Query         gi|254780715|ref|YP_003065128.1| 50S ribosomal protein L19 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 141
No_of_seqs    113 out of 921
Neff          4.8 
Searched_HMMs 23785
Date          Tue May 31 15:53:21 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780715.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2zjr_M 50S ribosomal protein L 100.0 1.4E-45       0  307.8   4.8  116    2-123    11-126 (166)
  2 2j01_T 50S ribosomal protein L 100.0 4.2E-45       0  303.8  -0.8  116    1-121     1-119 (146)
  3 3ofq_P 50S ribosomal protein L 100.0 5.6E-45       0  303.0  -1.3  112    2-118     2-113 (114)
  4 3bbo_R Ribosomal protein L19;  100.0 7.6E-44       0  295.9  -5.0  114    1-115   120-233 (233)
  5 2ftc_K 39S ribosomal protein L 100.0 4.3E-38 1.8E-42  259.6   8.8   98   21-119     1-98  (98)
  6 1zq1_A Glutamyl-tRNA(Gln) amid  81.5     1.9 8.2E-05   22.1   4.7   63   24-95     12-74  (438)
  7 3m4w_A Sigma-E factor regulato  74.0     4.7  0.0002   19.7   4.9   51   42-95     15-65  (295)
  8 2e6z_A Transcription elongatio  69.7     5.9 0.00025   19.1   6.0   50   21-81      5-54  (59)
  9 1nz9_A Transcription antitermi  66.4     6.3 0.00026   18.9   4.1   36   23-65      4-39  (58)
 10 1jb7_A Telomere-binding protei  66.2     5.2 0.00022   19.4   3.7   44   18-68    107-151 (495)
 11 2zzd_A Thiocyanate hydrolase s  63.0     3.9 0.00016   20.2   2.5   38   19-57     32-73  (126)
 12 3hks_A EIF-5A-2, eukaryotic tr  61.3     8.6 0.00036   18.1   5.2   64   22-92     32-95  (167)
 13 3hht_B NitrIle hydratase beta   59.0       5 0.00021   19.5   2.5   38   19-57    137-178 (229)
 14 1ugp_B NitrIle hydratase beta   58.9     5.1 0.00021   19.5   2.5   38   19-57    134-175 (226)
 15 1bkb_A Translation initiation   50.7      13 0.00054   17.0   5.1   63   21-92     11-75  (136)
 16 3esi_A Uncharacterized protein  49.4      13 0.00056   16.8   4.8   42   23-66     77-118 (129)
 17 1vq8_T 50S ribosomal protein L  44.2      16 0.00068   16.3   5.6   74   17-101    37-113 (120)
 18 1iz6_A Initiation factor 5A; S  43.3      17  0.0007   16.3   5.2   65   20-93      8-74  (138)
 19 1u1z_A (3R)-hydroxymyristoyl-[  40.5      18 0.00077   16.0   4.1   30   23-53    120-149 (168)
 20 3a8g_B NitrIle hydratase subun  35.2      12 0.00051   17.1   1.4   32   20-52    119-154 (212)
 21 2equ_A PHD finger protein 20-l  34.1      23 0.00097   15.3   4.2   50   18-80      4-53  (74)
 22 2wwb_L 60S ribosomal protein L  31.1      26  0.0011   15.0   4.2   73   17-100    44-118 (127)
 23 2rm4_A CG6311-PB, DM EDC3; enh  30.7      26  0.0011   15.0   5.1   60   23-92      8-71  (103)
 24 2jvv_A Transcription antitermi  30.5      26  0.0011   15.0   4.4   10   23-32    127-136 (181)
 25 2zkr_t 60S ribosomal protein L  28.0      29  0.0012   14.7   6.0   75   16-101    42-119 (145)
 26 2fhd_A RAD9 homolog, DNA repai  27.7      22 0.00091   15.5   1.6   11   22-32     62-72  (153)
 27 1qzg_A Protection of telomeres  26.9      30  0.0013   14.6   3.6   29   59-89     67-98  (187)
 28 3cpf_A Eukaryotic translation   25.7      32  0.0013   14.4   4.4   59   22-91     10-72  (138)
 29 2eif_A IF-5A, protein (eukaryo  24.8      33  0.0014   14.3   5.6   66   20-92     12-77  (136)
 30 1dj7_B Ferredoxin thioredoxin   23.7      31  0.0013   14.5   1.8   42   24-65      1-53  (75)
 31 1hr0_W Translation initiation   23.0      21  0.0009   15.6   0.9   22   23-44     46-67  (71)
 32 2d6f_A Glutamyl-tRNA(Gln) amid  21.3      39  0.0016   13.9   3.1   59   23-95     15-73  (435)
 33 3gb3_A Killerred; fluorescent   20.9      25  0.0011   15.1   0.9   44   42-89     91-137 (235)
 34 2eyx_A V-CRK sarcoma virus CT1  20.6      37  0.0015   14.1   1.7   24   22-51     25-48  (67)
 35 2do3_A Transcription elongatio  20.1      41  0.0017   13.7   3.3   28   23-57     17-44  (69)

No 1  
>2zjr_M 50S ribosomal protein L19; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.6 PDB: 1nwx_N* 1nwy_N* 1sm1_N* 1xbp_N* 2zjp_M* 2zjq_M 1nkw_N 3cf5_M* 3dll_M* 1pnu_N 1pny_N 1vor_Q 1vou_Q 1vow_Q 1voy_Q 1vp0_Q
Probab=100.00  E-value=1.4e-45  Score=307.85  Aligned_cols=116  Identities=52%  Similarity=0.955  Sum_probs=107.1

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC
Q ss_conf             35899979999997602798973789989999998358877401234535431366664338863003561302899910
Q gi|254780715|r    2 NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY   81 (141)
Q Consensus         2 nli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~   81 (141)
                      ++|+.+|++++      +++|+|+|||||+|+++|.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++||||
T Consensus        11 ~li~~ie~~~~------k~iP~f~~GDtv~V~~~i~Eg~k~RiQ~FeGvvIa~~~~g~~stftvRki~~G~GVEr~fpl~   84 (166)
T 2zjr_M           11 ELLRGIEQDHT------RQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGEGVERVFPFA   84 (166)
T ss_dssp             HHHHHTTGGGC------CCCCCCSSSEEEEEECCTTSSSCCCCEEEECCEEECCCCGGGCEEEEEEEETTEEEEEEEETT
T ss_pred             HHHHHHHHHHC------CCCCCCCCCCEEEEEEEECCCCCEEEEEEEEEEEEEECCCCCCEEEEEEEECCCCEEEEEEEC
T ss_conf             99999999847------789984899899999997268840513677999998279987538868885485369998716


Q ss_pred             CCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHCCCCCC
Q ss_conf             786101222000204678768750888410220120012123
Q gi|254780715|r   82 SPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGKRAK  123 (141)
Q Consensus        82 SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~~~~~~  123 (141)
                      ||+|++|+|+++|+|||||||||||+.||+|||+++......
T Consensus        85 SP~I~~IeVvr~gkvRRAKLYYLR~~~GK~aRike~~~~~~~  126 (166)
T 2zjr_M           85 SPLVNQVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMK  126 (166)
T ss_dssp             CTTEEEEEEEECCCCSSSCCGGGCC-----------------
T ss_pred             CCCCCEEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             987425889870541456667663372267777787752211


No 2  
>2j01_T 50S ribosomal protein L19; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.6 PDB: 2hgq_S 2hgj_S 2hgu_S 2j03_T 2jl6_T 2jl8_T 2v47_T 2v49_T 2wdi_T 2wdj_T 2wdl_T 2wdn_T 2wh2_T 2wh4_T 2wrj_T 2wrl_T 2wro_T 2wrr_T 2x9s_T 2x9u_T ...
Probab=100.00  E-value=4.2e-45  Score=303.76  Aligned_cols=116  Identities=42%  Similarity=0.818  Sum_probs=109.4

Q ss_pred             CCH---HHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEE
Q ss_conf             935---89997999999760279897378998999999835887740123453543136666433886300356130289
Q gi|254780715|r    1 MNI---IDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRL   77 (141)
Q Consensus         1 Mnl---i~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~   77 (141)
                      ||.   |+.+|.+++     +.++|+|+|||||+|++++.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++
T Consensus         1 m~~~~li~~ie~~~~-----k~~~P~f~~GDtV~V~~~i~eg~k~Riq~F~GvvI~~~~~G~~~tftvRki~~g~GVEr~   75 (146)
T 2j01_T            1 MNRGALIKLVESRYV-----RTDLPEFRPGDTVRVSYKVKEGNRTRIQDFEGIVIRIRRNGFNTTFTVRKVSYGVGVERI   75 (146)
T ss_dssp             CTTHHHHHHHHCCCC-----CSCSCCCCSSCBBCCCCCCBTTBSCCCCCCBCEEEEEECCSSSCEEEEEEEETTEEEEEE
T ss_pred             CCHHHHHHHHHHHHC-----CCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCCCCEEEEEEEECCCCEEEE
T ss_conf             988999999999764-----157997089889999999705886314566688998737996744899998469528999


Q ss_pred             EECCCCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHCCCC
Q ss_conf             99107861012220002046787687508884102201200121
Q gi|254780715|r   78 FPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGKR  121 (141)
Q Consensus        78 fpl~SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~~~~  121 (141)
                      ||||||+|++|||+++|+|||||||||||+.||+|||+++....
T Consensus        76 fpl~SP~I~~IeVir~gkvRRAKLYYLR~~~gK~arike~~~~~  119 (146)
T 2j01_T           76 FPLHSPLIQKIDIVQRGRARRAKLYFIRNLSDREIRRKLRADRK  119 (146)
T ss_dssp             ECSSSSCSCCCBCCCCBCCSSSSCGGGSSSCSSSHHHHSBCCHH
T ss_pred             EECCCCCCCEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHCCC
T ss_conf             87179975779999726501445232305722476544441012


No 3  
>3ofq_P 50S ribosomal protein L19; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_N 1p86_N 2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P 2i2t_P* 2qao_P* 2qba_P* 2qbc_P* 2qbe_P 2qbg_P 2qbi_P* 2qbk_P* 2qov_P 2qox_P 2qoz_P* 2qp1_P* ...
Probab=100.00  E-value=5.6e-45  Score=303.02  Aligned_cols=112  Identities=55%  Similarity=0.917  Sum_probs=109.2

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC
Q ss_conf             35899979999997602798973789989999998358877401234535431366664338863003561302899910
Q gi|254780715|r    2 NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY   81 (141)
Q Consensus         2 nli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~   81 (141)
                      |+|+++|++++     ++++|+|+|||||+|++++.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++||||
T Consensus         2 nli~~le~~~~-----k~~iP~f~~GDtV~V~~~i~eg~K~R~Q~feGvvIa~k~~G~~stftvRki~~g~GVEr~fpl~   76 (114)
T 3ofq_P            2 NIIKQLEQEQM-----KQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTH   76 (114)
T ss_dssp             TTTTTTTGGGC-----CSCCCCCCTTCCCCCCEECCCSSCCCEECCCCCCCBCCCSGGGCEEBCCCCBTTBCEECCEETT
T ss_pred             HHHHHHHHHHH-----HCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEEEEEECCCCCCEEEEEEECCCCCEEEEEECC
T ss_conf             58999999985-----2549984999899999998368876432467999999899868439999972886599999877


Q ss_pred             CCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHC
Q ss_conf             7861012220002046787687508884102201200
Q gi|254780715|r   82 SPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENT  118 (141)
Q Consensus        82 SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~  118 (141)
                      ||+|++|||+++|||||||||||||+.||+|||+++.
T Consensus        77 SP~I~~Iev~~~~kvRRaKLyYLR~~~gK~arike~~  113 (114)
T 3ofq_P           77 SPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERL  113 (114)
T ss_dssp             CGGGCCCCCCSCCCCCSSCCGGGSSCCTTTSCCCCCC
T ss_pred             CCCCCEEEEEECCCEEHHHEEEHHCCCCHHHHHHHHC
T ss_conf             9996437998626231121201005711676422412


No 4  
>3bbo_R Ribosomal protein L19; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00  E-value=7.6e-44  Score=295.88  Aligned_cols=114  Identities=33%  Similarity=0.645  Sum_probs=110.8

Q ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEEC
Q ss_conf             93589997999999760279897378998999999835887740123453543136666433886300356130289991
Q gi|254780715|r    1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPL   80 (141)
Q Consensus         1 Mnli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl   80 (141)
                      +|+|+.||+++++....++++|+|++||||+|++++.|| |+|+|.|+|+||+++|+|+++||||||+++|+|||++|||
T Consensus       120 ~~i~~~l~~~~ie~~~~~k~iP~fr~GDtV~V~~~i~Eg-k~R~Q~FeGvvIa~k~~gi~stftvRki~~GvGVEr~fpl  198 (233)
T 3bbo_R          120 GDIMGILNKKAVHAAEELRPVPGIRTGDIVQIRLEVPEN-KRRLSVYKGIVISRQNAGIHTTIRIRRIIAGVGVEIVFPL  198 (233)
T ss_dssp             -CCSSSCSTTHHHHTTCCSCCSSSCCCSCCCCCCCBCCC-SSCCSCCBCCCCCSCBCCCSSSCBCBCCCCCSTTTCCCCC
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCC-CEEEEEEEEEEEEEECCCCCEEEEEEEECCCCCEEEEEEC
T ss_conf             989999999999998634889976999889999997779-8677767999999858987358999996278538999866


Q ss_pred             CCCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHH
Q ss_conf             07861012220002046787687508884102201
Q gi|254780715|r   81 YSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIK  115 (141)
Q Consensus        81 ~SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik  115 (141)
                      |||+|++|+|+++|||||||||||||+.||+||||
T Consensus       199 ~SP~I~~IeVvr~gKVRRAKLYYLRdr~gk~ariK  233 (233)
T 3bbo_R          199 YSPNIKEIKVVSHRKVRKARLYYLRDKLPRLSTFK  233 (233)
T ss_dssp             BSSSSSCCCCCCCSCCCCSCSSCCCCSSTTCSSCC
T ss_pred             CCCCCCEEEEEECCCCHHHHHHHHHCCCCCCCCCC
T ss_conf             79965659998636400444455504766333749


No 5  
>2ftc_K 39S ribosomal protein L19, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus}
Probab=100.00  E-value=4.3e-38  Score=259.58  Aligned_cols=98  Identities=33%  Similarity=0.588  Sum_probs=94.9

Q ss_pred             CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCHHHHHH
Q ss_conf             89737899899999983588774012345354313666643388630035613028999107861012220002046787
Q gi|254780715|r   21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSK  100 (141)
Q Consensus        21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gkvRrak  100 (141)
                      +|+|+|||||+|++++.|| |+|+|.|+|+||+++++|+++||||||+++|+|||++||||||+|++|||+++|+|||||
T Consensus         1 iP~f~~GD~v~V~~~~~e~-k~r~q~f~GvvI~~~~~g~~stftlR~v~~g~GVE~~fpl~SP~I~~IeV~r~~kvrRak   79 (98)
T 2ftc_K            1 IPEFYVGSILRVTTADPYA-SGKISQFLGICIQRSGRGLGATFILRNVIEGQGVEICFELYNPRVQEIQVVKLEKRLDDS   79 (98)
T ss_pred             CCCCCCCCEEEEEEEECCC-CEEEEEEEEEEEEEECCCCEEEEEEEEEECCCCEEEEEECCCCCCCEEEEEECCCEEEHH
T ss_conf             9964799999999998888-758866899999983898705999988407964899999779983679999836276211


Q ss_pred             HHHHCCCCCCEEEHHHHCC
Q ss_conf             6875088841022012001
Q gi|254780715|r  101 LYYLQDLRGKAARIKENTG  119 (141)
Q Consensus       101 LyYLR~~~gk~arik~~~~  119 (141)
                      ||||||+.+++|+|.+.|+
T Consensus        80 LyYLRd~~~~~s~i~~~~~   98 (98)
T 2ftc_K           80 LLYLRDALPEYSTFDVNMK   98 (98)
T ss_pred             HHHHHCCCCCCCCEECCCC
T ss_conf             0104438864443102359


No 6  
>1zq1_A Glutamyl-tRNA(Gln) amidotransferase subunit D; X-RAY, 3D structure, asparaginase 1 family, GATD subfamily, lyase; 3.00A {Pyrococcus abyssi} SCOP: b.38.3.1 c.88.1.1
Probab=81.50  E-value=1.9  Score=22.11  Aligned_cols=63  Identities=24%  Similarity=0.373  Sum_probs=35.1

Q ss_pred             CCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH
Q ss_conf             378998999999835887740123453543136666433886300356130289991078610122200020
Q gi|254780715|r   24 FSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK   95 (141)
Q Consensus        24 f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk   95 (141)
                      +.+||.|+|... ..+.+   ..|+|+++-....+-...++| |..+|.  -.-|+.-  .|++||++..++
T Consensus        12 ~~~gd~v~~~~~-~~~~~---~~~~g~~~~~~~~~~~~~~~~-kl~~gy--n~~~~~~--~~~~~~~~~~~~   74 (438)
T 1zq1_A           12 INVGDFVRITKE-EDGEE---VTYEGYIMPPYELSAGDTLVL-KLENGY--NIGIALE--KIRRIEVLERAK   74 (438)
T ss_dssp             CCTTCEEEEEEE-SSSSE---EECCEEECCCCTTCCCSEEEE-EETTSC--EEEEEGG--GEEEEEEEECCC
T ss_pred             CCCCCEEEEEEE-CCCCC---EEEEEEECCCCCCCCCCEEEE-ECCCCC--EEEEEHH--HCEEEEEECCCC
T ss_conf             899987999992-48884---589999758755689998999-916881--0652578--834899952578


No 7  
>3m4w_A Sigma-E factor regulatory protein RSEB; RSEA, RSEB, RSEP, stress response, sigma factor, periplasm, membrane, transmembrane; 2.30A {Escherichia coli} PDB: 2p4b_A 2v43_A 2v42_A
Probab=74.00  E-value=4.7  Score=19.69  Aligned_cols=51  Identities=20%  Similarity=0.234  Sum_probs=42.8

Q ss_pred             CCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH
Q ss_conf             740123453543136666433886300356130289991078610122200020
Q gi|254780715|r   42 SRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK   95 (141)
Q Consensus        42 ~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk   95 (141)
                      .|.+.|+|+.+-.++..+.+.=.+.-+.+|...|+.-.|..|..   |++|++.
T Consensus        15 ~~~lnY~g~fv~~~~~~~~s~ri~H~~~~~~e~erl~~LdG~~r---evir~~~   65 (295)
T 3m4w_A           15 SQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRR---EVVQRGN   65 (295)
T ss_dssp             HHHSEEEEEEEEEETTEEEEEEEEEEECSSSEEEEEEECSSSCC---EEEEETT
T ss_pred             HHHCCEEEEEEEECCCCEEEEEEEEEEECCEEEEEEEECCCCCE---EEEEECC
T ss_conf             87578349999990990778999999809969999995599942---8999799


No 8  
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=69.73  E-value=5.9  Score=19.08  Aligned_cols=50  Identities=24%  Similarity=0.317  Sum_probs=32.8

Q ss_pred             CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC
Q ss_conf             8973789989999998358877401234535431366664338863003561302899910
Q gi|254780715|r   21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY   81 (141)
Q Consensus        21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~   81 (141)
                      -..|.|||+|.|    .+|.-.   ...|.+++..+    ..+|++---.+.+-...||..
T Consensus         5 ~~~F~~GD~VeV----~~GEl~---~l~G~V~~v~~----d~Vti~p~~~~L~~~l~fp~~   54 (59)
T 2e6z_A            5 SSGFQPGDNVEV----CEGELI---NLQGKILSVDG----NKITIMPKHEDLKDMLEFPAQ   54 (59)
T ss_dssp             CSSCCTTSEEEE----CSSTTT---TCEEEECCCBT----TEEEEEECCSSCCSCEEEETT
T ss_pred             CCCCCCCCEEEE----ECCEEC---CCEEEEEEECC----CEEEEEECCCCCCCCEEECHH
T ss_conf             365499998999----226763---77999999729----999997774035850760789


No 9  
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=66.39  E-value=6.3  Score=18.90  Aligned_cols=36  Identities=19%  Similarity=0.302  Sum_probs=23.9

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEE
Q ss_conf             7378998999999835887740123453543136666433886
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTV   65 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftv   65 (141)
                      +|.+||.|+|    .+|.   .+-|+|.+.......-..+..|
T Consensus         4 ~F~~Gd~V~V----~~Gp---F~g~~g~V~~i~~~~~rv~Vll   39 (58)
T 1nz9_A            4 AFREGDQVRV----VSGP---FADFTGTVTEINPERGKVKVMV   39 (58)
T ss_dssp             SCCTTCEEEE----CSGG---GTTCEEEEEEEETTTTEEEEEE
T ss_pred             CCCCCCEEEE----ECCC---CCCCEEEEEEECCCCCEEEEEE
T ss_conf             3069999999----0368---9998999999918899999999


No 10 
>1jb7_A Telomere-binding protein alpha subunit; DNA-protein interactions, DNA hydration, sodium ION, quadruplex DNA, DNA-binding protein/DNA complex; 1.86A {Sterkiella nova} SCOP: b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1kix_A 1otc_A* 2i0q_A 1ph6_A 1ph1_A 1phj_A* 1ph3_A 1pa6_A 1ph4_A 1ph7_A 1ph8_A 1ph9_A 1ph5_A* 1ph2_A* 1k8g_A
Probab=66.18  E-value=5.2  Score=19.40  Aligned_cols=44  Identities=16%  Similarity=0.236  Sum_probs=30.6

Q ss_pred             CCCCCCC-CCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEE
Q ss_conf             2798973-78998999999835887740123453543136666433886300
Q gi|254780715|r   18 KRSLPKF-SPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKI   68 (141)
Q Consensus        18 k~~~P~f-~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki   68 (141)
                      ..++|.+ .+||+|.++- +      .+|.|.|=..+.-+.+-+++|.|-.-
T Consensus       107 ~e~LP~V~~vGDIIrlhr-v------ki~~~~g~~q~v~~~~~~SsfaLF~~  151 (495)
T 1jb7_A          107 FEDLPIIHRAGDIIRVHR-A------TLRLYNGQRQFNANVFYSSSWALFST  151 (495)
T ss_dssp             GGGSCCCCEETCEEEEEE-E------EEEEETTEEEEEEETTTTCEEEEECS
T ss_pred             HHHCCCCCCCCCEEEEEE-E------EEEEECCEEEEEECCCCCEEEEEEEC
T ss_conf             778999688898999988-8------99999886678734875067899806


No 11 
>2zzd_A Thiocyanate hydrolase subunit alpha; scnase, cobalt, metalloprotein, sulfenic acid, sulfinic acid, nitrIle hydratase, carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus thioparus} PDB: 2dd4_A 2dxb_A 2dd5_A* 2dxc_A*
Probab=62.98  E-value=3.9  Score=20.24  Aligned_cols=38  Identities=21%  Similarity=0.292  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC
Q ss_conf             79897378998999999835887740123----4535431366
Q gi|254780715|r   19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR   57 (141)
Q Consensus        19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~   57 (141)
                      ..-|.|.+||.|+|.- .....-+|++.|    .|++++..+.
T Consensus        32 ~~~prF~vGD~Vrv~~-~~p~gHtRlP~YvRGk~G~I~~~~G~   73 (126)
T 2zzd_A           32 AGKSKFNVGDRVRIKD-LPDLFYTRTMTYTRGATGTIVRLVYE   73 (126)
T ss_dssp             TCSCSSCTTCEEEECC-CCCSSCCSSCGGGTTCEEEEEEEEEE
T ss_pred             CCCCCCCCCCEEEEEC-CCCCCCEECCHHHCCCEEEEEEEECC
T ss_conf             7899347899999824-89999404767778987899997577


No 12 
>3hks_A EIF-5A-2, eukaryotic translation initiation factor 5A-2; beta barrel, alternative splicing, hypusine, protein biosynthesis; 2.30A {Arabidopsis thaliana}
Probab=61.29  E-value=8.6  Score=18.06  Aligned_cols=64  Identities=11%  Similarity=0.153  Sum_probs=40.7

Q ss_pred             CCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE
Q ss_conf             97378998999999835887740123453543136666433886300356130289991078610122200
Q gi|254780715|r   22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR   92 (141)
Q Consensus        22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r   92 (141)
                      -+++.|+.|.+     +|...++..|+=.--+++| +--..+.+|+++.|--+|.+||-.. .++...|-+
T Consensus        32 s~lkkG~~i~i-----dg~pc~V~~~~~skpGKhG-~A~~rik~kdi~tG~~~e~t~~s~d-~ve~~~v~~   95 (167)
T 3hks_A           32 GNIRKGGHIVI-----KNRPCKVVEVSTSKTGKHG-HAKCHFVAIDIFTAKKLEDIVPSSH-NCDVPHVNR   95 (167)
T ss_dssp             GGCCTTSEEEE-----TTEEEEEEEEEEECSSTTC-CCEEEEEEEETTTCCEEEEEEETTS-EEEEECCEE
T ss_pred             HHCCCCCEEEE-----CCEEEEEEEEEEECCCCCC-CCEEEEEEEECCCCCEEEEEECCCC-EEEEEEEEE
T ss_conf             99667889999-----9999999999986787775-5179999997147957899704763-001467898


No 13 
>3hht_B NitrIle hydratase beta subunit; alpha and beta proteins (A+B), lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_B 1v29_B
Probab=59.01  E-value=5  Score=19.52  Aligned_cols=38  Identities=26%  Similarity=0.428  Sum_probs=27.3

Q ss_pred             CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC
Q ss_conf             79897378998999999835887740123----4535431366
Q gi|254780715|r   19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR   57 (141)
Q Consensus        19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~   57 (141)
                      ..-|.|.+||.|+|.- .....-+|+..|    .|++++..+.
T Consensus       137 ~~~p~F~vGd~Vrv~~-~~~~gHtR~P~Y~rg~~G~i~~~~g~  178 (229)
T 3hht_B          137 SASPRFKVGERIKTKN-IHPTGHTRFPRYARDKYGVIDEVYGA  178 (229)
T ss_dssp             SSCCSCCTTCEEEECC-CCCSSCCSCCGGGTTCEEEEEEEEEE
T ss_pred             CCCCCCCCCCEEEEEC-CCCCCCCCCHHHHCCCEEEEEEEECC
T ss_conf             8898567898778842-78998500657767874699988368


No 14 
>1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin cobalt, hydration, lyase; HET: BUA; 1.63A {Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B 1ugq_B 1ugr_B 1ugs_B
Probab=58.87  E-value=5.1  Score=19.49  Aligned_cols=38  Identities=26%  Similarity=0.475  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC
Q ss_conf             79897378998999999835887740123----4535431366
Q gi|254780715|r   19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR   57 (141)
Q Consensus        19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~   57 (141)
                      ..-|.|.+||.|+|.- .....-+|++.|    .|++.+.++.
T Consensus       134 ~~~p~F~vGd~Vrv~~-~~~~gHtR~P~Y~rg~~G~I~~~~g~  175 (226)
T 1ugp_B          134 DRPPKFKEGDVVRFST-ASPKGHARRARYVRGKTGTVVKHHGA  175 (226)
T ss_dssp             SSCCSCCTTCEEEECC-CCCSSCCCCCGGGTTCEEEEEEEEEE
T ss_pred             CCCCCCCCCCEEEECC-CCCCCCEECCHHHCCCEEEEEEEEEC
T ss_conf             8998478999899787-89988201736667875699998506


No 15 
>1bkb_A Translation initiation factor 5A; 1.75A {Pyrobaculum aerophilum} SCOP: b.34.5.2 b.40.4.5
Probab=50.66  E-value=13  Score=16.97  Aligned_cols=63  Identities=13%  Similarity=0.286  Sum_probs=37.5

Q ss_pred             CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC-CC-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE
Q ss_conf             8973789989999998358877401234535431366-66-433886300356130289991078610122200
Q gi|254780715|r   21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR-GI-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR   92 (141)
Q Consensus        21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~-G~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r   92 (141)
                      .-+++.|++|.+     +|...++--++=.   +-++ |- -..+.+|++..|--+|.+|+...+ ++...+-+
T Consensus        11 a~~lkkG~~i~~-----dg~p~~V~~~~~~---kpGk~G~a~~~~k~k~l~tG~~~e~~~~~~e~-ve~~~v~~   75 (136)
T 1bkb_A           11 AGELKEGSYVVI-----DGEPCRVVEIEKS---KTGKHGSAKARIVAVGVFDGGKRTLSLPVDAQ-VEVPIIEK   75 (136)
T ss_dssp             GGGCCTTCEEEE-----TTEEEEEEEEEEE---CCSTTSCCEEEEEEEETTTCCEEEEEEETTSE-EEECCCEE
T ss_pred             HHHCCCCCEEEE-----CCEEEEEEEEEEE---CCCCCCCEEEEEEEEECCCCCEEEEEECCCCE-EEEEEEEE
T ss_conf             999756889999-----9999999999988---58877743899999982589699998138758-82404844


No 16 
>3esi_A Uncharacterized protein; protein from erwinia carotovora subsp. atroseptica (pectobacterium atrosepticum), structural genomics; 2.50A {Pectobacterium atrosepticum}
Probab=49.37  E-value=13  Score=16.84  Aligned_cols=42  Identities=14%  Similarity=0.203  Sum_probs=28.9

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEE
Q ss_conf             73789989999998358877401234535431366664338863
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVR   66 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvR   66 (141)
                      .+.|||++.+.+.+.. .+.++ .|...|....+.-+-++-+++
T Consensus        77 ~V~Pgd~l~i~~~~~~-~~~~l-~f~~~~~~~dg~~~~asG~l~  118 (129)
T 3esi_A           77 PILPGKTLRLVLIWHA-GKQSL-TFSYSILEGDTERTASSGKIK  118 (129)
T ss_dssp             CCCTTCEEEEEEEEET-TTTEE-EEEEEEEETTEEEEEEEEEEE
T ss_pred             CCCCCCEEEEEEEEEE-CCCCE-EEEEEEEECCCCEEEEEEEEE
T ss_conf             3099999999999995-58708-999999972499999999999


No 17 
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...
Probab=44.18  E-value=16  Score=16.34  Aligned_cols=74  Identities=20%  Similarity=0.233  Sum_probs=39.0

Q ss_pred             HCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCC---CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEEC
Q ss_conf             0279897378998999999835887740123453543136666---4338863003561302899910786101222000
Q gi|254780715|r   17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGI---NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRR   93 (141)
Q Consensus        17 ~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~---~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~   93 (141)
                      ..+++| ++.||+|.|   +.-..|+    =+|-|+.+....-   =..+++.+   .-|-+.-+|+|..++.=++..-.
T Consensus        37 g~R~~~-IkkGD~V~V---i~Gk~KG----k~GkV~~V~~k~~rV~Vegvn~~k---~~~k~~~~pIh~SNV~i~~~~~~  105 (120)
T 1vq8_T           37 GQRNVR-VNAGDTVEV---LRGDFAG----EEGEVINVDLDKAVIHVEDVTLEK---TDGEEVPRPLDTSNVRVTDLDLE  105 (120)
T ss_dssp             TCSEEE-CCTTCEEEE---CSSTTTT----CEEEEEEEETTTTEEEETTCEEEC---SSSCEEECCBCGGGEEEEECCCC
T ss_pred             CCCCCC-EECCCEEEE---EECCCCC----CCCEEEEEECCCCEEEEECCEEEE---CCCCEEECCCCHHHEEEEECCCC
T ss_conf             985331-507999999---5667699----753299998679999994828995---58977864346488899847678


Q ss_pred             CHHHHHHH
Q ss_conf             20467876
Q gi|254780715|r   94 GKVRRSKL  101 (141)
Q Consensus        94 gkvRrakL  101 (141)
                      ...|.++|
T Consensus       106 ~~~R~~~l  113 (120)
T 1vq8_T          106 DEKREARL  113 (120)
T ss_dssp             CHHHHHHH
T ss_pred             CCHHHHHH
T ss_conf             70476676


No 18 
>1iz6_A Initiation factor 5A; SH3-like barrel, OB fold, biosynthetic protein; 2.00A {Pyrococcus horikoshii OT3} SCOP: b.34.5.2 b.40.4.5
Probab=43.31  E-value=17  Score=16.25  Aligned_cols=65  Identities=15%  Similarity=0.261  Sum_probs=38.2

Q ss_pred             CCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC-CC-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEEC
Q ss_conf             98973789989999998358877401234535431366-66-4338863003561302899910786101222000
Q gi|254780715|r   20 SLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR-GI-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRR   93 (141)
Q Consensus        20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~-G~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~   93 (141)
                      +.-++++|.++.+     +|...++--++=   .+-++ |- -..+.+||+..|--+|.+|+... .++...+-++
T Consensus         8 ~~~~lk~G~~i~~-----~g~p~~V~~~~~---~kpGk~G~a~~~~k~knl~tG~~~e~~~~~~e-~ve~~~v~~~   74 (138)
T 1iz6_A            8 QVSKLKPGRYIII-----DDEPCRIVNITV---SSPGKHGSAKARIEAVGIFDGKVRSIVKPTSA-EVDVPIIDKK   74 (138)
T ss_dssp             EGGGCCTTSEEEE-----TTEEEEEEEEEE---CCCCTTSCCEEEEEEEETTTCCEEEEEEETTS-EEEEECCEEE
T ss_pred             EHHHCCCCCEEEE-----CCEEEEEEEEEE---ECCCCCCCEEEEEEEEECCCCCEEEEEEECCC-CCCCCEEEEE
T ss_conf             9889746899999-----999999999998---86987864189999998267968999982788-4210147667


No 19 
>1u1z_A (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase; fatty acid biosynthesis, hot DOG fold, lyase; 2.50A {Pseudomonas aeruginosa} SCOP: d.38.1.6
Probab=40.46  E-value=18  Score=15.98  Aligned_cols=30  Identities=20%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEE
Q ss_conf             7378998999999835887740123453543
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIA   53 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~   53 (141)
                      .+.|||++.+..++.. .+..+-.|+|.+.-
T Consensus       120 ~V~PGd~L~i~~~i~~-~~~~~~~~~g~~~V  149 (168)
T 1u1z_A          120 PVLPGDQLQLHAKFIS-VKRSIWKFDCHATV  149 (168)
T ss_dssp             CCCTTCEEEEEEEEEE-EETTEEEEEEEEEE
T ss_pred             CCCCCCEEEEEEEEEE-EECCEEEEEEEEEE
T ss_conf             5599999999999999-75999999999999


No 20 
>3a8g_B NitrIle hydratase subunit beta; Fe, iron, lyase, metal-binding, oxidation; 1.11A {Rhodococcus erythropolis} PDB: 2ahj_B 2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B 2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 2qdy_B 3a8h_B 3a8l_B 3a8o_B 3a8m_B 1ahj_B
Probab=35.20  E-value=12  Score=17.09  Aligned_cols=32  Identities=22%  Similarity=0.286  Sum_probs=22.1

Q ss_pred             CCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEE
Q ss_conf             9897378998999999835887740123----45354
Q gi|254780715|r   20 SLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCI   52 (141)
Q Consensus        20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI   52 (141)
                      +-|.|.+||.|+|.- .....-+|+..|    .|++.
T Consensus       119 ~~p~F~vGd~Vrv~~-~~~~gHtRlP~Y~rgk~G~I~  154 (212)
T 3a8g_B          119 ETTTFEVGQRVRVRD-EYVPGHIRMPAYCRGRVGTIS  154 (212)
T ss_dssp             CCCCCCTTCEEEECC-CCCSSCCSCCGGGTTCEEEEE
T ss_pred             CCCCCCCCCEEEECC-CCCCCCEECCHHHCCCEEEEE
T ss_conf             898679999899754-899983016166668747998


No 21 
>2equ_A PHD finger protein 20-like 1; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=34.11  E-value=23  Score=15.35  Aligned_cols=50  Identities=24%  Similarity=0.232  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEEC
Q ss_conf             279897378998999999835887740123453543136666433886300356130289991
Q gi|254780715|r   18 KRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPL   80 (141)
Q Consensus        18 k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl   80 (141)
                      ....++|++||.|...+  .. .    +.|.|.+.+....|   +|+|.= .+  |-+.+.+.
T Consensus         4 ~~s~~~~~vGd~v~Arw--sD-~----~~Y~a~I~~~~~~~---~y~V~f-dD--G~~e~V~~   53 (74)
T 2equ_A            4 GSSGFDFKAGEEVLARW--TD-C----RYYPAKIEAINKEG---TFTVQF-YD--GVIRCLKR   53 (74)
T ss_dssp             CCSCCCCCTTCEEEEEC--SS-S----SEEEEEEEEESTTS---SEEEEE-TT--SCEEEECG
T ss_pred             CCCCCCCCCCCEEEEEC--CC-C----CEEEEEEEEECCCC---EEEEEE-EC--CCEEEEEH
T ss_conf             87776678799999997--99-9----49989999987899---799999-66--99999708


No 22 
>2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_L 2ww9_L 1s1i_U
Probab=31.08  E-value=26  Score=15.03  Aligned_cols=73  Identities=18%  Similarity=0.161  Sum_probs=38.4

Q ss_pred             HCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEE--CCCCCCEEEEECCCCCEEEEEEEECC
Q ss_conf             0279897378998999999835887740123453543136666433886300--35613028999107861012220002
Q gi|254780715|r   17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKI--SYGEGMNRLFPLYSPMIQDITVIRRG   94 (141)
Q Consensus        17 ~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki--~~g~GVE~~fpl~SP~i~~Iev~r~g   94 (141)
                      ..+.+| ++.||+|.|   +.-..|+    -+|.|+++....  ...+|-.+  .-.-|-+.-.|+|..++.=++. ...
T Consensus        44 ~~rs~~-IrkGD~V~V---i~G~~KG----k~GkV~~V~~~~--~kV~VEgvn~~K~~~k~~~~pIh~SNV~i~~~-~~d  112 (127)
T 2wwb_L           44 GIKALP-IRRDDEVLV---VRGSKKG----QEGKISSVYRLK--FAVQVDKVTKEKVNGASVPINLHPSKLVITKL-HLD  112 (127)
T ss_dssp             SCSEEE-CCTTSEEEE---CSSSSTT----CEEEEEEEETTT--TEEEESSCCCCBTTTBCCCCCBCGGGEEEEEC-CCC
T ss_pred             CCCCCE-EECCCEEEE---EECCCCC----CCCEEEEEECCC--CEEEEECEEEEECCCCCEECCCCCHHEEEEEC-CCC
T ss_conf             884110-607999999---7743489----413699998779--99999183899638982427776356799936-789


Q ss_pred             HHHHHH
Q ss_conf             046787
Q gi|254780715|r   95 KVRRSK  100 (141)
Q Consensus        95 kvRrak  100 (141)
                      +.|++.
T Consensus       113 k~rk~~  118 (127)
T 2wwb_L          113 KDRKAL  118 (127)
T ss_dssp             HHHHHH
T ss_pred             CHHHHH
T ss_conf             127766


No 23 
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=30.72  E-value=26  Score=14.99  Aligned_cols=60  Identities=17%  Similarity=0.202  Sum_probs=40.2

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEEC-CCCCCEEEE---ECCCCCEEEEEEEE
Q ss_conf             73789989999998358877401234535431366664338863003-561302899---91078610122200
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKIS-YGEGMNRLF---PLYSPMIQDITVIR   92 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~-~g~GVE~~f---pl~SP~i~~Iev~r   92 (141)
                      +=.+|..|.++-  .+    -+-.|+|.+.+..    ..++||+|.+ +|+..-..|   -|-.-.|+++++++
T Consensus         8 e~~IG~~VSi~C--~d----~lgvyQG~I~~vs----~q~Itl~~af~NGvPlk~~~~eVTLsa~DI~~LkiI~   71 (103)
T 2rm4_A            8 QDWIGCAVSIAC--DE----VLGVFQGLIKQIS----AEEITIVRAFRNGVPLRKQNAEVVLKCTDIRSIDLIE   71 (103)
T ss_dssp             GGGTTCEEEEEE--CT----TTCEEEEEEEEEE----TTEEEEEEEEETTEECSCSSSCEEEETTTEEEEEEEE
T ss_pred             CCCEEEEEEEEE--CC----CCCEEEEEEEEEC----CCEEEEEEHHHCCCCCCCCCCEEEEEHHHCCCCEEEE
T ss_conf             250207999997--79----8737878999843----4448973232478765568834898824321102652


No 24 
>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G
Probab=30.47  E-value=26  Score=14.97  Aligned_cols=10  Identities=40%  Similarity=0.813  Sum_probs=4.4

Q ss_pred             CCCCCCEEEE
Q ss_conf             7378998999
Q gi|254780715|r   23 KFSPGDTLCV   32 (141)
Q Consensus        23 ~f~~GD~v~V   32 (141)
                      .|.+||.|+|
T Consensus       127 ~~~~Gd~V~I  136 (181)
T 2jvv_A          127 LFEPGEMVRV  136 (181)
T ss_dssp             CCCTTEEEEE
T ss_pred             CCCCCCEEEE
T ss_conf             1007988999


No 25 
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=27.96  E-value=29  Score=14.70  Aligned_cols=75  Identities=15%  Similarity=0.185  Sum_probs=45.3

Q ss_pred             HHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEE-EEEEEECCCCCCCEEEEEEEC--CCCCCEEEEECCCCCEEEEEEEE
Q ss_conf             602798973789989999998358877401234-535431366664338863003--56130289991078610122200
Q gi|254780715|r   16 ESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYE-GVCIARSGRGINKNFTVRKIS--YGEGMNRLFPLYSPMIQDITVIR   92 (141)
Q Consensus        16 ~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~-GvvI~~~~~G~~stftvRki~--~g~GVE~~fpl~SP~i~~Iev~r   92 (141)
                      +..+.+| ++.||+|.|    .-|+-.-   -+ |-|..+...  +..+.|-.+.  ---|-+.-+|+|..++.=+++. 
T Consensus        42 y~vRs~p-VrkgD~V~V----~RG~fkG---~e~GKV~~V~~k--~~~I~VEgvt~~K~dG~~v~~pIhpSnv~ItkL~-  110 (145)
T 2zkr_t           42 YNVRSMP-IRKDDEVQV----VRGHYKG---QQIGKVVQVYRK--KYVIYIERVQREKANGTTVHVGIHPSKVVITRLK-  110 (145)
T ss_dssp             -CC-CCB-CCTTCEEEE----CSSTTTT---CCSEEEEEEETT--TTEEEETTCEEECSSCCEEECCBCGGGEEECC-C-
T ss_pred             CCCCCEE-ECCCCEEEE----EECCCCC---CCCCEEEEEEEC--CCEEEECCEEEECCCCCEEECCCCCCCEEEEEEC-
T ss_conf             3975120-136999999----7279788---768679999807--5199975668982699776135275106999862-


Q ss_pred             CCHHHHHHH
Q ss_conf             020467876
Q gi|254780715|r   93 RGKVRRSKL  101 (141)
Q Consensus        93 ~gkvRrakL  101 (141)
                      ..+.|++.|
T Consensus       111 lDk~Rk~~L  119 (145)
T 2zkr_t          111 LDKDRKKIL  119 (145)
T ss_dssp             CCHHHHHHH
T ss_pred             CCHHHHHHH
T ss_conf             681689986


No 26 
>2fhd_A RAD9 homolog, DNA repair protein RHP9/CRB2; tamdem tudor domains, cell cycle; HET: DNA MSE PO4; 2.40A {Schizosaccharomyces pombe}
Probab=27.73  E-value=22  Score=15.53  Aligned_cols=11  Identities=18%  Similarity=0.126  Sum_probs=9.3

Q ss_pred             CCCCCCCEEEE
Q ss_conf             97378998999
Q gi|254780715|r   22 PKFSPGDTLCV   32 (141)
Q Consensus        22 P~f~~GD~v~V   32 (141)
                      -++++||+|+|
T Consensus        62 LeLRiGD~VKV   72 (153)
T 2fhd_A           62 FFLKKGDVVQS   72 (153)
T ss_dssp             SCCCTTCEEEE
T ss_pred             CCCCCCCEEEE
T ss_conf             02236987885


No 27 
>1qzg_A Protection of telomeres protein 1; protrein-DNA complex, single-stranded telomeric DNA, DNA binding protein/DNA complex; HET: TMP; 1.90A {Schizosaccharomyces pombe} SCOP: b.40.4.3 PDB: 1qzh_A
Probab=26.94  E-value=30  Score=14.58  Aligned_cols=29  Identities=14%  Similarity=0.160  Sum_probs=12.2

Q ss_pred             CCCEEEEEEEC---CCCCCEEEEECCCCCEEEEE
Q ss_conf             64338863003---56130289991078610122
Q gi|254780715|r   59 INKNFTVRKIS---YGEGMNRLFPLYSPMIQDIT   89 (141)
Q Consensus        59 ~~stftvRki~---~g~GVE~~fpl~SP~i~~Ie   89 (141)
                      --+||+|=.-+   .+.|+.  ..+|+|..+.+-
T Consensus        67 y~~tl~I~D~S~~~~~~gL~--v~iF~~~~e~LP   98 (187)
T 1qzg_A           67 WVTTVYLWDPTCDTSSIGLQ--IHLFSKQGNDLP   98 (187)
T ss_dssp             EEEEEEEECTTSCTTSCCEE--EEEEESSSSCSC
T ss_pred             EEEEEEEECCCCCCCCCCEE--EEEECCCHHHCC
T ss_conf             79999998599888888679--999899967889


No 28 
>3cpf_A Eukaryotic translation initiation factor 5A-1; structural genomics consortium, leukemia, apoptosis, SGC, acetylation, alternative splicing; 2.50A {Homo sapiens}
Probab=25.72  E-value=32  Score=14.44  Aligned_cols=59  Identities=14%  Similarity=0.183  Sum_probs=36.3

Q ss_pred             CCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCC---C-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEE
Q ss_conf             9737899899999983588774012345354313666---6-43388630035613028999107861012220
Q gi|254780715|r   22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRG---I-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVI   91 (141)
Q Consensus        22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G---~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~   91 (141)
                      -+++.|+.|.+     +|....+     +-+.....|   - -..+.+||+..|--+|.+|+... .++...+-
T Consensus        10 s~lkkG~~i~~-----~G~p~~V-----~~~~~~kpgk~G~a~v~~k~knl~tG~~~e~t~~~~d-~ve~~~v~   72 (138)
T 3cpf_A           10 SALRKNGFVVL-----KGRPCKI-----VEMSTSKTGKHGHAKVHLVGIDIFTGKKYEDICPSTH-NMDVPNIK   72 (138)
T ss_dssp             GGCCTTSEEEE-----TTEEEEE-----EEEEEECC----CCEEEEEEEETTTCCEEEEEEETTS-EEEEECCE
T ss_pred             HHCCCCCEEEE-----CCEEEEE-----EEEEEECCCCCCCEEEEEEEEECCCCCEEEEEECCCC-EEEEEEEE
T ss_conf             99767899999-----9999999-----9999986867876699999999789999999856996-99877899


No 29 
>2eif_A IF-5A, protein (eukaryotic translation initiation factor 5A); EIF-5A, OB-fold, structural genomics; 1.80A {Methanocaldococcus jannaschii DSM2661} SCOP: b.34.5.2 b.40.4.5 PDB: 1eif_A
Probab=24.79  E-value=33  Score=14.33  Aligned_cols=66  Identities=14%  Similarity=0.088  Sum_probs=38.0

Q ss_pred             CCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE
Q ss_conf             9897378998999999835887740123453543136666433886300356130289991078610122200
Q gi|254780715|r   20 SLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR   92 (141)
Q Consensus        20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r   92 (141)
                      +.-+++.|.++.+     +|...++-.++=.--.+++ +--..+.+||+..|.-+|.+|+... .++...+-+
T Consensus        12 ~~~~lrkG~~i~~-----~g~p~~V~~~~~~k~GkrG-~a~~~~k~knl~tG~~~e~~~~~~e-kve~~~ie~   77 (136)
T 2eif_A           12 NVGSLKVGQYVMI-----DGVPCEIVDISVSKPGKHG-GAKARVVGIGIFEKVKKEFVAPTSS-KVEVPIIDR   77 (136)
T ss_dssp             EGGGCCTTSEEEE-----TTEEEEEEEEEECCCCSSS-CCEEEEEEEESSSCCEEEEEEETTS-EEEEECEEE
T ss_pred             EHHHCCCCCEEEE-----CCEEEEEEEEEEECCCCCC-CCEEEEEEEECCCCCEEEEEEECCC-CEECCCEEE
T ss_conf             6999656899999-----9998999999998688886-4089999999368969999981897-000353666


No 30 
>1dj7_B Ferredoxin thioredoxin reductase: variable chain; 4Fe-4S cluster binding fold with CXCX16CXCX8CXC binding motif, electron transport; 1.60A {Synechocystis SP} SCOP: b.34.4.3 PDB: 2pu9_B 2pvo_B 2puo_B 2puk_B 2pvd_B 2pvg_B
Probab=23.68  E-value=31  Score=14.52  Aligned_cols=42  Identities=29%  Similarity=0.433  Sum_probs=24.7

Q ss_pred             CCCCCEEEEEEEEEC--CCCCCCEEE-----EEEEEEE----CCCCCCCEEEE
Q ss_conf             378998999999835--887740123-----4535431----36666433886
Q gi|254780715|r   24 FSPGDTLCVKTIITE--GDKSRIQAY-----EGVCIAR----SGRGINKNFTV   65 (141)
Q Consensus        24 f~~GD~v~V~~~i~e--g~k~R~Q~F-----~GvvI~~----~~~G~~stftv   65 (141)
                      .++||-|+|...+.=  ..+-|-|.|     +|.+.+.    +|+-+++|+-+
T Consensus         1 mkvGdrVrV~~sv~VyhhP~hr~~~fDl~G~eGeV~~~v~~wkGr~ISanlP~   53 (75)
T 1dj7_B            1 MNVGDRVRVTSSVVVYHHPEHKKTAFDLQGMEGEVAAVLTEWQGRPISANLPV   53 (75)
T ss_dssp             CCTTCEEEECSCCEESCCTTSTTSCEECTTCEEEEEEECSEETTEECCCSSCE
T ss_pred             CCCCCEEEEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCEECCCCCE
T ss_conf             98899999800189984876579884568877777678731379695699769


No 31 
>1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1; 3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W
Probab=23.03  E-value=21  Score=15.56  Aligned_cols=22  Identities=27%  Similarity=0.514  Sum_probs=12.0

Q ss_pred             CCCCCCEEEEEEEEECCCCCCC
Q ss_conf             7378998999999835887740
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRI   44 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~   44 (141)
                      -+.+||.|.|.++-.+-+|.|+
T Consensus        46 ~I~~GD~V~Vel~~yd~~kgrI   67 (71)
T 1hr0_W           46 RILPGDRVVVEITPYDPTRGRI   67 (71)
T ss_dssp             CCCTTCEEEEECCTTCTTCCEE
T ss_pred             EECCCCEEEEEECCCCCCCEEE
T ss_conf             8369999999967667993868


No 32 
>2d6f_A Glutamyl-tRNA(Gln) amidotransferase subunit D; ligase, ligase/RNA complex; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.38.3.1 c.88.1.1
Probab=21.31  E-value=39  Score=13.90  Aligned_cols=59  Identities=22%  Similarity=0.430  Sum_probs=31.7

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH
Q ss_conf             7378998999999835887740123453543136666433886300356130289991078610122200020
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK   95 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk   95 (141)
                      .+.+||.|+|..   + +    ..|+|+++-....+-...++| |.-+|.  -.-|+.-.  + +|+++..++
T Consensus        15 ~~~~g~~v~~~~---~-~----~~~~g~~~p~~~~~~~~~~~~-kl~~gy--n~~~~~~~--~-~~~~~~~~~   73 (435)
T 2d6f_A           15 SIDVGDMVLVEK---P-D----VTYEGMVLDRADDADDRHIVL-KLENGY--NIGVEISD--A-RIELLEKGS   73 (435)
T ss_dssp             TCCTTCEEEEEC---S-S----CEEEEEECCCCTTSCSSEEEE-ECTTSC--EEEEECTT--C-CCCEEECCC
T ss_pred             CCCCCCEEEEEE---C-C----EEEEEEEECCCCCCCCCEEEE-ECCCCC--EEEEECCC--C-EEEEEECCC
T ss_conf             989998899997---9-9----699999957866789988999-936870--16531110--1-799985377


No 33 
>3gb3_A Killerred; fluorescent protein, genetically encoded photosensitizer, phototoxicity; HET: CRQ; 1.75A {Anthomedusae SP} PDB: 3gl4_A* 2wiq_A* 2wis_A* 3a8s_A*
Probab=20.93  E-value=25  Score=15.09  Aligned_cols=44  Identities=18%  Similarity=0.313  Sum_probs=23.5

Q ss_pred             CCCEEEE--EEEEEECCCCC-CCEEEEEEECCCCCCEEEEECCCCCEEEEE
Q ss_conf             7401234--53543136666-433886300356130289991078610122
Q gi|254780715|r   42 SRIQAYE--GVCIARSGRGI-NKNFTVRKISYGEGMNRLFPLYSPMIQDIT   89 (141)
Q Consensus        42 ~R~Q~F~--GvvI~~~~~G~-~stftvRki~~g~GVE~~fpl~SP~i~~Ie   89 (141)
                      +|+-.||  |+|.+...-.+ +..|.-+--+.|++    ||-.+|..++-.
T Consensus        91 eRt~~fEDGGv~t~~~~isleg~~~~~~v~~~G~n----FP~nGPVMqkkt  137 (235)
T 3gb3_A           91 DRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDG----FQPDGPIMRDQL  137 (235)
T ss_dssp             EEEEEETTSCEEEEEEEEEEETTEEEEEEEEEEES----CCTTSTTTTTCE
T ss_pred             EEEEEECCCCEEEEEEEEEEECCEEEEEEEEEEEC----CCCCCCCCCCCC
T ss_conf             99899778969999888998699999999999878----899997433543


No 34 
>2eyx_A V-CRK sarcoma virus CT10 oncogene homolog isoform A; SH3, signaling protein; NMR {Homo sapiens}
Probab=20.61  E-value=37  Score=14.07  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=15.3

Q ss_pred             CCCCCCCEEEEEEEEECCCCCCCEEEEEEE
Q ss_conf             973789989999998358877401234535
Q gi|254780715|r   22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVC   51 (141)
Q Consensus        22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~Gvv   51 (141)
                      -.|+.||+|.|.....+ .     -..|.|
T Consensus        25 L~f~~GDvi~V~~~~~~-g-----Ww~G~~   48 (67)
T 2eyx_A           25 LALEVGELVKVTKINVS-G-----QWEGEC   48 (67)
T ss_dssp             CCBCSSEEEEEEEECTT-S-----EEEEEE
T ss_pred             CCCCCCCEEEEEEECCC-C-----EEEEEE
T ss_conf             67889999999897589-9-----799998


No 35 
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5
Probab=20.12  E-value=41  Score=13.75  Aligned_cols=28  Identities=25%  Similarity=0.412  Sum_probs=20.5

Q ss_pred             CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC
Q ss_conf             73789989999998358877401234535431366
Q gi|254780715|r   23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR   57 (141)
Q Consensus        23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~   57 (141)
                      .|++||-|+|    ..|   +.+--.|+|+...+.
T Consensus        17 ~F~~GDHVkV----i~G---~~~GetGlVV~v~~~   44 (69)
T 2do3_A           17 YFKMGDHVKV----IAG---RFEGDTGLIVRVEEN   44 (69)
T ss_dssp             SCCTTCEEEE----SSS---TTTTCEEEEEEECSS
T ss_pred             ECCCCCEEEE----ECC---EECCCCEEEEEEECC
T ss_conf             1349983899----065---686975799999699


Done!