Query 035233
Match_columns 70
No_of_seqs 104 out of 174
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 16:55:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035233.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/035233hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3oee_I ATP synthase subunit ep 100.0 1.3E-30 4.4E-35 156.7 -0.3 56 8-63 1-58 (61)
2 2ck3_I ATP synthase subunit ep 99.9 4.6E-28 1.6E-32 140.8 0.3 48 8-55 2-49 (50)
3 3se7_A VANA; alpha-beta struct 32.7 31 0.0011 23.9 2.7 23 9-34 321-343 (346)
4 3r8s_Q 50S ribosomal protein L 28.5 25 0.00084 22.6 1.5 13 11-23 69-81 (117)
5 4eg0_A D-alanine--D-alanine li 28.5 39 0.0013 22.9 2.6 22 9-33 295-316 (317)
6 3v2d_U 50S ribosomal protein L 27.9 26 0.00088 22.6 1.5 13 11-23 70-82 (118)
7 3l9k_W Dynein intermediate cha 27.7 27 0.00093 18.4 1.3 20 16-35 14-33 (38)
8 2ghj_A 50S ribosomal protein L 26.6 24 0.00082 22.7 1.2 12 11-22 68-79 (118)
9 4fu0_A D-alanine--D-alanine li 26.1 38 0.0013 23.6 2.3 25 8-35 327-351 (357)
10 2ftc_L MRPL20 protein; mitocho 24.6 30 0.001 22.2 1.4 13 11-23 70-82 (118)
11 2j97_A Replicase polyprotein 1 23.7 43 0.0015 21.5 2.0 25 43-69 44-68 (109)
12 2zjr_N 50S ribosomal protein L 21.6 27 0.00091 22.5 0.6 13 11-23 70-82 (118)
No 1
>3oee_I ATP synthase subunit epsilon; ATP phosphatase, F1F0 ATPase, ATP synthesis, H ADP, PO4, mitochondria; HET: ANP; 2.74A {Saccharomyces cerevisiae} PDB: 2wpd_I* 3fks_I 3oe7_I* 2hld_I* 3oeh_I* 3ofn_I* 4b2q_I* 2xok_I* 3zry_I*
Probab=99.95 E-value=1.3e-30 Score=156.68 Aligned_cols=56 Identities=29% Similarity=0.606 Sum_probs=41.6
Q ss_pred HHHHHccccHHHHHHHHHHHHHhhcCchhHHHhh-ccccceeeEeeccCCc-ccCcee
Q 035233 8 PFWRAAGMTYISYSNICANLVRNCLKEPYKTEAL-TREKVHFSISKWTDGK-PQKPTI 63 (70)
Q Consensus 8 ~~WR~AG~sY~~Ys~iaAr~vR~aLKe~~r~~A~-~R~~~~~k~~~w~nGk-~~~~~~ 63 (70)
++||+||||||+|+||||++||+|||||+|.+|+ +|+.+++++++|+||+ +++++.
T Consensus 1 s~WR~AGltY~~Ys~iaA~~vR~aLKe~~r~~A~~~R~~~~~k~~~w~nGk~~~e~~~ 58 (61)
T 3oee_I 1 SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTP 58 (61)
T ss_dssp -------CCHHHHHHHTTTTTTC--CCSSCCHHHHTTTCCCCEEEECCC---CCCSCC
T ss_pred CcHHHhcccHHHHHHHHHHHHHHHHhhHHHHHHHhhcccceEEEEeccCCcccCCCcc
Confidence 5899999999999999999999999999999999 9999999999999995 444443
No 2
>2ck3_I ATP synthase subunit epsilon\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} PDB: 1e79_I* 1h8e_I* 2jdi_I* 2v7q_I* 2wss_I* 2w6j_I 2w6h_I 2w6i_I 2xnd_I*
Probab=99.93 E-value=4.6e-28 Score=140.81 Aligned_cols=48 Identities=40% Similarity=0.782 Sum_probs=23.4
Q ss_pred HHHHHccccHHHHHHHHHHHHHhhcCchhHHHhhccccceeeEeeccC
Q 035233 8 PFWRAAGMTYISYSNICANLVRNCLKEPYKTEALTREKVHFSISKWTD 55 (70)
Q Consensus 8 ~~WR~AG~sY~~Ys~iaAr~vR~aLKe~~r~~A~~R~~~~~k~~~w~n 55 (70)
++||+||||||+|+||||++||+|||||+|++|++|+.+++|+++|+|
T Consensus 2 ~~WR~aG~sY~~Ys~i~A~~vR~~LKe~~r~~A~~R~~~~~k~~kW~~ 49 (50)
T 2ck3_I 2 AYWRQAGLSYIRYSQICAKAVRDALKTEFKANAMKTSGSTIKIVKVKK 49 (50)
T ss_dssp CTTSSSSCCHHHHHHHHHHHHHTC------------------------
T ss_pred hHHHHhCccHHHHHHHHHHHHHHHhCcHHHHHHHhcccceeeeecCCC
Confidence 589999999999999999999999999999999999999999999997
No 3
>3se7_A VANA; alpha-beta structure, D-alanine-D-lactate ligase, ligase; HET: ATP; 3.07A {}
Probab=32.74 E-value=31 Score=23.88 Aligned_cols=23 Identities=26% Similarity=0.342 Sum_probs=18.5
Q ss_pred HHHHccccHHHHHHHHHHHHHhhcCc
Q 035233 9 FWRAAGMTYISYSNICANLVRNCLKE 34 (70)
Q Consensus 9 ~WR~AG~sY~~Ys~iaAr~vR~aLKe 34 (70)
.|+.+|++|.+ ++.++|+.+|+.
T Consensus 321 ~~~~~G~~~~~---l~~~li~~a~~~ 343 (346)
T 3se7_A 321 MMTAAGLSRAD---VIDRLVSLALAG 343 (346)
T ss_dssp HHHHTTCCHHH---HHHHHHHHHHC-
T ss_pred HHHHhCCCHHH---HHHHHHHHHHHh
Confidence 68999999765 788889888864
No 4
>3r8s_Q 50S ribosomal protein L20; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_O 1p86_O 2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q* 2qba_Q* 2qbc_Q* 2qbe_Q 2qbg_Q 2qbi_Q* 2qbk_Q* 2qov_Q 2qox_Q 2qoz_Q* 2qp1_Q* 2rdo_Q 2vhm_Q ...
Probab=28.48 E-value=25 Score=22.64 Aligned_cols=13 Identities=31% Similarity=0.603 Sum_probs=10.7
Q ss_pred HHccccHHHHHHH
Q 035233 11 RAAGMTYISYSNI 23 (70)
Q Consensus 11 R~AG~sY~~Ys~i 23 (70)
|..||||.+|.+-
T Consensus 69 R~~GlsYs~fi~~ 81 (117)
T 3r8s_Q 69 RQNGISYSKFING 81 (117)
T ss_dssp HHTTCCHHHHHHH
T ss_pred HHhCCCHHHHHHH
Confidence 7889999998753
No 5
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A 4egj_A
Probab=28.47 E-value=39 Score=22.88 Aligned_cols=22 Identities=18% Similarity=0.341 Sum_probs=17.1
Q ss_pred HHHHccccHHHHHHHHHHHHHhhcC
Q 035233 9 FWRAAGMTYISYSNICANLVRNCLK 33 (70)
Q Consensus 9 ~WR~AG~sY~~Ys~iaAr~vR~aLK 33 (70)
.|+.+|++|- .++.++|+.+|+
T Consensus 295 ~~~~~G~~~~---~l~~~li~~a~~ 316 (317)
T 4eg0_A 295 AARSIGIGYS---ELVVKVLSLTLN 316 (317)
T ss_dssp HHHHTTCCHH---HHHHHHHHTTC-
T ss_pred HHHHcCCCHH---HHHHHHHHHHhh
Confidence 5899999865 677888888875
No 6
>3v2d_U 50S ribosomal protein L20; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_O 2hgj_T 2hgq_T 2hgu_T 1vsa_O 2j03_U 2jl6_U 2jl8_U 2v47_U 2v49_U 2wdi_U 2wdj_U 2wdl_U 2wdn_U 2wh2_U 2wh4_U 2wrj_U 2wrl_U 2wro_U 2wrr_U ...
Probab=27.86 E-value=26 Score=22.59 Aligned_cols=13 Identities=23% Similarity=0.542 Sum_probs=10.8
Q ss_pred HHccccHHHHHHH
Q 035233 11 RAAGMTYISYSNI 23 (70)
Q Consensus 11 R~AG~sY~~Ys~i 23 (70)
|..|+||++|.+-
T Consensus 70 R~~GlsYs~fi~g 82 (118)
T 3v2d_U 70 RQHGLNYSTFIHG 82 (118)
T ss_dssp HHTTCCHHHHHHH
T ss_pred hhcCCCHHHHHHH
Confidence 7889999998753
No 7
>3l9k_W Dynein intermediate chain, cytosolic; LC7, light chain 7, KM23, RO hydrolase, alternative splicing, lysosome, membrane; 3.00A {Drosophila melanogaster}
Probab=27.66 E-value=27 Score=18.41 Aligned_cols=20 Identities=10% Similarity=0.288 Sum_probs=17.1
Q ss_pred cHHHHHHHHHHHHHhhcCch
Q 035233 16 TYISYSNICANLVRNCLKEP 35 (70)
Q Consensus 16 sY~~Ys~iaAr~vR~aLKe~ 35 (70)
.|..|..-+++++-++|-++
T Consensus 14 ~F~~F~~rsskviERAL~e~ 33 (38)
T 3l9k_W 14 NFQRFVVRAGRVIERALSEN 33 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHccc
Confidence 47889999999999999654
No 8
>2ghj_A 50S ribosomal protein L20; folding intermediate, ribosomal protein extension, structural protein; 2.90A {Aquifex aeolicus} PDB: 1gyz_A
Probab=26.60 E-value=24 Score=22.70 Aligned_cols=12 Identities=42% Similarity=0.816 Sum_probs=10.2
Q ss_pred HHccccHHHHHH
Q 035233 11 RAAGMTYISYSN 22 (70)
Q Consensus 11 R~AG~sY~~Ys~ 22 (70)
|..|+||++|.+
T Consensus 68 R~~glsYS~fi~ 79 (118)
T 2ghj_A 68 RAYGLNYSTFIN 79 (118)
T ss_dssp HTTTCCHHHHHH
T ss_pred HHcCCCHHHHHH
Confidence 778999999875
No 9
>4fu0_A D-alanine--D-alanine ligase 7; vancomycin resistance, peptidoglycan synthesis, D-Ala:D-Ser ATP-grAsp domain; HET: ADP; 2.35A {Enterococcus faecalis}
Probab=26.11 E-value=38 Score=23.61 Aligned_cols=25 Identities=12% Similarity=0.332 Sum_probs=17.9
Q ss_pred HHHHHccccHHHHHHHHHHHHHhhcCch
Q 035233 8 PFWRAAGMTYISYSNICANLVRNCLKEP 35 (70)
Q Consensus 8 ~~WR~AG~sY~~Ys~iaAr~vR~aLKe~ 35 (70)
..|+++|++| ..++.++|.-+|.-+
T Consensus 327 ~~~~~~G~~~---~~li~~li~~aler~ 351 (357)
T 4fu0_A 327 NMMKGIGLSF---SQMLDKLIGLYVELE 351 (357)
T ss_dssp HHHHTTTCCH---HHHHHHHHHTTC---
T ss_pred HHHHHhCcCH---HHHHHHHHHHHhccc
Confidence 4799999997 467888888877533
No 10
>2ftc_L MRPL20 protein; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}
Probab=24.63 E-value=30 Score=22.24 Aligned_cols=13 Identities=15% Similarity=0.317 Sum_probs=10.7
Q ss_pred HHccccHHHHHHH
Q 035233 11 RAAGMTYISYSNI 23 (70)
Q Consensus 11 R~AG~sY~~Ys~i 23 (70)
|..|+||.+|.+-
T Consensus 70 R~~g~sYs~fi~~ 82 (118)
T 2ftc_L 70 QEHGLKYPALIGN 82 (118)
T ss_pred HHcCCCHHHHHHH
Confidence 7789999998754
No 11
>2j97_A Replicase polyprotein 1AB; SSB, zinc, HCOV, membrane, helicase, SARS COV, viral replicase, RNA replication, ATP-binding; 1.75A {Human coronavirus 229E} PDB: 2j98_A 2j98_B
Probab=23.65 E-value=43 Score=21.49 Aligned_cols=25 Identities=16% Similarity=0.207 Sum_probs=17.5
Q ss_pred cccceeeEeeccCCcccCceecCCCCC
Q 035233 43 REKVHFSISKWTDGKPQKPTIRSDTPE 69 (70)
Q Consensus 43 R~~~~~k~~~w~nGk~~~~~~~~~~p~ 69 (70)
-+.-++|+.+|+.- +..++++-.||
T Consensus 44 S~~~~LK~vk~e~d--~g~v~iELePP 68 (109)
T 2j97_A 44 TTKPGMKYVKWEHD--SGVVTVELEPP 68 (109)
T ss_dssp ESCSCEEEEEECCS--SSCEEEEBCCC
T ss_pred eCCCCceEEEEEcc--CCEEEEEcCCC
Confidence 34568999999943 34777777665
No 12
>2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: a.144.2.1 PDB: 1nwx_O* 1nwy_O* 1sm1_O* 1xbp_O* 1yl3_1 2b66_U 2b9n_U 2b9p_U 2zjp_N* 2zjq_N 1nkw_O 3cf5_N* 3dll_N* 3pio_N* 3pip_N* 1pnu_O 1pny_O 1vor_R 1vou_R 1vow_R ...
Probab=21.57 E-value=27 Score=22.48 Aligned_cols=13 Identities=38% Similarity=0.621 Sum_probs=10.5
Q ss_pred HHccccHHHHHHH
Q 035233 11 RAAGMTYISYSNI 23 (70)
Q Consensus 11 R~AG~sY~~Ys~i 23 (70)
|..|+||++|.+-
T Consensus 70 R~~GlsYS~fi~g 82 (118)
T 2zjr_N 70 RLHGMNYSTFING 82 (118)
T ss_dssp TTTTCCHHHHHHH
T ss_pred HHcCCCHHHHHHH
Confidence 6789999998753
Done!