Query 035442
Match_columns 54
No_of_seqs 106 out of 218
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 04:15:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035442.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/035442hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xzm_W 40S ribosomal protein S 99.9 3.9E-28 1.3E-32 169.9 1.4 53 1-54 1-58 (260)
2 3u5c_E RP5, S7, YS6, 40S ribos 99.9 4.2E-28 1.4E-32 169.8 0.8 53 1-54 1-58 (261)
3 3j20_E 30S ribosomal protein S 99.9 1E-27 3.5E-32 166.3 1.6 53 1-54 1-59 (243)
4 3iz6_D 40S ribosomal protein S 99.9 4.3E-28 1.5E-32 170.0 -1.8 53 1-54 1-58 (265)
5 3kbg_A 30S ribosomal protein S 98.4 1.7E-08 5.7E-13 69.0 -2.1 23 32-54 2-24 (213)
6 3ts3_A Capsid polyprotein; vir 8.5 45 0.0015 22.6 -1.1 36 3-52 103-139 (208)
7 2cor_A Pinch protein; LIM doma 8.4 1.2E+02 0.0042 15.8 0.9 9 21-30 71-79 (79)
8 1wj6_A KIAA0049 protein, RSGI 8.4 2.3E+02 0.008 17.0 2.2 19 27-46 5-23 (101)
9 1w8x_M Protein P30, protein P, 8.3 1.4E+02 0.0048 17.3 1.1 18 24-43 12-29 (83)
10 2yvc_D Neprilysin; protein-pep 8.1 1.1E+02 0.0036 14.5 0.4 14 10-23 10-24 (26)
No 1
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W
Probab=99.94 E-value=3.9e-28 Score=169.89 Aligned_cols=53 Identities=34% Similarity=0.326 Sum_probs=50.8
Q ss_pred CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY 54 (54)
Q Consensus 1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~ 54 (54)
||||+++|||||+||+ |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus 1 marG~kkHlKRl~AP~~W~l~kk~~~~a~rps-pGPH~~~eslPL~i~LRd~LkyA~t~ 58 (260)
T 2xzm_W 1 MARGPKKHLKRINAPKSWMLNKLGGIWATRPS-QGPHKLRESLPLSVLLKERLNYALNG 58 (260)
T ss_dssp -CCSCCCCCBGGGSCGGGTCCSSSCSBCCCCC-SSSSCSSSCEEHHHHHTTTTCSCCSH
T ss_pred CCCCccccccceeCCccceeccccceEccCCC-CCCCccceeehhHhhhhhhhccccch
Confidence 9999999999999999 89999999999 99999999999999999999999984
No 2
>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=99.93 E-value=4.2e-28 Score=169.80 Aligned_cols=53 Identities=42% Similarity=0.439 Sum_probs=51.0
Q ss_pred CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY 54 (54)
Q Consensus 1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~ 54 (54)
||||+++|||||+||+ |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus 1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-~GPH~l~eslPL~i~LRd~LkyA~t~ 58 (261)
T 3u5c_E 1 MARGPKKHLKRLAAPHHWLLDKLSGCYAPRPS-AGPHKLRESLPLIVFLRNRLKYALNG 58 (261)
T ss_dssp -CCSCCCCCBTTTSCGGGCCCSSSSSBCCCCC-SSSSCGGGEEEHHHHHHHTTCCCSSS
T ss_pred CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccH
Confidence 9999999999999998 99999999999 99999999999999999999999985
No 3
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.93 E-value=1e-27 Score=166.25 Aligned_cols=53 Identities=26% Similarity=0.282 Sum_probs=49.7
Q ss_pred Ccc-hhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442 1 MAR-YLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY 54 (54)
Q Consensus 1 m~~-g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~ 54 (54)
||| |+++|||||+||+ |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus 1 Mar~g~kkHlKRl~AP~~W~l~kk~~~~a~rps-~GPH~~~~~lPL~i~LRdrLgyA~t~ 59 (243)
T 3j20_E 1 MARKGPKRHLKRLAAPTSWYIERKAYKWAVRPR-PGPHNMRTSIPLLYIVRDYLGYAKTA 59 (243)
T ss_dssp --CCSCCCCBCSTTSCTTSCCCTTSSSCBCCCC-SCSSCSTTCEEHHHHHHTTSCCCSSH
T ss_pred CCCcCcccccccccCCcccccccccceeccCCC-CCCCccccceeehhhhhhhhccccCH
Confidence 899 9999999999998 99999999999 99999999999999999999999973
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=99.93 E-value=4.3e-28 Score=170.02 Aligned_cols=53 Identities=49% Similarity=0.627 Sum_probs=15.3
Q ss_pred CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442 1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY 54 (54)
Q Consensus 1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~ 54 (54)
||||+++|||||+||+ |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus 1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-pGPHkl~eslPL~i~LRd~LkyA~t~ 58 (265)
T 3iz6_D 1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPS-SGPHKSRECLPLILIIRNRLKYALTY 58 (265)
T ss_dssp -------------------------------------------CHHHHHHHHHTTSSCS
T ss_pred CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccH
Confidence 9999999999999998 99999999999 99999999999999999999999985
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=98.37 E-value=1.7e-08 Score=68.96 Aligned_cols=23 Identities=9% Similarity=0.021 Sum_probs=20.1
Q ss_pred CCCCCccceeeeecccccCcccC
Q 035442 32 NSGSEFMPFICGPKNRLKPGRWY 54 (54)
Q Consensus 32 H~~~~slPL~i~lRd~Lk~A~~~ 54 (54)
|+++|||||+|||||+|+||+|+
T Consensus 2 Hkl~eslPL~i~LRdrLgyA~t~ 24 (213)
T 3kbg_A 2 HPKDQSVTLLSIIRDYLKLSDKE 24 (213)
T ss_dssp --CCSCEEHHHHHHHHHHTTTCG
T ss_pred CcchhceeeHHHHhhhhcccccH
Confidence 99999999999999999999984
No 6
>3ts3_A Capsid polyprotein; virus protein, projection domain, astrovirus capsid, viral P; 1.49A {Turkey astrovirus 2}
Probab=8.47 E-value=45 Score=22.56 Aligned_cols=36 Identities=28% Similarity=0.337 Sum_probs=23.7
Q ss_pred chhhhhhccccCCC-ccccccccCCCCCCCCCCCCccceeeeecccccCcc
Q 035442 3 RYLKKHQKRLNARG-TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGR 52 (54)
Q Consensus 3 ~g~~kHlKRl~AP~-k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~ 52 (54)
+-+++|+|-.+-|- |+ | . ||.-++++. |+|||++|.
T Consensus 103 KTLkqhikd~tePavkk---y----y-P~Ttn~dq~------lk~r~nl~e 139 (208)
T 3ts3_A 103 KTLKQHIKDYTEPAIQK---Y----Y-PGTTNLDEQ------LKQRLNLAE 139 (208)
T ss_dssp HHHTTTTTCTTSTTEEE---B----C-GGGCCSCHH------HHHHHCCCT
T ss_pred HHHHHHhcccccchhhh---c----C-CCccchhhh------hhhhhcccc
Confidence 45788999888885 32 2 3 666666644 577777764
No 7
>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=8.42 E-value=1.2e+02 Score=15.79 Aligned_cols=9 Identities=11% Similarity=-0.053 Sum_probs=5.8
Q ss_pred ccccCCCCCC
Q 035442 21 TFAPKPLIPQ 30 (54)
Q Consensus 21 ~~a~kps~pG 30 (54)
.|+|.|| .|
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 4677777 55
No 8
>1wj6_A KIAA0049 protein, RSGI RUH-024; PB1 domain, protein binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: d.15.2.2
Probab=8.38 E-value=2.3e+02 Score=16.97 Aligned_cols=19 Identities=16% Similarity=-0.043 Sum_probs=14.5
Q ss_pred CCCCCCCCCCccceeeeecc
Q 035442 27 LIPQTNSGSEFMPFICGPKN 46 (54)
Q Consensus 27 s~pGPH~~~~slPL~i~lRd 46 (54)
| .|||+.+--+.|-|-.++
T Consensus 5 ~-~~~~~m~~~v~lkV~f~g 23 (101)
T 1wj6_A 5 S-SGPHSMEPQVTLNVTFKN 23 (101)
T ss_dssp S-CCCCSSCSCEEEEEEETT
T ss_pred C-CCccccCccEEEEEEEcC
Confidence 5 799999988777666554
No 9
>1w8x_M Protein P30, protein P, GPP; virus, P3 major capsid protein, P30 TAPE measure, P31 penton protein, P16 membrane protein; 4.20A {Enterobacteria phage PRD1} SCOP: i.6.1.1
Probab=8.31 E-value=1.4e+02 Score=17.29 Aligned_cols=18 Identities=33% Similarity=0.635 Sum_probs=12.0
Q ss_pred cCCCCCCCCCCCCccceeee
Q 035442 24 PKPLIPQTNSGSEFMPFICG 43 (54)
Q Consensus 24 ~kps~pGPH~~~~slPL~i~ 43 (54)
|-|- |||-.- |.|||+-.
T Consensus 12 pvpi-pgpapt-etmpllny 29 (83)
T 1w8x_M 12 PVPI-PGPAPT-ETMPLLNY 29 (83)
T ss_dssp SCCT-TCCCCC-CCCCCCCC
T ss_pred CCCC-CCCCCc-cccccccc
Confidence 3344 888875 58888643
No 10
>2yvc_D Neprilysin; protein-peptide complex, cell adhesion; 3.20A {Mus musculus}
Probab=8.08 E-value=1.1e+02 Score=14.47 Aligned_cols=14 Identities=14% Similarity=0.067 Sum_probs=8.0
Q ss_pred ccccCCC-ccccccc
Q 035442 10 KRLNARG-TCSGTFA 23 (54)
Q Consensus 10 KRl~AP~-k~~~~~a 23 (54)
.-++||+ |+...|.
T Consensus 10 tdinapkpkkk~rws 24 (26)
T 2yvc_D 10 TDINAPKPKKKQRXX 24 (26)
T ss_pred ccccCCCcchhhccc
Confidence 4467787 4444453
Done!