Query 033538
Match_columns 117
No_of_seqs 133 out of 206
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 05:00:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033538.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/033538hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iz5_D 60S ribosomal protein L 100.0 6E-42 2E-46 289.1 -9.3 117 1-117 289-405 (405)
2 2zkr_c 60S ribosomal protein L 99.9 8.9E-25 3E-29 185.3 0.0 88 1-92 284-371 (421)
3 4a17_C RPL4, ribosomal protein 99.9 1.8E-23 6E-28 176.9 6.0 71 1-72 290-360 (410)
4 2wwb_H 60S ribosomal protein L 99.9 5.5E-24 1.9E-28 177.7 0.0 65 1-65 281-347 (362)
5 1irq_A Omega transcriptional r 28.2 14 0.00047 24.3 0.2 14 3-16 33-46 (71)
6 2nqb_D Histone H2B; nucleosome 19.8 30 0.001 24.8 0.7 12 9-20 86-97 (123)
7 1tzy_B Histone H2B; histone-fo 19.6 31 0.001 24.9 0.7 12 9-20 89-100 (126)
8 1y74_B MLIN-2/CASK, peripheral 17.5 42 0.0014 19.5 0.8 17 4-20 22-38 (50)
9 2c40_A Inosine-uridine preferr 16.5 50 0.0017 25.6 1.3 17 32-48 124-140 (312)
10 4az3_B Lysosomal protective pr 16.0 69 0.0023 22.2 1.8 19 5-23 10-28 (155)
No 1
>3iz5_D 60S ribosomal protein L4 (L4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_D
Probab=100.00 E-value=6e-42 Score=289.10 Aligned_cols=117 Identities=69% Similarity=1.063 Sum_probs=100.1
Q ss_pred CCchhhhhhhCcHHHHhhhcCCcccccCCCCCCCcchhHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcCcH
Q 033538 1 MVNADLARIINSDEVQSVVRPIKTEVKRAPMKKNPLKNLNTLLRLNPYAKTARRMSLLAEAQRVKAKKEKLDKKRKPITK 80 (117)
Q Consensus 1 MtNaDl~RiInSdEIQsvlr~~k~~~kr~~~KKNPLKN~~~mlrLNPyAk~~rr~a~~~~~~r~~~k~~k~~~kr~~~~~ 80 (117)
|+|+||+|||||||||+||||+++.++++++|+|||||+++||||||||+++++++++.++++.++++++++++++...+
T Consensus 289 ~~n~dl~r~~~s~eiq~~~~~~~~~~~~~~~kknplkn~~~~~~lnp~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (405)
T 3iz5_D 289 MANADLGRIINSDEVQSVVKPLNKEVKRREKRKNPLKNVAAVLKLNPYFGTARKMATLAEAARIKARKEKLDSKRTKLSP 368 (405)
T ss_dssp --------------CCSCHHHHHHHSSTTHHHHHHHHCCCCSSTHHHHHHHHTCCCCSSCSSHHHHTCSHHHHHHHHHHH
T ss_pred ccchhHHHHhcCHHHHHHHhcccCCCCCCCcCCCchhhHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccch
Confidence 89999999999999999999998888889999999999999999999999999999999999999999999999998888
Q ss_pred HHHHHHHHHhHHHHHHHhcCCchhHHHhhHhhhcccC
Q 033538 81 EEAAAIKSAGKAWYQTMISDSDYTEFENFSKWLGVSQ 117 (117)
Q Consensus 81 ~~~~~~~a~gk~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (117)
+++++++++|++||++|.+||||++||+|++|||++|
T Consensus 369 ~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~ 405 (405)
T 3iz5_D 369 EEAAKVKAAGKAWYKTMISDSDYAEFDNFSKWLGVTQ 405 (405)
T ss_dssp HHHHHHHHHHHHHHHSSSCCSHHHHHHHHHHHHHHCC
T ss_pred hhHHHHHHHHHHHHHHHhccccHHHHHhHHhhhccCC
Confidence 9999999999999999999999999999999999987
No 2
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=99.89 E-value=8.9e-25 Score=185.28 Aligned_cols=88 Identities=36% Similarity=0.574 Sum_probs=0.0
Q ss_pred CCchhhhhhhCcHHHHhhhcCCcccccCCCCCCCcchhHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcCcH
Q 033538 1 MVNADLARIINSDEVQSVVRPIKTEVKRAPMKKNPLKNLNTLLRLNPYAKTARRMSLLAEAQRVKAKKEKLDKKRKPITK 80 (117)
Q Consensus 1 MtNaDl~RiInSdEIQsvlr~~k~~~kr~~~KKNPLKN~~~mlrLNPyAk~~rr~a~~~~~~r~~~k~~k~~~kr~~~~~ 80 (117)
|+|+||+|||||||||+||||++..++++++|+|||+|+++|+||||||+++++++++.++.+.+++.+ +++...+
T Consensus 284 ~~n~dl~rii~s~eiq~~l~~~~~~~~~~~~k~npl~n~~~~~~lnpya~~~~~~~~~~~~~~~~~~~~----~~~~~~~ 359 (421)
T 2zkr_c 284 MLNTDLSRILKMPRDPRALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQAKNHKLRMD----KAAAALE 359 (421)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cchhHHHHHhcCHHHHHHhcccccccccccccCCCchhHHHHHhcCHHHHHHHHHHHHHHHHhHHHHHH----HhcccCc
Confidence 899999999999999999999988888889999999999999999999999999999999987666543 3344444
Q ss_pred HHHHHHHHHhHH
Q 033538 81 EEAAAIKSAGKA 92 (117)
Q Consensus 81 ~~~~~~~a~gk~ 92 (117)
++...++.+|..
T Consensus 360 ~~~~~~~~~~~~ 371 (421)
T 2zkr_c 360 AKSEEKGVPGKK 371 (421)
T ss_dssp ------------
T ss_pred chhhhhcccccc
Confidence 444444444433
No 3
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C
Probab=99.88 E-value=1.8e-23 Score=176.88 Aligned_cols=71 Identities=42% Similarity=0.550 Sum_probs=61.2
Q ss_pred CCchhhhhhhCcHHHHhhhcCCcccccCCCCCCCcchhHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhh
Q 033538 1 MVNADLARIINSDEVQSVVRPIKTEVKRAPMKKNPLKNLNTLLRLNPYAKTARRMSLLAEAQRVKAKKEKLD 72 (117)
Q Consensus 1 MtNaDl~RiInSdEIQsvlr~~k~~~kr~~~KKNPLKN~~~mlrLNPyAk~~rr~a~~~~~~r~~~k~~k~~ 72 (117)
|+|+||+|||||||||+||||+ ...+++++|+|||+|+++|+||||||++++++++..++......+..+.
T Consensus 290 ~~n~dl~r~i~s~eiq~~~~~~-~~~~~~~~k~npl~n~~~~~~lnp~a~~~~~~~~~~~~~~~~~~~~~~~ 360 (410)
T 4a17_C 290 LANADIARIINSNEVQSVVKVA-GTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKKAAEASKAKRQATLK 360 (410)
T ss_dssp CSCCCHHHHHHSHHHHHHCCCC-CCCCCCCCCCCTTTCHHHHHHHCTHHHHHHHHHHHHHSCCHHHHHHHHH
T ss_pred cccccHHHHhCCHHHHHHhcCc-cccccccccCCCchhHHHHHhcCHHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence 8999999999999999999988 6667889999999999999999999999999999877655443333333
No 4
>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C 1s1i_D 3jyw_D
Probab=99.87 E-value=5.5e-24 Score=177.73 Aligned_cols=65 Identities=43% Similarity=0.629 Sum_probs=0.0
Q ss_pred CCchhhhhhhCcHHHHhhhcCCcccccC--CCCCCCcchhHHHHHhcChHHHHHHHHHHHHHHHHHH
Q 033538 1 MVNADLARIINSDEVQSVVRPIKTEVKR--APMKKNPLKNLNTLLRLNPYAKTARRMSLLAEAQRVK 65 (117)
Q Consensus 1 MtNaDl~RiInSdEIQsvlr~~k~~~kr--~~~KKNPLKN~~~mlrLNPyAk~~rr~a~~~~~~r~~ 65 (117)
|+|+||+|||||||||+||||++..+++ +++|+|||+|+++|+||||||+++++++++.++.+..
T Consensus 281 m~n~dl~rii~S~eiq~~~r~~~~~~~~~~~~~k~npl~n~~~~~~lnpya~~~~~~~~~~~~~~~~ 347 (362)
T 2wwb_H 281 ISTSDVTRIINSSEIQSAIRPAGQATQKRTHVLKKNPLKNKQVLLRLNPYAKVFAAEKLGSKKAEKT 347 (362)
T ss_dssp -------------------------------------------------------------------
T ss_pred cchhHHHHHhccHHHHHHhcccccccccccccccCCcchhHHHHHhcCHHHHHHHHHHHHHHHhccc
Confidence 8999999999999999999999887764 6889999999999999999999999999988877543
No 5
>1irq_A Omega transcriptional repressor; ribbon-helix-helix, gene regulation; 1.50A {Streptococcus pyogenes} SCOP: a.43.1.4 PDB: 2bnw_A 2bnz_A 2cax_A
Probab=28.15 E-value=14 Score=24.30 Aligned_cols=14 Identities=36% Similarity=0.534 Sum_probs=11.8
Q ss_pred chhhhhhhCcHHHH
Q 033538 3 NADLARIINSDEVQ 16 (117)
Q Consensus 3 NaDl~RiInSdEIQ 16 (117)
.+||.+||||.|+-
T Consensus 33 ~adLh~~iki~~~~ 46 (71)
T 1irq_A 33 RADLHHIIKIETAK 46 (71)
T ss_dssp EHHHHHHHHHHHHH
T ss_pred ehhheeeeeeeehh
Confidence 47999999999863
No 6
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Probab=19.76 E-value=30 Score=24.79 Aligned_cols=12 Identities=50% Similarity=0.692 Sum_probs=10.5
Q ss_pred hhCcHHHHhhhc
Q 033538 9 IINSDEVQSVVR 20 (117)
Q Consensus 9 iInSdEIQsvlr 20 (117)
-|.|.|||.+||
T Consensus 86 TitsreIqtAvr 97 (123)
T 2nqb_D 86 TITSREIQTAVR 97 (123)
T ss_dssp EECHHHHHHHHH
T ss_pred cCCHHHHHHHHH
Confidence 478999999987
No 7
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ...
Probab=19.60 E-value=31 Score=24.86 Aligned_cols=12 Identities=50% Similarity=0.692 Sum_probs=10.5
Q ss_pred hhCcHHHHhhhc
Q 033538 9 IINSDEVQSVVR 20 (117)
Q Consensus 9 iInSdEIQsvlr 20 (117)
-|+|.|||.+||
T Consensus 89 TitsreIqtAvr 100 (126)
T 1tzy_B 89 TITSREIQTAVR 100 (126)
T ss_dssp EECHHHHHHHHH
T ss_pred CCCHHHHHHHHH
Confidence 388999999987
No 8
>1y74_B MLIN-2/CASK, peripheral plasma membrane protein CASK; L27 domain, scaffold protein, protein assembly, cell polarity, transport protein; NMR {Mus musculus} SCOP: a.194.1.1 PDB: 1zl8_B
Probab=17.52 E-value=42 Score=19.52 Aligned_cols=17 Identities=18% Similarity=0.454 Sum_probs=13.7
Q ss_pred hhhhhhhCcHHHHhhhc
Q 033538 4 ADLARIINSDEVQSVVR 20 (117)
Q Consensus 4 aDl~RiInSdEIQsvlr 20 (117)
..|.+|++++.+|+.|.
T Consensus 22 ~EL~~lL~~PHfqaLl~ 38 (50)
T 1y74_B 22 KELKRILTQPHFMALLQ 38 (50)
T ss_dssp HHHHHHHHSHHHHHHHH
T ss_pred HHHHHHHcCHHHHHHHH
Confidence 46888999999998774
No 9
>2c40_A Inosine-uridine preferring nucleoside hydrolase F protein; spine; 2.2A {Bacillus anthracis}
Probab=16.50 E-value=50 Score=25.57 Aligned_cols=17 Identities=29% Similarity=0.382 Sum_probs=14.8
Q ss_pred CCCcchhHHHHHhcChH
Q 033538 32 KKNPLKNLNTLLRLNPY 48 (117)
Q Consensus 32 KKNPLKN~~~mlrLNPy 48 (117)
=.=||+|++..+++.|-
T Consensus 124 a~GPLTNlA~al~~~P~ 140 (312)
T 2c40_A 124 FTGPLTDLARALYEAPI 140 (312)
T ss_dssp ESSCSHHHHHHHHHCGG
T ss_pred EcCcHHHHHHHHHHChh
Confidence 34799999999999995
No 10
>4az3_B Lysosomal protective protein 20 kDa chain; hydrolase, drug discovery, carboxypeptidase, cardiovascular; HET: NAG S35; 2.04A {Homo sapiens} PDB: 4az0_B*
Probab=16.04 E-value=69 Score=22.21 Aligned_cols=19 Identities=11% Similarity=0.108 Sum_probs=16.5
Q ss_pred hhhhhhCcHHHHhhhcCCc
Q 033538 5 DLARIINSDEVQSVVRPIK 23 (117)
Q Consensus 5 Dl~RiInSdEIQsvlr~~k 23 (117)
.++..+|.++||++|..+.
T Consensus 10 ~~~~ylN~~~V~~AL~v~~ 28 (155)
T 4az3_B 10 AASTYLNNPYVRKALNIPE 28 (155)
T ss_dssp HHHHHHTSHHHHHHTTCCT
T ss_pred HHHHHhCCHHHHHHcCCCC
Confidence 4788999999999999764
Done!