Query gi|254780243|ref|YP_003064656.1| 50S ribosomal protein L30 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 64 No_of_seqs 107 out of 803 Neff 4.7 Searched_HMMs 23785 Date Tue May 24 05:13:15 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780243.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1bxy_A Protein (ribosomal prot 99.9 4.7E-24 2E-28 148.3 7.3 58 7-64 1-58 (60) 2 2zjr_W 50S ribosomal protein L 99.9 1.7E-23 7.2E-28 145.3 5.5 55 10-64 1-55 (55) 3 3ofq_Z 50S ribosomal protein L 99.9 1.1E-23 4.7E-28 146.3 0.5 58 7-64 1-58 (58) 4 1vq8_W 50S ribosomal protein L 99.6 7.3E-16 3.1E-20 104.5 7.3 55 10-64 2-56 (154) 5 2zkr_w 60S ribosomal protein L 98.2 3.1E-07 1.3E-11 58.4 1.0 55 8-62 110-164 (270) 6 3jyw_F 60S ribosomal protein L 48.9 4.4 0.00018 20.2 0.9 52 9-60 52-103 (213) 7 2ccq_A P97, peptide N-glycanas 19.3 19 0.00078 16.8 -0.0 47 16-63 52-98 (99) 8 3fby_A COMP, cartilage oligome 10.3 95 0.004 13.1 2.5 55 7-62 424-478 (551) 9 3ou8_A Adenosine deaminase; st 9.7 1E+02 0.0042 12.9 2.1 48 8-55 189-236 (326) 10 3iar_A Adenosine deaminase; pu 8.3 1.1E+02 0.0048 12.6 2.0 48 8-55 204-251 (367) No 1 >1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes, ribosome; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ... Probab=99.90 E-value=4.7e-24 Score=148.30 Aligned_cols=58 Identities=41% Similarity=0.714 Sum_probs=56.8 Q ss_pred CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC Q ss_conf 2625999973368989899999998383467982898299789707986211147839 Q gi|254780243|r 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64 (64) Q Consensus 7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE 64 (64) |++++|||+||.||+|++|++|+++|||+|+|++++++|||+++|||++|+|||+||| T Consensus 1 MaklkIt~vrS~ig~~~~~k~tl~~LGL~k~~~~v~~~dtp~irGmi~kVkhLV~vee 58 (60) T 1bxy_A 1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV 58 (60) T ss_dssp CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEE T ss_pred CCCEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEE T ss_conf 9967999945889989899999998199979998996699889889985343379997 No 2 >2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* Probab=99.88 E-value=1.7e-23 Score=145.31 Aligned_cols=55 Identities=42% Similarity=0.690 Sum_probs=54.3 Q ss_pred EEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC Q ss_conf 5999973368989899999998383467982898299789707986211147839 Q gi|254780243|r 10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64 (64) Q Consensus 10 ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE 64 (64) |+|||+||+||+|++|++|+++|||+|+|++++++|||+++|||++|+|||+||| T Consensus 1 lkItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~~tp~irGmi~kV~hLV~VeE 55 (55) T 2zjr_W 1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE 55 (55) T ss_dssp CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC T ss_pred CEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEC T ss_conf 9599973889989899999998099979998996799889889997565069849 No 3 >3ofq_Z 50S ribosomal protein L30; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ... Probab=99.86 E-value=1.1e-23 Score=146.30 Aligned_cols=58 Identities=34% Similarity=0.614 Sum_probs=56.3 Q ss_pred CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC Q ss_conf 2625999973368989899999998383467982898299789707986211147839 Q gi|254780243|r 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64 (64) Q Consensus 7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE 64 (64) .+.|+|||+||+||++++||+|+++|||+|+|++|+++|||++||||++|+|||+||| T Consensus 1 ak~ikItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~~tp~irGmi~kVkhLV~VeE 58 (58) T 3ofq_Z 1 AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 58 (58) T ss_dssp CCCCBCCCCSCSSSSCHHHHHHHHTTCCCSSCCCCBCCCCTTTTTTTGGGGGGCCCBC T ss_pred CCEEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEC T ss_conf 9758999925889989899999998199989998996899789889997665169849 No 4 >1vq8_W 50S ribosomal protein L30P; 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: d.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ... Probab=99.62 E-value=7.3e-16 Score=104.53 Aligned_cols=55 Identities=22% Similarity=0.395 Sum_probs=53.6 Q ss_pred EEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC Q ss_conf 5999973368989899999998383467982898299789707986211147839 Q gi|254780243|r 10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64 (64) Q Consensus 10 ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE 64 (64) +.|+++||.+|.+++|++|+++|||+|+|++|+++|||+++|||++|+|+|.+.| T Consensus 2 ~aVirIRg~ig~~~~~r~tL~~LgL~ki~~~V~~~~tp~~~gML~kV~~yVt~Ge 56 (154) T 1vq8_W 2 HALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGE 56 (154) T ss_dssp EEEEECSCSTTSCHHHHHHHHHTTCCSTTEEEEECCCHHHHHHHHHSGGGEEEEC T ss_pred EEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEEECCHHHHHHHHHHCCCEEEEC T ss_conf 4699815878989899999998399857987897189899999986254424634 No 5 >2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Probab=98.16 E-value=3.1e-07 Score=58.41 Aligned_cols=55 Identities=18% Similarity=0.084 Sum_probs=51.3 Q ss_pred CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEE Q ss_conf 6259999733689898999999983834679828982997897079862111478 Q gi|254780243|r 8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRI 62 (64) Q Consensus 8 ~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~V 62 (64) +-+-|-++||..+.+++.++|++-|+|+++|..|+.++||++.||+++|...|.+ T Consensus 110 kl~fVIRIRG~~~v~pkvrktL~lLRL~~in~~Vfvk~~~~~~~ML~~VepYVtw 164 (270) T 2zkr_w 110 KLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAW 164 (270) T ss_dssp -CEEEECCSCSSSSCTTSSSHHHHTCCCSSSEEEEECCCHHHHHTTTSSTTSCBC T ss_pred EEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCEEEE T ss_conf 1899999688889897899999995788113159995888899999730561120 No 6 >3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_F Probab=48.88 E-value=4.4 Score=20.20 Aligned_cols=52 Identities=23% Similarity=0.254 Sum_probs=42.1 Q ss_pred EEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHE Q ss_conf 2599997336898989999999838346798289829978970798621114 Q gi|254780243|r 9 KITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLV 60 (64) Q Consensus 9 ~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV 60 (64) -+-|..+|+...-|++-|+.++-|.|.++|+-...+.|-...-.++-+.-.| T Consensus 52 lvfvvrikginkippkprkvlqllrltrinsgtfvkvtkatlellkliepyv 103 (213) T 3jyw_F 52 LVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYV 103 (213) T ss_dssp CCCCCCCSCSSCCCHHHHHHHGGGCCCSSSCBCCCCCSSTTTTHHHHTTTTS T ss_pred EEEEEEECCCCCCCCCHHHHHHHHHHHEECCCCEEEEHHHHHHHHHHHHHHH T ss_conf 3899995255669997289999987721147726875699999999720676 No 7 >2ccq_A P97, peptide N-glycanase homolog; glycoprotein; 1.6A {Homo sapiens} SCOP: d.314.1.1 PDB: 2hpl_A 2hpj_A 2cm0_A Probab=19.29 E-value=19 Score=16.84 Aligned_cols=47 Identities=11% Similarity=0.181 Sum_probs=34.8 Q ss_pred ECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEE Q ss_conf 336898989999999838346798289829978970798621114783 Q gi|254780243|r 16 GSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIV 63 (64) Q Consensus 16 kS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~Ve 63 (64) ++.++.-+.-.+.+.++|+..-+...+.++... -..+.++..++..| T Consensus 52 ~~~v~~~~g~~~~L~~~GF~e~~~~~~lp~~~~-~~~l~~~~~~L~~e 98 (99) T 2ccq_A 52 STRLLPVRGAVECLFEMGFEEGETHLIFPKKAS-VEQLQKIRDLIAIE 98 (99) T ss_dssp HHHTTTSTTHHHHHHHHTCEECSSEEECCTTSC-HHHHHHHHHHHHTT T ss_pred HHHHCCCCCHHHHHHHCCCEECCCEEEECCCCC-HHHHHHHHHHHHHC T ss_conf 998626511999999949736886688589898-99999999998714 No 8 >3fby_A COMP, cartilage oligomeric matrix protein; signature domain, E4T3C5, calcium, cell adhesion, disease mutation, dwarfism, EGF-like domain; HET: NAG MAN; 3.15A {Homo sapiens} Probab=10.30 E-value=95 Score=13.07 Aligned_cols=55 Identities=16% Similarity=0.086 Sum_probs=44.7 Q ss_pred CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEE Q ss_conf 26259999733689898999999983834679828982997897079862111478 Q gi|254780243|r 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRI 62 (64) Q Consensus 7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~V 62 (64) .+-|.|++|+|..|-.+..|-+|-.-|-. .+|+..+=.-|..+|-..++.+..++ T Consensus 424 ~~g~~~k~v~~~~~~~~~~~~~l~~~~~~-~~~~~~l~~d~~~~gw~~~~~y~~~~ 478 (551) T 3fby_A 424 EPGIQLKAVKSSTGPGEQLRNALWHTGDT-ESQVRLLWKDPRNVGWKDKKSYRWFL 478 (551) T ss_dssp CSSCEEEEEECSSCTTHHHHHHHHSSSCB-TTTEEEEEECTTCCCCCTTCEEEEEE T ss_pred CCEEEEEEEECCCCCCHHHHHHHHHCCCC-CCCEEEEEECCCCCCCCCCCCEEEEE T ss_conf 54026777735768638876445532797-45257877577647885564368888 No 9 >3ou8_A Adenosine deaminase; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics, nysgxrc; 2.51A {Pseudomonas aeruginosa} Probab=9.73 E-value=1e+02 Score=12.95 Aligned_cols=48 Identities=6% Similarity=-0.033 Sum_probs=40.7 Q ss_pred CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHH Q ss_conf 625999973368989899999998383467982898299789707986 Q gi|254780243|r 8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMIST 55 (64) Q Consensus 8 ~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~k 55 (64) .-+++|..-+-.+.+...+..+..||..|+|+-+-....|.+.-++.. T Consensus 189 ~gl~~t~HaGE~~~~~~i~~ai~~l~a~RIgHG~~~~~d~~l~~~l~~ 236 (326) T 3ou8_A 189 EGFLTVAHAGEEGPPEYIWEALDLLKVERIDHGVRAFEDERLMRRLID 236 (326) T ss_dssp TTCEEEEEESSSSCHHHHHHHHHTSCCSEEEECGGGGGCHHHHHHHHH T ss_pred CCCCCEECCCCCCCHHHHHHHHHCCCCCCCCCEEEECCCHHHHHHHHH T ss_conf 599821367667971437889855798611230000436679999997 No 10 >3iar_A Adenosine deaminase; purine metabolism, structural genomics, structural genomics consortium, SGC, acetylation, disease mutation; HET: 3D1; 1.52A {Homo sapiens} PDB: 2bgn_E* 1w1i_E* 1qxl_A* 1krm_A* 1vfl_A 1ndv_A* 1ndy_A* 1ndz_A* 1o5r_A* 1uml_A* 1v79_A* 1v7a_A* 1ndw_A 1wxy_A* 1wxz_A* 2e1w_A* 2z7g_A* 2ada_A* 1a4m_A* 1a4l_A* ... Probab=8.35 E-value=1.1e+02 Score=12.64 Aligned_cols=48 Identities=6% Similarity=0.017 Sum_probs=40.6 Q ss_pred CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHH Q ss_conf 625999973368989899999998383467982898299789707986 Q gi|254780243|r 8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMIST 55 (64) Q Consensus 8 ~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~k 55 (64) ..+++|..-+-.+.+...+..+..||-.|+|+-+-..+.|..--++.. T Consensus 204 ~gl~~t~HaGE~~~~~~i~~ai~~l~a~RIGHG~~~~~d~~ll~~l~~ 251 (367) T 3iar_A 204 SGIHRTVHAGEVGSAEVVKEAVDILKTERLGHGYHTLEDQALYNRLRQ 251 (367) T ss_dssp HTCEEEEEESSSSCHHHHHHHHHTSCCSEEEECGGGGGCHHHHHHHHH T ss_pred HCCCEEEECCCCCCHHHHHHHHHHCCCCEECCCEECCCCHHHHHHHHH T ss_conf 388324323557880669999985487450352104569899999876 Done!