Query gi|254780482|ref|YP_003064895.1| ribonuclease P [Candidatus Liberibacter asiaticus str. psy62] Match_columns 123 No_of_seqs 120 out of 1136 Neff 7.2 Searched_HMMs 23785 Date Mon May 30 11:52:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780482.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1a6f_A RNAse P protein, ribonu 100.0 1E-29 4.3E-34 183.4 12.5 112 1-115 4-116 (119) 2 1d6t_A Ribonuclease P, RNAse P 100.0 2.3E-29 9.6E-34 181.5 9.4 108 1-111 3-111 (117) 3 1nz0_A Ribonuclease P protein 99.9 5.2E-28 2.2E-32 174.0 8.6 107 1-110 6-117 (118) 4 2bx2_L Ribonuclease E, RNAse E 40.3 18 0.00076 15.9 6.2 82 23-113 103-202 (517) 5 2kjw_A TS9, 30S ribosomal prot 33.3 24 0.001 15.3 2.7 36 77-112 43-78 (96) 6 2go8_A Hypothetical protein YQ 18.9 45 0.0019 13.7 2.3 31 80-110 14-44 (122) 7 1pv8_A Delta-aminolevulinic ac 15.3 56 0.0023 13.2 3.6 20 65-85 232-251 (330) 8 3obk_A Delta-aminolevulinic ac 15.2 56 0.0024 13.2 3.6 25 4-28 27-51 (360) 9 1h7n_A 5-aminolaevulinic acid 15.2 56 0.0024 13.2 3.9 34 65-103 243-276 (342) 10 2j5a_A 30S ribosomal protein S 14.5 59 0.0025 13.1 2.5 30 79-108 9-38 (110) No 1 >1a6f_A RNAse P protein, ribonuclease P protein; endonuclease, subunit; 2.60A {Bacillus subtilis} SCOP: d.14.1.2 Probab=99.96 E-value=1e-29 Score=183.45 Aligned_cols=112 Identities=29% Similarity=0.367 Sum_probs=100.7 Q ss_pred CCCEEECCCHHHHHHHHH-CCCCCCCCEEEEEEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 986132489899999970-9851368579999966876677379999607877512436689999999999754213488 Q gi|254780482|r 1 MSNICILKKRRQFALVKK-GELRKGPFFSLEVLNNNNSNLLPRVGFTVTKKQGCAVERNRMRRRLKEAVRLCAEGVLKHG 79 (123) Q Consensus 1 m~~~~rLk~~~dF~~v~k-g~~~~~~~~~i~~~~~~~~~~~~R~G~~vsKKvg~AV~RNriKR~lRe~~R~~~~~~~~~~ 79 (123) |++.+||++++||+.|++ |.++.++++++++++++.. +++|+||+||||+|+||+||++||++||++|.+.+.+ ++ T Consensus 4 l~K~~RLk~~~dF~~v~~~G~~~~~~~~~l~~~~~~~~-~~~R~G~~vsKKvg~AV~RNriKR~lRe~~r~~~~~l--~~ 80 (119) T 1a6f_A 4 LKKRNRLKKNEDFQKVFKHGTSVANRQFVLYTLDQPEN-DELRVGLSVSKKIGNAVMRNRIKRLIRQAFLEEKERL--KE 80 (119) T ss_dssp CCGGGBCCSHHHHHHHHHHSEEEECSSEEEEECCCTTC-SSCEEEEEECSTTCCHHHHHHHHHHHHHHHHHHTTTB--CS T ss_pred CCHHHHCCCHHHHHHHHHCCCEEECCCEEEEEECCCCC-CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCC--CC T ss_conf 85243468989999999859788689789999718989-9847999981434358889999999999999751338--99 Q ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 339998572003799899999999999998644104 Q gi|254780482|r 80 HDYVLIAKRDALFIPFKELCNHFVERVRRNKRSYYS 115 (123) Q Consensus 80 ~d~Viiar~~~~~~~~~~l~~~l~~~l~k~~~~~~~ 115 (123) +||||++++++.+++|++|.++|..+|.++.--+.+ T Consensus 81 ~d~Vvi~r~~~~~~~~~~l~~~l~~ll~k~~l~~~~ 116 (119) T 1a6f_A 81 KDYIIIARKPASQLTYEETKKSLQHLFRKSSLYKKS 116 (119) T ss_dssp SEEEEEECGGGTTCCHHHHHHHHHHHHHHTTCBC-- T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCC T ss_conf 859999668767699999999999999981242244 No 2 >1d6t_A Ribonuclease P, RNAse P protein; endonuclease, subunit, hydrolase; NMR {Staphylococcus aureus} SCOP: d.14.1.2 Probab=99.96 E-value=2.3e-29 Score=181.48 Aligned_cols=108 Identities=24% Similarity=0.329 Sum_probs=97.9 Q ss_pred CCCEEECCCHHHHHHHHH-CCCCCCCCEEEEEEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 986132489899999970-9851368579999966876677379999607877512436689999999999754213488 Q gi|254780482|r 1 MSNICILKKRRQFALVKK-GELRKGPFFSLEVLNNNNSNLLPRVGFTVTKKQGCAVERNRMRRRLKEAVRLCAEGVLKHG 79 (123) Q Consensus 1 m~~~~rLk~~~dF~~v~k-g~~~~~~~~~i~~~~~~~~~~~~R~G~~vsKKvg~AV~RNriKR~lRe~~R~~~~~~~~~~ 79 (123) |++.+||++++||+.|++ |+++.++++++++.++++. +++|+||+||||+|+||+||++||++||+||.+.+.+ +| T Consensus 3 l~K~~RL~~~~dF~~v~~~gk~~~~~~~~l~~~~~~~~-~~~R~Gi~vsKKvg~AV~RNriKR~lRe~~R~~~~~~--~~ 79 (117) T 1d6t_A 3 LEKAYRIKKNADFQRIYKKGHSVANRQFVVYTCNNKEI-DHFRLGISVSKKLGNAVLRNKIKRAIRENFKVHKSHI--LA 79 (117) T ss_dssp CCGGGBCCSSHHHHHHHHHCEECCSSSEECEECSTTCC-SSCCEEEECCSSSCSTTHHHHHHHHHHHHHHHGGGTC--CS T ss_pred CCHHHHCCCHHHHHHHHHCCCEEECCCEEEEEECCCCC-CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCC--CC T ss_conf 86465648999999999869777589689999728989-9857999992354556888999999999999743248--99 Q ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 33999857200379989999999999999864 Q gi|254780482|r 80 HDYVLIAKRDALFIPFKELCNHFVERVRRNKR 111 (123) Q Consensus 80 ~d~Viiar~~~~~~~~~~l~~~l~~~l~k~~~ 111 (123) +|||+++++++.+++|++|.++|..+|+++.- T Consensus 80 ~d~vvi~r~~~~~~~~~~l~~~l~~llkk~~l 111 (117) T 1d6t_A 80 KDIIVIARQPAKDMTTLQIQNSLEHVLKIAKV 111 (117) T ss_dssp SCEEEEECSGGGGCCTTHHHHHHTTHHHHHTC T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHCH T ss_conf 64999977875779999999999999998141 No 3 >1nz0_A Ribonuclease P protein component; endonuclease, RNAse, ALFA-beta sandwich, dimer, structural genomics, BSGC structure funded by NIH; HET: MSE; 1.20A {Thermotoga maritima} SCOP: d.14.1.2 Probab=99.95 E-value=5.2e-28 Score=173.97 Aligned_cols=107 Identities=24% Similarity=0.393 Sum_probs=95.4 Q ss_pred CCCEEECCCHHHHHHHHH-CCCCCCCCEEEEEEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 986132489899999970-9851368579999966876677379999607877512436689999999999754213488 Q gi|254780482|r 1 MSNICILKKRRQFALVKK-GELRKGPFFSLEVLNNNNSNLLPRVGFTVTKKQGCAVERNRMRRRLKEAVRLCAEGVLKHG 79 (123) Q Consensus 1 m~~~~rLk~~~dF~~v~k-g~~~~~~~~~i~~~~~~~~~~~~R~G~~vsKKvg~AV~RNriKR~lRe~~R~~~~~~~~~~ 79 (123) +++.+||+++.||+.|++ |.++.+++|++++.+++. +.+|+||+||||+|+||+||++||+|||+||.+.+.+ ++| T Consensus 6 fpk~~RLk~~~dF~~vf~~G~~~~~~~~~l~~~~~~~--~~~r~g~~vsKKvg~AV~RNriKR~lRe~~R~~~~~l-~~~ 82 (118) T 1nz0_A 6 FTRRERLRLRRDFLLIFKEGKSLQNEYFVVLFRKNGM--DYSRLGIVVKRKFGKATRRNKLKRWVREIFRRNKGVI-PKG 82 (118) T ss_dssp ----CCCCHHHHHHHHHHHSEEEECSSEEEEEEECSS--SSCEEEECCCGGGCSHHHHHHHHHHHHHHHHHHTTTS-CSS T ss_pred CCHHHHCCCHHHHHHHHHCCCEEECCCEEEEEEECCC--CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHC-CCC T ss_conf 8888877699999999985978868978999982799--9845999981555541468999999999999877526-889 Q ss_pred CEEEEEECCCCC----CCCHHHHHHHHHHHHHHHH Q ss_conf 339998572003----7998999999999999986 Q gi|254780482|r 80 HDYVLIAKRDAL----FIPFKELCNHFVERVRRNK 110 (123) Q Consensus 80 ~d~Viiar~~~~----~~~~~~l~~~l~~~l~k~~ 110 (123) +|||+++++++. ..+|++|+++|..++++++ T Consensus 83 ~d~V~iak~~~~~~~~~~~~~~l~~~l~~llkk~~ 117 (118) T 1nz0_A 83 FDIVVIPRKKLSEEFERVDFWTVREKLLNLLKRIE 117 (118) T ss_dssp EEEEEEECHHHHHHGGGSCHHHHHHHHHHHHTTCC T ss_pred CEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHC T ss_conf 87999965220113322669999999999999736 No 4 >2bx2_L Ribonuclease E, RNAse E; RNA-binding, RNA turnover, RNA processing, hydrolase, endonuclease; 2.85A {Escherichia coli} PDB: 2c0b_L 2c4r_L 2vmk_A 2vrt_A 1slj_A 1smx_A 1sn8_A Probab=40.33 E-value=18 Score=15.91 Aligned_cols=82 Identities=16% Similarity=0.078 Sum_probs=47.8 Q ss_pred CCCCEEEEEEECCCCCCCCEEE------------------EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEE Q ss_conf 3685799999668766773799------------------9960787751243668999999999975421348833999 Q gi|254780482|r 23 KGPFFSLEVLNNNNSNLLPRVG------------------FTVTKKQGCAVERNRMRRRLKEAVRLCAEGVLKHGHDYVL 84 (123) Q Consensus 23 ~~~~~~i~~~~~~~~~~~~R~G------------------~~vsKKvg~AV~RNriKR~lRe~~R~~~~~~~~~~~d~Vi 84 (123) .+...+|++...+.....+++- +.+|+|.-+--.|. ++++.+... ..+.++ =+ T Consensus 103 ~Gq~ilVQV~ke~~~~Kg~~lT~~Isl~GrylVl~P~~~~i~~sski~~~~er~----~l~~~l~~~---~~pe~~--G~ 173 (517) T 2bx2_L 103 EGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRT----ELKEALASL---ELPEGM--GL 173 (517) T ss_dssp TTCEEEEEEEECCCTTCCCEEESSCCEECSSEEEETTCTTCCEECTTCC----------HHHHHTTS---CCCTTC--EE T ss_pred CCCEEEEEECCCCCCCCCCCEECEEEECCCCEEECCCCCCCCEECCCCCHHHHH----HHHHHHHHH---CCCCCC--EE T ss_conf 999899997246767777655240640787468745788611150447758899----999999863---589884--38 Q ss_pred EECCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 85720037998999999999999986441 Q gi|254780482|r 85 IAKRDALFIPFKELCNHFVERVRRNKRSY 113 (123) Q Consensus 85 iar~~~~~~~~~~l~~~l~~~l~k~~~~~ 113 (123) |.|..+..++-++|..|+..+...-.... T Consensus 174 IiRT~a~~~~~~~l~~d~~~L~~~w~~i~ 202 (517) T 2bx2_L 174 IVRTAGVGKSAEALQWDLSFRLKHWEAIK 202 (517) T ss_dssp EECGGGGGCCHHHHHHHHHHHHHHHHHHH T ss_pred EEECCCCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 99875569999999999999999998888 No 5 >2kjw_A TS9, 30S ribosomal protein S6; S6 permutant, solution structure, backbone dynamics, folding, ribonucleoprotein, RNA-binding, rRNA-binding; NMR {Thermus thermophilus} Probab=33.27 E-value=24 Score=15.26 Aligned_cols=36 Identities=0% Similarity=-0.167 Sum_probs=29.7 Q ss_pred CCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 488339998572003799899999999999998644 Q gi|254780482|r 77 KHGHDYVLIAKRDALFIPFKELCNHFVERVRRNKRS 112 (123) Q Consensus 77 ~~~~d~Viiar~~~~~~~~~~l~~~l~~~l~k~~~~ 112 (123) +..|.+++|.+|+..+.....+.+.+..++.+..-. T Consensus 43 ~~KYEl~~Il~PdLseeei~~lie~i~~iIt~~GG~ 78 (96) T 2kjw_A 43 PGRYEVNIVLNPNLDQSQLALEKEIIQRALENYGAR 78 (96) T ss_dssp SSCEEEEEECCSSCCHHHHHHHHHHHHHHHHHHTCC T ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCE T ss_conf 876059999799999899999999999999868988 No 6 >2go8_A Hypothetical protein YQJZ; SR435, protein structure, structural genomics, PSI, protein structure initiative; 2.30A {Bacillus subtilis} SCOP: d.58.4.5 Probab=18.89 E-value=45 Score=13.71 Aligned_cols=31 Identities=6% Similarity=0.037 Sum_probs=17.4 Q ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 3399985720037998999999999999986 Q gi|254780482|r 80 HDYVLIAKRDALFIPFKELCNHFVERVRRNK 110 (123) Q Consensus 80 ~d~Viiar~~~~~~~~~~l~~~l~~~l~k~~ 110 (123) |-+||...++.....|.++.+.|..++.... T Consensus 14 YaViF~s~~~~~~~~Y~~~a~~m~~la~~~p 44 (122) T 2go8_A 14 YAVIFSSVKSENDTGYGETAERMVSLAADQP 44 (122) T ss_dssp EEEEEEEECC------CHHHHHHHHHHHHST T ss_pred EEEEEEEECCCCCCHHHHHHHHHHHHHHHCC T ss_conf 9999999758875069999999999997499 No 7 >1pv8_A Delta-aminolevulinic acid dehydratase; porphobilinogen synthase, tetrapyrrole biosynthesis, reactio intermediate, lyase; HET: PB1; 2.20A {Homo sapiens} SCOP: c.1.10.3 PDB: 1e51_A* 2z0i_A 2z1b_A Probab=15.29 E-value=56 Score=13.21 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=7.5 Q ss_pred HHHHHHHHHHHCCCCCEEEEE Q ss_conf 999999754213488339998 Q gi|254780482|r 65 KEAVRLCAEGVLKHGHDYVLI 85 (123) Q Consensus 65 Re~~R~~~~~~~~~~~d~Vii 85 (123) +|++|+...++ ..|.|+|++ T Consensus 232 ~eAl~e~~~D~-~EGAD~~mV 251 (330) T 1pv8_A 232 GLALRAVDRDV-REGADMLMV 251 (330) T ss_dssp HHHHHHHHHHH-HTTCSBEEE T ss_pred HHHHHHHHHHH-HCCCCEEEE T ss_conf 99999999887-569877996 No 8 >3obk_A Delta-aminolevulinic acid dehydratase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease, lyase; HET: PBG; 2.50A {Toxoplasma gondii ME49} Probab=15.22 E-value=56 Score=13.20 Aligned_cols=25 Identities=16% Similarity=0.022 Sum_probs=13.9 Q ss_pred EEECCCHHHHHHHHHCCCCCCCCEE Q ss_conf 1324898999999709851368579 Q gi|254780482|r 4 ICILKKRRQFALVKKGELRKGPFFS 28 (123) Q Consensus 4 ~~rLk~~~dF~~v~kg~~~~~~~~~ 28 (123) .-||+++.-...+.....+....|+ T Consensus 27 ~RRlR~~~~iR~Lv~Et~Ls~~dLI 51 (360) T 3obk_A 27 PRRNRKNRAVRQLVQENLVKPSSLI 51 (360) T ss_dssp GGGGGSSHHHHHHHCCCCCCGGGEE T ss_pred CCCCCCCHHHHHHHHCCCCCHHHCE T ss_conf 7746798789999852798889976 No 9 >1h7n_A 5-aminolaevulinic acid dehydratase; lyase, aldolase, TIM barrel, tetrapyrrole synthesis; HET: SHF; 1.6A {Saccharomyces cerevisiae} SCOP: c.1.10.3 PDB: 1h7p_A* 1h7r_A* 1ohl_A* 1qml_A 1qnv_A 1w31_A* 1h7o_A* 1eb3_A* 1gjp_A* 1ylv_A* 1aw5_A Probab=15.18 E-value=56 Score=13.19 Aligned_cols=34 Identities=15% Similarity=0.266 Sum_probs=14.5 Q ss_pred HHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHH Q ss_conf 999999754213488339998572003799899999999 Q gi|254780482|r 65 KEAVRLCAEGVLKHGHDYVLIAKRDALFIPFKELCNHFV 103 (123) Q Consensus 65 Re~~R~~~~~~~~~~~d~Viiar~~~~~~~~~~l~~~l~ 103 (123) +|++|+...++ ..|.|+|++ ||+.. |-++-.++. T Consensus 243 ~eA~re~~~D~-~EGAD~lMV-KPa~~---yLDiI~~~k 276 (342) T 1h7n_A 243 GLARRALERDM-SEGADGIIV-KPSTF---YLDIMRDAS 276 (342) T ss_dssp HHHHHHHHHHH-HTTCSEEEE-ESSGG---GHHHHHHHH T ss_pred HHHHHHHHHHH-HCCCCEEEE-CCCCH---HHHHHHHHH T ss_conf 99999997537-609987996-17714---889999999 No 10 >2j5a_A 30S ribosomal protein S6; ribonucleoprotein, RNA-binding, rRNA-binding, protein folding; 2.3A {Aquifex aeolicus} SCOP: d.58.14.1 Probab=14.46 E-value=59 Score=13.08 Aligned_cols=30 Identities=13% Similarity=0.030 Sum_probs=14.2 Q ss_pred CCEEEEEECCCCCCCCHHHHHHHHHHHHHH Q ss_conf 833999857200379989999999999999 Q gi|254780482|r 79 GHDYVLIAKRDALFIPFKELCNHFVERVRR 108 (123) Q Consensus 79 ~~d~Viiar~~~~~~~~~~l~~~l~~~l~k 108 (123) .|..++|.+|+..+.+..++.+.+...+.+ T Consensus 9 ~YE~~~il~p~l~~~~~~~~~~~i~~~i~~ 38 (110) T 2j5a_A 9 YYETVFAVKPTLSEEEMKKKFEQVKEFIKQ 38 (110) T ss_dssp EEEEEEEECTTSCHHHHHHHHHHHHHHHHH T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHHHHHH T ss_conf 101999988999989999999999999997 Done!