Query 031915
Match_columns 150
No_of_seqs 105 out of 269
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 11:10:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031915.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031915hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iz5_b 60S ribosomal protein L 100.0 1.3E-59 4.4E-64 362.2 0.7 145 1-145 1-146 (147)
2 4a18_O RPL28, ribosomal protei 100.0 9.8E-47 3.3E-51 286.6 6.1 118 4-134 1-123 (134)
3 1fjk_A Cardiac phospholamban; 18.1 36 0.0012 21.0 0.7 12 114-125 7-18 (52)
4 1ews_A RK-1 defensin, alpha-de 14.9 59 0.002 18.0 0.9 13 48-60 18-30 (32)
5 1uxc_A FRUR (1-57), fructose r 13.7 74 0.0025 19.9 1.4 24 96-119 33-56 (65)
6 2l8n_A Transcriptional repress 10.9 1.1E+02 0.0039 19.1 1.6 26 95-120 38-63 (67)
7 2qsb_A UPF0147 protein TA0600; 9.0 1.8E+02 0.0061 20.0 2.1 30 88-117 26-55 (89)
8 2kxh_B Peptide of FAR upstream 8.8 2.3E+02 0.0078 15.8 2.1 18 109-126 4-21 (31)
9 4a17_F RPL7A, 60S ribosomal pr 8.4 3.5E+02 0.012 21.8 3.9 29 94-124 78-106 (255)
10 2qzg_A Conserved uncharacteriz 8.0 1.8E+02 0.0062 20.2 1.8 30 88-117 30-59 (94)
No 1
>3iz5_b 60S ribosomal protein L28 (L28E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_b
Probab=100.00 E-value=1.3e-59 Score=362.17 Aligned_cols=145 Identities=78% Similarity=1.121 Sum_probs=70.2
Q ss_pred CCCCCccchheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCC-CCCeEEEEEeccccCC
Q 031915 1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGG-KDLSVVLATAKTKKQN 79 (150)
Q Consensus 1 m~~mS~dL~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~-~~~gv~l~~Kk~k~~~ 79 (150)
|+|||+||||||||+|||||+|++++++++++||+||+||+|+|||+||||||+|+|||++++ +++||+|++|+.++++
T Consensus 1 M~~mS~dL~W~iir~nn~FlvKr~~~~~~~~~FSrep~NL~n~~S~kysGLan~K~v~V~~~~~~~~gv~l~~Kk~~~~~ 80 (147)
T 3iz5_b 1 MATVPEPLIWEIVKKNNCFLVKQFGNSNAKVQFTKEPNNLYNVHSYKHSGLANKKTVTIQPSGVKDAAVVLSTTKTKKQN 80 (147)
T ss_dssp --------------------------------------------------------CCSSSCCCCCCCSSSCEECCCCCT
T ss_pred CCCCccccchhhccCcceEEEEecCCCCccceecCCCCCcccccccccccccccceeEEEecccCCCEEEEEEeccccCC
Confidence 899999999999999999999998753234789999999999999999999999999999975 7899999999999999
Q ss_pred CCCceeeeeeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhcCCCCCcccccCccccc
Q 031915 80 KPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKSGVKKRNRQATK 145 (150)
Q Consensus 80 kPak~~~~~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsqk~~k~~~~~~~r~~~~ 145 (150)
+|+++|.+++|++|+|+++++|++++++++|||||+++|++|||||++||||+|++|++++|.+..
T Consensus 81 kPak~~~~~~l~k~~Rk~l~~I~~~v~~~~YR~DL~~~Al~RaSai~rsqk~~k~~~~~k~~~~~~ 146 (147)
T 3iz5_b 81 APAKLYHKSVMRKEFRKMAKAVKNQVSDNYYRPDLTKPALARLSSVYRSLQVSKSGAKKKNRQPTK 146 (147)
T ss_dssp TTTCCCCEECCCSHHHHHHHHHHHHTSCCTHHHHHTTHHHHHHHHHTTC-----------------
T ss_pred CCccceEEEeecccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHccCCccCCCCccccccCC
Confidence 999999999999999999999999999999999999999999999999999999999999886543
No 2
>4a18_O RPL28, ribosomal protein L22; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_O 4a1b_O 4a1d_O
Probab=100.00 E-value=9.8e-47 Score=286.59 Aligned_cols=118 Identities=31% Similarity=0.486 Sum_probs=109.7
Q ss_pred CCccchheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCCC-
Q 031915 4 VPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPA- 82 (150)
Q Consensus 4 mS~dL~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kPa- 82 (150)
|| ||||||||+|||||+|++| ++||+||+||+|+|||+||||||+|+|||+++ +++| |++|+.+.+++|+
T Consensus 1 MS-dL~W~ivrnnnsFLvKr~g-----~~FS~eP~NL~n~~S~kysGLan~KavgV~~~-~~gg--v~~Kk~k~~~kPa~ 71 (134)
T 4a18_O 1 MS-QLVWEIVKNNNAFLVKNNG-----VAFTTDPFSVTGRNTQVGLGFTHRHGVALKGG-AKQA--IATSLRKNQSHKVK 71 (134)
T ss_dssp CH-HHHHHHHTTTCTTEEEETT-----EEEECCTTCSSSBCSTTTCTTTSSCCEEEEEE-GGGE--EEEEEECCCCCCSS
T ss_pred Cc-ceeehhhcCcceEEEeeCC-----ccccCCCCCccceeccccccccccceeEEEEc-CCCc--EEEecCcccCCCCc
Confidence 67 9999999999999999975 68999999999999999999999999999997 4456 8899999999999
Q ss_pred ---ceeeee-eecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhcCCCCC
Q 031915 83 ---SLLHKS-TMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKS 134 (150)
Q Consensus 83 ---k~~~~~-~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsqk~~k~ 134 (150)
+++.++ ++++|+|+++++|++++++ + ||+++||+|||||++||+|+..
T Consensus 72 ~~~k~~~~~~~~~k~~Rk~~k~I~~~~~~--~--DL~~aAl~RaSailrSqk~~~~ 123 (134)
T 4a18_O 72 KTGTIEAETLTVKGGVQRVAKVIRGRFQS--K--GLKQFALKKLVNFHRANVRAQA 123 (134)
T ss_dssp CCSCSSEEEEEESSTHHHHHHHHHHHCCS--H--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccceeEEEeccccchHHHHHHHHHHHhh--c--hHHHHHHHHHHHHHHhcCcccc
Confidence 999999 9999999999999999987 3 9999999999999999998643
No 3
>1fjk_A Cardiac phospholamban; helix, membrane protein; NMR {Sus scrofa} SCOP: j.37.1.1 PDB: 1fjp_A 2kyv_A 1zll_A 2hyn_A 1n7l_A 2kb7_P 1plp_A
Probab=18.07 E-value=36 Score=20.99 Aligned_cols=12 Identities=33% Similarity=0.609 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 031915 114 LKKAALARLSAV 125 (150)
Q Consensus 114 L~~~Al~RaSai 125 (150)
+...|++|||.|
T Consensus 7 ~trsairras~i 18 (52)
T 1fjk_A 7 LTRSAIRRASTI 18 (52)
T ss_dssp HHHHHHHHHHSS
T ss_pred HHHHHHHHHHhc
Confidence 778899999865
No 4
>1ews_A RK-1 defensin, alpha-defisin; alpha defensin, triple-stranded beta-sheet, antimicrobial protein; NMR {Oryctolagus cuniculus} SCOP: g.9.1.1
Probab=14.88 E-value=59 Score=18.02 Aligned_cols=13 Identities=31% Similarity=0.414 Sum_probs=9.7
Q ss_pred ccCcccceeeeEE
Q 031915 48 HSGLANRKTVTIQ 60 (150)
Q Consensus 48 ysGLan~Kav~V~ 60 (150)
.+||.|+|+|--+
T Consensus 18 scglfnskyiccr 30 (32)
T 1ews_A 18 SCGLFNSKYICCR 30 (32)
T ss_dssp CCSSSSCSEEEEE
T ss_pred ccccccceeEEec
Confidence 4788898888644
No 5
>1uxc_A FRUR (1-57), fructose repressor; DNA-binding protein, LACI family, transc regulation; NMR {Escherichia coli} SCOP: a.35.1.5 PDB: 1uxd_A
Probab=13.71 E-value=74 Score=19.85 Aligned_cols=24 Identities=25% Similarity=0.463 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHccCCCHhHHHHHH
Q 031915 96 RMAKAVVNQVADNYYRPDLKKAAL 119 (150)
Q Consensus 96 ~~~k~I~~~~~~~~yR~DL~~~Al 119 (150)
.+...|...+..-+|+||....+|
T Consensus 33 et~~rI~~aa~~lgY~pn~~a~~l 56 (65)
T 1uxc_A 33 KTVEKVMAVVREHNYHPNAVAAGL 56 (65)
T ss_dssp HHHHHHHHHHHHHTCCCC------
T ss_pred HHHHHHHHHHHHhCCCccHHHHHH
Confidence 445556666666679999765443
No 6
>2l8n_A Transcriptional repressor CYTR; bacterial gene repressor, helix turn helix binding domain, L family, transcription regulation, binding protein; NMR {Escherichia coli} PDB: 2lcv_A
Probab=10.93 E-value=1.1e+02 Score=19.07 Aligned_cols=26 Identities=12% Similarity=0.080 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHccCCCHhHHHHHHH
Q 031915 95 PRMAKAVVNQVADNYYRPDLKKAALA 120 (150)
Q Consensus 95 R~~~k~I~~~~~~~~yR~DL~~~Al~ 120 (150)
..+...|...+..-+|+|+....+|+
T Consensus 38 ~~t~~rV~~~a~~lgY~pn~~a~~l~ 63 (67)
T 2l8n_A 38 QATRNRVEKAAREVGYLPQPMGRNVK 63 (67)
T ss_dssp HHHHHHHHHHHHHHCCCC--------
T ss_pred HHHHHHHHHHHHHhCCCccHHHHHhh
Confidence 34555566666666899997665543
No 7
>2qsb_A UPF0147 protein TA0600; structural genomics, four-helix bundle, PSI-2, protein structure initiative; HET: MSE; 1.30A {Thermoplasma acidophilum dsm 1728} SCOP: a.29.14.1
Probab=9.03 E-value=1.8e+02 Score=20.00 Aligned_cols=30 Identities=20% Similarity=0.226 Sum_probs=24.3
Q ss_pred eeecCChhHHHHHHHHHHHccCCCHhHHHH
Q 031915 88 STMRKEFPRMAKAVVNQVADNYYRPDLKKA 117 (150)
Q Consensus 88 ~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~ 117 (150)
+++.+|-|+++......+...++.++++.+
T Consensus 26 ~sVPRNIRraA~ea~~~L~~e~~~~~vRAA 55 (89)
T 2qsb_A 26 ITVPKNVRKVAQDSKAKLSQENESLDLRCA 55 (89)
T ss_dssp TTSCHHHHHHHHHHHHHHTCTTSCHHHHHH
T ss_pred CCCChHHHHHHHHHHHHHhCCCcchhHHHH
Confidence 456688999999888888887888887764
No 8
>2kxh_B Peptide of FAR upstream element-binding protein 1; RRM, FIR, FBP, protein-protein complex, protein binding; NMR {Homo sapiens}
Probab=8.82 E-value=2.3e+02 Score=15.80 Aligned_cols=18 Identities=33% Similarity=0.300 Sum_probs=14.2
Q ss_pred CCCHhHHHHHHHHHHHHH
Q 031915 109 YYRPDLKKAALARLSAVN 126 (150)
Q Consensus 109 ~yR~DL~~~Al~RaSai~ 126 (150)
+...|--..|+.||.+|-
T Consensus 4 g~~~daFadA~~RaRQIa 21 (31)
T 2kxh_B 4 GYVNDAFKDALQRARQIA 21 (31)
T ss_dssp SSCSSHHHHHHHHHHHHH
T ss_pred CcchHHHHHHHHHHHHHH
Confidence 456677788999998884
No 9
>4a17_F RPL7A, 60S ribosomal protein L9; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_F 4a1c_F 4a1e_F
Probab=8.38 E-value=3.5e+02 Score=21.85 Aligned_cols=29 Identities=21% Similarity=0.263 Sum_probs=20.8
Q ss_pred hhHHHHHHHHHHHccCCCHhHHHHHHHHHHH
Q 031915 94 FPRMAKAVVNQVADNYYRPDLKKAALARLSA 124 (150)
Q Consensus 94 ~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSa 124 (150)
-+.++..+-+++.+ |||+-.+.=-.|..+
T Consensus 78 d~~~a~ql~kl~~k--yrpetk~ekk~rl~~ 106 (255)
T 4a17_F 78 DKNQSSNLFKLLAS--YAPEKPAEKKQRLVA 106 (255)
T ss_dssp CHHHHHHHHHHHHH--TCCCCHHHHHHHHHH
T ss_pred ChhhHHHHHHHHHh--cCccchHHHHHHHHH
Confidence 35567778888887 999988765555443
No 10
>2qzg_A Conserved uncharacterized archaeal protein; unknown function protein, structu genomics, PSI-2, protein structure initiative; 2.09A {Methanococcus maripaludis S2} SCOP: a.29.14.1
Probab=7.97 E-value=1.8e+02 Score=20.16 Aligned_cols=30 Identities=13% Similarity=0.143 Sum_probs=24.2
Q ss_pred eeecCChhHHHHHHHHHHHccCCCHhHHHH
Q 031915 88 STMRKEFPRMAKAVVNQVADNYYRPDLKKA 117 (150)
Q Consensus 88 ~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~ 117 (150)
+++.+|-|+++..+...+...++.++++.+
T Consensus 30 ~sVPRNIRraA~ea~~~L~~e~~~~~vRAA 59 (94)
T 2qzg_A 30 TTVPRNIRAAADNAKNALHNEEQELIVRSA 59 (94)
T ss_dssp TTSCHHHHHHHHHHHHHTTCTTSCHHHHHH
T ss_pred CCCChHHHHHHHHHHHHHhCCCcchhHHHH
Confidence 456788999999888888877888887764
Done!