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!