Query 039147
Match_columns 71
No_of_seqs 102 out of 226
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 11:05:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039147.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039147hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_E RP5, S7, YS6, 40S ribos 100.0 1.1E-30 3.8E-35 193.5 1.6 67 1-68 1-76 (261)
2 2xzm_W 40S ribosomal protein S 100.0 3E-30 1E-34 191.1 2.8 67 1-68 1-78 (260)
3 3j20_E 30S ribosomal protein S 100.0 3.5E-30 1.2E-34 189.0 1.9 67 1-68 1-77 (243)
4 3iz6_D 40S ribosomal protein S 100.0 1.2E-30 4.2E-35 193.6 -1.1 67 1-68 1-76 (265)
5 3kbg_A 30S ribosomal protein S 99.0 2.6E-11 8.7E-16 87.7 -1.1 37 32-68 2-42 (213)
6 1ycy_A Conserved hypothetical 37.4 12 0.00042 22.8 1.1 23 41-66 40-63 (71)
7 1b3t_A Protein (nuclear protei 10.1 1E+02 0.0036 20.9 1.2 28 17-45 78-107 (147)
8 3sri_B Rhoptry NECK protein 2; 10.1 45 0.0016 17.2 -0.5 9 55-63 21-29 (29)
9 2h2t_B Low affinity immunoglob 8.7 73 0.0025 19.8 0.0 16 17-33 160-175 (175)
10 2cor_A Pinch protein; LIM doma 8.4 1.2E+02 0.0041 16.8 0.9 9 21-30 71-79 (79)
No 1
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E
Probab=99.96 E-value=1.1e-30 Score=193.50 Aligned_cols=67 Identities=34% Similarity=0.396 Sum_probs=63.6
Q ss_pred CCccchhccccccCCC-----ccccccccCCCCCCCCCCCcccceeeeecccccCcccc----hhhheeeeeecCce
Q 039147 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSECMPFICGPKNRLIPGRWN----PCCMSQILKANENY 68 (71)
Q Consensus 1 Ma~g~~kHlKRl~AP~-----kk~~~fa~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~----~ic~q~~ik~~~~~ 68 (71)
||||+++|||||+||+ |++|+|||+|| ||||+++|||||++||||+|+||+|+ +||+|++||+||.-
T Consensus 1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-~GPH~l~eslPL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGkv 76 (261)
T 3u5c_E 1 MARGPKKHLKRLAAPHHWLLDKLSGCYAPRPS-AGPHKLRESLPLIVFLRNRLKYALNGREVKAILMQRHVKVDGKV 76 (261)
T ss_dssp -CCSCCCCCBTTTSCGGGCCCSSSSSBCCCCC-SSSSCGGGEEEHHHHHHHTTCCCSSSHHHHHHHTTTCEEETTBC
T ss_pred CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccHHHHHHHHHCCcEEECCEE
Confidence 9999999999999998 99999999999 99999999999999999999999996 69999999999853
No 2
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W
Probab=99.96 E-value=3e-30 Score=191.13 Aligned_cols=67 Identities=28% Similarity=0.242 Sum_probs=63.6
Q ss_pred CCccchhccccccCCC-----ccccccccCCCCCCCCCCCcccceeeeecccccCcccc----hhhhe--eeeeecCce
Q 039147 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSECMPFICGPKNRLIPGRWN----PCCMS--QILKANENY 68 (71)
Q Consensus 1 Ma~g~~kHlKRl~AP~-----kk~~~fa~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~----~ic~q--~~ik~~~~~ 68 (71)
||||+++|||||+||+ |++|+|||+|| ||||+++|||||+++|||+|+||+|+ +||+| ++||+||.-
T Consensus 1 marG~kkHlKRl~AP~~W~l~kk~~~~a~rps-pGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~q~~~~VkVDGkv 78 (260)
T 2xzm_W 1 MARGPKKHLKRINAPKSWMLNKLGGIWATRPS-QGPHKLRESLPLSVLLKERLNYALNGRDVTLILNDKEQNVFVDGKV 78 (260)
T ss_dssp -CCSCCCCCBGGGSCGGGTCCSSSCSBCCCCC-SSSSCSSSCEEHHHHHTTTTCSCCSHHHHHHHTTSTTCCEEETTEE
T ss_pred CCCCccccccceeCCccceeccccceEccCCC-CCCCccceeehhHhhhhhhhccccchhHHHHHHhccCCeEEECCEE
Confidence 9999999999999999 89999999999 99999999999999999999999996 59999 999999863
No 3
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.95 E-value=3.5e-30 Score=189.00 Aligned_cols=67 Identities=21% Similarity=0.192 Sum_probs=62.6
Q ss_pred CCc-cchhccccccCCC-----ccccccccCCCCCCCCCCCcccceeeeecccccCcccc----hhhheeeeeecCce
Q 039147 1 MAR-YLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSECMPFICGPKNRLIPGRWN----PCCMSQILKANENY 68 (71)
Q Consensus 1 Ma~-g~~kHlKRl~AP~-----kk~~~fa~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~----~ic~q~~ik~~~~~ 68 (71)
||| |+++|||||+||+ |++|+|||+|| ||||+++|||||++||||+|+||+|. +||+|++|++||.-
T Consensus 1 Mar~g~kkHlKRl~AP~~W~l~kk~~~~a~rps-~GPH~~~~~lPL~i~LRdrLgyA~t~rEar~Iv~~~~I~VdGKv 77 (243)
T 3j20_E 1 MARKGPKRHLKRLAAPTSWYIERKAYKWAVRPR-PGPHNMRTSIPLLYIVRDYLGYAKTAREARKILNEGKFLVDGRV 77 (243)
T ss_dssp --CCSCCCCBCSTTSCTTSCCCTTSSSCBCCCC-SCSSCSTTCEEHHHHHHTTSCCCSSHHHHHHHHHHCSCEETTEE
T ss_pred CCCcCcccccccccCCcccccccccceeccCCC-CCCCccccceeehhhhhhhhccccCHHHHHHHHHCCcEEECCEE
Confidence 999 9999999999998 99999999999 99999999999999999999999995 69999999999864
No 4
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=99.95 E-value=1.2e-30 Score=193.63 Aligned_cols=67 Identities=39% Similarity=0.498 Sum_probs=28.0
Q ss_pred CCccchhccccccCCC-----ccccccccCCCCCCCCCCCcccceeeeecccccCcccc----hhhheeeeeecCce
Q 039147 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSECMPFICGPKNRLIPGRWN----PCCMSQILKANENY 68 (71)
Q Consensus 1 Ma~g~~kHlKRl~AP~-----kk~~~fa~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~----~ic~q~~ik~~~~~ 68 (71)
||||+++|||||+||+ |++|+|||+|| ||||+++|||||++||||+|+||+|+ +||+|++||+||.-
T Consensus 1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-pGPHkl~eslPL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGkv 76 (265)
T 3iz6_D 1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPS-SGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKV 76 (265)
T ss_dssp -------------------------------------------CHHHHHHHHHTTSSCSSSTHHHHHTTCCEETTEE
T ss_pred CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccHHHHHHHHHCCcEEECCEE
Confidence 9999999999999998 99999999999 99999999999999999999999996 69999999999864
No 5
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}
Probab=98.99 E-value=2.6e-11 Score=87.70 Aligned_cols=37 Identities=5% Similarity=0.060 Sum_probs=33.0
Q ss_pred CCCCcccceeeeecccccCcccc----hhhheeeeeecCce
Q 039147 32 NSGSECMPFICGPKNRLIPGRWN----PCCMSQILKANENY 68 (71)
Q Consensus 32 H~~~~slPL~i~lRd~Lk~A~~~----~ic~q~~ik~~~~~ 68 (71)
|+++|||||+++|||+|+||+|. +||+|+++++||.-
T Consensus 2 Hkl~eslPL~i~LRdrLgyA~t~rEarkIv~~~~I~VDGKv 42 (213)
T 3kbg_A 2 HPKDQSVTLLSIIRDYLKLSDKEREAARILANGLVKVDGKT 42 (213)
T ss_dssp --CCSCEEHHHHHHHHHHTTTCGGGHHHHHHTTCEEETTEE
T ss_pred CcchhceeeHHHHhhhhcccccHHHHHHHHHCCCEEECCEE
Confidence 99999999999999999999996 69999999999864
No 6
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4
Probab=37.44 E-value=12 Score=22.85 Aligned_cols=23 Identities=4% Similarity=-0.119 Sum_probs=18.0
Q ss_pred eeeecccccCcccc-hhhheeeeeecC
Q 039147 41 ICGPKNRLIPGRWN-PCCMSQILKANE 66 (71)
Q Consensus 41 ~i~lRd~Lk~A~~~-~ic~q~~ik~~~ 66 (71)
.++|||+..|+-|. + |.++|||.
T Consensus 40 viLL~dV~D~~GNk~k---~liv~idD 63 (71)
T 1ycy_A 40 VILLKDVVDVIGNRGK---QMLIGLED 63 (71)
T ss_dssp EEEEEEEEETTEEEEE---EEEEEGGG
T ss_pred eeehhhHHHHhccccc---eeEEEecc
Confidence 57889999999873 4 77788775
No 7
>1b3t_A Protein (nuclear protein EBNA1); protein-DNA complex, DNA-binding, activator, origin-binding protein, protein/DNA complex; HET: DNA; 2.20A {Human herpesvirus 4} SCOP: d.58.8.1 PDB: 1vhi_A
Probab=10.11 E-value=1e+02 Score=20.94 Aligned_cols=28 Identities=25% Similarity=0.247 Sum_probs=18.8
Q ss_pred ccccccccCCCCCCCCCCCcccc--eeeeec
Q 039147 17 TCSGTFAPKPLIPQTNSGSECMP--FICGPK 45 (71)
Q Consensus 17 kk~~~fa~kps~pGPH~~~~slP--L~i~lR 45 (71)
|+-.-+||-|- |.|-+++||.- +++||.
T Consensus 78 RLPyG~a~gpG-PqPgPlrES~~~yFlvFlq 107 (147)
T 1b3t_A 78 RLPFGMAPGPG-PQPGPLRESIVCYFMVFLQ 107 (147)
T ss_dssp EEECCCCSSSS-CCCCTTCEEEEEEEEEEES
T ss_pred ccccCcCCCCC-CCCCcchhheeeeeeeeee
Confidence 55555677777 77888888854 455543
No 8
>3sri_B Rhoptry NECK protein 2; AMA1, RON2, malaria, cell invasion; 1.60A {Plasmodium falciparum}
Probab=10.10 E-value=45 Score=17.17 Aligned_cols=9 Identities=11% Similarity=0.733 Sum_probs=3.8
Q ss_pred hhhheeeee
Q 039147 55 PCCMSQILK 63 (71)
Q Consensus 55 ~ic~q~~ik 63 (71)
.||+||.+|
T Consensus 21 qiCi~q~V~ 29 (29)
T 3sri_B 21 QICLNSVVN 29 (29)
T ss_dssp EEEEC----
T ss_pred HHHHHHhcC
Confidence 578887654
No 9
>2h2t_B Low affinity immunoglobulin epsilon FC receptor ( IGE receptor) (FC-epsilon-RII)...; C-type lectin, calcium-bound, lectin domain; 1.30A {Homo sapiens} PDB: 2h2r_A 1t8c_A 1t8d_A
Probab=8.69 E-value=73 Score=19.83 Aligned_cols=16 Identities=19% Similarity=0.154 Sum_probs=0.0
Q ss_pred ccccccccCCCCCCCCC
Q 039147 17 TCSGTFAPKPLIPQTNS 33 (71)
Q Consensus 17 kk~~~fa~kps~pGPH~ 33 (71)
.....|+|.|+ ..+|+
T Consensus 160 ~~~~~~~p~~~-~~~~~ 175 (175)
T 2h2t_B 160 PDPDGRLPTPS-APLHS 175 (175)
T ss_dssp -----------------
T ss_pred cCCCCcCCCCC-ccCcC
Confidence 55666888888 88885
No 10
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His protein, LIM and senescent cell antigen-like domains 1, structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=8.43 E-value=1.2e+02 Score=16.76 Aligned_cols=9 Identities=11% Similarity=-0.053 Sum_probs=6.4
Q ss_pred ccccCCCCCC
Q 039147 21 TFAPKPLIPQ 30 (71)
Q Consensus 21 ~fa~kps~pG 30 (71)
.|+|.|| .|
T Consensus 71 ~f~p~~s-s~ 79 (79)
T 2cor_A 71 MGVSGPS-SG 79 (79)
T ss_dssp TSCCSSC-CC
T ss_pred hCCCCCC-CC
Confidence 4778887 65
Done!