCHHHHHHHHHHHHHCCCEEE Q ss_conf 3115777437755433578776-77-6--599889999-99863-------79776609998999999999997485799 Q gi|254780144|r 57 EFEVVLKGFDDPKKKIAVIKEV-RA-I--TDLGLKEAK-ELVES-------APKSLKTGLSKDEANEMKKKLEDAGATVE 124 (126) Q Consensus 57 ~fdV~L~~~~~~~~Ki~vIK~v-R~-i--t~LgLkEAK-~lVe~-------~P~~ike~v~keeAE~ik~~Le~aGa~Ve 124 (126) +-.+.|.+-+ +-|+.-+..+ ++ + -|++++--. .-.+. -.-.|++|+++|.|-+|-+.+.+.+-+|. T Consensus 45 ~~~i~l~a~~--e~kl~~v~diL~~kl~KR~i~~k~l~~~~~e~~sg~~~rq~i~lk~GI~~e~AKkI~k~IKdsklKVq 122 (163) T 1in0_A 45 NETIKITTES--DFQLEQLIEILIGSCIKRGIEHSSLDIPAESEHHGKLYSKEIKLKQGIETEMAKKITKLVKDSKIKVQ 122 (163) T ss_dssp TTEEEEEESC--HHHHHHHHHHHHHHHHHTTCCGGGEECCSSCEEETTEEEEEEEECCSCCHHHHHHHHHHHHHHTCSEE T ss_pred CCEEEEECCC--HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEEHHHHCCCHHHHHHHHHHHHHCCCCCE T ss_conf 7369997097--99999999999999861699954322356422478718998647522488899999999971388405 No 20 >3jyw_V 60S ribosomal protein L28; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_V Probab=22.59 E-value=34 Score=14.64 Aligned_cols=16 Identities=38% Similarity=0.549 Sum_probs=13.0 Q ss_pred HHHHHHHHHCCCEEEE Q ss_conf 9999999974857993 Q gi|254780144|r 110 NEMKKKLEDAGATVEL 125 (126) Q Consensus 110 E~ik~~Le~aGa~Vei 125 (126) +..+.++|.+|++|++ T Consensus 126 ~sA~ekIE~aGG~v~~ 141 (142) T 3jyw_V 126 KLAEEKIRAAGGVVEL 141 (142) T ss_dssp HHHHHHHHHHTCCEEC T ss_pred HHHHHHHHHCCCEEEE T ss_conf 8999999983998996 No 21 >1b8z_A Protein (histonelike protein HU); thermostable DNA binding protein; 1.60A {Thermotoga maritima} SCOP: a.55.1.1 PDB: 1riy_A Probab=21.77 E-value=13 Score=17.10 Aligned_cols=17 Identities=0% Similarity=-0.060 Sum_probs=10.2 Q ss_pred HCCHHHHHHHHHHHHHH Q ss_conf 09999999999999999 Q gi|254780144|r 13 SLTLIEAAELSKRLEKE 29 (126) Q Consensus 13 ~LTllE~~eLv~~leek 29 (126) ++|--++..+++.+-+. T Consensus 15 ~~s~~~~~~~v~~~~~~ 31 (90) T 1b8z_A 15 GAKKKDVKLILDTILET 31 (90) T ss_dssp TCCHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHH T ss_conf 99999999999999999 Done!