Query 021913
Match_columns 305
No_of_seqs 155 out of 1062
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 11:12:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021913.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/021913hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2vqe_I 30S ribosomal protein S 99.9 1.7E-26 6E-31 194.2 3.0 74 232-305 4-77 (128)
2 3r8n_I 30S ribosomal protein S 99.9 8.9E-27 3E-31 195.8 1.1 75 231-305 2-76 (127)
3 2xzm_I RPS16E; ribosome, trans 99.9 2E-25 6.9E-30 191.1 3.6 75 230-305 7-83 (145)
4 2zkq_i 40S ribosomal protein S 99.9 1.5E-25 5E-30 192.1 2.1 78 227-305 5-84 (146)
5 3j20_K 30S ribosomal protein S 99.9 2.7E-25 9.2E-30 188.3 3.6 74 231-305 3-78 (135)
6 3bbn_I Ribosomal protein S9; s 99.9 2.5E-25 8.5E-30 198.5 2.7 80 226-305 66-146 (197)
7 3u5c_Q RP61R, 40S ribosomal pr 99.9 8.7E-25 3E-29 186.7 3.7 74 231-305 6-81 (143)
8 3iz6_I 40S ribosomal protein S 99.9 1E-24 3.5E-29 187.5 -9.9 74 231-305 12-87 (149)
9 3m6a_A ATP-dependent protease 22.3 1.1E+02 0.0037 29.7 5.4 46 245-296 374-430 (543)
10 1g6u_A Domain swapped dimer; d 17.0 1.3E+02 0.0043 21.3 3.3 22 127-148 12-33 (48)
No 1
>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.14.1.1 PDB: 1gix_L* 1hnw_I* 1hnx_I* 1hnz_I* 1hr0_I 1i94_I* 1i95_I* 1i96_I* 1i97_I* 1ibk_I* 1ibl_I* 1ibm_I 1j5e_I 1jgo_L* 1jgp_L* 1jgq_L* 1ml5_L* 1n32_I* 1n33_I* 1n34_I ...
Probab=99.92 E-value=1.7e-26 Score=194.21 Aligned_cols=74 Identities=45% Similarity=0.813 Sum_probs=72.1
Q ss_pred ccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 232 AYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 232 ayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
+|++||||||+|+|+|.||+|+|+|||+|+++||+...+|++|++||.++++.++|||.|+|+|||.||||+||
T Consensus 4 ~~~~GrRKtavArv~l~~G~G~i~VNg~~l~~yf~~~~~r~~v~~Pl~~~~~~~~~Di~v~V~GGG~sgQA~Ai 77 (128)
T 2vqe_I 4 YYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGRFDAYITVRGGGKSGQIDAI 77 (128)
T ss_dssp EEECCEETTEEEEEEEEESSCCEEESSSBHHHHSSSCSSGGGGGHHHHHHTCSTTEEEEEEEESSCHHHHHHHH
T ss_pred cEEeCcCCCEEEEEEEEcCceEEEECCCcHHHHcCCHHHHHHHHhHHHHHcccCceeEEEEEEcCCeehHHHHH
Confidence 58999999999999999999999999999999999888999999999999999999999999999999999996
No 2
>3r8n_I 30S ribosomal protein S9; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_I 3fih_I* 3iy8_I 3j18_I* 2wwl_I 3oar_I 3oaq_I 3ofb_I 3ofa_I 3ofp_I 3ofx_I 3ofy_I 3ofo_I 3r8o_I 4a2i_I 4gd1_I 4gd2_I 2qal_I* 1p6g_I 1p87_I ...
Probab=99.92 E-value=8.9e-27 Score=195.77 Aligned_cols=75 Identities=40% Similarity=0.726 Sum_probs=72.7
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
.+|++||||||+|+|+|.||+|+|+|||+|+++||+...+|++|++||.++++.++|||.|+|+|||.||||+||
T Consensus 2 ~~~~~GrRKtavArv~l~~G~G~i~VNg~~l~~yf~~~~~r~~v~~Pl~~~~~~~~~Di~v~V~GGG~~gQa~Ai 76 (127)
T 3r8n_I 2 QYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMVVRQPLELVDMVEKLDLYITVKGGGISGQAGAI 76 (127)
T ss_dssp CEEECCCCTTCEEEEEEEESCSCEEETTBCSTTTTTTSTTTTTTTGGGSSSCCSSSEEEEEEEESSCHHHHHHHH
T ss_pred cceeECCCeeEEEEEEEEeCcEEEEECCEeHHHHcCCHHHHHHHHHHHHHhCccCccceEEEEECCCeecHHHHH
Confidence 468999999999999999999999999999999999888999999999999999999999999999999999996
No 3
>2xzm_I RPS16E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_I
Probab=99.91 E-value=2e-25 Score=191.13 Aligned_cols=75 Identities=21% Similarity=0.321 Sum_probs=72.3
Q ss_pred CcccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhc--ccCccceEEEeeecCcccccccC
Q 021913 230 GRAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETK--TLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 230 GrayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~--~lgkyDI~itVkGGGlSGQAgAI 305 (305)
.+++++||||||+|+|+|.||+|+|+|||+|++ ||+...+|++|++||.+++ +.++|||.|+|+|||.||||+||
T Consensus 7 ~~~~~~GrRKtAvArv~l~~G~G~i~VNg~~l~-yf~~~~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA~Ai 83 (145)
T 2xzm_I 7 QLVQTFGRKKNAVAVASVRPGKGLLKVNGSPID-MINPQILQAKIYEPILLLGQQKFANLDIRIRVRGSGYTSQVYAI 83 (145)
T ss_dssp SCEEEEEEETTEEEEEEEEESSCEEEESSSBGG-GCSSTTTHHHHHHHHHHHCHHHHHHEEEEEEECCSSHHHHHHHH
T ss_pred cEEEEEeECCCEEEEEEEEeCceEEEECCEeHH-HcCcHHHHHHHHHHHHHhChhhhCceeEEEEEEcCCeecHHHHH
Confidence 578999999999999999999999999999999 9998899999999999999 79999999999999999999996
No 4
>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=99.90 E-value=1.5e-25 Score=192.11 Aligned_cols=78 Identities=22% Similarity=0.258 Sum_probs=71.8
Q ss_pred ccCCcccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCccccccc
Q 021913 227 DEKGRAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRC 304 (305)
Q Consensus 227 De~GrayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgA 304 (305)
+..++++++||||||+|+|+|.||+|+|+|||+|+ +||+...+|++|++||.+++. .++|||.|+|+|||.||||+|
T Consensus 5 ~~~~~~~~~GrRKtAvArv~l~~G~G~i~VNg~~l-eyf~~~~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA~A 83 (146)
T 2zkq_i 5 GPLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPL-EMIEPRTLQYKLLEPVLLLGKERFAGVDIRVRVKGGGHVAQIYA 83 (146)
T ss_dssp ---CCEEECCBCSSCEEEEEEEESSSCEEETTEEH-HHHSTTSCCGGGGHHHHHTSSCTTSSEEEEEEEESSCHHHHHHH
T ss_pred CCCceEEEEeeCCCeEEEEEEEcCCeeEEEcCcCH-HHcCcHHHHHHHHHHHHHhCccccCceEEEEEEEcCCeehHHHH
Confidence 44678999999999999999999999999999999 699988889999999999994 699999999999999999999
Q ss_pred C
Q 021913 305 F 305 (305)
Q Consensus 305 I 305 (305)
|
T Consensus 84 i 84 (146)
T 2zkq_i 84 I 84 (146)
T ss_dssp H
T ss_pred H
Confidence 6
No 5
>3j20_K 30S ribosomal protein S9P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.90 E-value=2.7e-25 Score=188.34 Aligned_cols=74 Identities=31% Similarity=0.468 Sum_probs=70.2
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhc--ccCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETK--TLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~--~lgkyDI~itVkGGGlSGQAgAI 305 (305)
.++++||||||+|+|+|.||+|+|+|||+|++.||+ ..+|++|++||.+++ ..++|||.|+|+|||.||||+||
T Consensus 3 ~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~-~~~r~~i~~Pl~l~~~~~~~~~Di~v~V~GGG~~gQA~Ai 78 (135)
T 3j20_K 3 IIQTTGKRKTAIARAVIREGKGRVRINGKPVEIIEP-EIARFTILEPLILAGEEIWNSVDIDVKVEGGGFMGQAEAA 78 (135)
T ss_dssp CEEEEEEETTEEEEEEEEESSCCEEETTEEGGGCSC-SHHHHHHSHHHHHHCHHHHHHEEEEEEEECSCHHHHHHHH
T ss_pred EEEEeCcCccEEEEEEEEeCceEEEECCeeHHHHCh-HHHHHHhhCChhhcchhhcccccEEEEEECCCEechHhHH
Confidence 367999999999999999999999999999998887 689999999999998 89999999999999999999996
No 6
>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=99.90 E-value=2.5e-25 Score=198.52 Aligned_cols=80 Identities=34% Similarity=0.484 Sum_probs=70.6
Q ss_pred cccCCcccccCcccceEEEEEEEccceEEEEcCcchhhhCCch-HHHHHHhhhHHHhcccCccceEEEeeecCccccccc
Q 021913 226 VDEKGRAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPML-DHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRC 304 (305)
Q Consensus 226 lDe~GrayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~-~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgA 304 (305)
....+.+|++||||||+|+|||+||+|+|+|||+|+++||+.. ..+++|++||.++++.++|||.|+|+|||.||||+|
T Consensus 66 ~~~~~~~~~tGRRKtAvArV~l~~G~G~I~VNg~~l~~YF~~~~~~~~~v~~PL~l~~~~~k~DI~v~V~GGG~sGQA~A 145 (197)
T 3bbn_I 66 GFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKTPLATLGYETNYDVFVKAHGGGLSGQAQA 145 (197)
T ss_dssp -----CBCCCCEETTEEEEEEEEESSCCEEETTEEHHHHSCSCCGGGTTTSHHHHTTTCTTTEEEEEEEESSCHHHHHHH
T ss_pred ccCccEEEEEeeCCceEEEEEEEcCceeEEECCCcHHHHcCccHHHHHHHHHHHHHhCccCceeEEEEEecCCeehHHHH
Confidence 3456778999999999999999999999999999999999754 445799999999999999999999999999999999
Q ss_pred C
Q 021913 305 F 305 (305)
Q Consensus 305 I 305 (305)
|
T Consensus 146 I 146 (197)
T 3bbn_I 146 I 146 (197)
T ss_dssp H
T ss_pred H
Confidence 6
No 7
>3u5c_Q RP61R, 40S ribosomal protein S16-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_I 3o30_J 3o2z_J 3u5g_Q 1s1h_I 3jyv_I*
Probab=99.90 E-value=8.7e-25 Score=186.72 Aligned_cols=74 Identities=20% Similarity=0.297 Sum_probs=69.8
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgAI 305 (305)
.++++||||||+|+|+|.||+|+|+|||+|++.||+. .+|++|++||.+++. +++|||.|+|+|||.||||+||
T Consensus 6 ~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~~-~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA~Ai 81 (143)
T 3u5c_Q 6 SVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLVEPE-ILRFKVYEPLLLVGLDKFSNIDIRVRVTGGGHVSQVYAI 81 (143)
T ss_dssp EEEEEECSTTCEEEEEEEECSCCEEETTEETTTCSSC-STHHHHHHHHHHTCSTTSTTEEEEEEEESSCHHHHHHHH
T ss_pred eEEEeccCcceEEEEEEEeCceEEEECCCcHHHHChH-HHHHHHHHHHHHHhhhccCceeEEEEEECCCEecHHhHH
Confidence 4678999999999999999999999999999999994 689999999999976 6999999999999999999996
No 8
>3iz6_I 40S ribosomal protein S16 (S9P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=99.85 E-value=1e-24 Score=187.46 Aligned_cols=74 Identities=23% Similarity=0.366 Sum_probs=58.9
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgAI 305 (305)
.++++||||||+|+|+|.||+|+|+|||+|+++||+. .+|++|++||.+++. .++|||.|+|+|||.||||+||
T Consensus 12 ~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~~-~~r~~v~~Pl~l~~~~~~~~~DI~v~V~GGG~sgQA~Ai 87 (149)
T 3iz6_I 12 TVQCFGRKKTAVAVSYCKPGRGLIKVNGVPIELIRPE-MLRLKAFEPILLAGRSRFKDIDMRIRVRGGGKTSQIYAI 87 (149)
T ss_dssp ------------CCCCCCCCCCSSSEECCCCCCSSCC-EEESSSBHHHHTCSCHHHHHHHTTTTTTSCSTTCCEEEC
T ss_pred EEEEeccCcceEEEEEEEeCcEEEEECCCcHHHHChH-HHHHHHHHHHHHHhHhccCceeEEEEEeCCCeecHHHHH
Confidence 4778999999999999999999999999999999994 678999999999985 5999999999999999999997
No 9
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A
Probab=22.33 E-value=1.1e+02 Score=29.71 Aligned_cols=46 Identities=30% Similarity=0.382 Sum_probs=27.9
Q ss_pred EEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHH-------hcc----cCccceEEEeeec
Q 021913 245 VWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSE-------TKT----LGLWDVDCTVKGG 296 (305)
Q Consensus 245 V~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~v-------t~~----lgkyDI~itVkGG 296 (305)
|.+.+|.|.+++.|.+-. ..++....-+.. .+. ...+||+|+|-||
T Consensus 374 ~~~~~g~~~~~~~G~~~~------~~~es~~~a~~~v~~~~~~~g~~~~~~~~~di~v~~~~g 430 (543)
T 3m6a_A 374 VSLSPGKGKLILTGKLGD------VMRESAQAAFSYVRSKTEELGIEPDFHEKYDIHIHVPEG 430 (543)
T ss_dssp EEEESSCSCEEEEESCCH------HHHHHHHHHHHHHTSSCGGGSSCSSCTTTCEEEEEECTT
T ss_pred EEeeCCCCceEEecCchH------HHHHHHHHHHHHHHHHHHHcCCCccccCCcceEEEeCCC
Confidence 444689999999997532 223332221111 111 4578999999998
No 10
>1g6u_A Domain swapped dimer; designed three helix bundle, de novo protein; 1.48A {Synthetic} SCOP: k.9.1.1
Probab=17.05 E-value=1.3e+02 Score=21.25 Aligned_cols=22 Identities=41% Similarity=0.403 Sum_probs=16.9
Q ss_pred chhhhccHHHHHHHHHHHHHHH
Q 021913 127 ESKEELSEEELRMLQLEEKQLT 148 (305)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~ 148 (305)
-+|+-|+.+|+..++.|-++|.
T Consensus 12 lkkegfspeelaaleselqale 33 (48)
T 1g6u_A 12 LKKEGFSPEELAALESELQALE 33 (48)
T ss_dssp HHHTTCSHHHHHHHHHHHHHHH
T ss_pred HHHcCCCHHHHHHHHHHHHHHH
Confidence 3688899999988877766654
Done!