Query 032933
Match_columns 130
No_of_seqs 136 out of 721
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 12:26:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032933.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032933hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3bbo_5 Ribosomal protein L35; 100.0 2.9E-37 1E-41 239.5 0.7 123 4-130 9-139 (159)
2 3v2d_8 50S ribosomal protein L 99.8 5E-22 1.7E-26 134.3 4.1 51 80-130 1-51 (65)
3 2zjr_3 50S ribosomal protein L 99.8 6.5E-22 2.2E-26 134.3 3.9 51 80-130 1-51 (66)
4 3r8s_3 50S ribosomal protein L 99.8 1.9E-21 6.4E-26 131.1 4.6 50 81-130 1-50 (64)
5 3bbn_T Ribosomal protein S20; 36.7 5 0.00017 32.1 -1.0 23 75-97 76-98 (202)
6 2con_A RUH-035 protein, NIN on 31.6 16 0.00055 24.9 1.1 19 8-26 29-47 (79)
7 1l8d_A DNA double-strand break 29.2 16 0.00054 24.5 0.7 11 10-20 48-58 (112)
8 3j20_Y 30S ribosomal protein S 20.0 39 0.0013 20.8 1.1 13 6-18 16-28 (50)
9 2m0e_A Zinc finger and BTB dom 17.8 44 0.0015 15.0 0.8 13 11-23 4-16 (29)
10 3cng_A Nudix hydrolase; struct 14.7 53 0.0018 23.1 0.9 18 9-26 3-20 (189)
No 1
>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00 E-value=2.9e-37 Score=239.52 Aligned_cols=123 Identities=54% Similarity=0.690 Sum_probs=47.7
Q ss_pred ceeeeeeeccCCCCCCcc-ccccccceeeeccccc-cccccccccceec----Cccc--ccccccCCCccccCCCceeee
Q 032933 4 MISFNLKFCPLCPSSSSV-RASRGSSLRLALSNKL-NNSLRLNSSYSIS----ASPL--LFRHNNLPTTVTQNRPQTVTV 75 (130)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~l~~~~s~~~~----~~i~--~~r~~~~~~~~~~~~~fs~~~ 75 (130)
|+||++.+||| +|+++ |++|+ +++|+++|+. +.+|+|+||++|+ +||+ +++.+++.+|..+ ++.++++
T Consensus 9 ~~~~~~~~~~~--~s~~~~~~~~~-~~~~~~~~~~~~~~~~~~ss~~is~~~~~p~~~~~~~~~~~~~~~~~-~~~~~~v 84 (159)
T 3bbo_5 9 TLSFKTPSLSL--SPPSTRCSAAQ-GISLTHFNKQLKSTLNLSSSSSISSSKVQPIVLKNKRISTVDSSVST-SSPSFTV 84 (159)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHhhcccccc--CCCCcceeecc-cccCchhHHHHhhhhhhhhccccccCCCccccccccccccccCcccc-cccceee
Confidence 89999999998 66666 99999 9999998876 4589999999988 4999 9999999998888 8999999
Q ss_pred eeecccccccCcccccceEEccCcceEeeccCcccccCCCChHHHhhcCCCccCC
Q 032933 76 FAAKGYKMKTHKASAKRFRVTGKGKILRRRAGKQHLLAKKNTKRKLRLSKMVSFP 130 (130)
Q Consensus 76 ~~~k~~KmKThkgAaKRFKvTgsGK~kR~kAgkrHll~kKS~krKRrLrk~~~V~ 130 (130)
++++|+|||||+||+||||+||+|||+|++||++|++++|+.+|+|+|+++.+|.
T Consensus 85 v~~~MPKMKThsgAaKRFKvTgSGKiKR~kAgkrHiLtkKS~KrKR~LRk~~~V~ 139 (159)
T 3bbo_5 85 FAAKGYKMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVD 139 (159)
T ss_dssp ------CCCCCHHHHTTCCBCSSSCBEEECSSCTTCCSSCCSSCTTSCSEEECCS
T ss_pred hhcCCcccccchhhhheeEEcCCccEEeccCCCCCCcCcCCHHHHHhcCCCeeEC
Confidence 9999999999999999999999999999999999999999999999999998874
No 2
>3v2d_8 50S ribosomal protein L35; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 2wrj_8 2wrl_8 2wro_8 2wrr_8 ...
Probab=99.84 E-value=5e-22 Score=134.34 Aligned_cols=51 Identities=33% Similarity=0.462 Sum_probs=48.7
Q ss_pred ccccccCcccccceEEccCcceEeeccCcccccCCCChHHHhhcCCCccCC
Q 032933 80 GYKMKTHKASAKRFRVTGKGKILRRRAGKQHLLAKKNTKRKLRLSKMVSFP 130 (130)
Q Consensus 80 ~~KmKThkgAaKRFKvTgsGK~kR~kAgkrHll~kKS~krKRrLrk~~~V~ 130 (130)
|+|||||+||+|||++||+|+|+|++||++|++++|+.+|+|+|+++.+|.
T Consensus 1 MPKmKT~~ga~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~ 51 (65)
T 3v2d_8 1 MPKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLA 51 (65)
T ss_dssp -CCCCCCHHHHTTEEECTTSCEEEECSSCSSCCTTSCHHHHHHTTSEEECC
T ss_pred CCCcccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEEC
Confidence 689999999999999999999999999999999999999999999999874
No 3
>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 3pio_3* 3pip_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 ...
Probab=99.84 E-value=6.5e-22 Score=134.26 Aligned_cols=51 Identities=31% Similarity=0.427 Sum_probs=49.2
Q ss_pred ccccccCcccccceEEccCcceEeeccCcccccCCCChHHHhhcCCCccCC
Q 032933 80 GYKMKTHKASAKRFRVTGKGKILRRRAGKQHLLAKKNTKRKLRLSKMVSFP 130 (130)
Q Consensus 80 ~~KmKThkgAaKRFKvTgsGK~kR~kAgkrHll~kKS~krKRrLrk~~~V~ 130 (130)
|+|||||+||+|||++||+|||+|++||++|++++|+.+|+|+|+++.+|.
T Consensus 1 MPKmKT~~gaaKRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~ 51 (66)
T 2zjr_3 1 MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLA 51 (66)
T ss_pred CCCcccchhhhheeEEcCCCcEEeccCCCccCcccCCHHHHHhcCCCeeEC
Confidence 689999999999999999999999999999999999999999999998874
No 4
>3r8s_3 50S ribosomal protein L35; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ...
Probab=99.83 E-value=1.9e-21 Score=131.06 Aligned_cols=50 Identities=42% Similarity=0.562 Sum_probs=48.4
Q ss_pred cccccCcccccceEEccCcceEeeccCcccccCCCChHHHhhcCCCccCC
Q 032933 81 YKMKTHKASAKRFRVTGKGKILRRRAGKQHLLAKKNTKRKLRLSKMVSFP 130 (130)
Q Consensus 81 ~KmKThkgAaKRFKvTgsGK~kR~kAgkrHll~kKS~krKRrLrk~~~V~ 130 (130)
+|||||+||+|||++||+|+|+|++||++|++++|+.+++|+|+++.+|.
T Consensus 1 PKmKT~~~a~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~ 50 (64)
T 3r8s_3 1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVS 50 (64)
T ss_dssp CCCCCCTTTTTTCEECSSSCEEEECSSCSSSCTTSCHHHHHHTSSEEECC
T ss_pred CCCccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEEC
Confidence 69999999999999999999999999999999999999999999999874
No 5
>3bbn_T Ribosomal protein S20; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=36.68 E-value=5 Score=32.06 Aligned_cols=23 Identities=22% Similarity=0.242 Sum_probs=15.7
Q ss_pred eeeecccccccCcccccceEEcc
Q 032933 75 VFAAKGYKMKTHKASAKRFRVTG 97 (130)
Q Consensus 75 ~~~~k~~KmKThkgAaKRFKvTg 97 (130)
+|.+..-||+-+++++||.+.+.
T Consensus 76 ~v~~a~~~~aN~KSAkKRiRqne 98 (202)
T 3bbn_T 76 IVCEAAAPTKKADSAAKRARQAE 98 (202)
T ss_dssp ----CCCSSCCCCCSSHHHHHHH
T ss_pred eEEeccccccCchhHHHHHHHHH
Confidence 55555568899999999988764
No 6
>2con_A RUH-035 protein, NIN one binding protein; ribosome, RNA binding protein, unknown function, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.15.1
Probab=31.61 E-value=16 Score=24.92 Aligned_cols=19 Identities=26% Similarity=0.447 Sum_probs=15.9
Q ss_pred eeeeccCCCCCCccccccc
Q 032933 8 NLKFCPLCPSSSSVRASRG 26 (130)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~ 26 (130)
+-.|||-|+..+-.||+..
T Consensus 29 ~k~FCp~CGn~TL~Rvsvs 47 (79)
T 2con_A 29 NRVFCGHCGNKTLKKVSVT 47 (79)
T ss_dssp SCCSCSSSCCSCCEEEECB
T ss_pred ccccccccCcccceEEEEE
Confidence 4578999999988898874
No 7
>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1
Probab=29.19 E-value=16 Score=24.55 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=8.1
Q ss_pred eeccCCCCCCc
Q 032933 10 KFCPLCPSSSS 20 (130)
Q Consensus 10 ~~~~~~~~~~~ 20 (130)
..||+|++.-.
T Consensus 48 ~~CPvCgs~l~ 58 (112)
T 1l8d_A 48 GKCPVCGRELT 58 (112)
T ss_dssp EECTTTCCEEC
T ss_pred CCCCCCCCcCC
Confidence 46999987544
No 8
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=20.00 E-value=39 Score=20.78 Aligned_cols=13 Identities=38% Similarity=0.784 Sum_probs=9.7
Q ss_pred eeeeeeccCCCCC
Q 032933 6 SFNLKFCPLCPSS 18 (130)
Q Consensus 6 ~~~~~~~~~~~~~ 18 (130)
....++||.|++.
T Consensus 16 ~~~~k~CP~CG~~ 28 (50)
T 3j20_Y 16 IRKNKFCPRCGPG 28 (50)
T ss_dssp ECSSEECSSSCSS
T ss_pred EEecccCCCCCCc
Confidence 4457889999864
No 9
>2m0e_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}
Probab=17.84 E-value=44 Score=15.02 Aligned_cols=13 Identities=23% Similarity=0.514 Sum_probs=8.9
Q ss_pred eccCCCCCCcccc
Q 032933 11 FCPLCPSSSSVRA 23 (130)
Q Consensus 11 ~~~~~~~~~~~~~ 23 (130)
.|+.|+.......
T Consensus 4 ~C~~C~~~f~~~~ 16 (29)
T 2m0e_A 4 KCPHCDKKFNQVG 16 (29)
T ss_dssp CCSSCCCCCCTTT
T ss_pred cCCCCCcccCCHH
Confidence 4888887765543
No 10
>3cng_A Nudix hydrolase; structural genomics, APC7497, PSI-2, protei structure initiative; 2.00A {Nitrosomonas europaea atcc 19718}
Probab=14.74 E-value=53 Score=23.13 Aligned_cols=18 Identities=33% Similarity=0.816 Sum_probs=14.0
Q ss_pred eeeccCCCCCCccccccc
Q 032933 9 LKFCPLCPSSSSVRASRG 26 (130)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~ 26 (130)
++|||-|+..-..+.+.|
T Consensus 3 ~~~C~~CG~~~~~~~~~G 20 (189)
T 3cng_A 3 MKFCSQCGGEVILRIPEG 20 (189)
T ss_dssp CCBCTTTCCBCEEECCTT
T ss_pred cccCchhCCccccccccC
Confidence 579999998887776554
Done!