Query         gi|254780260|ref|YP_003064673.1| 50S ribosomal protein L4 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 207
No_of_seqs    139 out of 2042
Neff          6.7 
Searched_HMMs 23785
Date          Tue May 24 07:13:31 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780260.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3bbo_G Ribosomal protein L4; l 100.0       0       0  493.2   6.8  206    1-207    52-260 (293)
  2 1dmg_A Ribosomal protein L4; a 100.0       0       0  466.8  17.3  205    2-206     1-224 (225)
  3 2zjr_C 50S ribosomal protein L 100.0       0       0  476.1   7.5  198    1-206     1-200 (205)
  4 3ofq_E 50S ribosomal protein L 100.0       0       0  481.9   1.1  200    2-206     1-200 (201)
  5 2j01_F 50S ribosomal protein L 100.0       0       0  452.8  16.8  202    1-207     6-207 (210)
  6 2ftc_D Mitochondrial ribosomal 100.0       0       0  421.0  13.6  171   34-204     1-175 (175)
  7 1vq8_C 50S ribosomal protein L 100.0       0       0  414.8  11.1  203    2-205     1-246 (246)
  8 2wwb_H 60S ribosomal protein L 100.0       0       0  384.8   9.4  204    2-206     4-262 (362)
  9 2zkr_c 60S ribosomal protein L 100.0       0       0  351.0  13.0  202    2-206     6-264 (421)
 10 1i5e_A Uracil phosphoribosyltr  79.3     2.5 0.00011   20.9   4.7   73   93-178   110-182 (209)
 11 1o5o_A Uracil phosphoribosyltr  74.0     2.7 0.00011   20.7   3.6   71   94-178   123-194 (221)
 12 2ehj_A Uracil phosphoribosyltr  71.7     3.7 0.00016   20.0   3.9   72   94-178   110-181 (208)
 13 2j01_P 50S ribosomal protein L  70.8    0.79 3.3E-05   23.8   0.3   36   53-89     20-57  (150)
 14 1v9s_A Uracil phosphoribosyltr  67.0     6.2 0.00026   18.7   4.2   72   93-178   109-181 (208)
 15 1xtt_A Probable uracil phospho  47.8      14 0.00059   16.7   4.6   73   94-178   119-191 (216)
 16 2e55_A Uracil phosphoribosyltr  46.5      15 0.00062   16.6   4.2   70   94-178   109-179 (208)
 17 1bd3_D Uprtase, uracil phospho  44.6      16 0.00067   16.4   3.6   72   93-178   142-216 (243)
 18 2wns_A Orotate phosphoribosylt  43.5      17 0.00069   16.3   5.0   84  119-206   110-196 (205)
 19 3m3h_A OPRT, oprtase, orotate   42.0      17 0.00073   16.1   3.4   83  120-206   137-223 (234)
 20 1ii8_B RAD50 ABC-ATPase; MRE11  36.6      21  0.0009   15.7   4.2   65  103-169    89-157 (174)
 21 2yzk_A OPRT, oprtase, orotate   34.7      21 0.00087   15.7   2.5   61  119-180   105-168 (178)
 22 1f2t_B RAD50 ABC-ATPase; DNA d  31.3      26  0.0011   15.1   3.7   56  107-164    67-126 (148)
 23 2r6f_A Excinuclease ABC subuni  30.8      27  0.0011   15.1   4.1   57  106-164   852-911 (972)
 24 2zkr_g 60S acidic ribosomal pr  29.4     9.3 0.00039   17.7   0.0   67   72-149   110-181 (317)
 25 3mt5_A Potassium large conduct  27.2      31  0.0013   14.7   3.9   45  150-194   414-463 (726)
 26 3b85_A Phosphate starvation-in  26.2      32  0.0014   14.6   5.0   66  120-190   122-198 (208)
 27 1b34_A Protein (small nuclear   25.1      18 0.00077   16.0   0.9   19    4-22     55-73  (119)
 28 1vdm_A Purine phosphoribosyltr  22.9      37  0.0016   14.3   3.3   35  118-153    81-116 (153)
 29 3dez_A OPRT, oprtase, orotate   21.4      40  0.0017   14.1   3.6   83  120-206   149-235 (243)

No 1  
>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00  E-value=0  Score=493.18  Aligned_cols=206  Identities=29%  Similarity=0.383  Sum_probs=198.6

Q ss_pred             CCEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             96226554688645568609779398766899999999999727886200136212148988764558875542365311
Q gi|254780260|r    1 MIELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSV   80 (207)
Q Consensus         1 mm~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rs   80 (207)
                      ||+++|||++|+++|+++||++||+.++|.||||++|+||++|+|||||+||+|+||+|||+|||+||||||||+|++||
T Consensus        52 ~M~~~V~n~~G~~~g~ieL~~~vF~~~~~~dllh~aV~~~~an~RqGta~tKtRsEV~GsgrKp~~QKGTGrAR~Gs~rs  131 (293)
T 3bbo_G           52 LIPLPILNFSGEKVGETFLNLKTAPPEKARAVVHRGLITHLQNKRRGTASTLTRAEVRGGGRKPYPQKKTGRARRGSQGS  131 (293)
T ss_dssp             CEEEECCCSSSCCCSEEEECSSSSSSCCCTTTTTTHHHHHHHHHCCCCCCCCSSTTCSSSCCCCCCCSSSCSCSCCSSSC
T ss_pred             CEEEEEECCCCCCCCEEECCHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             13666874889881059849889489861889999999999861056777985110268889877889998768778879


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCC---CEEEEECC
Q ss_conf             101057742277875320000159999999998787650595899514337877818999984113556---32786157
Q gi|254780260|r   81 SQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLS---NALIIDGC  157 (207)
Q Consensus        81 p~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~---~~llv~~~  157 (207)
                      |+|||||++|||+||+|++++|||++++||++|||.++.++.|+++|++.++.+|||+++++|+++++.   +.|||+ .
T Consensus       132 P~~rGGG~afgPkpr~y~~klnKK~rrlALrsALS~k~~~~~Ivv~d~~~~~~pKTK~~~~~L~~lgl~~~~k~LiV~-~  210 (293)
T 3bbo_G          132 PLRPGGGVIFGPKPRDWTIKMNKKERRLALSTAIASAVGNSFVVEEFAENFEKPKTKDFIAAMQRWGLDPAEKSLFFL-M  210 (293)
T ss_dssp             SSSSSSCCSSCCCSCCCCCCCCSHHHHHHHHHHHHHHHHTTCCCCCCGGGTTCCSSHHHHTTHHHHSCSSCSSSCCEE-C
T ss_pred             CCCCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEE-C
T ss_conf             978888570799864230036799999999999985204760688622445676699999999851755656259996-5


Q ss_pred             CCCHHHHHHHCCCCCCEEEEHHCCCHHHHEECCCEEEEHHHHHHHHHHHC
Q ss_conf             75178999962788956842402887571005908984999999999739
Q gi|254780260|r  158 QLDRNFQLAARNIPNINLLPVQGINVYDILRCSKLVLSKSAIEALEDRFK  207 (207)
Q Consensus       158 ~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit~~Ai~~l~e~lk  207 (207)
                      +.++|+++|+||||+|+++++++|||||||++++||||++||+.|+|||-
T Consensus       211 ~~~enl~~A~RNI~~V~vl~~~~LNVyDLLk~~~LViT~~AL~~Leerlg  260 (293)
T 3bbo_G          211 DLVENVEKSGRNIRTLKLLTPRSLNLFDVLNAEKLVFTEGTIQYLNQRYG  260 (293)
T ss_dssp             CCSSSCCTTTSSSSSCEECCSSCCCHHHHHHSSCEECCTTHHHHHHHHSC
T ss_pred             CCCHHHHHHHHCCCCCEEEECCCEEHHHHHCCCCEEEEHHHHHHHHHHHC
T ss_conf             66189999983889975864597019998379819987899999999958


No 2  
>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP: c.22.1.1
Probab=100.00  E-value=0  Score=466.77  Aligned_cols=205  Identities=34%  Similarity=0.532  Sum_probs=194.2

Q ss_pred             CEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             62265546886455686097793987668999999999997278862001362121489887645588755423653111
Q gi|254780260|r    2 IELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSVS   81 (207)
Q Consensus         2 m~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rsp   81 (207)
                      ++++|||++|+++|+||||++||+.|+|.||||++|+||++|+|||||+||+|+||+|||+|||+||||||||+|++++|
T Consensus         1 a~v~v~~~~g~~~g~ieL~~~vF~~~~r~dli~~~v~~~~a~~Rqg~~~tk~r~ev~gsgkK~~~QKGtGrAR~Gs~~sp   80 (225)
T 1dmg_A            1 AQVDLLNVKGEKVGTLEISDFVFNIDPNYDVMWRYVDMQLSNRRAGTASTKTRGEVSGGGRKPWPQKHTGRARHGSIRSP   80 (225)
T ss_dssp             CEEEEECTTSCEEEEEECCHHHHSSCCCHHHHHHHHHHHHC---------------------------------------
T ss_pred             CEEEEECCCCCEEEEEECCHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHEECCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             92579748998811698499996998669999999999998541676466606522057888477899998887756487


Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCC--CEEEEEC--C
Q ss_conf             01057742277875320000159999999998787650595899514337877818999984113556--3278615--7
Q gi|254780260|r   82 QFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLS--NALIIDG--C  157 (207)
Q Consensus        82 ~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~--~~llv~~--~  157 (207)
                      +|||||+||||+||+|+++||||++++|+++|||+++++++|+|||+|.++++|||++.++|+++++.  +.|||+.  +
T Consensus        81 ~~~gGg~a~gp~pr~~~~klnkK~r~lAl~~ALs~k~~~~~l~VVd~~~~~~~KTK~~~~~l~~l~~~~~~~Liv~~~~~  160 (225)
T 1dmg_A           81 IWRHGGVVHGPKPRDWSKKLNKKMKKLALRSALSVKYRENKLLVLDDLKLERPKTKSLKEILQNLQLSDKKTLIVLPWKE  160 (225)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHHHHHHHHTTCEEEESCCCCSSCCHHHHHHHHHHTTCTTSCEEEEECCCS
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCEEEEECCCC
T ss_conf             03446646799773031368899999999999888752795799614545675689999999873867663145312433


Q ss_pred             CCCHHHHHHHCCCCCCEEEEH---------------HCCCHHHHEECCCEEEEHHHHHHHHHHH
Q ss_conf             751789999627889568424---------------0288757100590898499999999973
Q gi|254780260|r  158 QLDRNFQLAARNIPNINLLPV---------------QGINVYDILRCSKLVLSKSAIEALEDRF  206 (207)
Q Consensus       158 ~~d~n~~~s~rNi~~v~v~~~---------------~~lnv~dll~~~~iVit~~Ai~~l~e~l  206 (207)
                      +.++|+++|+||||+|+++++               +++||||||++++||||++||+.|||+|
T Consensus       161 ~~~~nl~~s~rNip~v~v~~~~~~~~~~~~~~~~~~~~lnvydlL~~~~lVit~~Al~~Lee~L  224 (225)
T 1dmg_A          161 EGYMNVKLSGRNLPDVKVIIADNPNNSKNGEKAVRIDGLNVFDMLKYDYLVLTRDMVSKIEEVL  224 (225)
T ss_dssp             HHHHHHHHHHTTCTTEEEEECCCCSSCCSSCCCCCCTTCCHHHHHHSSEEEEEHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHCCCCEEEEHHHHHHHHHHC
T ss_conf             1146789987278994487346532111234446657855999845891998599999999870


No 3  
>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K* 1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C* 3dll_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C 1pny_C 1vor_F 1vou_F 1vow_F 1voy_F ...
Probab=100.00  E-value=0  Score=476.14  Aligned_cols=198  Identities=35%  Similarity=0.589  Sum_probs=189.4

Q ss_pred             CCEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             96226554688645568609779398766899999999999727886200136212148988764558875542365311
Q gi|254780260|r    1 MIELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSV   80 (207)
Q Consensus         1 mm~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rs   80 (207)
                      ||+++||+.+|+++++++|+      ++|.||||++|+||++|+|||||+||+||||+|||+|||+||||||||+||.||
T Consensus         1 m~~~~v~~~~g~~~~~~~l~------e~~~~ll~~~v~~~~a~~R~gt~~tk~R~ev~g~gkKp~~QKGtGrAR~Gs~rs   74 (205)
T 2zjr_C            1 MAQINVIGQNGGRTIELPLP------EVNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRSV   74 (205)
T ss_dssp             -CCCCCSSCCCCCCCCCCTT------TCCHHHHHHHHHHHHHHHCCCCCCCCCCTTTSCCCSCCSCSSSSSSCCCSCSCS
T ss_pred             CCEEEEECCCCCEEEEEECC------CCCHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             97478755889878876664------236999999999999861357655770003458999836779887578777868


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCE--EEEECCC
Q ss_conf             10105774227787532000015999999999878765059589951433787781899998411355632--7861577
Q gi|254780260|r   81 SQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNA--LIIDGCQ  158 (207)
Q Consensus        81 p~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~--llv~~~~  158 (207)
                      |+|||||+||||+||+|+++||||++++||++|||.|+++++|+|||+|.+++||||+|.++|+++++...  ++++  +
T Consensus        75 P~~rgGg~~fgp~pr~~~~klnkK~r~lAlrsaLS~K~~~~~l~vvd~~~~~~~KTK~~~~~l~~l~~~~~~~vl~v--~  152 (205)
T 2zjr_C           75 PTFVGGGVAFGPKPRSYDYTLPRQVRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLV--T  152 (205)
T ss_dssp             TTSTTSCCTTCCCCCCCCCCCCHHHHHHHHHHHHHHHHHTTCCBCSCCTTSCSSCSHHHHHHHHHTTCCSSSCEEEE--C
T ss_pred             CCCCCCEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCCCCEEEC--C
T ss_conf             81068814058767366766019999999999999997669759983254466675899999987163344441232--5


Q ss_pred             CCHHHHHHHCCCCCCEEEEHHCCCHHHHEECCCEEEEHHHHHHHHHHH
Q ss_conf             517899996278895684240288757100590898499999999973
Q gi|254780260|r  159 LDRNFQLAARNIPNINLLPVQGINVYDILRCSKLVLSKSAIEALEDRF  206 (207)
Q Consensus       159 ~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit~~Ai~~l~e~l  206 (207)
                      .++|+++|+||||+|+++++++|||||||++++||||++|++.|+|+|
T Consensus       153 ~~en~~~s~RNi~~v~v~~~~~lNv~dlLk~~~lVit~~Al~~lee~l  200 (205)
T 2zjr_C          153 DDENTRRAARNVSWVSVLPVAGVNVYDILRHDRLVIDAAALEIVEEEA  200 (205)
T ss_dssp             CCHHHHTSCCCSSSEEEEGGGCCCHHHHHHSSEEECBCTTTSSCCC--
T ss_pred             CCHHHHHHHHCCCCCEEEECCCCCHHHHHCCCCEEEEHHHHHHHHHHH
T ss_conf             536899998387996486538820999966997998799999999996


No 4  
>3ofq_E 50S ribosomal protein L4; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_C 1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E 2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E 2qox_E 2qoz_E* ...
Probab=100.00  E-value=0  Score=481.95  Aligned_cols=200  Identities=29%  Similarity=0.456  Sum_probs=193.1

Q ss_pred             CEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             62265546886455686097793987668999999999997278862001362121489887645588755423653111
Q gi|254780260|r    2 IELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSVS   81 (207)
Q Consensus         2 m~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rsp   81 (207)
                      |++++++..|    +|+|+|.||+.|+|.||||++|+||++|+|||||+||+||||+|||+|||+||||||||+||+|||
T Consensus         1 m~~~~~~~~~----~i~l~~~vF~~~~~~~llh~~v~~~~a~~R~gt~~tK~R~eV~gsgkKp~~QKGtGrAR~Gs~rsP   76 (201)
T 3ofq_E            1 MELVLKDAQS----ALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRAEVTGSGKKPWRQKGTGRARSGSIKSP   76 (201)
T ss_dssp             CCCCCSSSCC----CCCCCSSSSSCCCCHHHHGGGTTTTTTTSSCCCCCCCCTTTCCSCCCCCCCTTTSSSCCCCCTTCT
T ss_pred             CEEEECCCCC----EEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCCCEECCCCCCCCCCCCCCCCC
T ss_conf             9147617778----489588995988669999999999998466566567711110377754236587867875578656


Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCH
Q ss_conf             01057742277875320000159999999998787650595899514337877818999984113556327861577517
Q gi|254780260|r   82 QFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDR  161 (207)
Q Consensus        82 ~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d~  161 (207)
                      +|||||+||||+||+|++++|||++++|+++|||.|+++++|+|||+|.++.||||++.++|+++++.+.|+|+ .+.|+
T Consensus        77 ~~rgGG~a~gp~pr~~~~klnkK~~~lal~~aLs~k~~~~~l~vvd~~~~~~~kTK~~~~~l~~l~~~~~LiV~-~~~~e  155 (201)
T 3ofq_E           77 IWRSGGVTFAARPQDHSQKVNKKMYRGALKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALEDVLIIT-GELDE  155 (201)
T ss_dssp             TSSSCCCTTCCCSCCCCCCCCTTTTHHHHHHHHHHHHHTTCBCCCSSCCCCSSCTTTTTTTTTTTTCCSBCCBC-SSCCT
T ss_pred             EECCCEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCHHHHHHHHHHHCCCEEEEEC-CCCCH
T ss_conf             56698068899855423777779999999999999998448676100124689749999998760656157763-76427


Q ss_pred             HHHHHHCCCCCCEEEEHHCCCHHHHEECCCEEEEHHHHHHHHHHH
Q ss_conf             899996278895684240288757100590898499999999973
Q gi|254780260|r  162 NFQLAARNIPNINLLPVQGINVYDILRCSKLVLSKSAIEALEDRF  206 (207)
Q Consensus       162 n~~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit~~Ai~~l~e~l  206 (207)
                      |+++|+||||+|++++++++||||||++++||||++|++.|||+|
T Consensus       156 nl~~S~RNi~~v~v~~~~~lNvyDlLk~~~lVit~~Al~~Lee~L  200 (201)
T 3ofq_E          156 NLFLAARNLHKVDVRDATGIDPVSLIAFDKVVMTADAVKQVEEML  200 (201)
T ss_dssp             TTTTSSSSCSSCCCBCSTTCCHHHHTTSSBBCCCTTHHHHHHHSC
T ss_pred             HHHHHHHCCCCCEEEECCCCCHHHHHCCCCEEEEHHHHHHHHHHH
T ss_conf             799998387996586448856999966894998789999999972


No 5  
>2j01_F 50S ribosomal protein L4; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: c.22.1.1 PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ...
Probab=100.00  E-value=0  Score=452.84  Aligned_cols=202  Identities=32%  Similarity=0.486  Sum_probs=187.8

Q ss_pred             CCEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             96226554688645568609779398766899999999999727886200136212148988764558875542365311
Q gi|254780260|r    1 MIELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSV   80 (207)
Q Consensus         1 mm~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rs   80 (207)
                      ||++++++.+|+..++++||     .|+|+||||++|+||++|+|||||+||+|+||+|||+|||+||||||||+|++|+
T Consensus         6 ~~~~~v~~~~g~~~~~~~l~-----~~v~~dli~~~v~~~~an~Rqgta~tk~r~ev~gsgrK~~~qKGtGrAR~Gs~rs   80 (210)
T 2j01_F            6 VYQIPVLSPSGRRELAADLP-----AEINPHLLWEVVRWQLAKRRRGTASTKTRGEVAYSGRKIWPQKHTGRARHGDIGA   80 (210)
T ss_dssp             CCCCCSSSCCCCCCCSTTSS-----SCCCHHHHHHHHHHHHHHTCCCCCCCCCTTTSCCCCCCSSCSSSSSSCCCCCTTS
T ss_pred             EEEEEEECCCCCCCCCCCCC-----CCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             88654315888780366257-----6448999999999999854367745761455467787678848998678788868


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf             10105774227787532000015999999999878765059589951433787781899998411355632786157751
Q gi|254780260|r   81 SQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLD  160 (207)
Q Consensus        81 p~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d  160 (207)
                      |+|||||++|||+||+|++++|||++++|+++|||.++++++|+|||+|..+++|||++.++|+++++.+..+++..+.|
T Consensus        81 p~~rgGg~~~gp~~r~~~~klnkK~r~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~l~~~~~vl~~~~~  160 (210)
T 2j01_F           81 PIFVGGGVVFGPKPRDYSYTLPKKVRKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVLLVTGN  160 (210)
T ss_dssp             TTSTTSCCSSCCCCCCCCCCCCHHHHHHHHHHHHHHHHHTTCEEEECCCCCCSSCHHHHHHHHHHHTCCSSSCEEEECSC
T ss_pred             CEECCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCEEEECCCCCCCCCCHHHHHHHHHHCCCCCCCEEECCCH
T ss_conf             84447711179985443678878999999999999997308757723433357786899999998176566530102406


Q ss_pred             HHHHHHHCCCCCCEEEEHHCCCHHHHEECCCEEEEHHHHHHHHHHHC
Q ss_conf             78999962788956842402887571005908984999999999739
Q gi|254780260|r  161 RNFQLAARNIPNINLLPVQGINVYDILRCSKLVLSKSAIEALEDRFK  207 (207)
Q Consensus       161 ~n~~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit~~Ai~~l~e~lk  207 (207)
                      +|+++|+||||+|+++++++||+||||++++||||++|++.|+|+|-
T Consensus       161 en~~~s~rNi~~v~v~~~~~lnv~dlL~~~~lvit~~Al~~l~e~l~  207 (210)
T 2j01_F          161 ELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNRIG  207 (210)
T ss_dssp             HHHHHHHTTCTTEEEECGGGCCHHHHHHSSEEEEEHHHHHHHHHTCC
T ss_pred             HHHHHHHHCCCCCEEEECCCCCHHHHHCCCCEEEEHHHHHHHHHHHC
T ss_conf             78999984779977863388229998569969987899999999966


No 6  
>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_D
Probab=100.00  E-value=0  Score=420.98  Aligned_cols=171  Identities=35%  Similarity=0.522  Sum_probs=163.8

Q ss_pred             HHHHHHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCHHHHHHHHHHH
Q ss_conf             999999997278862001362121489887645588755423653111010577422778-7532000015999999999
Q gi|254780260|r   34 ARVLRWQSWRKRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSVSQFRGGGKAFGPV-PIIGVHALPKKVRSLALRH  112 (207)
Q Consensus        34 ~~~v~~~~~~~R~gta~tk~r~ev~gs~kK~~~QKGtGrAR~Gs~rsp~~rgGg~afgp~-pr~~~~klnkK~~~lAl~s  112 (207)
                      |++|+||++++|||||+||+||||+|||+|||+||||||||+||+|||+|||||+||||+ ||+|+++||||++++|+++
T Consensus         1 h~vv~~~~~~~R~gt~~tk~R~ev~gs~kKp~~QKGtG~AR~Gs~rsP~~~GGG~afgPk~pr~~~~klnKK~~~lAlr~   80 (175)
T 2ftc_D            1 HQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRGPTSYYYMLPMKVRALGLKV   80 (175)
T ss_pred             CHHHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             98899999853324545771643478999977769984247998879824178034489998416676169999999999


Q ss_pred             HHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEEC---CCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEEC
Q ss_conf             87876505958995143378778189999841135563278615---775178999962788956842402887571005
Q gi|254780260|r  113 ALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDG---CQLDRNFQLAARNIPNINLLPVQGINVYDILRC  189 (207)
Q Consensus       113 aLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~---~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~  189 (207)
                      |||.++++++|+|||+|.++++|||.+..+++.+++...+++++   ++.|+|+++|+||||+|+++++++||+||||++
T Consensus        81 aLS~k~~~~~l~Vvd~~~~~~~kTK~~~~~l~~~~~~~~~l~v~~~~~~~~~nl~~s~rNi~~v~v~~~~~lNv~dlL~~  160 (175)
T 2ftc_D           81 ALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYRRWGDSVLLVDLTHEEMPQSIVEATSRLKTFNLIPAVGLNVHSMLKH  160 (175)
T ss_pred             HHHHHHHCCCEEEEECCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHCC
T ss_conf             99998624986986023434578189999998630057403454153188899999973658833643587339999669


Q ss_pred             CCEEEEHHHHHHHHH
Q ss_conf             908984999999999
Q gi|254780260|r  190 SKLVLSKSAIEALED  204 (207)
Q Consensus       190 ~~iVit~~Ai~~l~e  204 (207)
                      ++||||++|++.|||
T Consensus       161 ~~lvit~~Al~~leE  175 (175)
T 2ftc_D          161 QTLVLTLPTVAFLED  175 (175)
T ss_pred             CEEEEEHHHHHHHHC
T ss_conf             929986899888439


No 7  
>1vq8_C 50S ribosomal protein L4E; 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: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...
Probab=100.00  E-value=0  Score=414.83  Aligned_cols=203  Identities=18%  Similarity=0.209  Sum_probs=187.0

Q ss_pred             CEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCC--CCCCCCCCCCCCCCCCCCCC
Q ss_conf             6226554688645568609779398766899999999999727886200136212148--98876455887554236531
Q gi|254780260|r    2 IELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAY--TGSKMYVQKGTGRARHSSKS   79 (207)
Q Consensus         2 m~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta~tk~r~ev~g--s~kK~~~QKGtGrAR~Gs~r   79 (207)
                      |+++|||++|+++|+++||+ ||+.|+|.||||++|+||++|+|||||+||+|+++.+  ++.|+|+||||||||+|++|
T Consensus         1 Mk~~v~~~~g~~~g~i~lp~-vF~~~i~~dllh~~v~~~~an~Rqgt~~tk~rg~~~~~~~~gk~~~~~~~grar~g~~r   79 (246)
T 1vq8_C            1 MQATIYDLDGNTDGEVDLPD-VFETPVRSDLIGKAVRAAQANRKQDYGSDEYAGLRTPAESFGSGRGQAHVPKLDGRARR   79 (246)
T ss_dssp             CEEEEECTTSCEEEEEECCG-GGGSCCCHHHHHHHHHHHHHHTCCCCCCCTTTTTCCCCBCCCSSSSCCCCCEETTEECS
T ss_pred             CCEEEECCCCCEEEEEECHH-HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCC
T ss_conf             92289768998820787437-64899778999999999997263776777646605641455774334676665657873


Q ss_pred             CCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCE-------------EEEECCCCCCCCHHHHHHHHHH
Q ss_conf             110105774227787-53200001599999999987876505958-------------9951433787781899998411
Q gi|254780260|r   80 VSQFRGGGKAFGPVP-IIGVHALPKKVRSLALRHALSDKFCSNDI-------------MVIDNLVSKECKTKYLVTRFRA  145 (207)
Q Consensus        80 sp~~rgGg~afgp~p-r~~~~klnkK~~~lAl~saLs~k~~~~~l-------------~Vvd~~~~~~~KTK~~~~~L~~  145 (207)
                      +|+|||||+||||+| |+|+++||||++++|+++|||+++.++.+             +|+|++.++.||||++.++|++
T Consensus        80 sP~~rgGg~ahgPk~~r~~~~klnKK~r~~Al~sALs~k~~~~~v~~~~~~~~~~~~~iVv~~~~~~~~KTK~~~~~L~~  159 (246)
T 1vq8_C           80 VPQAVKGRSAHPPKTEKDRSLDLNDKERQLAVRSALAATADADLVADRGHEFDRDEVPVVVSDDFEDLVKTQEVVSLLEA  159 (246)
T ss_dssp             STTSTTCCCSSCCCTTCCCCCCCCHHHHHHHHHHHHHHTTCHHHHHHHTCCCCCSSCSEEECGGGGGCCCHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             88547786316999973542453499999999999999765444321132313666541100001445408999999986


Q ss_pred             CCCCCE-----------------------EEEECCCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEECCC----EEEEHHH
Q ss_conf             355632-----------------------7861577517899996278895684240288757100590----8984999
Q gi|254780260|r  146 LDLSNA-----------------------LIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDILRCSK----LVLSKSA  198 (207)
Q Consensus       146 l~~~~~-----------------------llv~~~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~~~----iVit~~A  198 (207)
                      +++...                       .+++..+.|+|+.+|+||||+|+++++++||+||||++++    +|||++|
T Consensus       160 l~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~vl~~~~~n~~~s~rNip~v~v~~~~~lNvydLl~~~~~~r~vV~T~~A  239 (246)
T 1vq8_C          160 LDVHADIDRADETKIKAGQGSARGRKYRRPASILFVTSDEPSTAARNLAGADVATASEVNTEDLAPGGAPGRLTVFTESA  239 (246)
T ss_dssp             TTCTHHHHHSSCCEECSSGGGGGTCCEECCCCCEEEESSSCCTTTTTSTTCEEEETTTCCHHHHSGGGCCCCCEEEEHHH
T ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCEEEECCCCCHHHHCCCCCCCCEEEEEHHH
T ss_conf             28755415621432223212222331234553311267189999718999669756884099902668668609983999


Q ss_pred             HHHHHHH
Q ss_conf             9999997
Q gi|254780260|r  199 IEALEDR  205 (207)
Q Consensus       199 i~~l~e~  205 (207)
                      |+.|+||
T Consensus       240 l~~l~eR  246 (246)
T 1vq8_C          240 LAEVAER  246 (246)
T ss_dssp             HHHGGGC
T ss_pred             HHHHHCC
T ss_conf             9998549


No 8  
>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 1s1i_D
Probab=100.00  E-value=0  Score=384.79  Aligned_cols=204  Identities=18%  Similarity=0.234  Sum_probs=184.7

Q ss_pred             CEEEEECCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCC-----CCCCCHHHCCCCCCCCC---CCCCCCC
Q ss_conf             622655468864556860977939876689999999999972788620-----01362121489887645---5887554
Q gi|254780260|r    2 IELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCS-----KSKGRSEVAYTGSKMYV---QKGTGRA   73 (207)
Q Consensus         2 m~~~v~~~~g~~~~~i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta-----~tk~r~ev~gs~kK~~~---QKGtGrA   73 (207)
                      ++++|||++|+++|+..+.|+||+.|+|+||||+++++|++|+||||+     .++|++|++|+|++||+   |||||+|
T Consensus         4 p~V~V~~~~G~~~g~~~~lp~VF~~pir~dlv~~vv~~~~aN~RQ~~~~s~~Ag~ktsaes~GtGR~~aRipRqKGtG~a   83 (362)
T 2wwb_H            4 PQVTVHSLTGEATANALPLPAVFSAPIRPDIVHTVFTSVNKNKRQAYAVSEKAGHQTSAESWGTGRAVARIPRVGGGGTG   83 (362)
T ss_dssp             SCCCCCCSSCSCCSCCCCCCGGGCSCCCHHHHHHHHHHHHHHHCCCCCCCSSSSCSSCCSSCCCCSSSCSCSCCCSCSSS
T ss_pred             CEEEEECCCCCCCCCEECCHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCCCCCC
T ss_conf             76789838998856442387781998779999999999998642676777767703457881356567657675899786


Q ss_pred             CCCCCCCCCCCCCCCCCCCCC--CCCCCCCHHHHHHHHHHHHHHHHHHCCCE--------------EEEECCCCCCCCHH
Q ss_conf             236531110105774227787--53200001599999999987876505958--------------99514337877818
Q gi|254780260|r   74 RHSSKSVSQFRGGGKAFGPVP--IIGVHALPKKVRSLALRHALSDKFCSNDI--------------MVIDNLVSKECKTK  137 (207)
Q Consensus        74 R~Gs~rsp~~rgGg~afgp~p--r~~~~klnkK~~~lAl~saLs~k~~~~~l--------------~Vvd~~~~~~~KTK  137 (207)
                      |+|+.++|+|+|||++|||.|  |+|+++||+|++++|++|||++++.++.+              +||||+..+.+|||
T Consensus        84 R~G~~~~p~~~rGG~~f~P~~~~R~~~~KiNkK~rr~Al~SALaa~a~~~~V~argh~i~~v~e~PlVvdd~~~~~~KTK  163 (362)
T 2wwb_H           84 RSGQGAFGNMCRGGRMFAPTKTWRKWNVKVNHNEKRYATASAIAATAVASLVLARGHRVEKIPEIPLVVSTDLESIQKTK  163 (362)
T ss_dssp             SCSSTTTSSSCSSSCCSSSSCSSCCCCCCCCHHHHHHHHHHHHHGGGCSTHHHHHTCCCCSCSSCSBCCCGGGGTCCCHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCCCCCCHH
T ss_conf             78776678615674225899765530110189999999999999863134555416512445657779845755430579


Q ss_pred             HHHHHHHHCCCC---------------------------CEEEEECCCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEECC
Q ss_conf             999984113556---------------------------32786157751789999627889568424028875710059
Q gi|254780260|r  138 YLVTRFRALDLS---------------------------NALIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDILRCS  190 (207)
Q Consensus       138 ~~~~~L~~l~~~---------------------------~~llv~~~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~~  190 (207)
                      +++++|+++++.                           +.+||+.. .|+++.+|+||||+|+++.+++||+|||++++
T Consensus       164 ~av~~Lk~lg~~~di~kv~~s~~~ragkgkmrnrr~~~rk~~LVv~~-~d~~l~kA~RNIPgV~v~~v~~LNv~dLapgg  242 (362)
T 2wwb_H          164 EAVAALKAVGAHSDLLKVLKSKKLRAGKGKYRNRRWTQRRGPLVVYA-EDNGIVKALRNVPGVETANVASLNLLQLAPGA  242 (362)
T ss_dssp             HHHHHHHHHSCSHHHHHHTSTTSCCCCGGGTTSCCSCCCCCCEEEES-SSCCCCTTTSCSSSCEEEESSSCCHHHHSTTS
T ss_pred             HHHHHHHHCCCCHHHHHHHHCCCCCCCCCHHCCCCCCCCCEEEEEEC-CCHHHHHHHCCCCCCEEEECCCCCHHHHHCCC
T ss_conf             99999997599502455430113345531000222467853799936-85589999728999558767973599951547


Q ss_pred             C----EEEEHHHHHHHHHHH
Q ss_conf             0----898499999999973
Q gi|254780260|r  191 K----LVLSKSAIEALEDRF  206 (207)
Q Consensus       191 ~----iVit~~Ai~~l~e~l  206 (207)
                      +    +|||++||+.|++.|
T Consensus       243 ~~gR~vI~TesA~~kLd~~y  262 (362)
T 2wwb_H          243 HLGRFVIWTEAAFTKLDQVW  262 (362)
T ss_dssp             CCCCCEECCTTHHHHHHCCS
T ss_pred             CCCCEEEEEHHHHHHHHHHH
T ss_conf             77854998569999999983


No 9  
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00  E-value=0  Score=351.04  Aligned_cols=202  Identities=19%  Similarity=0.158  Sum_probs=175.8

Q ss_pred             CEEEEECCCCCEEEE-EEECHHHHCCCCCHHHHHHHHHHHHHCCCCCCC-----CC----CCCHHHCCCCCCCCCCCCCC
Q ss_conf             622655468864556-860977939876689999999999972788620-----01----36212148988764558875
Q gi|254780260|r    2 IELSVRNLDGEDKGV-ISVSEDIFALKPQQGILARVLRWQSWRKRIGCS-----KS----KGRSEVAYTGSKMYVQKGTG   71 (207)
Q Consensus         2 m~~~v~~~~g~~~~~-i~l~~~vf~~~~~~~li~~~v~~~~~~~R~gta-----~t----k~r~ev~gs~kK~~~QKGtG   71 (207)
                      +.++|||.+|+.+|+ ++||+ ||+.|+|+||||++|++|++|+||+|+     .+    +.+|+++|++|+| +|+|+|
T Consensus         6 P~V~V~s~~G~~~G~~i~LP~-VF~~piR~DlV~~vv~~~~aN~RQ~yg~s~~AG~qtsAes~GtgRg~aR~P-R~kGgG   83 (421)
T 2zkr_c            6 PLISVYSEKGESSGKNVTLPA-VFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGHQTSAESWGTGRAVARIP-RVRGGG   83 (421)
T ss_dssp             -CCEEECTTSSEEEECSSCCG-GGGSCCCHHHHHHHHHHHHHTTCCCCCCCSCTTTCSCCCCCCSSSSSCCSC-CBTTTT
T ss_pred             CEEEEECCCCCCCCCCCCCHH-HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCCCCCCCCCC-CCCCCC
T ss_conf             734798278888475403857-858998789999999999985557567775557623146616878724355-224897


Q ss_pred             CCCCC-CCCCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCE--------------EEEECCCCCCCC
Q ss_conf             54236-531110105774227787-53200001599999999987876505958--------------995143378778
Q gi|254780260|r   72 RARHS-SKSVSQFRGGGKAFGPVP-IIGVHALPKKVRSLALRHALSDKFCSNDI--------------MVIDNLVSKECK  135 (207)
Q Consensus        72 rAR~G-s~rsp~~rgGg~afgp~p-r~~~~klnkK~~~lAl~saLs~k~~~~~l--------------~Vvd~~~~~~~K  135 (207)
                      ++|+| ++++|+|||||++|||+| |+|+++||+|++++|++||||+++.++.+              +||||+..+.+|
T Consensus        84 ~~R~G~~a~~p~~rGGr~~~ppk~~R~~~~KINkK~rRlAl~SALAA~a~~~~V~aRGH~i~~v~e~PlVVdd~~~~~~K  163 (421)
T 2zkr_c           84 THRSGQGAFGNMCRGGRMFAPTKTWRRWHRRVNTTQKRYAICSALACLSLPALVMSKGHRIEEVPELPLVVEDKVEGYKK  163 (421)
T ss_dssp             BCCCSTTCCTTSTTCCCCSSCCCSSSCCCCCCCHHHHHHHHHHHHHHHTCHHHHHHTTCCCCSCSCCSEEECGGGGGCCC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCCCCCCEEEECCCCCCCC
T ss_conf             75676665688247672417999745422011899999999999998525467775475214556577797045224545


Q ss_pred             HHHHHHHHHHCCCC---------------------------CEEEEECCCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEE
Q ss_conf             18999984113556---------------------------327861577517899996278895684240288757100
Q gi|254780260|r  136 TKYLVTRFRALDLS---------------------------NALIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDILR  188 (207)
Q Consensus       136 TK~~~~~L~~l~~~---------------------------~~llv~~~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~  188 (207)
                      ||+++++|+++++.                           +.+||+.. .|+++.+|+||||+|+++++++||+|||+.
T Consensus       164 TKeav~~Lk~lgl~~d~~r~~~s~~iraGkGK~R~Rr~~~rkg~LVV~~-~d~~l~kA~RNIPGVdv~~V~~LNvl~Lap  242 (421)
T 2zkr_c          164 TKEAVLLLKKLKAWNDIKKVYASQRMRAGKGKMRNRRRIQRRGPCIIYN-EDNGIIKAFRKHPGITLLNVSKLNILKLAP  242 (421)
T ss_dssp             HHHHHHHHHHTTCTHHHHHTTSSCEECSSSTTTTTCCEECCCCCEEEES-SSSCCCHHHHTSTTCEEEEGGGCCHHHHSG
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHCCCCCCCHHHHCCCCCCCCEEEEEEC-CCCHHHHHHCCCCCCEEEECCCCCHHHCCC
T ss_conf             8999999998499167788752021234411330344557850699965-870599986289996686127655998277


Q ss_pred             CCCE----EEEHHHHHHHHHHH
Q ss_conf             5908----98499999999973
Q gi|254780260|r  189 CSKL----VLSKSAIEALEDRF  206 (207)
Q Consensus       189 ~~~i----Vit~~Ai~~l~e~l  206 (207)
                      ++++    |||++||+.|++.|
T Consensus       243 ggh~GR~~I~TesA~~kLd~iy  264 (421)
T 2zkr_c          243 GGHVGRFCIWTESAFRKLDDLY  264 (421)
T ss_dssp             GGCCCCCEEEEHHHHHHHTTC-
T ss_pred             CCCCCCEEEECHHHHHHHHHHH
T ss_conf             7866735998079999999986


No 10 
>1i5e_A Uracil phosphoribosyltransferase; salvage pathway; HET: U5P; 3.00A {Bacillus caldolyticus} SCOP: c.61.1.1
Probab=79.34  E-value=2.5  Score=20.91  Aligned_cols=73  Identities=8%  Similarity=0.156  Sum_probs=54.3

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCCC
Q ss_conf             87532000015999999999878765059589951433787781899998411355632786157751789999627889
Q gi|254780260|r   93 VPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPN  172 (207)
Q Consensus        93 ~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~~  172 (207)
                      .|..|+.|+|+.             +.+..++++|.....-..--.+.+.|.+.|.++..++..-...+.+.+-....|+
T Consensus       110 ~p~~yy~kLP~~-------------i~~~~villDPmlATG~s~~~ai~~L~~~G~~~I~~vs~ias~~Gl~~l~~~~P~  176 (209)
T 1i5e_A          110 KPVEYYVKLPSD-------------VEERDFIIVDPMLATGGSAVAAIDALKKRGAKSIKFMCLIAAPEGVKAVETAHPD  176 (209)
T ss_dssp             SCEEEEEECCTT-------------TTTSEEEEECSEESSSHHHHHHHHHHHHTTCCCEEEECSEECHHHHHHHHHHCTT
T ss_pred             CCEEEEEECCCC-------------CCCCEEEEECHHHHCCHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHHHHHCCC
T ss_conf             738762435865-------------1038689758688647779999999996699857999985079999999987949


Q ss_pred             CEEEEH
Q ss_conf             568424
Q gi|254780260|r  173 INLLPV  178 (207)
Q Consensus       173 v~v~~~  178 (207)
                      |++..+
T Consensus       177 v~I~t~  182 (209)
T 1i5e_A          177 VDIYIA  182 (209)
T ss_dssp             CEEEES
T ss_pred             CEEEEE
T ss_conf             789999


No 11 
>1o5o_A Uracil phosphoribosyltransferase; TM0721, structural genomics, JCSG, PSI, protein structure initiative; HET: U5P; 2.30A {Thermotoga maritima} SCOP: c.61.1.1
Probab=73.96  E-value=2.7  Score=20.75  Aligned_cols=71  Identities=4%  Similarity=0.094  Sum_probs=52.2

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCCC
Q ss_conf             7532000015999999999878765059589951433787781-899998411355632786157751789999627889
Q gi|254780260|r   94 PIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKT-KYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPN  172 (207)
Q Consensus        94 pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~~  172 (207)
                      |..|+.++|.             ...+..++++|... .++.| -.+++.|++.|.++..++..-...+.+.+-....|+
T Consensus       123 ~~~yy~klP~-------------~~~~~~VillDPml-ATG~s~~~ai~~L~~~G~~~I~~v~~ias~~Gi~~i~~~~P~  188 (221)
T 1o5o_A          123 AVEYYAKLPP-------------LNDDKEVFLLDPML-ATGVSSIKAIEILKENGAKKITLVALIAAPEGVEAVEKKYED  188 (221)
T ss_dssp             EEEEEEECCC-------------CCTTCEEEEECSEE-SSSHHHHHHHHHHHHTTCCEEEEECSEECHHHHHHHHHHCTT
T ss_pred             CEEEEEECCC-------------CCCCCEEEEEHHHH-HCCHHHHHHHHHHHHCCCCEEEEEEEEECHHHHHHHHHHCCC
T ss_conf             1875010786-------------63467289877886-477129999999986599708999988558999999987879


Q ss_pred             CEEEEH
Q ss_conf             568424
Q gi|254780260|r  173 INLLPV  178 (207)
Q Consensus       173 v~v~~~  178 (207)
                      |++..+
T Consensus       189 v~I~ta  194 (221)
T 1o5o_A          189 VKIYVA  194 (221)
T ss_dssp             CEEEES
T ss_pred             CEEEEE
T ss_conf             889999


No 12 
>2ehj_A Uracil phosphoribosyltransferase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.80A {Escherichia coli}
Probab=71.74  E-value=3.7  Score=19.97  Aligned_cols=72  Identities=8%  Similarity=0.139  Sum_probs=52.4

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCCCC
Q ss_conf             75320000159999999998787650595899514337877818999984113556327861577517899996278895
Q gi|254780260|r   94 PIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPNI  173 (207)
Q Consensus        94 pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~~v  173 (207)
                      |..|+.++|.             .+.+..++++|.....-...-.+.+.|++.|.++..++..-...+.+.+-....|++
T Consensus       110 ~~~y~~klP~-------------~~~~~~villDPmlATG~s~~~ai~~L~~~G~~~I~iv~~ias~~Gi~~l~~~~P~v  176 (208)
T 2ehj_A          110 PVPYFQKLVS-------------NIDERMALIVDPMLATGGSVIATIDLLKKAGCSSIKVLVLVAAPEGIAALEKAHPDV  176 (208)
T ss_dssp             EEEEEEECCS-------------CGGGCEEEEEEEEESSCHHHHHHHHHHHHTTCCEEEEEEEEECHHHHHHHHHHCTTS
T ss_pred             CEEEEEECCC-------------CCCCCEEEEECHHHHCCHHHHHHHHHHHHCCCCCEEEEEEEECHHHHHHHHHHCCCC
T ss_conf             5788986144-------------566676999683674567799999999857998289999985589999999879497


Q ss_pred             EEEEH
Q ss_conf             68424
Q gi|254780260|r  174 NLLPV  178 (207)
Q Consensus       174 ~v~~~  178 (207)
                      .+..+
T Consensus       177 ~I~ta  181 (208)
T 2ehj_A          177 ELYTA  181 (208)
T ss_dssp             EEEES
T ss_pred             EEEEE
T ss_conf             89999


No 13 
>2j01_P 50S ribosomal protein L15; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: c.12.1.1 PDB: 1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P 2jl8_P 2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P 2wh4_P 2wrj_P 2wrl_P 2wro_P 2wrr_P ...
Probab=70.82  E-value=0.79  Score=23.78  Aligned_cols=36  Identities=25%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             CCHHHCCCCCCC-CCCCCCCCCCCCCCCCC-CCCCCCCC
Q ss_conf             621214898876-45588755423653111-01057742
Q gi|254780260|r   53 GRSEVAYTGSKM-YVQKGTGRARHSSKSVS-QFRGGGKA   89 (207)
Q Consensus        53 ~r~ev~gs~kK~-~~QKGtGrAR~Gs~rsp-~~rgGg~a   89 (207)
                      .|+.-+|.|+-. +-+|| .+||.|..+.| .|-||-.-
T Consensus        20 GRG~gsg~Gkt~GrG~kG-qk~RsG~~~~~~~fEGGq~P   57 (150)
T 2j01_P           20 GRGPGSGHGKTATRGHKG-QKSRSGGLKDPRRFEGGRST   57 (150)
T ss_dssp             CCCSCSSSSSCTTCSSCC-SSSCSSCCCCSSSCCSSSCT
T ss_pred             CCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCC
T ss_conf             577888989668998998-87677888687621478767


No 14 
>1v9s_A Uracil phosphoribosyltransferase; pyrimidine salvage, oligomerization, structural genomics; 2.10A {Thermus thermophilus HB8} SCOP: c.61.1.1
Probab=67.04  E-value=6.2  Score=18.69  Aligned_cols=72  Identities=8%  Similarity=0.172  Sum_probs=51.6

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCC
Q ss_conf             87532000015999999999878765059589951433787781-89999841135563278615775178999962788
Q gi|254780260|r   93 VPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKT-KYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIP  171 (207)
Q Consensus        93 ~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~  171 (207)
                      .|..|+.|+|+             .+.+..++++|.. +.++.| -.+.+.|++.+.++..++..-...+.+.+-.+..|
T Consensus       109 ~p~~~~~klP~-------------~i~~~~vil~DPm-lATG~s~~~ai~~Lk~~g~~~I~~v~~ias~~Gi~~v~~~~P  174 (208)
T 1v9s_A          109 NPVQYYIKLPP-------------DIAERRAFLLDPM-LATGGSASLALSLLKERGATGVKLMAILAAPEGLERIAKDHP  174 (208)
T ss_dssp             ---CEEEECCS-------------CGGGSCEEEECSE-ESSSHHHHHHHHHHHHTTCCSCEEEEEEECHHHHHHHHHHCT
T ss_pred             CCEEEEEECCC-------------CCCCCEEEEECHH-HHCCHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHHHHHCC
T ss_conf             86899997376-------------5135779996836-634377999999998659984699999527899999998796


Q ss_pred             CCEEEEH
Q ss_conf             9568424
Q gi|254780260|r  172 NINLLPV  178 (207)
Q Consensus       172 ~v~v~~~  178 (207)
                      ++++..+
T Consensus       175 ~v~I~ta  181 (208)
T 1v9s_A          175 DTEVVVA  181 (208)
T ss_dssp             TCEEEEE
T ss_pred             CCEEEEE
T ss_conf             9789999


No 15 
>1xtt_A Probable uracil phosphoribosyltransferase; tetramer, type 1 phosphoribosyltransferase, UMP complex; HET: U5P; 1.80A {Sulfolobus solfataricus} SCOP: c.61.1.1 PDB: 1vst_A* 1xtu_A* 1xtv_A* 3g6w_A*
Probab=47.83  E-value=14  Score=16.67  Aligned_cols=73  Identities=11%  Similarity=0.141  Sum_probs=53.3

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCCCC
Q ss_conf             75320000159999999998787650595899514337877818999984113556327861577517899996278895
Q gi|254780260|r   94 PIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPNI  173 (207)
Q Consensus        94 pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~~v  173 (207)
                      |..|+.++|...            .+...++++|.....-...-.+.+.|.+.+.++..++..-...+.+.+-.++.|++
T Consensus       119 ~~~yy~klP~~~------------~~~~~villDPmlATG~s~~~ai~~L~~~g~~~I~~v~~ias~~Gi~~l~~~~P~v  186 (216)
T 1xtt_A          119 VYIYYKKIPDIR------------AKVDNVIIADPMIATASTMLKVLEEVVKANPKRIYIVSIISSEYGVNKILSKYPFI  186 (216)
T ss_dssp             EEEEEEECCCCC------------TTTCEEEEECSEESSSHHHHHHHHHHGGGCCSEEEEECSEEEHHHHHHHHHHCTTS
T ss_pred             EEEEECCCCCCC------------CCCCEEEEECHHHHCHHHHHHHHHHHHHCCCCEEEEEEEEECHHHHHHHHHHCCCC
T ss_conf             065400086742------------34533897274775418899999998745995389999994699999999879597


Q ss_pred             EEEEH
Q ss_conf             68424
Q gi|254780260|r  174 NLLPV  178 (207)
Q Consensus       174 ~v~~~  178 (207)
                      ++..+
T Consensus       187 ~I~ta  191 (216)
T 1xtt_A          187 YLFTV  191 (216)
T ss_dssp             EEEES
T ss_pred             EEEEE
T ss_conf             89999


No 16 
>2e55_A Uracil phosphoribosyltransferase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.15A {Aquifex aeolicus}
Probab=46.54  E-value=15  Score=16.56  Aligned_cols=70  Identities=7%  Similarity=0.109  Sum_probs=50.2

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCCEEEEECCCCCHHHHHHHCCCCC
Q ss_conf             7532000015999999999878765059589951433787781-899998411355632786157751789999627889
Q gi|254780260|r   94 PIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKT-KYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPN  172 (207)
Q Consensus        94 pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~~llv~~~~~d~n~~~s~rNi~~  172 (207)
                      |..|+.++|.              ..+..++++|... .+..| ..+.+.|.+.+..+..++..-...+.+.+-.++.|+
T Consensus       109 p~~yy~klP~--------------~~~~~vlllDPml-ATG~s~~~ai~~L~~~g~~~I~~v~~iaa~~Gl~~l~~~~P~  173 (208)
T 2e55_A          109 SHIYYSRLPE--------------LKGKIVVILDPML-ATGGTLEVALREILKHSPLKVKSVHAIAAPEGLKRIEEKFKE  173 (208)
T ss_dssp             EEEEEEECCC--------------CBTSEEEEECSEE-SSSHHHHHHHHHHHTTCBSEEEEEEEEECHHHHHHHHHHCTT
T ss_pred             CEEHHHHHHH--------------HCCCCEEEECHHH-CCCCHHHHHHHHHHHCCCCEEEEEEEEECHHHHHHHHHHCCC
T ss_conf             1233554553--------------0357069834676-157159999999984488617999998259999999987889


Q ss_pred             CEEEEH
Q ss_conf             568424
Q gi|254780260|r  173 INLLPV  178 (207)
Q Consensus       173 v~v~~~  178 (207)
                      +++..+
T Consensus       174 v~I~ta  179 (208)
T 2e55_A          174 VEIFVG  179 (208)
T ss_dssp             SEEEEE
T ss_pred             CEEEEE
T ss_conf             689999


No 17 
>1bd3_D Uprtase, uracil phosphoribosyltransferase; glycosyltransferase; 1.93A {Toxoplasma gondii} SCOP: c.61.1.1 PDB: 1bd4_D 1jlr_A* 1jls_B* 1upf_D 1upu_D*
Probab=44.58  E-value=16  Score=16.38  Aligned_cols=72  Identities=10%  Similarity=0.217  Sum_probs=49.6

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCC--EEEEECCCCCHHHHHHHCC
Q ss_conf             87532000015999999999878765059589951433787781-89999841135563--2786157751789999627
Q gi|254780260|r   93 VPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSKECKT-KYLVTRFRALDLSN--ALIIDGCQLDRNFQLAARN  169 (207)
Q Consensus        93 ~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~--~llv~~~~~d~n~~~s~rN  169 (207)
                      .|..|+.++|..             +.+..++++|... .++.| -.+.+.|.+.+...  ..++..-...+.+.+-.+.
T Consensus       142 ep~~yy~klP~~-------------i~~~~Vll~DPML-ATG~S~~~ai~~L~~~Gv~~~~I~~vsvias~~Gi~~l~~~  207 (243)
T 1bd3_D          142 EPKLIYEKLPAD-------------IRERWVMLLDPMC-ATAGSVCKAIEVLLRLGVKEERIIFVNILAAPQGIERVFKE  207 (243)
T ss_dssp             CEEEEEEECCTT-------------GGGSEEEEECSEE-SSCHHHHHHHHHHHHHTCCGGGEEEEEEEECHHHHHHHHHH
T ss_pred             CCEEEHHHCCCC-------------CCCCEEEEECCHH-HCCHHHHHHHHHHHHCCCCCCEEEEEEEEECHHHHHHHHHH
T ss_conf             814314228421-------------1014589868055-05722999999999719985407999998658999999987


Q ss_pred             CCCCEEEEH
Q ss_conf             889568424
Q gi|254780260|r  170 IPNINLLPV  178 (207)
Q Consensus       170 i~~v~v~~~  178 (207)
                      .|+|++..+
T Consensus       208 ~P~v~I~ta  216 (243)
T 1bd3_D          208 YPKVRMVTA  216 (243)
T ss_dssp             CTTSEEEEE
T ss_pred             CCCCEEEEE
T ss_conf             979889999


No 18 
>2wns_A Orotate phosphoribosyltransferase; alternative splicing, multifunctional enzyme, lyase, polymorphism, decarboxylase, phosphoprotein; HET: OMP; 1.90A {Homo sapiens}
Probab=43.48  E-value=17  Score=16.28  Aligned_cols=84  Identities=12%  Similarity=0.146  Sum_probs=47.4

Q ss_pred             HCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCC--EEEEECCCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEECCCEEEE
Q ss_conf             059589951433787781-89999841135563--278615775178999962788956842402887571005908984
Q gi|254780260|r  119 CSNDIMVIDNLVSKECKT-KYLVTRFRALDLSN--ALIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDILRCSKLVLS  195 (207)
Q Consensus       119 ~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~--~llv~~~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit  195 (207)
                      ...+++||||+. .++.| ..+.+++++.|..-  .+++++-.....-.++..|+|-..+++.+++  .+.+... -.|+
T Consensus       110 ~g~~VlIVDDvi-tTG~T~~~ai~~l~~~G~~v~~v~vivdr~~~~~~~l~~~gi~~~sL~~l~dl--~~~~~~~-~~i~  185 (205)
T 2wns_A          110 PGETCLIIEDVV-TSGSSVLETVEVLQKEGLKVTDAIVLLDREQGGKDKLQAHGIRLHSVCTLSKM--LEILEQQ-KKVD  185 (205)
T ss_dssp             TTCBEEEEEEEE-SSSHHHHHHHHHHHHTTCBCCEEEEEEECCSSHHHHHHTTTCEEEEEEEHHHH--HHHHHHT-TSSC
T ss_pred             CCCEEEEEEEEH-HCCCCHHHHHHHHHHCCCEEEEEEEEEECCCCHHHHHHHCCCCEEEECCHHHH--HHHHHHC-CCCC
T ss_conf             664599996102-12706798999998689889999999977616599999779949997509999--9999986-9999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999973
Q gi|254780260|r  196 KSAIEALEDRF  206 (207)
Q Consensus       196 ~~Ai~~l~e~l  206 (207)
                      .+.++.+++-+
T Consensus       186 ~~~~~~v~~~l  196 (205)
T 2wns_A          186 AETVGRVKRFI  196 (205)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 19 
>3m3h_A OPRT, oprtase, orotate phosphoribosyltransferase; pyrimidine ribonucleotide biosynthesis, structural genomics, infectious diseases; 1.75A {Bacillus anthracis} PDB: 3osc_A*
Probab=41.99  E-value=17  Score=16.15  Aligned_cols=83  Identities=13%  Similarity=0.177  Sum_probs=47.2

Q ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHCCCCCE--EEEECCCCCHHH--HHHHCCCCCCEEEEHHCCCHHHHEECCCEEEE
Q ss_conf             59589951433787781899998411355632--786157751789--99962788956842402887571005908984
Q gi|254780260|r  120 SNDIMVIDNLVSKECKTKYLVTRFRALDLSNA--LIIDGCQLDRNF--QLAARNIPNINLLPVQGINVYDILRCSKLVLS  195 (207)
Q Consensus       120 ~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~--llv~~~~~d~n~--~~s~rNi~~v~v~~~~~lnv~dll~~~~iVit  195 (207)
                      ..+++||||..-.-.+..++++.+++.|..-.  +++++-+ .+..  .++..+++-..+++.+.|  .+.+.... +|+
T Consensus       137 G~~VlIVDDViTTG~Si~~ai~~lr~~G~~V~~v~vivdr~-~~gg~e~l~~~Gv~~~sL~t~~dl--~~~~~~~~-~i~  212 (234)
T 3m3h_A          137 GQKVVVVEDLISTGGSAITCVEALREAGCEVLGIVSIFTYE-LEAGKEKLEAANVASYSLSDYSAL--TEVAAEKG-IIG  212 (234)
T ss_dssp             TCEEEEEEEEESSSHHHHHHHHHHHHTTCEEEEEEEEEECC-CHHHHHHHHHTTCCEEESSCHHHH--HHHHHHTT-SSC
T ss_pred             CCEEEEEEEEECCCCCHHHHHHHHHHCCCEEEEEEEEEECC-CHHHHHHHHHCCCCEEEECCHHHH--HHHHHHCC-CCC
T ss_conf             95599985300347227999999997899799999999877-440699999679978997769999--99999859-999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999973
Q gi|254780260|r  196 KSAIEALEDRF  206 (207)
Q Consensus       196 ~~Ai~~l~e~l  206 (207)
                      ++.++.+++-+
T Consensus       213 ~~~~~~i~~yl  223 (234)
T 3m3h_A          213 QAETKKLQEWR  223 (234)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999998


No 20 
>1ii8_B RAD50 ABC-ATPase; MRE11, DNA double-strand break repair, replication; 3.02A {Pyrococcus furiosus} SCOP: c.37.1.12
Probab=36.60  E-value=21  Score=15.65  Aligned_cols=65  Identities=20%  Similarity=0.226  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHH-HCCCEEEEECCC--CCCCCHHHHHHHHHHCCCC-CEEEEECCCCCHHHHHHHCC
Q ss_conf             5999999999878765-059589951433--7877818999984113556-32786157751789999627
Q gi|254780260|r  103 KKVRSLALRHALSDKF-CSNDIMVIDNLV--SKECKTKYLVTRFRALDLS-NALIIDGCQLDRNFQLAARN  169 (207)
Q Consensus       103 kK~~~lAl~saLs~k~-~~~~l~Vvd~~~--~~~~KTK~~~~~L~~l~~~-~~llv~~~~~d~n~~~s~rN  169 (207)
                      +..-.+|++.||+.-+ .+..++++|+..  ++..-...+.++|+.+.-. +.++|++-  |..+...|.+
T Consensus        89 k~~~~La~Rlala~~l~~~~~~lilDEPt~~LD~~~~~~l~~~l~~l~~~~~tiiviSH--d~~~~~~~d~  157 (174)
T 1ii8_B           89 RIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIPQVILVSH--DEELKDAADH  157 (174)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCSEEEEECCSSSSCSHHHHHHHHHHHHTGGGSSEEEEEES--CGGGGGTSSE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEE--CHHHHHHCCE
T ss_conf             98999999999999856899889865986676999999999999999956998999951--0899985999


No 21 
>2yzk_A OPRT, oprtase, orotate phosphoribosyltransferase; rossmann fold, glycosyltransferase, magnesium, pyrimidine biosynthesis, structural genomics; 1.80A {Aeropyrum pernix}
Probab=34.65  E-value=21  Score=15.73  Aligned_cols=61  Identities=11%  Similarity=0.143  Sum_probs=34.8

Q ss_pred             HCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCC--EEEEECCCCCHHHHHHHCCCCCCEEEEHHC
Q ss_conf             059589951433787781-89999841135563--278615775178999962788956842402
Q gi|254780260|r  119 CSNDIMVIDNLVSKECKT-KYLVTRFRALDLSN--ALIIDGCQLDRNFQLAARNIPNINLLPVQG  180 (207)
Q Consensus       119 ~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~--~llv~~~~~d~n~~~s~rNi~~v~v~~~~~  180 (207)
                      ..++++||||+. .++.| ..+.+++++.+..-  .+.+++-.....-..+..|+|-..+++.++
T Consensus       105 ~g~~VlIVDDvi-tTG~S~~~~i~~l~~~G~~v~~v~vlvdr~~~~~e~~~~~gi~~~Sl~~~~~  168 (178)
T 2yzk_A          105 PKGRVVVVDDVA-TTGTSIAKSIEVLRSNGYTVGTALVLVDRGEGAGELLARMGVRLVSVATLKT  168 (178)
T ss_dssp             CSSEEEEEEEEE-SSSHHHHHHHHHHHHTTCEEEEEEEEEECCSSHHHHHHTTTCEEEEEEEHHH
T ss_pred             CCCEEEEEEEEE-CCCCCHHHHHHHHHHCCCEEEEEEEEEECCCCHHHHHHHCCCCEEEEEEHHH
T ss_conf             895799997447-3574689999999988997999999997876768999976998999738999


No 22 
>1f2t_B RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_B* 1us8_B*
Probab=31.35  E-value=26  Score=15.15  Aligned_cols=56  Identities=20%  Similarity=0.246  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHH-HCCCEEEEECCC--CCCCCHHHHHHHHHHCCCCC-EEEEECCCCCHHHH
Q ss_conf             999999878765-059589951433--78778189999841135563-27861577517899
Q gi|254780260|r  107 SLALRHALSDKF-CSNDIMVIDNLV--SKECKTKYLVTRFRALDLSN-ALIIDGCQLDRNFQ  164 (207)
Q Consensus       107 ~lAl~saLs~k~-~~~~l~Vvd~~~--~~~~KTK~~~~~L~~l~~~~-~llv~~~~~d~n~~  164 (207)
                      .+|+|.||+.-+ .+-+++++|+..  ++......+.++|+.+.-.. .+++++  .|..+.
T Consensus        67 ~LA~Rlaia~~l~~~~~~liLDEPt~~LD~~~~~~l~~~l~~l~~~~~tvivvs--Hd~~~~  126 (148)
T 1f2t_B           67 GLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIPQVILVS--HDEELK  126 (148)
T ss_dssp             HHHHHHHHHHHHHSSCSEEEEESCSCTTCHHHHHHHHHHHHHTGGGSSEEEEEE--SCGGGG
T ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEE--ECHHHH
T ss_conf             899999999986579998998488665899999999999999995699899995--108999


No 23 
>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, ATP-binding cassette, cytoplasm; HET: ADP; 3.20A {Geobacillus stearothermophilus 10}
Probab=30.84  E-value=27  Score=15.10  Aligned_cols=57  Identities=9%  Similarity=0.126  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHCCCEEEEECCCCC--CCCHHHHHHHHHHCCCC-CEEEEECCCCCHHHH
Q ss_conf             999999987876505958995143378--77818999984113556-327861577517899
Q gi|254780260|r  106 RSLALRHALSDKFCSNDIMVIDNLVSK--ECKTKYLVTRFRALDLS-NALIIDGCQLDRNFQ  164 (207)
Q Consensus       106 ~~lAl~saLs~k~~~~~l~Vvd~~~~~--~~KTK~~~~~L~~l~~~-~~llv~~~~~d~n~~  164 (207)
                      .|+++..+|+.+-....|+|+|+....  ..-...+.++|..|--. ..+|++.-  |-.+.
T Consensus       852 QRv~lA~~L~~~p~~~~llIlDEPTsGLD~~~~~~ll~lL~~L~~~G~tvlvIsH--Dl~vi  911 (972)
T 2r6f_A          852 QRVKLAAELHRRSNGRTLYILDEPTTGLHVDDIARLLDVLHRLVDNGDTVLVIEH--NLDVI  911 (972)
T ss_dssp             HHHHHHHHHSSCCCSCEEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECC--CHHHH
T ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEC--CHHHH
T ss_conf             9999999998488899289998995677899999999999999977998999938--89999


No 24 
>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=29.41  E-value=9.3  Score=17.71  Aligned_cols=67  Identities=16%  Similarity=0.191  Sum_probs=39.9

Q ss_pred             CCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCC---CCCHHHHHHHHHHC
Q ss_conf             542365311--1010577422778753200001599999999987876505958995143378---77818999984113
Q gi|254780260|r   72 RARHSSKSV--SQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSNDIMVIDNLVSK---ECKTKYLVTRFRAL  146 (207)
Q Consensus        72 rAR~Gs~rs--p~~rgGg~afgp~pr~~~~klnkK~~~lAl~saLs~k~~~~~l~Vvd~~~~~---~~KTK~~~~~L~~l  146 (207)
                      -||+|....  -...-|-+-++|.+..+.+++           -+..|+..|.+.|..+..+-   ++=|.+...+|+.|
T Consensus       110 ~Ar~G~iAp~dVvIp~G~Tg~~p~~~~~fq~L-----------gIpTkI~kG~I~I~~d~~v~k~Ge~v~~~~A~LL~~L  178 (317)
T 2zkr_g          110 AARAGAIAPCEVTVPAQNTGLGPEKTSFFQAL-----------GITTKISRGTIEILSDVQLIKTGDKVGASEATLLNML  178 (317)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCCCCCCEEEECCCCCCCCCCCHHHHHHC-----------CCCEEEECCEEEEECCEEEECCCCCCCHHHHHHHHHC
T ss_conf             26788868960797898889898747789856-----------9975860666998205599689889389999999974


Q ss_pred             CCC
Q ss_conf             556
Q gi|254780260|r  147 DLS  149 (207)
Q Consensus       147 ~~~  149 (207)
                      ++.
T Consensus       179 ~I~  181 (317)
T 2zkr_g          179 NIS  181 (317)
T ss_dssp             ---
T ss_pred             CCC
T ss_conf             998


No 25 
>3mt5_A Potassium large conductance calcium-activated CHA subfamily M, alpha member 1; potassium channel, membrane protein, transport protein; 3.00A {Homo sapiens}
Probab=27.23  E-value=31  Score=14.73  Aligned_cols=45  Identities=16%  Similarity=0.321  Sum_probs=35.4

Q ss_pred             CEEEEECCCCCHHHHHHHCCCCCCEEEEHHCCCHHHHEE-----CCCEEE
Q ss_conf             327861577517899996278895684240288757100-----590898
Q gi|254780260|r  150 NALIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDILR-----CSKLVL  194 (207)
Q Consensus       150 ~~llv~~~~~d~n~~~s~rNi~~v~v~~~~~lnv~dll~-----~~~iVi  194 (207)
                      ..+++...+..+..+...++.|.|.++..+-++-.||+.     ++.+||
T Consensus       414 pIViL~~~~~~~~~w~~i~~Fp~Vy~i~GSpl~~~DL~ragI~~a~~~VI  463 (726)
T 3mt5_A          414 HIVFVGSIEYLKREWETLHNFPKVSILPGTPLSRADLRAVNINLCDMCVI  463 (726)
T ss_dssp             CEEEEECHHHHHHHHHHHTTSSSEEEEESCTTCHHHHHHTTGGGCSEEEE
T ss_pred             CEEEECCCCCHHHHHHHHHCCCCEEEEECCCCCHHHHHHHCHHHCCEEEE
T ss_conf             86998788743999998745896599968877578887734533668999


No 26 
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, structural genomics, PSI-2; 2.35A {Corynebacterium glutamicum atcc 13032}
Probab=26.24  E-value=32  Score=14.63  Aligned_cols=66  Identities=9%  Similarity=0.283  Sum_probs=38.5

Q ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCHH-----------HHHHHCCCCCCEEEEHHCCCHHHHEE
Q ss_conf             5958995143378778189999841135563278615775178-----------99996278895684240288757100
Q gi|254780260|r  120 SNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRN-----------FQLAARNIPNINLLPVQGINVYDILR  188 (207)
Q Consensus       120 ~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~~llv~~~~~d~n-----------~~~s~rNi~~v~v~~~~~lnv~dll~  188 (207)
                      ++.++|||+.+--  ...++..+|..++..+++++..+.....           +...++|.+.+.+   -.++.-|+..
T Consensus       122 ~n~~vIvDEaQN~--t~~~~~~ilTRig~~sKli~~GD~~Q~d~~~~~~sGl~~~~~~l~~~~~~~~---~~l~~~divR  196 (208)
T 3b85_A          122 NDAFVILDEAQNT--TPAQMKMFLTRLGFGSKMVVTGDITQVDLPGGQKSGLRLVRHILRGVDDVHF---SELTSSDVVR  196 (208)
T ss_dssp             CSEEEEECSGGGC--CHHHHHHHHTTBCTTCEEEEEEC------------CCHHHHHHTTTCTTEEE---EECCGGGCCC
T ss_pred             HCCEEEECHHHCC--CHHHHHHHHHHCCCCCEEEEECCHHHCCCCCCCCCCHHHHHHHHCCCCCCEE---EEECCCCEEE
T ss_conf             0067773156469--9999999998717885699927877616888887729999999739998559---9972897282


Q ss_pred             CC
Q ss_conf             59
Q gi|254780260|r  189 CS  190 (207)
Q Consensus       189 ~~  190 (207)
                      ++
T Consensus       197 s~  198 (208)
T 3b85_A          197 HQ  198 (208)
T ss_dssp             CH
T ss_pred             CH
T ss_conf             78


No 27 
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemic lupus erythematosus, SLE; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 3cw1_B
Probab=25.10  E-value=18  Score=16.04  Aligned_cols=19  Identities=11%  Similarity=0.274  Sum_probs=11.9

Q ss_pred             EEEECCCCCEEEEEEECHH
Q ss_conf             2655468864556860977
Q gi|254780260|r    4 LSVRNLDGEDKGVISVSED   22 (207)
Q Consensus         4 ~~v~~~~g~~~~~i~l~~~   22 (207)
                      ++-+.+.|..+-.|.|||+
T Consensus        55 l~~v~IRG~nIRyI~LPD~   73 (119)
T 1b34_A           55 LETLSIRGNNIRYFILPDS   73 (119)
T ss_dssp             EEEEEECGGGEEEEECCTT
T ss_pred             CCCEEECCCEEEEEECCCC
T ss_conf             5869988987999987877


No 28 
>1vdm_A Purine phosphoribosyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.50A {Pyrococcus horikoshii} SCOP: c.61.1.1
Probab=22.91  E-value=37  Score=14.26  Aligned_cols=35  Identities=14%  Similarity=0.340  Sum_probs=26.9

Q ss_pred             HHCCCEEEEECCCCCCCCH-HHHHHHHHHCCCCCEEE
Q ss_conf             5059589951433787781-89999841135563278
Q gi|254780260|r  118 FCSNDIMVIDNLVSKECKT-KYLVTRFRALDLSNALI  153 (207)
Q Consensus       118 ~~~~~l~Vvd~~~~~~~KT-K~~~~~L~~l~~~~~ll  153 (207)
                      ++..+++||||+. +++.| +.+.+.|++.+....-+
T Consensus        81 ~~gk~VLiVDDv~-~TG~Tl~~~~~~l~~~ga~~v~~  116 (153)
T 1vdm_A           81 LKDKRVVIVDDVS-DTGKTLEVVIEEVKKLGAKEIKI  116 (153)
T ss_dssp             CBTCEEEEEEEEE-SSCHHHHHHHHHHHTTTBSEEEE
T ss_pred             CCCCEEEEEECCC-CCCCCHHHHHHHHHHCCCCEEEE
T ss_conf             5899899972531-56847999999998659978999


No 29 
>3dez_A OPRT, oprtase, orotate phosphoribosyltransferase; glycosyltransferase, MAGN pyrimidine biosynthesis; 2.40A {Streptococcus mutans}
Probab=21.36  E-value=40  Score=14.07  Aligned_cols=83  Identities=8%  Similarity=0.078  Sum_probs=43.1

Q ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHCCCCC--EEEEECCCCCHHHHH--HHCCCCCCEEEEHHCCCHHHHEECCCEEEE
Q ss_conf             5958995143378778189999841135563--278615775178999--962788956842402887571005908984
Q gi|254780260|r  120 SNDIMVIDNLVSKECKTKYLVTRFRALDLSN--ALIIDGCQLDRNFQL--AARNIPNINLLPVQGINVYDILRCSKLVLS  195 (207)
Q Consensus       120 ~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~~--~llv~~~~~d~n~~~--s~rNi~~v~v~~~~~lnv~dll~~~~iVit  195 (207)
                      ..+++||||..-.-....++++.|++.+..-  .+.|++-+ .+....  +-.+++-..+++.+.  +.+.+.... .|+
T Consensus       149 g~rVlIVEDViTTGgSileai~~l~~~G~~V~~v~vivDR~-~~g~~~~l~~~Gv~~~sL~t~~d--ll~~l~~~~-~i~  224 (243)
T 3dez_A          149 GQKMVIIEDLISTGGSVLDAVAAAQREGADVLGVVAIFTYE-LPKATANFEKASVKLVTLSNYSE--LIKVAKVQG-YID  224 (243)
T ss_dssp             TCEEEEEEEEESSSHHHHHHHHHHHHTTCEEEEEEEEEECC-CHHHHHHHHHHTCCEEESSCHHH--HHHHHHHTT-SSC
T ss_pred             CCEEEEEEEEECCCCCHHHHHHHHHHCCCEEEEEEEEEECC-CCHHHHHHHHCCCCEEEECCHHH--HHHHHHHCC-CCC
T ss_conf             99899985114567445899999998799799999999888-62179999966997999485999--999999869-999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999973
Q gi|254780260|r  196 KSAIEALEDRF  206 (207)
Q Consensus       196 ~~Ai~~l~e~l  206 (207)
                      ++.+..+++-+
T Consensus       225 ~~~~~~l~~~l  235 (243)
T 3dez_A          225 ADGLTLLKKFK  235 (243)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999998


Done!