Query gi|254780785|ref|YP_003065198.1| 30S ribosomal protein S15 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 89
No_of_seqs 106 out of 1519
Neff 5.0
Searched_HMMs 23785
Date Mon May 30 13:21:07 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780785.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2vqe_O 30S ribosomal protein S 100.0 4.1E-38 1.7E-42 230.3 10.2 88 1-88 1-88 (89)
2 3ofo_O 30S ribosomal protein S 100.0 1.6E-37 6.9E-42 227.0 11.5 88 2-89 1-88 (88)
3 1a32_A Ribosomal protein S15; 100.0 2.2E-37 9.1E-42 226.3 12.0 88 2-89 1-88 (88)
4 3bbn_O Ribosomal protein S15; 100.0 3.8E-33 1.6E-37 202.9 2.1 82 8-89 3-86 (90)
5 3jyv_O 40S ribosomal protein S 98.0 2.9E-06 1.2E-10 54.4 3.8 67 4-74 2-68 (84)
6 2nr5_A Hypothetical protein SO 41.3 20 0.00084 16.6 3.4 36 8-43 24-60 (67)
7 1vmg_A Hypothetical protein SS 31.7 28 0.0012 15.8 2.7 47 1-47 13-59 (95)
8 2hjq_A Hypothetical protein YQ 24.3 40 0.0017 14.9 4.4 36 3-38 65-100 (111)
9 2ke4_A CDC42-interacting prote 15.8 62 0.0026 13.9 3.4 34 11-44 44-79 (98)
10 2eap_A Lymphocyte cytosolic pr 13.4 72 0.003 13.5 2.5 23 65-87 26-48 (90)
No 1
>2vqe_O 30S ribosomal protein S15; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1eg0_F* 1gix_R* 1hnw_O* 1hnx_O* 1hnz_O* 1hr0_O 1ibk_O* 1ibl_O* 1ibm_O 1jgo_R* 1jgp_R* 1jgq_R* 1ml5_R* 1xmo_O* 1xmq_O* 1xnq_O* 1xnr_O* 1yl4_R 2b64_O* 2b9m_O* ...
Probab=100.00 E-value=4.1e-38 Score=230.28 Aligned_cols=88 Identities=50% Similarity=0.753 Sum_probs=87.7
Q ss_pred CCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
Q ss_conf 98888999999999545888788899999997799999999999778413527789999997899999998409999999
Q gi|254780785|r 1 MSITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKR 80 (89)
Q Consensus 1 m~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~ 80 (89)
|++++++|+++|++||+||+||||||||||+||+||.+|++|++.||||++|+|||.+||++|++||+||+++|+++|.+
T Consensus 1 m~~~~~~k~~ii~~f~~~~~DtGS~evQIA~LT~rI~~Lt~Hlk~~kkD~~srrgL~~lv~kRrklL~YLr~~d~~~Y~~ 80 (89)
T 2vqe_O 1 MPITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQREDPERYRA 80 (89)
T ss_dssp -CCCHHHHHHHHHTTCSSTTCCSSHHHHHHHHHHHHHHHHHHTTSSTTCHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred CCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_conf 99889999999999768999879899999999999999999998778751109999999999999999998659999999
Q ss_pred HHHHHCCC
Q ss_conf 99983689
Q gi|254780785|r 81 LVQSLKLR 88 (89)
Q Consensus 81 ~i~~LglR 88 (89)
+|++||||
T Consensus 81 vi~~LglR 88 (89)
T 2vqe_O 81 LIEKLGIR 88 (89)
T ss_dssp HHHHHTCC
T ss_pred HHHHHCCC
T ss_conf 99982899
No 2
>3ofo_O 30S ribosomal protein S15; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 1p6g_O 1p87_O 3ofp_O 3i1m_O 2qan_O* 2qb9_O* 2qbb_O* 2qbd_O 2qbf_O 2qbh_O* 2qbj_O* 2qou_O* 2qow_O* 2qoy_O* 2qp0_O* 2vaz_F 2z4k_O* 2z4m_O* 2qal_O 3i1o_O ...
Probab=100.00 E-value=1.6e-37 Score=226.97 Aligned_cols=88 Identities=47% Similarity=0.716 Sum_probs=87.1
Q ss_pred CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf 88889999999995458887888999999977999999999997784135277899999978999999984099999999
Q gi|254780785|r 2 SITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRL 81 (89)
Q Consensus 2 ~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~ 81 (89)
|++.++|+++|++||+||+||||||||||+||+||++|++||+.||||++|+|||.+||++|++||+||+++|+++|.++
T Consensus 1 ~l~~e~k~~ii~~f~~~~~DtGS~eVQIA~LT~rI~~Lt~Hlk~~kkD~~srrgL~~lv~kRrklL~YL~~~d~e~Y~~~ 80 (88)
T 3ofo_O 1 SLSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHHSRRGLLRMVSQRRKLLDYLKRKDVARYTQL 80 (88)
T ss_dssp CCCHHHHHHHHHHHSSSTTCTTCTHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf 98779999999997689999788899999999999999999987766410299999999999999999986699999999
Q ss_pred HHHHCCCC
Q ss_conf 99836899
Q gi|254780785|r 82 VQSLKLRR 89 (89)
Q Consensus 82 i~~LglRk 89 (89)
|++|||||
T Consensus 81 i~~LglRk 88 (88)
T 3ofo_O 81 IERLGLRR 88 (88)
T ss_dssp HHHHTCCC
T ss_pred HHHHCCCC
T ss_conf 99958999
No 3
>1a32_A Ribosomal protein S15; multiwavelength anomalous diffraction, protein-RNA, ribosomal protein interactions, ribosome, RNA-binding; 2.10A {Geobacillus stearothermophilus} SCOP: a.16.1.2 PDB: 1qd7_H
Probab=100.00 E-value=2.2e-37 Score=226.31 Aligned_cols=88 Identities=50% Similarity=0.813 Sum_probs=87.0
Q ss_pred CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf 88889999999995458887888999999977999999999997784135277899999978999999984099999999
Q gi|254780785|r 2 SITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRL 81 (89)
Q Consensus 2 ~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~ 81 (89)
|+++++|+++|++||+||+||||||||||+||++|.+|++||+.||||++|+|||.++|++|++||+||+++|+++|.++
T Consensus 1 s~~~~~k~~~i~~~~~~~~DtGS~evQiA~LT~rI~~L~~Hl~~~kkD~~s~rgL~~lv~~RkklL~YLr~~d~~~Y~~v 80 (88)
T 1a32_A 1 ALTQERKREIIEQFKVHENDTGSPEVQIAILTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLAYLRNKDVARYREI 80 (88)
T ss_dssp -CCHHHHHHHHHHTCCSCCCCCSHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf 99889999999997689998698999999999999999999987766410399999999999999999986699999999
Q ss_pred HHHHCCCC
Q ss_conf 99836899
Q gi|254780785|r 82 VQSLKLRR 89 (89)
Q Consensus 82 i~~LglRk 89 (89)
|++|||||
T Consensus 81 i~~LglRk 88 (88)
T 1a32_A 81 VEKLGLRR 88 (88)
T ss_dssp HHHHTC--
T ss_pred HHHHCCCC
T ss_conf 99958999
No 4
>3bbn_O Ribosomal protein S15; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=99.97 E-value=3.8e-33 Score=202.88 Aligned_cols=82 Identities=34% Similarity=0.472 Sum_probs=76.5
Q ss_pred HHHHHHH--HCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf 9999999--54588878889999999779999999999977841352778999999789999999840999999999983
Q gi|254780785|r 8 KRELMKE--YAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRLVQSL 85 (89)
Q Consensus 8 k~~~i~~--f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~i~~L 85 (89)
|+++|.. .+.+|+||||||||||+||+||.+|++||+.||||+||+|||..||++|++||+||+++|+++|.++|++|
T Consensus 3 K~~~~~~~~~~~~e~DtGS~evQiA~LT~rI~~Lt~Hlk~~kKD~~srRgL~~lv~~RkrlL~YL~r~d~~~Y~~~i~~L 82 (90)
T 3bbn_O 3 KNSFISVISDEKKEENKGSVEFQVFCFTNKIRRLTLHLELHKKDYSSQRGLRKTLGKRQRLLAYLLKINGVRYKELISKL 82 (90)
T ss_dssp HHHHHHHHHHSCCSSSSCSTTHHHHHHHHHHTTTTTTTTTCTTCSTTSHHHHHHHHHHHHHHTTHHHHCSHHHHTTTTTT
T ss_pred CHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf 23788898874488988980110232798999999999978772143898999999999999999865899999999992
Q ss_pred CCCC
Q ss_conf 6899
Q gi|254780785|r 86 KLRR 89 (89)
Q Consensus 86 glRk 89 (89)
|||+
T Consensus 83 gLR~ 86 (90)
T 3bbn_O 83 NIRE 86 (90)
T ss_dssp TCCC
T ss_pred CCCC
T ss_conf 8997
No 5
>3jyv_O 40S ribosomal protein S13; eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1ysh_E 1s1h_O
Probab=98.03 E-value=2.9e-06 Score=54.37 Aligned_cols=67 Identities=19% Similarity=0.264 Sum_probs=52.4
Q ss_pred CHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 88999999999545888788899999997799999999999778413527789999997899999998409
Q gi|254780785|r 4 TLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKD 74 (89)
Q Consensus 4 ~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d 74 (89)
|.++..++.++-+..|. -||--.. |-.+..++..|++.|+||.+++|+|....++.+||.+|++++.
T Consensus 2 tGkki~~iL~~~gl~p~---iPEDL~~-LikkAv~lrkHLe~n~kD~~nKr~L~LiESkI~RL~rYYk~~~ 68 (84)
T 3jyv_O 2 TGNKIMRILKSNGLAPE---IPEDLYY-LIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVA 68 (84)
T ss_dssp CHHHHHHHCSSSSCSSS---THHHHHH-HHHHHHHHTTSSSSCSCCSHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHCCCCCC---CCHHHHH-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 41189999998799999---9689999-9999999999998787616678999999999999999998558
No 6
>2nr5_A Hypothetical protein SO2669; PSI-2, MCSG, MAD, structural genomics, protein structure initiative; 1.90A {Shewanella oneidensis mr-1} SCOP: a.25.6.1
Probab=41.33 E-value=20 Score=16.57 Aligned_cols=36 Identities=22% Similarity=0.403 Sum_probs=25.4
Q ss_pred HHHHHHHHCCCCCCCCCHHHH-HHHHHHHHHHHHHHH
Q ss_conf 999999954588878889999-999779999999999
Q gi|254780785|r 8 KRELMKEYAVSPGDTGSPEVQ-VAVCTERIANLTEHF 43 (89)
Q Consensus 8 k~~~i~~f~~~~~DtGS~evQ-IA~lT~rI~~L~~Hl 43 (89)
|-..|......+....|+..| +.+.|.||..|.+-+
T Consensus 24 klkairqlcgaedssdssdmqeveiwtnrikeledwl 60 (67)
T 2nr5_A 24 KLKAIRQLCGAEDSSDSSDMQEVEIWTNRIKELEDWL 60 (67)
T ss_dssp HHHHHHHTTTTTCC----HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 8999999957766775103489999998899999986
No 7
>1vmg_A Hypothetical protein SSO3215; 13816655, MAZG nucleotide pyrophosphohydrolase, structural genomics, JCSG, protein structure initiative; HET: MSE; 1.46A {Sulfolobus solfataricus P2} SCOP: a.204.1.2
Probab=31.66 E-value=28 Score=15.80 Aligned_cols=47 Identities=19% Similarity=0.207 Sum_probs=35.0
Q ss_pred CCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 98888999999999545888788899999997799999999999778
Q gi|254780785|r 1 MSITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAK 47 (89)
Q Consensus 1 m~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~k 47 (89)
|.++-+.-|+-+..+.....-.-+|+.+++-|++.+.-|.+.+....
T Consensus 13 m~M~l~elQ~kv~~~~~~~d~~~~~~~~~l~L~EE~gEl~ea~~k~~ 59 (95)
T 1vmg_A 13 MDLELKELQSKMKEMYFEKDSQRGIYATFTWLVEEVGELAEALLSNN 59 (95)
T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 61639999999999985226434999999999999999999998189
No 8
>2hjq_A Hypothetical protein YQBF; two-domain, structure, BSU26130, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Bacillus subtilis} SCOP: a.140.3.2 d.344.1.1
Probab=24.27 E-value=40 Score=14.93 Aligned_cols=36 Identities=14% Similarity=0.310 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 888999999999545888788899999997799999
Q gi|254780785|r 3 ITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIAN 38 (89)
Q Consensus 3 ~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~ 38 (89)
+++.....+|...|..|.||-...-.||+.-+.|.+
T Consensus 65 m~Kaeqe~iI~~LG~~~~d~KNe~ERIa~ILe~~~~ 100 (111)
T 2hjq_A 65 MNKAEHESIISNLGRNPSDFKNADERIAYILKQIDN 100 (111)
T ss_dssp CCHHHHHHHHHHHTCCTTSCCSHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHCCCHHHHCCHHHHHHHHHHHHCC
T ss_conf 425328899998677913424735799999998355
No 9
>2ke4_A CDC42-interacting protein 4; CIP4, TC10, coiled-coil, alternative splicing, cell membrane, coiled coil, cytoplasm, cytoskeleton, endocytosis; NMR {Homo sapiens}
Probab=15.80 E-value=62 Score=13.87 Aligned_cols=34 Identities=26% Similarity=0.333 Sum_probs=21.7
Q ss_pred HHHHHCCCCC--CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999545888--788899999997799999999999
Q gi|254780785|r 11 LMKEYAVSPG--DTGSPEVQVAVCTERIANLTEHFK 44 (89)
Q Consensus 11 ~i~~f~~~~~--DtGS~evQIA~lT~rI~~L~~Hl~ 44 (89)
+..-|..+|. |.-|.+-|++-+..+|..|..-+.
T Consensus 44 M~~vY~~nP~~Gd~~sve~qL~e~~~~id~L~~e~~ 79 (98)
T 2ke4_A 44 MKDVYEKTPQMGDPASLEPQIAETLSNIERLKLEVQ 79 (98)
T ss_dssp HHHHHHHCGGGCCGGGSHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999998687778877789999999999999999999
No 10
>2eap_A Lymphocyte cytosolic protein 2; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=13.44 E-value=72 Score=13.50 Aligned_cols=23 Identities=17% Similarity=0.431 Sum_probs=19.2
Q ss_pred HHHHHHHHCCHHHHHHHHHHHCC
Q ss_conf 99999984099999999998368
Q gi|254780785|r 65 SLLKYLERKDVERYKRLVQSLKL 87 (89)
Q Consensus 65 klL~YLk~~d~~~Y~~~i~~Lgl 87 (89)
.|-.|+++-|+...++++.+.+|
T Consensus 26 ~Lady~kklnl~~CekvVkK~~I 48 (90)
T 2eap_A 26 SLADYFKKLNYKDCEKAVKKYHI 48 (90)
T ss_dssp THHHHHHHTTCHHHHHHHHHTTC
T ss_pred HHHHHHHHHCCCCHHHHHHHHCC
T ss_conf 99999998174238999999278
Done!