Query gi|254780437|ref|YP_003064850.1| 30S ribosomal protein S21 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 95 No_of_seqs 109 out of 269 Neff 3.9 Searched_HMMs 33803 Date Wed Jun 1 13:03:43 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780437.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3i1m_U 30S ribosomal protein 99.5 8.9E-17 2.6E-21 114.4 -6.6 66 19-84 1-67 (71) 2 >3bbn_U Ribosomal protein S21; 99.5 2.4E-16 7E-21 112.0 -7.1 68 17-84 95-162 (190) 3 >3kfv_A Tight junction protein 41.3 20 0.00059 17.3 2.5 23 21-43 125-147 (150) 4 >2hfv_A Hypothetical protein R 33.3 29 0.00084 16.4 2.3 23 15-37 63-85 (97) 5 >1udx_A The GTP-binding protei 29.4 30 0.00089 16.3 1.8 25 28-52 37-61 (82) 6 >3f6g_B Alpha-isopropylmalate 22.1 54 0.0016 14.9 2.0 22 24-45 36-57 (57) 7 >2gw1_A Mitochondrial precurso 20.9 36 0.0011 15.9 0.9 30 21-50 10-39 (67) 8 >3fp2_A TPR repeat-containing 20.4 26 0.00078 16.6 0.1 33 19-51 38-70 (107) 9 >2cp9_A EF-TS, EF-TSMT, elonga 18.7 72 0.0021 14.2 2.2 17 25-41 34-50 (64) 10 >1xb2_B EF-TS, elongation fact 18.4 74 0.0022 14.1 2.5 16 25-40 29-44 (45) No 1 >>3i1m_U 30S ribosomal protein S21; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_U* 2avy_U 2aw7_U 2vho_U 2vhp_U 3df1_U* 3df3_U* 3e1a_Q 3e1c_Q 1vs5_U 3i1o_U 3i1q_U 3i1s_U 3i1z_U 3i21_U 2qal_U* 2i2u_U 2i2p_U* 2qan_U* 2qb9_U* ... (U:) Probab=99.50 E-value=8.9e-17 Score=114.38 Aligned_cols=66 Identities=35% Similarity=0.559 Sum_probs=60.0 Q ss_pred EEEEEEECCC-HHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 0688872795-89999999999964344999874351269558999999999888999999999850 Q gi|254780437|r 19 AVYVLVRDNN-VEQALRVLKKKMQGEGVLRELKMRGHYEKPSQKRVRLKSEAIRRSRKLMRKIAQRE 84 (95) Q Consensus 19 ~i~V~V~~nn-vE~AlR~lKrkv~~eGi~~elR~R~~YEKPsekRrRkk~ea~kR~~K~~rK~~~~~ 84 (95) +++|.|.+|+ +|.||+.||++|+++||++|+|.|+||||||++++++..+|.++..+..++..... T Consensus 1 M~~V~v~enE~~e~ALrRFKr~~~k~Gil~E~R~R~~yEkPs~~rkrk~~~a~kr~~k~~r~~~~~~ 67 (71) T 3i1m_U 1 MPVIKVRENEPFDVALRRFKRSCEKAGVLAEVRRREFYEKPTTERKRAKASAVKRHAKKLARENARR 67 (71) T ss_dssp ---CEEECCSSCCSCCCTTTTSSSTHHHHTTSSSCCCSSSHHHHHHHHHHTSCC------------- T ss_pred CCEEECCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 9843618999899999999999998466999987760258389999999999999999999974201 No 2 >>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Cucumis sativus} (U:) Probab=99.46 E-value=2.4e-16 Score=111.99 Aligned_cols=68 Identities=22% Similarity=0.312 Sum_probs=59.3 Q ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 31068887279589999999999964344999874351269558999999999888999999999850 Q gi|254780437|r 17 ISAVYVLVRDNNVEQALRVLKKKMQGEGVLRELKMRGHYEKPSQKRVRLKSEAIRRSRKLMRKIAQRE 84 (95) Q Consensus 17 ~~~i~V~V~~nnvE~AlR~lKrkv~~eGi~~elR~R~~YEKPsekRrRkk~ea~kR~~K~~rK~~~~~ 84 (95) .+...+.|.|++||+|||+||++|+++||++|+|+++||||||++|+|+.+++++|.++...++.... T Consensus 95 ~~~~v~~~~ne~ie~alr~~k~~~~~~g~~~e~k~~~~yekps~kr~r~~~~~~~r~~~~~~~~~~~~ 162 (190) T 3bbn_U 95 YNVQVVVDDNEPEERLLNRFRREVMRAGVIQECKRRRFFENTQDVRKRKTREAAKRNRRRRPQARFTP 162 (190) T ss_dssp --CCCCCCCCSSCCCCCCSSSTTTTTTHHHHSSSSCCCTTTTTTHHHHHHHHTTC------------- T ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 02799858999999999999999998262999975124578379999999999999999765303787 No 3 >>3kfv_A Tight junction protein ZO-3; structural genomics consortium, SGC, cell junction, cell membrane, membrane, SH3 domain; 2.80A {Homo sapiens} (A:144-293) Probab=41.28 E-value=20 Score=17.31 Aligned_cols=23 Identities=9% Similarity=0.104 Sum_probs=18.3 Q ss_pred EEEEECCCHHHHHHHHHHHHHHC Q ss_conf 88872795899999999999643 Q gi|254780437|r 21 YVLVRDNNVEQALRVLKKKMQGE 43 (95) Q Consensus 21 ~V~V~~nnvE~AlR~lKrkv~~e 43 (95) .|.|.|+|+|.|+..|+..+..+ T Consensus 125 ~vIv~n~~le~a~~~l~~iI~~e 147 (150) T 3kfv_A 125 ATIPLNGTSDTWYQELKAIIREQ 147 (150) T ss_dssp EEEEECSSSTHHHHHHHHHHHHH T ss_pred EEEECCCCHHHHHHHHHHHHHHH T ss_conf 89978988999999999999984 No 4 >>2hfv_A Hypothetical protein RPA1041; NESG, GFT-alpha+beta, structural genomics, PSI-2, protein structure initiative; NMR {Pseudomonas aeruginosa} (A:) Probab=33.32 E-value=29 Score=16.44 Aligned_cols=23 Identities=26% Similarity=0.362 Sum_probs=19.2 Q ss_pred CCCCEEEEEEECCCHHHHHHHHH Q ss_conf 43310688872795899999999 Q gi|254780437|r 15 REISAVYVLVRDNNVEQALRVLK 37 (95) Q Consensus 15 k~~~~i~V~V~~nnvE~AlR~lK 37 (95) -.+.++.|+|.+.+.+.|.+.|. T Consensus 63 igi~p~Ri~V~e~D~~~Ar~iL~ 85 (97) T 2hfv_A 63 LGVIPRRVLVHEDDLAGARRLLT 85 (97) T ss_dssp SSSSCEEEEEEGGGHHHHHHHHH T ss_pred CCCCEEEEEECHHHHHHHHHHHH T ss_conf 35513789974758999999999 No 5 >>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics, protein binding; 2.07A {Thermus thermophilus HB8} (A:335-416) Probab=29.37 E-value=30 Score=16.30 Aligned_cols=25 Identities=20% Similarity=0.360 Sum_probs=21.4 Q ss_pred CHHHHHHHHHHHHHHCCHHHHHHHH Q ss_conf 5899999999999643449998743 Q gi|254780437|r 28 NVEQALRVLKKKMQGEGVLRELKMR 52 (95) Q Consensus 28 nvE~AlR~lKrkv~~eGi~~elR~R 52 (95) |-+.|+..|.+.|.+.||...|+.. T Consensus 37 ~~~es~~~f~~~L~~~Gv~~~L~~~ 61 (82) T 1udx_A 37 DLMEAAGYLQEVFRRQGVEAALRAK 61 (82) T ss_dssp CTGGGHHHHHHHHHHTTHHHHHHTT T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHC T ss_conf 8789999999999987806999965 No 6 >>3f6g_B Alpha-isopropylmalate synthase; licmsc, allosteric regulation, feedback inhibition, selectivity, specificity, transferase; 2.00A {Leptospira interrogans} PDB: 3f6h_A (B:1-57) Probab=22.12 E-value=54 Score=14.87 Aligned_cols=22 Identities=18% Similarity=0.246 Sum_probs=18.6 Q ss_pred EECCCHHHHHHHHHHHHHHCCH Q ss_conf 7279589999999999964344 Q gi|254780437|r 24 VRDNNVEQALRVLKKKMQGEGV 45 (95) Q Consensus 24 V~~nnvE~AlR~lKrkv~~eGi 45 (95) ..||-||.+++.+++.+..+|| T Consensus 36 ~G~GPVDA~~~AI~~i~~~~~i 57 (57) T 3f6g_B 36 EGDGGYDAFMNALTKITNRLGI 57 (57) T ss_dssp ECSSHHHHHHHHHHHHHHHHTC T ss_pred ECCCCHHHHHHHHHHHHCCCCC T ss_conf 1798789999999987462576 No 7 >>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} (A:448-514) Probab=20.88 E-value=36 Score=15.89 Aligned_cols=30 Identities=7% Similarity=0.238 Sum_probs=24.1 Q ss_pred EEEEECCCHHHHHHHHHHHHHHCCHHHHHH Q ss_conf 888727958999999999996434499987 Q gi|254780437|r 21 YVLVRDNNVEQALRVLKKKMQGEGVLRELK 50 (95) Q Consensus 21 ~V~V~~nnvE~AlR~lKrkv~~eGi~~elR 50 (95) ++.|.-||++.|+.-|.+...=+--..|+= T Consensus 10 ql~lQ~g~~~eAi~lFekA~~lARte~El~ 39 (67) T 2gw1_A 10 QMKLQQEDIDEAITLFEESADLARTMEEKL 39 (67) T ss_dssp HHHHHTTCHHHHHHHHHHHHHHCSSHHHHH T ss_pred HHHHHCCCHHHHHHHHHHHHHHCCCCHHHH T ss_conf 999985999999999999987689919999 No 8 >>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric regulation, phosphoprotein, TPR repeat; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A (A:127-156,A:461-537) Probab=20.43 E-value=26 Score=16.63 Aligned_cols=33 Identities=6% Similarity=0.108 Sum_probs=26.4 Q ss_pred EEEEEEECCCHHHHHHHHHHHHHHCCHHHHHHH Q ss_conf 068887279589999999999964344999874 Q gi|254780437|r 19 AVYVLVRDNNVEQALRVLKKKMQGEGVLRELKM 51 (95) Q Consensus 19 ~i~V~V~~nnvE~AlR~lKrkv~~eGi~~elR~ 51 (95) .-++.|+-||+|.|+.-|.+...=+.-..|+=. T Consensus 38 LaqlelQqgn~~eAIelFEkAa~LARTe~El~~ 70 (107) T 3fp2_A 38 LAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ 70 (107) T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH T ss_pred HHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHH T ss_conf 999999859999999999999740999699999 No 9 >>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} (A:) Probab=18.71 E-value=72 Score=14.17 Aligned_cols=17 Identities=29% Similarity=0.233 Sum_probs=13.2 Q ss_pred ECCCHHHHHHHHHHHHH Q ss_conf 27958999999999996 Q gi|254780437|r 25 RDNNVEQALRVLKKKMQ 41 (95) Q Consensus 25 ~~nnvE~AlR~lKrkv~ 41 (95) -|||+|.|+..|+++-. T Consensus 34 ~~gD~~~A~~~Lrk~G~ 50 (64) T 2cp9_A 34 CGGDLKQAEIWLHKEAQ 50 (64) T ss_dssp HTSCHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHH T ss_conf 38999999999999888 No 10 >>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT; protein-protein complex, translation; HET: MSE; 2.20A {Bos taurus} (B:1-45) Probab=18.43 E-value=74 Score=14.13 Aligned_cols=16 Identities=25% Similarity=0.243 Sum_probs=12.1 Q ss_pred ECCCHHHHHHHHHHHH Q ss_conf 2795899999999999 Q gi|254780437|r 25 RDNNVEQALRVLKKKM 40 (95) Q Consensus 25 ~~nnvE~AlR~lKrkv 40 (95) -|||+|.|+-.|+++- T Consensus 29 ~~gD~~kA~e~Lr~~G 44 (45) T 1xb2_B 29 CGGDLKQAESWLHKQA 44 (45) T ss_dssp TTTCHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHH T ss_conf 4898999999999864 Done!