Query gi|254780874|ref|YP_003065287.1| peptide chain release factor 1 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 357 No_of_seqs 251 out of 3008 Neff 6.5 Searched_HMMs 33803 Date Wed Jun 1 19:44:14 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780874.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2b3t_B RF-1, peptide chain re 100.0 0 0 508.5 10.0 172 86-335 2-173 (173) 2 >1zbt_A RF-1, peptide chain re 100.0 0 0 465.5 14.0 150 104-335 1-150 (150) 3 >2ihr_1 Peptide chain release 100.0 0 0 447.5 13.7 168 107-357 1-169 (172) 4 >1gqe_A Release factor 2, RF2; 100.0 0 0 444.1 14.1 161 105-347 1-161 (162) 5 >1rq0_A RF-1, peptide chain re 100.0 0 0 388.3 13.3 146 109-335 2-147 (147) 6 >2jy9_A Putative tRNA hydrolas 99.9 1.9E-28 5.6E-33 225.4 4.3 114 208-322 2-148 (148) 7 >3d5a_X RF1, peptide chain rel 99.9 2.5E-26 7.4E-31 210.1 9.7 85 216-300 1-86 (86) 8 >2ihr_1 Peptide chain release 99.9 1.7E-26 5E-31 211.3 8.7 81 216-296 1-82 (83) 9 >1gqe_A Release factor 2, RF2; 99.9 3.5E-26 1E-30 209.1 8.4 82 215-296 1-83 (83) 10 >1zbt_A RF-1, peptide chain re 99.9 4E-26 1.2E-30 208.6 8.0 82 216-297 1-83 (83) 11 >1rq0_A RF-1, peptide chain re 99.9 1.1E-25 3.3E-30 205.5 7.3 80 216-295 1-81 (82) 12 >2b3t_B RF-1, peptide chain re 99.9 2.5E-25 7.3E-30 202.9 3.5 77 215-291 1-78 (80) 13 >1j26_A Immature colon carcino 99.9 1.1E-21 3.2E-26 176.7 7.3 81 202-282 1-108 (112) 14 >2jva_A Peptidyl-tRNA hydrolas 99.8 9.7E-20 2.9E-24 162.6 7.4 63 221-283 1-88 (95) 15 >3d5a_X RF1, peptide chain rel 99.2 5.8E-11 1.7E-15 99.3 9.9 96 6-105 2-100 (122) 16 >1zbt_A RF-1, peptide chain re 99.2 1.6E-11 4.8E-16 103.3 6.6 101 3-103 13-116 (116) 17 >1gqe_A Release factor 2, RF2; 99.0 2.5E-09 7.4E-14 87.5 10.1 87 8-95 26-115 (120) 18 >2ihr_1 Peptide chain release 98.7 1.9E-09 5.7E-14 88.3 -0.1 91 7-106 17-110 (110) 19 >1rq0_A RF-1, peptide chain re 91.8 1.1 3.2E-05 25.2 7.8 78 15-103 4-82 (113) 20 >1gax_A Valrs, valyl-tRNA synt 55.2 14 0.00042 17.1 5.4 15 13-27 110-124 (159) 21 >1yll_A PA5104, conserved hypo 53.5 9.7 0.00029 18.3 2.5 52 182-234 16-71 (95) 22 >2waq_A DNA-directed RNA polym 41.0 23 0.00068 15.6 3.3 32 120-151 48-79 (79) 23 >2dq0_A Seryl-tRNA synthetase; 40.4 24 0.0007 15.5 8.1 31 79-109 81-113 (113) 24 >1ewq_A DNA mismatch repair pr 35.2 28 0.00083 15.0 3.3 66 3-68 22-97 (154) 25 >1v33_A DNA primase small subu 33.8 15 0.00046 16.8 1.0 85 111-206 111-204 (220) 26 >2zkq_i 40S ribosomal protein 32.5 29 0.00087 14.8 2.2 18 192-209 11-28 (146) 27 >3cnf_A VP1; cytoplasmic polyh 30.1 29 0.00085 14.9 1.8 52 208-262 2-54 (148) 28 >2rjg_A Alanine racemase; alph 29.0 35 0.001 14.3 2.8 68 112-179 144-211 (212) 29 >2vqe_I 30S ribosomal protein 28.9 34 0.001 14.4 2.0 19 192-210 5-23 (128) 30 >2yvk_A Methylthioribose-1-pho 27.9 37 0.0011 14.1 4.7 144 55-201 121-277 (374) 31 >2ztd_A Holliday junction ATP- 27.9 16 0.00047 16.8 0.2 30 229-258 2-38 (79) 32 >1m0d_A Endonuclease, endodeox 27.9 25 0.00075 15.3 1.2 13 136-148 67-79 (107) 33 >3jyv_I 40S ribosomal protein 27.2 38 0.0011 14.1 2.4 17 192-208 3-19 (138) 34 >2o8b_B DNA mismatch repair pr 26.2 28 0.00083 15.0 1.2 60 3-62 23-82 (267) 35 >1hc7_A Prolyl-tRNA synthetase 26.2 39 0.0012 13.9 4.4 72 113-184 89-162 (303) 36 >3jzy_A Intersectin 2; C2 doma 25.8 17 0.00049 16.6 0.0 66 127-192 110-176 (510) 37 >2pih_A Protein YMCA; regulate 25.5 40 0.0012 13.8 9.0 58 2-62 2-59 (151) 38 >2jya_A AGR_C_3324P, uncharact 25.0 24 0.0007 15.5 0.6 18 137-154 65-82 (106) 39 >2ord_A Acoat, acetylornithine 24.6 36 0.0011 14.2 1.5 92 119-214 7-101 (179) 40 >1oao_C CODH, carbon monoxide 24.1 32 0.00095 14.6 1.2 17 174-190 69-85 (142) 41 >1n4k_A Inositol 1,4,5-trispho 24.0 37 0.0011 14.1 1.5 18 239-256 75-92 (213) 42 >1amu_A GRSA, gramicidin synth 23.8 33 0.00098 14.5 1.2 57 142-198 30-87 (108) 43 >2j01_H 50S ribosomal protein 23.6 40 0.0012 13.9 1.6 61 207-277 9-71 (81) 44 >1u4g_A Elastase, pseudolysin; 23.4 38 0.0011 14.0 1.5 34 120-153 71-104 (133) 45 >1m1j_A Fibrinogen alpha subun 22.9 45 0.0013 13.5 6.7 16 8-23 1-16 (373) 46 >1sq4_A GLXB, glyoxylate-induc 22.6 22 0.00066 15.7 0.1 42 142-183 68-119 (158) 47 >3bbn_I Ribosomal protein S9; 22.5 46 0.0014 13.4 2.3 17 193-209 74-90 (197) 48 >2j3l_A Prolyl-tRNA synthetase 22.3 46 0.0014 13.4 4.7 57 120-176 135-191 (278) 49 >1k8q_A Triacylglycerol lipase 20.6 12 0.00035 17.7 -1.6 29 227-255 52-80 (97) 50 >3i1m_I 30S ribosomal protein 20.4 50 0.0015 13.1 2.8 19 191-209 6-24 (130) 51 >3esg_A HUTD, putative unchara 20.4 50 0.0015 13.1 1.8 44 179-225 18-65 (88) No 1 >>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} (B:84-214,B:295-336) Probab=100.00 E-value=0 Score=508.46 Aligned_cols=172 Identities=62% Similarity=1.074 Sum_probs=166.1 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEE Q ss_conf 20005778889998640001135540378862268852178899999999999987649840013211354477211137 Q gi|254780874|r 86 IEKEIRELENEINYLLLPKDTDDDKSCILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVA 165 (357) Q Consensus 86 l~~~l~~le~eL~~~LLpsde~D~~nailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~ 165 (357) ++.+++.++++|+.+|+|++|+|.+||+|||+||+||+||||||+||||||.+||+++||++++++.++++.||||+|++ T Consensus 2 ~~~~~~~l~~~l~~~ll~~~~~D~~~a~leI~aG~GG~EA~~fa~~L~~MY~~~a~~~g~k~ev~~~~~~~~~G~k~~~~ 81 (173) T 2b3t_B 2 AKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAGTGGDEAALFAGDLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIA 81 (173) T ss_dssp ----------CCCCCCCSCCSGGGSCEEEEEEECSSSHHHHHHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSEEEEEE T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCEEEEEE T ss_conf 66545589999999862344355455489996267767899999999999999998749851002225656777148999 Q ss_pred EEECCCHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEE Q ss_conf 77503111210002465026761254567851101688885303343322245434799985288875200063212158 Q gi|254780874|r 166 TISGRGVFSRMKFESGVHRVQRVPATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVR 245 (357) Q Consensus 166 ~I~G~~aYg~Lk~E~GvHRvqRip~~es~gR~hTS~a~V~V~P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savr 245 (357) .|+|++|||+||+|+|||||||||||+++||+|||||+|+|+|+++|+++ T Consensus 82 ~I~G~~aY~~Lk~E~GvHRvqRvp~te~~gR~hTStasV~VlP~~~d~~~------------------------------ 131 (173) T 2b3t_B 82 KISGDGVYGRLKFESGGHRVQRVPATESQGRIHTSACTVAVMPELPDAEL------------------------------ 131 (173) T ss_dssp EECSSSCHHHHGGGCEEEEEEECCTTCSSCCCEEEEEEEECCBCCCTTTC------------------------------ T ss_pred EEECCCCCCEEEEEECCEEEEEECCCCCCCCCCEEEEEEEECCCCCCCCC------------------------------ T ss_conf 99767744234664123389972476434530202456621001332123------------------------------ Q ss_pred EEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEEEEECCCEE Q ss_conf 89649844888436541358999999999999999999999999874465224674238221044899811243216441 Q gi|254780874|r 246 ITHIPTGIMVTSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRTYNFSQGRITDHRINLTL 325 (357) Q Consensus 246 i~H~ptgi~v~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~~~~g~~~rs~~iRtY~~~~~rv~DhR~~~~~ 325 (357) |+||||||||||||||||||+||||||+|+++ T Consensus 132 ------------------------------------------------k~qvgs~dRsekIRTYNf~q~rvtDHRi~~~~ 163 (173) T 2b3t_B 132 ------------------------------------------------RNLLGSGDRSDRNRTYNFPQGRVTDHRINLTL 163 (173) T ss_dssp ------------------------------------------------CC-------CCEEEEEETTTTEEEEGGGTEEE T ss_pred ------------------------------------------------HHHCCCCCCCCCEEEEECCCCCCCEECCCCEE T ss_conf ------------------------------------------------60041001438547661698862100458867 Q ss_pred CCHHHHHCCC Q ss_conf 7877872886 Q gi|254780874|r 326 YKLEYVLQGY 335 (357) Q Consensus 326 ~~~~~~l~G~ 335 (357) ++|+.||+|+ T Consensus 164 ~~l~~~l~Ge 173 (173) T 2b3t_B 164 YRLDEVMEGK 173 (173) T ss_dssp SCHHHHHHTC T ss_pred CCHHHHHCCC T ss_conf 7844764987 No 2 >>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural genomics, joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans} (A:117-228,A:312-349) Probab=100.00 E-value=0 Score=465.48 Aligned_cols=150 Identities=61% Similarity=0.991 Sum_probs=147.4 Q ss_pred CCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCE Q ss_conf 01135540378862268852178899999999999987649840013211354477211137775031112100024650 Q gi|254780874|r 104 KDTDDDKSCILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVH 183 (357) Q Consensus 104 sde~D~~nailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvH 183 (357) +||+|.++|||||+|||||+||||||+||||||.+||+++||++++++.++++.||||+|++.|+|++|||+||+|+||| T Consensus 1 k~~~D~~~aileI~aGaGG~EA~~fa~~L~~MY~~~a~~~g~~~ev~~~~~~~~~G~k~a~~~I~G~~ayg~lk~E~GvH 80 (150) T 1zbt_A 1 KDPNDDKNIILEIRGAAGGDEAALFAGDLLNXYQKYAENQGWKFEVXEASANGVGGLKEVVAXVSGQSVYSKLKYESGAH 80 (150) T ss_dssp CCTTTTSCEEEEEEECTTTHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEEECSSSCEEEEEEEEESTTHHHHHGGGCEEE T ss_pred CCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCEEEEECCCCHHHHHEECCCCE T ss_conf 65456654389997057841599999989999999998523625653534677678332257741742254413337743 Q ss_pred EEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCH Q ss_conf 26761254567851101688885303343322245434799985288875200063212158896498448884365413 Q gi|254780874|r 184 RVQRVPATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTSSEKSQH 263 (357) Q Consensus 184 RvqRip~~es~gR~hTS~a~V~V~P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~~eRsQ~ 263 (357) ||||||||+++||+|||||+|+|+|+++|++| T Consensus 81 RvqRip~~~s~~R~hTS~asV~VlP~~~e~ei------------------------------------------------ 112 (150) T 1zbt_A 81 RVQRVPVTESQGRVHTSTATVLVXPEVEEVEY------------------------------------------------ 112 (150) T ss_dssp EEEECCTTCSSCCCEEEEEEEEEEECCCGGGS------------------------------------------------ T ss_pred EEEECCCCCCCCCEEEEEEEEEEEEECCCCCC------------------------------------------------ T ss_conf 78622576877742688889999711364102------------------------------------------------ Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEEEEECCCEECCHHHHHCCC Q ss_conf 589999999999999999999999998744652246742382210448998112432164417877872886 Q gi|254780874|r 264 QNRLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRTYNFSQGRITDHRINLTLYKLEYVLQGY 335 (357) Q Consensus 264 ~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~~~~g~~~rs~~iRtY~~~~~rv~DhR~~~~~~~~~~~l~G~ 335 (357) ||++||+|||||||||+||||||+|+++++|+.||+|+ T Consensus 113 ----------------------------------~s~~RsekiRTYNf~q~rvtDHr~~~~~~~l~~~l~Ge 150 (150) T 1zbt_A 113 ----------------------------------GTGDRSERIRTYNFPQNRVTDHRIGLTLQKLDSILSGK 150 (150) T ss_dssp ----------------------------------SCSCTTSEEEEEETTTTEEEETTTTEEESCHHHHHTTC T ss_pred ----------------------------------CCCCCCCCCCCEECCCCCCHHHCCCCEECCHHHHHCCC T ss_conf ----------------------------------12665457506317977506531387646845773987 No 3 >>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y (1:111-220,1:304-365) Probab=100.00 E-value=0 Score=447.45 Aligned_cols=168 Identities=33% Similarity=0.506 Sum_probs=161.5 Q ss_pred CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEEEE Q ss_conf 35540378862268852178899999999999987649840013211354477211137775031112100024650267 Q gi|254780874|r 107 DDDKSCILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRVQ 186 (357) Q Consensus 107 ~D~~nailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHRvq 186 (357) ||.++|+|||+||+||+||++||+|||+||.+||+++||++++++.++|+.+|||+|++.|+|++||++||+|+|||||| T Consensus 1 ~D~~~~ileI~aG~GG~Ea~~fa~~L~~mY~~~a~~~g~~~evi~~~~~~~~G~ksa~l~i~G~~ay~~lk~E~GvHrvq 80 (172) T 2ihr_1 1 HAEKNAILTIQPGAGGTEACDWAEMLLRMYTRFAERQGFQVEVVDLTPGPEAGIDYAQILVKGENAYGLLSPEAGVHRLV 80 (172) T ss_dssp STTSEEEEEEEECSSTHHHHHHHHHHHHHHHHHHHTTTCEEEEEEEEECSSSSEEEEEEEEESTTHHHHHGGGCEEEEEE T ss_pred CCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCEEEEECCCCCCCCEEEEECCEEEE T ss_conf 34554279998358713689999999999999998669848885202666678631577744744201246772216899 Q ss_pred EECCCCCCCCCCEEEEEEEEEECCCC-CCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHH Q ss_conf 61254567851101688885303343-32224543479998528887520006321215889649844888436541358 Q gi|254780874|r 187 RVPATEASGRVHTSAATVAVLPEAAE-IDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTSSEKSQHQN 265 (357) Q Consensus 187 Rip~~es~gR~hTS~a~V~V~P~~~~-~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~~eRsQ~~N 265 (357) |+|||+++||||||||+|+|+|++++ +++ T Consensus 81 R~s~~~~~~rrhTs~~~V~VlP~~~~~~~i-------------------------------------------------- 110 (172) T 2ihr_1 81 RPSPFDASGRRHTSFAGVEVIPEVDEEVEV-------------------------------------------------- 110 (172) T ss_dssp EECTTSSSCCEEEEEEEEEEEEECCSSSSC-------------------------------------------------- T ss_pred EECCCCCCCCEEEEEEEEEEECCCCHHHHC-------------------------------------------------- T ss_conf 722556655224567899995442200222-------------------------------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEEEEECCCEECCHHHHHCCCHHHHHHHHHH Q ss_conf 99999999999999999999999987446522467423822104489981124321644178778728866999999999 Q gi|254780874|r 266 RLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRTYNFSQGRITDHRINLTLYKLEYVLQGYIDDIINPLLT 345 (357) Q Consensus 266 k~~A~~~L~~~l~~~~~~~~~~~~~~~r~~~~g~~~rs~~iRtY~~~~~rv~DhR~~~~~~~~~~~l~G~l~~~i~~~~~ 345 (357) ..+||+|||||||||+||||||||++++|+++||+|+||+||++++. T Consensus 111 ---------------------------------~~~rs~~IRtYn~p~~rvtDhR~~~~~~~l~~vl~G~l~~~i~a~~~ 157 (172) T 2ihr_1 111 ---------------------------------PIEWGSQIRSYVLDKNYVKDHRTGLMRHDPENVLDGDLMDLIWAGLE 157 (172) T ss_dssp ---------------------------------CSCCCSCSEEEEGGGTEEEETTTCCEESCHHHHTTTCCHHHHHHHHH T ss_pred ---------------------------------CCCCCCCCCCEECCCCCCCEECCCCEECCHHHHHCCCHHHHHHHHHH T ss_conf ---------------------------------77767880154679883210033976678688768870999999999 Q ss_pred HHHHHHHHHHCC Q ss_conf 999999874059 Q gi|254780874|r 346 AHQAKMIGSASE 357 (357) Q Consensus 346 ~~~~~~l~~~~e 357 (357) |+++++|.++.+ T Consensus 158 ~~~~~~~~~~~~ 169 (172) T 2ihr_1 158 WKAGRRQGTEEV 169 (172) T ss_dssp HHHTTC------ T ss_pred HHHHHHHHHHHH T ss_conf 999998743443 No 4 >>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} (A:121-231,A:315-365) Probab=100.00 E-value=0 Score=444.11 Aligned_cols=161 Identities=32% Similarity=0.511 Sum_probs=154.7 Q ss_pred CCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEE Q ss_conf 11355403788622688521788999999999999876498400132113544772111377750311121000246502 Q gi|254780874|r 105 DTDDDKSCILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHR 184 (357) Q Consensus 105 de~D~~nailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHR 184 (357) ||+|++||+|||+||+||+||++||+|||+||.+||+++||++++++.++|+.+|+|||++.|+|++||++||+|+|||| T Consensus 1 g~~D~~~~ileI~aG~GG~Ea~~fa~~Ll~mY~~~a~~~g~~~evi~~~~~~~~G~ksv~~~i~G~~ay~~lk~E~GvHr 80 (162) T 1gqe_A 1 GEYDSADCYLDIQAGSGGTEAQDWASXLERXYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHR 80 (162) T ss_dssp STTTTSCEEEEEEECSSHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEEEECSSSSEEEEEEEEESTTHHHHHGGGCEEEE T ss_pred CCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCEEEEECCCCCHHHHCCCCCCCEE T ss_conf 96555671599970797699999999999999999998698799867777653555236763147654321110466135 Q ss_pred EEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHH Q ss_conf 67612545678511016888853033433222454347999852888752000632121588964984488843654135 Q gi|254780874|r 185 VQRVPATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTSSEKSQHQ 264 (357) Q Consensus 185 vqRip~~es~gR~hTS~a~V~V~P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~~eRsQ~~ 264 (357) |||+|||+++||||||||+|+|+|++++.+. T Consensus 81 v~r~s~~~~~~rr~Ts~a~V~VlP~~~e~~~------------------------------------------------- 111 (162) T 1gqe_A 81 LVRKSPFDSGGRRHTSFSSAFVYPEVDDDID------------------------------------------------- 111 (162) T ss_dssp EEEECTTSSSCCEEEEEEEEEEEECCBTTBC------------------------------------------------- T ss_pred EEECCCCCCCCCEEEEEEEEEEECCCCCCCC------------------------------------------------- T ss_conf 6644898888847876667888568887653------------------------------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEEEEECCCEECCHHHHHCCCHHHHHHHHH Q ss_conf 89999999999999999999999998744652246742382210448998112432164417877872886699999999 Q gi|254780874|r 265 NRLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRTYNFSQGRITDHRINLTLYKLEYVLQGYIDDIINPLL 344 (357) Q Consensus 265 Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~~~~g~~~rs~~iRtY~~~~~rv~DhR~~~~~~~~~~~l~G~l~~~i~~~~ 344 (357) +..+||+||||||||||||||||||++++|+++||+|+||+||++++ T Consensus 112 ---------------------------------~~~~~~~~iRtY~~~~~rv~DhR~~~~~~~~~~vl~G~l~~~i~~~~ 158 (162) T 1gqe_A 112 ---------------------------------SDIGWGSQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASL 158 (162) T ss_dssp ---------------------------------CCCCSCSEEEEEEGGGTEEEETTTCCEESCHHHHHTTCCHHHHHHHH T ss_pred ---------------------------------HCCCCCCCCCCCCCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHH T ss_conf ---------------------------------12535487656658998152005697457757875877599999999 Q ss_pred HHH Q ss_conf 999 Q gi|254780874|r 345 TAH 347 (357) Q Consensus 345 ~~~ 347 (357) .|+ T Consensus 159 ~~~ 161 (162) T 1gqe_A 159 KAG 161 (162) T ss_dssp HTT T ss_pred HCC T ss_conf 776 No 5 >>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} (A:84-191,A:274-312) Probab=100.00 E-value=0 Score=388.33 Aligned_cols=146 Identities=58% Similarity=0.963 Sum_probs=141.7 Q ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEEEEEE Q ss_conf 54037886226885217889999999999998764984001321135447721113777503111210002465026761 Q gi|254780874|r 109 DKSCILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRVQRV 188 (357) Q Consensus 109 ~~nailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHRvqRi 188 (357) +++|+|+|+||+||+||++||++||+||.+||+++||++++++.++++.+|+|||++.|+|++||++|++|+|||||||+ T Consensus 2 ~~~~~leI~aG~GG~Ea~~~a~~L~~mY~~~a~~~g~~~evi~~~~~~~~G~ksa~l~i~G~~ay~~l~~E~GvHrvir~ 81 (147) T 1rq0_A 2 SDKAIVEIRPGTGGEEAALFARDLFRMYTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRV 81 (147) T ss_dssp CSEEEEEEEECSSTHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEEECTTSCEEEEEEEEESTTHHHHHGGGCEEEEEEEC T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHEEECCCCCHHHHCCCCCEEEEEEE T ss_conf 45617999447770578899999999999998760345321223332334312121111023304543221100699973 Q ss_pred CCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHH Q ss_conf 25456785110168888530334332224543479998528887520006321215889649844888436541358999 Q gi|254780874|r 189 PATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTSSEKSQHQNRLR 268 (357) Q Consensus 189 p~~es~gR~hTS~a~V~V~P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~~eRsQ~~Nk~~ 268 (357) |||++++|||||||+|+|+|.+++.+ T Consensus 82 sp~~~~~kr~ts~v~V~vlP~~~e~~------------------------------------------------------ 107 (147) T 1rq0_A 82 PVTESGGRIHTSTATVAVLPEIEEKD------------------------------------------------------ 107 (147) T ss_dssp CTTSCSCCCEEEEEEEEEEECCCGGG------------------------------------------------------ T ss_pred CCCCCCCCEEEEEEEEEEEEECCCCC------------------------------------------------------ T ss_conf 36677675566767999997246551------------------------------------------------------ Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEEEEECCCEECCHHHHHCCC Q ss_conf 9999999999999999999998744652246742382210448998112432164417877872886 Q gi|254780874|r 269 AMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRTYNFSQGRITDHRINLTLYKLEYVLQGY 335 (357) Q Consensus 269 A~~~L~~~l~~~~~~~~~~~~~~~r~~~~g~~~rs~~iRtY~~~~~rv~DhR~~~~~~~~~~~l~G~ 335 (357) .||+++||+|||||||||+||||||+|+++++|+.||+|+ T Consensus 108 ---------------------------~~~~~~rs~kirtynf~~~rvtdhr~~~~~~~~~~~~~ge 147 (147) T 1rq0_A 108 ---------------------------IIGTGERSEKIRTYNFPQNRVTDHRINYTSYRLQEILDGD 147 (147) T ss_dssp ---------------------------S-----CCCEEEEEETTTTEEEETTTTEEESCHHHHHTTC T ss_pred ---------------------------ECCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCHHHHHCCC T ss_conf ---------------------------6333456799704018988742312598027867874987 No 6 >>2jy9_A Putative tRNA hydrolase domain; GFT protein structure, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2} (A:) Probab=99.95 E-value=1.9e-28 Score=225.40 Aligned_cols=114 Identities=23% Similarity=0.289 Sum_probs=95.7 Q ss_pred ECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEE------------------------ECCCCEEEEE-CCCCC Q ss_conf 0334332224543479998528887520006321215889------------------------6498448884-36541 Q gi|254780874|r 208 PEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRIT------------------------HIPTGIMVTS-SEKSQ 262 (357) Q Consensus 208 P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~------------------------H~ptgi~v~~-~eRsQ 262 (357) |+++ .++.|+++||+|.|+|||||||||||||+|+|+|+ |+||||+|.| ++||| T Consensus 2 ~~~~-~~i~I~~~~l~~~f~RSsGpGGQ~VNKt~skV~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~s~~~RsQ 80 (148) T 2jy9_A 2 IAIS-RTVSIADNELEITAIRAQGAGGQHVNKTSSAIHLRFDIRASGLPEYYKQRLLTASHHLISDDGVIIIKAQEFRSQ 80 (148) T ss_dssp BCCS-SSCCBCSTTCEEEEECCSCCCSSCSCSCSCEEEEEECSTTSCCCHHHHHHHHHSCCTTBCSSSCEEEEECSSSCH T ss_pred CCCC-CCCCCCHHHEEEEEEECCCCCCCCCCHHCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCCCCH T ss_conf 4347-878257699078988767998764012220147897314467997999999997454545897189997675899 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHCCCCCCCC--CEEECCC-CCCCEEEEECC Q ss_conf 358999999999999999999999999-----874465224674238--2210448-99811243216 Q gi|254780874|r 263 HQNRLRAMKVLRARLYDVERKRMANER-----SANRKLQIGSGDRSE--RIRTYNF-SQGRITDHRIN 322 (357) Q Consensus 263 ~~Nk~~A~~~L~~~l~~~~~~~~~~~~-----~~~r~~~~g~~~rs~--~iRtY~~-~~~rv~DhR~~ 322 (357) ++|++.||.+|++.|.+...+...... .+.|+.+.+...||+ ++|+||| ++++|+||||+ T Consensus 81 ~~N~~~al~kL~~~l~~~~~~~k~~~~~~~~~~~~r~rl~~Kk~rs~~K~~R~~~~~~~~~~~d~~~~ 148 (148) T 2jy9_A 81 ELNREAAIARLVAVIKELTAEQKSRRATRPTRASKERRLSSKAQKSSVKALRGKVRRPLDLEHHHHHH 148 (148) T ss_dssp HHHHHHHHHHHHHHHHHHHSCTTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCC T ss_conf 99999999999999998650777622467467899999999999899986248988975410101469 No 7 >>3d5a_X RF1, peptide chain release factor 1; ribosome, coiled coil, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding; 3.21A {Thermus thermophilus HB27} PDB: 2b64_Y 3d5c_X (X:211-296) Probab=99.93 E-value=2.5e-26 Score=210.11 Aligned_cols=85 Identities=52% Similarity=0.807 Sum_probs=81.2 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2454347999852888752000632121588964984488-843654135899999999999999999999999987446 Q gi|254780874|r 216 DIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRK 294 (357) Q Consensus 216 ~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~ 294 (357) .|+++||+|+|+|||||||||||||+|||||+|+||||+| |+++|||++||+.||.+|+++|++...+++..+....++ T Consensus 1 sI~~~dl~~~~~rssGpGGQ~VNk~~t~V~i~h~ptgi~v~~~~~RSq~~Nr~~A~~~L~~~L~~~~~~~~~~~~~~~~k 80 (86) T 3d5a_X 1 ALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMILRSRLLEMKRAEEAERLRKTRL 80 (86) T ss_dssp CCCGGGEEEEEECCCSCCHHHHHHCCCEEEEEETTTTEEEEECCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCCCCEEEEECCCCCCCCHHHHHHHCCEEEECCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 55542100332036752100156674033579758876998133214489999999999999999999889999999887 Q ss_pred HHCCCC Q ss_conf 522467 Q gi|254780874|r 295 LQIGSG 300 (357) Q Consensus 295 ~~~g~~ 300 (357) .++++| T Consensus 81 ~~~~rG 86 (86) T 3d5a_X 81 AQIGTG 86 (86) T ss_dssp HHSCGG T ss_pred HCCCCC T ss_conf 137434 No 8 >>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y (1:221-303) Probab=99.93 E-value=1.7e-26 Score=211.33 Aligned_cols=81 Identities=53% Similarity=0.758 Sum_probs=74.5 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2454347999852888752000632121588964984488-843654135899999999999999999999999987446 Q gi|254780874|r 216 DIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRK 294 (357) Q Consensus 216 ~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~ 294 (357) .|+++||+|+|+|||||||||||||+|||||+|+||||+| ||++|||++||+.||.+|+++|++...++...+....|+ T Consensus 1 ~I~~~dl~~~~~rssGpGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nr~~A~~~L~~~L~~~~~~~~~~~~~~~~~ 80 (83) T 2ihr_1 1 VLKPEELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKARLYELERKKREEELKALRG 80 (83) T ss_dssp CCCGGGEEEEEECCCCSSCCSGGGSCSEEEEEETTTTEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTC T ss_pred CCCCCCCEEEEEECCCCCCCHHHHHHHHEEEEEECCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 46802204886325762200146543012689824526674201057899999999999999999999999999999984 Q ss_pred HH Q ss_conf 52 Q gi|254780874|r 295 LQ 296 (357) Q Consensus 295 ~~ 296 (357) ++ T Consensus 81 ~~ 82 (83) T 2ihr_1 81 EV 82 (83) T ss_dssp CS T ss_pred CC T ss_conf 74 No 9 >>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} (A:232-314) Probab=99.93 E-value=3.5e-26 Score=209.09 Aligned_cols=82 Identities=50% Similarity=0.797 Sum_probs=76.0 Q ss_pred CCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 22454347999852888752000632121588964984488-84365413589999999999999999999999998744 Q gi|254780874|r 215 VDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANR 293 (357) Q Consensus 215 ~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r 293 (357) +.||++||+|+|+|||||||||||||+|||||+|+||||+| ||++|||++||+.||.+|+++|+++..++..++....| T Consensus 1 i~i~~~dl~~~~~rssGpGGQ~vNK~~t~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r 80 (83) T 1gqe_A 1 IEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAXKQXKAKLYEVEXQKKNAEKQAXE 80 (83) T ss_dssp CCCCGGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCS T ss_pred EECCCCCEEEEEECCCCCCCCCCCCCCEEEEEEEECCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 00167624799723889987665642404899982687289950665467899999999999999999999999999887 Q ss_pred HHH Q ss_conf 652 Q gi|254780874|r 294 KLQ 296 (357) Q Consensus 294 ~~~ 296 (357) +++ T Consensus 81 ~~k 83 (83) T 1gqe_A 81 DNK 83 (83) T ss_dssp TTC T ss_pred HHH T ss_conf 503 No 10 >>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural genomics, joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans} (A:229-311) Probab=99.93 E-value=4e-26 Score=208.63 Aligned_cols=82 Identities=43% Similarity=0.658 Sum_probs=77.3 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2454347999852888752000632121588964984488-843654135899999999999999999999999987446 Q gi|254780874|r 216 DIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRK 294 (357) Q Consensus 216 ~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~ 294 (357) +|+++||+|+|+|||||||||||||+|||||+|+||||+| ||++|||++||+.||.+|+++|++...++...+....|+ T Consensus 1 eI~~~dl~~~~~rssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~~~~~~~~~~~~ 80 (83) T 1zbt_A 1 EIDPKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEXQEERTQQKNRDKAXKIIRARVADHFAQIAQDEQDAERK 80 (83) T ss_dssp CCCGGGEEEEEECC---------CCCCEEEEEETTTTEEEEECSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTCC--- T ss_pred CCCCCCCEEEEECCCCCCCCCCCCHHHEEEEEECCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 36766516998327887554545132015799827884574553465477799999999999999999999999999876 Q ss_pred HHC Q ss_conf 522 Q gi|254780874|r 295 LQI 297 (357) Q Consensus 295 ~~~ 297 (357) ++| T Consensus 81 ~~i 83 (83) T 1zbt_A 81 STV 83 (83) T ss_dssp -CC T ss_pred HCC T ss_conf 104 No 11 >>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} (A:192-273) Probab=99.92 E-value=1.1e-25 Score=205.45 Aligned_cols=80 Identities=54% Similarity=0.824 Sum_probs=73.3 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2454347999852888752000632121588964984488-843654135899999999999999999999999987446 Q gi|254780874|r 216 DIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRK 294 (357) Q Consensus 216 ~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~r~ 294 (357) +|+++||+|+|+|||||||||||||+|||||+|+||||+| |+++|||++||..||.+|+++|++...++...+....++ T Consensus 1 ~I~~~dl~~~~~rssGpGGQ~VNkt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~~~~~~~~~~~~ 80 (82) T 1rq0_A 1 EIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARLYQLQKEQKEREISQKRK 80 (82) T ss_dssp CCCGGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCC--- T ss_pred EECCCCEEEEECCCCCHHCCHHHHHHHEEEEEECCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 76520314652036410001132444024799869860887035664448999999999999999999999999999876 Q ss_pred H Q ss_conf 5 Q gi|254780874|r 295 L 295 (357) Q Consensus 295 ~ 295 (357) . T Consensus 81 ~ 81 (82) T 1rq0_A 81 S 81 (82) T ss_dssp - T ss_pred C T ss_conf 1 No 12 >>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} (B:215-294) Probab=99.91 E-value=2.5e-25 Score=202.94 Aligned_cols=77 Identities=52% Similarity=0.811 Sum_probs=68.9 Q ss_pred CCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEE-EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 22454347999852888752000632121588964984488-843654135899999999999999999999999987 Q gi|254780874|r 215 VDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSA 291 (357) Q Consensus 215 ~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v-~~~eRsQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~ 291 (357) .+|+++||+|+|||||||||||||||+|||||+|+||||+| ||++|||++||+.||++|+++|++...++...+... T Consensus 1 pei~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~~L~~~L~~~~~~~~~~~~~~ 78 (80) T 2b3t_B 1 PDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEAS 78 (80) T ss_dssp CCCCSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHTTTTTTSCC----- T ss_pred CCCCCCCCEEEEECCCCCCCCCCCHHHCEEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 540710247987228875554202044015899868874888307876058999999999999999998777999999 No 13 >>1j26_A Immature colon carcinoma transcript 1; peptide chain release factors, RF-1, the GGQ motif, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} (A:) Probab=99.85 E-value=1.1e-21 Score=176.67 Aligned_cols=81 Identities=23% Similarity=0.373 Sum_probs=72.2 Q ss_pred EEEEEEECC-CCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEE-------------------------CCCCEEE Q ss_conf 888853033-43322245434799985288875200063212158896-------------------------4984488 Q gi|254780874|r 202 ATVAVLPEA-AEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITH-------------------------IPTGIMV 255 (357) Q Consensus 202 a~V~V~P~~-~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H-------------------------~ptgi~v 255 (357) |+|.++|.. +..++.|+++||+|.|+|||||||||||||+|+|+|+| .|+||+| T Consensus 1 a~~~~~~~~~~~~~~~Ip~~~l~~~~~RssGpGGQ~VNK~~skv~l~~~~~~~~~l~~~~~~~l~~~~~~r~~~~~~l~i 80 (112) T 1j26_A 1 GSSGSSGEHAKQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVL 80 (112) T ss_dssp CCCCSCSSCCCSSCCCCCTTTSEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEE T ss_pred CCCCCCHHHHHHHCCCCCHHHEEEEEEECCCCCCCCCCCCCCCEEEEECHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEE T ss_conf 98886501133404704878937998876799998444303030589762323579999999999986373666983999 Q ss_pred E-ECCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 8-43654135899999999999999999 Q gi|254780874|r 256 T-SSEKSQHQNRLRAMKVLRARLYDVER 282 (357) Q Consensus 256 ~-~~eRsQ~~Nk~~A~~~L~~~l~~~~~ 282 (357) . +.+|||++||+.|+++|++.|++... T Consensus 81 ~~~~~RsQ~~N~~~a~~kL~~~l~~a~~ 108 (112) T 1j26_A 81 TSESSRYQFRNLAECLQKIRDMIAEASG 108 (112) T ss_dssp EECCCSSHHHHHHHHHHHHHHHHHHHHC T ss_pred EECCCCCHHHHHHHHHHHHHHHHHHHHC T ss_conf 9887679999999999999999999748 No 14 >>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural genomics, PSI-2, protein structure initiative; NMR {Pseudomonas syringae PV} (A:14-108) Probab=99.80 E-value=9.7e-20 Score=162.59 Aligned_cols=63 Identities=29% Similarity=0.449 Sum_probs=58.5 Q ss_pred EEEEEEECCCCCCCCCCCCCCCEEEEE------------------------ECCCCEEEE-ECCCCCHHHHHHHHHHHHH Q ss_conf 479998528887520006321215889------------------------649844888-4365413589999999999 Q gi|254780874|r 221 DIRIDTMRASGSGGQHVNTTDSAVRIT------------------------HIPTGIMVT-SSEKSQHQNRLRAMKVLRA 275 (357) Q Consensus 221 dl~i~~~rssG~GGQ~vN~t~savri~------------------------H~ptgi~v~-~~eRsQ~~Nk~~A~~~L~~ 275 (357) ||+|+|+|||||||||||||+|+|+|+ |+||||+|. ++.|||++||+.||++|++ T Consensus 1 el~~~~~RsSGPGGQ~VNKt~skV~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~i~~~~~RSQ~~Nr~~a~~kL~~ 80 (95) T 2jva_A 1 EIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLKAQQYRTQEQNRADALLRLSE 80 (95) T ss_dssp GEEEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCTTCEEEEEECCSSSHHHHHHHHHHHHHH T ss_pred HEEEEEEECCCCCCCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH T ss_conf 93899998679988840211523689976655568868999999875312356973999986747999999999999999 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780874|r 276 RLYDVERK 283 (357) Q Consensus 276 ~l~~~~~~ 283 (357) +|++.... T Consensus 81 ~l~~~~~~ 88 (95) T 2jva_A 81 LIVNAAKL 88 (95) T ss_dssp HHHHHHHS T ss_pred HHHHHHHH T ss_conf 99999887 No 15 >>3d5a_X RF1, peptide chain release factor 1; ribosome, coiled coil, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding; 3.21A {Thermus thermophilus HB27} PDB: 2b64_Y 3d5c_X (X:1-99,X:332-354) Probab=99.25 E-value=5.8e-11 Score=99.27 Aligned_cols=96 Identities=24% Similarity=0.422 Sum_probs=86.5 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH Q ss_conf 89899999999999998538531579---999999998799999999999999998999999972037853566543322 Q gi|254780874|r 6 HKQICDLKNRFAEIELRMSESPSVDA---YIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIE 82 (357) Q Consensus 6 ~~kL~~l~~rl~ELE~~Lsdp~~w~d---~~klsKe~s~L~~iv~~~~~~~~~~~ei~el~eLl~e~e~D~El~elAeeE 82 (357) .++|+.+..|+.+|+.++++|+||+| ++++++++++|+++++.|+.|.+...++.++.+|. +|+++.+++.+| T Consensus 2 ~~rLe~l~~r~~eLe~~lsdp~fw~D~~~a~~i~kE~~~L~~~v~~y~~l~~~~~di~el~el~----~D~e~~ela~eE 77 (122) T 3d5a_X 2 LDKLDRLEEEYRELEALLSDPEVLKDKGRYQSLSRRYAEMGEVIGLIREYRKVLEDLEQAESLL----DDPELKEMAKAE 77 (122) T ss_dssp HHHHHHHTHHHHHHHHHTTSTTTTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTST----TCHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHCCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HCHHHHHHHHHH T ss_conf 1579999999999999870984223999999999999999999999999999999899999985----082211246789 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 23320005778889998640001 Q gi|254780874|r 83 VLAIEKEIRELENEINYLLLPKD 105 (357) Q Consensus 83 l~~l~~~l~~le~eL~~~LLpsd 105 (357) +..+...++.++.+|+.+|+|+- T Consensus 78 l~~L~~~i~~lE~~L~~lLlPK~ 100 (122) T 3d5a_X 78 REALLARKEALEKELERHLLPKL 100 (122) T ss_dssp HHHHHHHHHHHHHHHHHHHSTTC T ss_pred HHHHHHHHHHHHHHHHHHHHCCH T ss_conf 98765457789999999840343 No 16 >>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural genomics, joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans} (A:1-116) Probab=99.24 E-value=1.6e-11 Score=103.27 Aligned_cols=101 Identities=24% Similarity=0.350 Sum_probs=93.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH Q ss_conf 78689899999999999998538531579---999999998799999999999999998999999972037853566543 Q gi|254780874|r 3 FLSHKQICDLKNRFAEIELRMSESPSVDA---YIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLA 79 (357) Q Consensus 3 mi~~~kL~~l~~rl~ELE~~Lsdp~~w~d---~~klsKe~s~L~~iv~~~~~~~~~~~ei~el~eLl~e~e~D~El~elA 79 (357) .-...+++.+..|+.+|+.++++|+||+| +++++|+++.|+++++.|..|.+...++.++.+++.+.++|++|.++| T Consensus 13 ~~~~~~le~~~~rl~eLe~~l~~p~~w~D~~~a~~i~ke~~~L~~~v~~~~~~~~~~~d~~~l~ell~~ee~D~e~~~~a 92 (116) T 1zbt_A 13 XNIYDQLQAVEDRYEELGELLSDPDVVSDTKRFXELSREEANSRETVAVYREYKQVVQNIADAQEXIKDASGDPELEEXA 92 (116) T ss_dssp CCHHHHHHHHHHHHHHC--------------------CCHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH T ss_conf 12999999999999999998709841119999999999999899999999999999987999999985036775788788 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 322233200057788899986400 Q gi|254780874|r 80 QIEVLAIEKEIRELENEINYLLLP 103 (357) Q Consensus 80 eeEl~~l~~~l~~le~eL~~~LLp 103 (357) ..|+..+...+..++.+|+.+|+| T Consensus 93 ~~el~~l~~~~~~lE~~L~~lLlP 116 (116) T 1zbt_A 93 KEELKNSKVAKEEYEEKLRFLLLP 116 (116) T ss_dssp HHHHHHHHHHHHHHHHHHHTTTSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 775343333467778888886026 No 17 >>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} (A:1-120) Probab=99.03 E-value=2.5e-09 Score=87.47 Aligned_cols=87 Identities=17% Similarity=0.235 Sum_probs=79.6 Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 899999999999998538531579---99999999879999999999999999899999997203785356654332223 Q gi|254780874|r 8 QICDLKNRFAEIELRMSESPSVDA---YIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIEVL 84 (357) Q Consensus 8 kL~~l~~rl~ELE~~Lsdp~~w~d---~~klsKe~s~L~~iv~~~~~~~~~~~ei~el~eLl~e~e~D~El~elAeeEl~ 84 (357) +++.+..|+.+|+.++++|+||+| +++++++++.|+++++.|..|.+...++.++.+|+.+ ++|++|.+++..++. T Consensus 26 ~l~~~~~rl~eLe~~l~~p~fw~d~~~a~~i~ke~~~L~~~v~~~~~l~~~~~dl~~~~el~~e-e~D~e~~e~~~~el~ 104 (120) T 1gqe_A 26 DYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDTLDQXKQGLEDVSGLLELAVE-ADDEETFNEAVAELD 104 (120) T ss_dssp THHHHHHHHHHHHHHHHSGGGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HTCHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH T ss_conf 9899999999999986097245499999999999999999999999999999989999998750-224679999999999 Q ss_pred HHHHHHHHHHH Q ss_conf 32000577888 Q gi|254780874|r 85 AIEKEIRELEN 95 (357) Q Consensus 85 ~l~~~l~~le~ 95 (357) .+...++.++. T Consensus 105 ~l~~~l~~lE~ 115 (120) T 1gqe_A 105 ALEEKLAQLEF 115 (120) T ss_dssp HHHHHHHHHGG T ss_pred HHHHHHHHHHH T ss_conf 99999999987 No 18 >>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y (1:1-110) Probab=98.70 E-value=1.9e-09 Score=88.29 Aligned_cols=91 Identities=19% Similarity=0.177 Sum_probs=74.6 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 989999999999999853853157999---99999987999999999999999989999999720378535665433222 Q gi|254780874|r 7 KQICDLKNRFAEIELRMSESPSVDAYI---KLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIEV 83 (357) Q Consensus 7 ~kL~~l~~rl~ELE~~Lsdp~~w~d~~---klsKe~s~L~~iv~~~~~~~~~~~ei~el~eLl~e~e~D~El~elAeeEl 83 (357) -+++.++.|+.+|+.+|++|+||+|+. +++|++++|+++++.|..|.....++.++.+|. |+++.++++.++ T Consensus 17 ldl~~~~~r~~eLe~~l~~p~~w~d~~~a~~i~ke~~~L~~~v~~~~~~~~~~~d~~~l~el~-----d~e~~e~~~~el 91 (110) T 2ihr_1 17 FDIPQKETRLKELERRLEDPSLWNDPEAARKVSQEAARLRRTVDTFRSLESDLQGLLELMEEL-----PAEEREALKPEL 91 (110) T ss_dssp SSHHHHHHHHTTTTTSTTCGGGTTTGGGSSSTTHHHHHTHHHHHHHHHHHHHTTTHHHHTTCS-----CCTTGGGTGGGT T ss_pred CCHHHHHHHHHHHHHHHCCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CHHHHHHHHHHH T ss_conf 489999999999999872980334999999999999999999999999999999999986411-----054566677552 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 33200057788899986400011 Q gi|254780874|r 84 LAIEKEIRELENEINYLLLPKDT 106 (357) Q Consensus 84 ~~l~~~l~~le~eL~~~LLpsde 106 (357) ..+...+..++ ..+|+||| T Consensus 92 ~~l~~~l~~lE----~~~LLsgP 110 (110) T 2ihr_1 92 EEAAKKLDELY----HQTLLNFP 110 (110) T ss_dssp HHHHHHHHHHH----HHHHTCSS T ss_pred HCCCCHHHHHH----HHHHHCCC T ss_conf 01000026899----98862033 No 19 >>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} (A:1-83,A:313-342) Probab=91.80 E-value=1.1 Score=25.17 Aligned_cols=78 Identities=24% Similarity=0.363 Sum_probs=50.9 Q ss_pred HHHHHHHHHCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999985385315-7999999999879999999999999999899999997203785356654332223320005778 Q gi|254780874|r 15 RFAEIELRMSESPSV-DAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIEVLAIEKEIREL 93 (357) Q Consensus 15 rl~ELE~~Lsdp~~w-~d~~klsKe~s~L~~iv~~~~~~~~~~~ei~el~eLl~e~e~D~El~elAeeEl~~l~~~l~~l 93 (357) +-.++++.++.|+.- .......-+|+.+..+.+..+... +-.+..+++.+++.| +.|+...++.++.+ T Consensus 4 kkkeiekll~rpdlspe~mknyg~eyak~eeie~i~nri~----etqefiell~ee~e~-------e~ei~~yekeld~l 72 (113) T 1rq0_A 4 KKKEIEKLLARPDLTPEQMKNYGMEYAKIEEIENITNRIK----ETQEFIELLREEGEN-------ELEIEKYEKELDQL 72 (113) T ss_dssp TTTHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHTTTTTTTTC-------CSCHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHCCCCC-------HHHHHHHHHHHHHH T ss_conf 9999999972899899999999999999999999999999----899999998648875-------89999999999999 Q ss_pred HHHHHHHHCC Q ss_conf 8899986400 Q gi|254780874|r 94 ENEINYLLLP 103 (357) Q Consensus 94 e~eL~~~LLp 103 (357) ..+|.++|-| T Consensus 73 ~qel~~llsp 82 (113) T 1rq0_A 73 YQELLFLLSP 82 (113) T ss_dssp HHHHHHHHSC T ss_pred HHHHHCCCCC T ss_conf 9975311320 No 20 >>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold, coiled coil, riken structural genomics/proteomics initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus} (A:704-862) Probab=55.23 E-value=14 Score=17.10 Aligned_cols=15 Identities=0% Similarity=-0.068 Sum_probs=4.7 Q ss_pred HHHHHHHHHHHCCCC Q ss_conf 999999999853853 Q gi|254780874|r 13 KNRFAEIELRMSESP 27 (357) Q Consensus 13 ~~rl~ELE~~Lsdp~ 27 (357) ...+..+...|++|+ T Consensus 110 ~~ei~~~~~~L~n~~ 124 (159) T 1gax_A 110 LALAERSQRKLASPG 124 (159) T ss_dssp HHHHHHHHHHHTSTT T ss_pred HHHHHHHHHHHCCHH T ss_conf 999999998767877 No 21 >>1yll_A PA5104, conserved hypothetical protein; structural genomics, beta- barrels, PSI, protein structure initiative; 1.64A {Pseudomonas aeruginosa PAO1} (A:1-12,A:118-200) Probab=53.46 E-value=9.7 Score=18.30 Aligned_cols=52 Identities=17% Similarity=0.228 Sum_probs=39.9 Q ss_pred CEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCEEEE----EEECCCCCCC Q ss_conf 5026761254567851101688885303343322245434799----9852888752 Q gi|254780874|r 182 VHRVQRVPATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRI----DTMRASGSGG 234 (357) Q Consensus 182 vHRvqRip~~es~gR~hTS~a~V~V~P~~~~~~~~i~~~dl~i----~~~rssG~GG 234 (357) .-|+|++.....+ |-++|.-+|.|+-.-++++|.|+..+..+ ||-+--|.+| T Consensus 16 ~ARLQWld~~~~q-~~~SsAstvliFn~~~~v~V~v~g~~~q~L~~~dcL~ie~n~~ 71 (95) T 1yll_A 16 RARLQWLRVEGEL-DWHGTASTLLLFAQQDGVAISLQGQPRGQLAAHDCLCAEGLQG 71 (95) T ss_dssp EEEEEEEEEEEEE-EEEECCSEEEEEESSSCEEEEETTEEEEEECTTCEEEEESCCS T ss_pred EEEEEEEECCCCC-EECCCCCEEEEEECCCCEEEECCCCCEEECCCCCEEEEECCCC T ss_conf 7999999616740-0116886699998668789983997237517888899948987 No 22 >>2waq_A DNA-directed RNA polymerase RPO1N subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_A 2pmz_A 3hkz_A (A:487-514,A:600-650) Probab=41.01 E-value=23 Score=15.59 Aligned_cols=32 Identities=16% Similarity=0.424 Sum_probs=28.4 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHH Q ss_conf 88521788999999999999876498400132 Q gi|254780874|r 120 TGGSEAALFVGDLFRMYERYAALRKWKVEVLS 151 (357) Q Consensus 120 aGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~ 151 (357) -|..+|..|-..+.||-.+|-..+||++-+-| T Consensus 48 yG~~~a~~fl~~iqrl~~~~L~~~GFSiGi~D 79 (79) T 2waq_A 48 YSDEYGKWLMDNLFRVFIRFVELQGFTMRLED 79 (79) T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHCCCCCGGG T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 20035578999999999999887412221000 No 23 >>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A (A:1-113) Probab=40.42 E-value=24 Score=15.52 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=20.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HHCCCCCCCC Q ss_conf 332223320005778889998--6400011355 Q gi|254780874|r 79 AQIEVLAIEKEIRELENEINY--LLLPKDTDDD 109 (357) Q Consensus 79 AeeEl~~l~~~l~~le~eL~~--~LLpsde~D~ 109 (357) +..++..++..+..++.++.. +.+|+-++++ T Consensus 81 lk~~l~~le~~~~~~~~~~~~lll~iPNi~~~S 113 (113) T 2dq0_A 81 IVKRIGELENEVEELKKKIDYYLWRLPNITHPS 113 (113) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 999999999999999999888776540023566 No 24 >>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} (A:272-395,A:513-542) Probab=35.25 E-value=28 Score=14.97 Aligned_cols=66 Identities=14% Similarity=0.135 Sum_probs=41.0 Q ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH-------HHHHHH---HHHHHHHHHHHHC Q ss_conf 78689899999999999998538531579999999998799999999-------999999---9989999999720 Q gi|254780874|r 3 FLSHKQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKI-------SIYDQK---KQEEQDLHTVIGD 68 (357) Q Consensus 3 mi~~~kL~~l~~rl~ELE~~Lsdp~~w~d~~klsKe~s~L~~iv~~~-------~~~~~~---~~ei~el~eLl~e 68 (357) +-|-...+.|..|++-++...++++.+......-+...++..+...+ ..|... ...+..+..++.. T Consensus 22 ~~Pl~d~~~I~~RqdaVe~l~~n~~~~~~l~~~Lk~i~Dler~l~k~~~~~~~~~d~~~l~~~l~~i~~i~~~l~~ 97 (154) T 1ewq_A 22 RHPLLDRGPLEARLDRVEGFVREGALREGVRRLLYRLADLERLATRLELGRASPKDLGALRRSLQILPELRALLGE 97 (154) T ss_dssp HSCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTCCCHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHCT T ss_pred HCCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 1756899999999999999973978899999998508867899999996588999999999999986999999863 No 25 >>1v33_A DNA primase small subunit; nucleotidyl transferase, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: DNA; 1.80A {Pyrococcus horikoshii} (A:1-179,A:304-344) Probab=33.84 E-value=15 Score=16.85 Aligned_cols=85 Identities=21% Similarity=0.204 Sum_probs=60.0 Q ss_pred CEEEEEECC------CCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCC---CC Q ss_conf 037886226------885217889999999999998764984001321135447721113777503111210002---46 Q gi|254780874|r 111 SCILEIRAG------TGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFE---SG 181 (357) Q Consensus 111 nailEI~aG------aGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E---~G 181 (357) +-+..|-|- +++.++.....++-.|.. .++++...=-+.=|+|.+-+..+|.|.==|..-| .- T Consensus 111 ELVFDIDaddy~~~r~cc~~~~iC~~C~~~~~~--------av~~L~~~L~eDFGfk~i~~vFSGRG~Hv~V~De~at~D 182 (220) T 1v33_A 111 ELVFDIDAKDLPLRRCEHEPGTVCPICLNDAKE--------IVRDTVIILREELGFNDIHIIYSGRGYHIRVLDEWATVD 182 (220) T ss_dssp CEEEEEEGGGCSSCSSCSCTTCCCHHHHHHHHH--------HHHHHHHHHHHTTCCCCEEEEECSSEEEEEECCHHHHHC T ss_pred CEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHH--------HHHHHHHHHHHCCCCCCEEEEECCCEEEEEECCHHHCCC T ss_conf 247872376578754344651079999999999--------999999999861698503788408768998569888899 Q ss_pred CEEEEEECCCCCCCCCCEEEEEEEE Q ss_conf 5026761254567851101688885 Q gi|254780874|r 182 VHRVQRVPATEASGRVHTSAATVAV 206 (357) Q Consensus 182 vHRvqRip~~es~gR~hTS~a~V~V 206 (357) +|||.|+|-.=- |+ |++..+.| T Consensus 183 ~~rliRlp~slh-gk--~gl~v~~~ 204 (220) T 1v33_A 183 LKRILRLPSTLH-SK--VGLIAKYV 204 (220) T ss_dssp TTCEEECTTSEE-TT--TTEECCEE T ss_pred CCCEEECCCCCC-CC--CCCEEEEC T ss_conf 985344898754-88--88778971 No 26 >>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (i:) Probab=32.50 E-value=29 Score=14.84 Aligned_cols=18 Identities=22% Similarity=0.211 Sum_probs=15.2 Q ss_pred CCCCCCCEEEEEEEEEEC Q ss_conf 567851101688885303 Q gi|254780874|r 192 EASGRVHTSAATVAVLPE 209 (357) Q Consensus 192 es~gR~hTS~a~V~V~P~ 209 (357) .+.|||.||.|.|.+.|= T Consensus 11 ~~~GrRKta~A~v~l~~G 28 (146) T 2zkq_i 11 QVFGRKKTATAVAHCKRG 28 (146) T ss_dssp EECCBCSSCEEEEEEEES T ss_pred EEECCCCEEEEEEEEEEC T ss_conf 896626028999999916 No 27 >>3cnf_A VP1; cytoplasmic polyhedrosis virus, capsid protein, turret protein, polyhedrin-binding domain, guanylyltransferase domain; 3.88A {Bombyx mori cypovirus 1} (A:1083-1230) Probab=30.05 E-value=29 Score=14.89 Aligned_cols=52 Identities=21% Similarity=0.333 Sum_probs=31.8 Q ss_pred ECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEE-CCCCC Q ss_conf 03343322245434799985288875200063212158896498448884-36541 Q gi|254780874|r 208 PEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTS-SEKSQ 262 (357) Q Consensus 208 P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~-~eRsQ 262 (357) |++|++ ..|++.-+-.+.-. |=--.|.||+..- |--||-|||..+.| .+|-. T Consensus 2 ~~PD~v-P~vP~GYv~~~YA~-~LF~S~~~N~~~R-~~Y~~~~~G~~~~~~t~RP~ 54 (148) T 3cnf_A 2 PDPDFV-PDVPEGYVAVQYAH-RLFSSSLANKRNR-VTYTHPPTGMAYPSPTGRPH 54 (148) T ss_pred CCCCCC-CCCCCCEEEEEHHH-HHHHHHHHCCCCE-EEEECCCCCEEEECCCCCCE T ss_conf 785446-66875306430566-7876644133424-67742677536305367970 No 28 >>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL biogenesis/degradation, isomerase, peptidoglycan synthesis, pyridoxal phosphate; HET: KCX PLP; 2.40A {Escherichia coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A* 3b8w_A* (A:31-242) Probab=29.01 E-value=35 Score=14.27 Aligned_cols=68 Identities=4% Similarity=-0.073 Sum_probs=55.8 Q ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCC Q ss_conf 37886226885217889999999999998764984001321135447721113777503111210002 Q gi|254780874|r 112 CILEIRAGTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFE 179 (357) Q Consensus 112 ailEI~aGaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E 179 (357) +=+--|.|.+.++..-|+..++..+.+.+.+..-.+.+.+...+-.......+..=-|-..||+.-++ T Consensus 144 ~Gi~~H~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~d~vR~G~~~yG~~~~~ 211 (212) T 2rjg_A 144 VNIVSHFARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLE 211 (212) T ss_dssp CEEECCCSSTTCTTSTHHHHHHHHHHHHHTTCCSCEECCCHHHHHHCGGGCSSEECCCGGGGTCCSSS T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 67860315565436589999999999998615332323465332167612366435773125777642 No 29 >>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} (I:) Probab=28.87 E-value=34 Score=14.36 Aligned_cols=19 Identities=26% Similarity=0.347 Sum_probs=15.8 Q ss_pred CCCCCCCEEEEEEEEEECC Q ss_conf 5678511016888853033 Q gi|254780874|r 192 EASGRVHTSAATVAVLPEA 210 (357) Q Consensus 192 es~gR~hTS~a~V~V~P~~ 210 (357) -+.|||.||.|.|.+.|=. T Consensus 5 ~~~GkRKta~A~v~l~~G~ 23 (128) T 2vqe_I 5 YGTGRRKEAVARVFLRPGN 23 (128) T ss_dssp EECCEETTEEEEEEEEESS T ss_pred EEECCCCCEEEEEEEECCC T ss_conf 8725050589999998388 No 30 >>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB: 2yrf_A* (A:) Probab=27.90 E-value=37 Score=14.13 Aligned_cols=144 Identities=13% Similarity=0.019 Sum_probs=79.5 Q ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHH Q ss_conf 99989999999720378535665433222332000577888999864000113554037886226885217889999999 Q gi|254780874|r 55 KKQEEQDLHTVIGDHNSDSEIRDLAQIEVLAIEKEIRELENEINYLLLPKDTDDDKSCILEIRAGTGGSEAALFVGDLFR 134 (357) Q Consensus 55 ~~~ei~el~eLl~e~e~D~El~elAeeEl~~l~~~l~~le~eL~~~LLpsde~D~~nailEI~aGaGG~EA~dwA~~L~r 134 (357) +.+-+..+...+....+..++++.+.+.+..+..++.+..+.+-..- .+--.+ +..|=.+..+|..+..+|-.-+.- T Consensus 121 l~na~~~~~~~i~~~~~~~~~k~~l~~~~~~~~~e~~~a~~~I~~~~--~~~i~~-g~~ILT~~~S~~v~~~l~~ta~~~ 197 (374) T 2yvk_A 121 LSWALERLSHSVENAISVNEAKTNLVHEAIQIQVEDEETCRLIGQNA--LQLFKK-GDRIMTICNAGSIATSRYGTALAP 197 (374) T ss_dssp HHHHHHHHHHHTTTCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--GGGCCT-TCEEEECSCCSTTTSSSSCSTTHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHEECC-CCEEEEECCCCCEEEEEHHHHHHH T ss_conf 99999999999972453027999999999999999999999999997--653248-988977427741132111215677 Q ss_pred HHHHHHHHCCCCCCHHHHCCCCCCCC---C-----EEEEEEECCCHHHHHHCCCCCEEEE----EECCCC-CCCCCCEEE Q ss_conf 99999876498400132113544772---1-----1137775031112100024650267----612545-678511016 Q gi|254780874|r 135 MYERYAALRKWKVEVLSSSDNDDGGY---K-----EIVATISGRGVFSRMKFESGVHRVQ----RVPATE-ASGRVHTSA 201 (357) Q Consensus 135 MY~r~ae~~gwk~eii~~~~ge~aGi---k-----~v~~~I~G~~aYg~Lk~E~GvHRvq----Rip~~e-s~gR~hTS~ 201 (357) ++.-+...++|+|-+.+.-|.-+|.- + .+-..+--+++-|++-.-..|..|. ||-... --+|+=|.. T Consensus 198 i~~a~~~gk~~~V~v~EsrP~~eG~~l~a~~L~~~GI~vtlI~Dsa~~~~m~~~~vd~VivGAd~I~~nG~v~nkiGT~~ 277 (374) T 2yvk_A 198 FYLAKQKDLGLHIYACETRPVLQGSRLTAWELMQGGIDVTLITDSMAAHTMKEKQISAVIVGADRIAKNGDTANKIGTYG 277 (374) T ss_dssp HHHHHHTTCCCEEEEECCTTTTHHHHTHHHHHHTTTCEEEEECGGGHHHHHHHTTCCEEEECCSEEETTCCEEEETTHHH T ss_pred HHHHHCCCCCCEEEECCCCCCCCHHHHHHHEEHHCCCCEEEEECCCHHHHHHHCCCCEEEECCEEEECCCCCCCCCCHHH T ss_conf 88764146551466324433452122332000204663289972307887651365448752227854897003443889 No 31 >>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A (A:1-79) Probab=27.86 E-value=16 Score=16.77 Aligned_cols=30 Identities=17% Similarity=0.235 Sum_probs=18.0 Q ss_pred CCCCCCCCCCCCCCE-------EEEEECCCCEEEEEC Q ss_conf 888752000632121-------588964984488843 Q gi|254780874|r 229 ASGSGGQHVNTTDSA-------VRITHIPTGIMVTSS 258 (357) Q Consensus 229 ssG~GGQ~vN~t~sa-------vri~H~ptgi~v~~~ 258 (357) ||=.||||||+-.+. .-+---|+.|++.|+ T Consensus 2 ~~~~~~~~~~~~~~~MI~~i~G~i~~~~~~~ivIev~ 38 (79) T 2ztd_A 2 ASMTGGQQMGRGSEFMIASVRGEVLEVALDHVVIEAA 38 (79) T ss_dssp --------CCSSCCCSCCEEEEEEEEECSSEEEEEET T ss_pred CCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEEC T ss_conf 6655543137997223168999999971998999979 No 32 >>1m0d_A Endonuclease, endodeoxyribonuclease I; holliday junction resolvase, homodimer, domain swapped, composite active site, hydrolase; 1.90A {Enterobacteria phage T7} (A:32-138) Probab=27.85 E-value=25 Score=15.30 Aligned_cols=13 Identities=15% Similarity=0.307 Sum_probs=10.4 Q ss_pred HHHHHHHCCCCCC Q ss_conf 9999876498400 Q gi|254780874|r 136 YERYAALRKWKVE 148 (357) Q Consensus 136 Y~r~ae~~gwk~e 148 (357) |-.||+++||.+- T Consensus 67 Ya~Wc~khGf~~a 79 (107) T 1m0d_A 67 YGEFCEKHGIKFA 79 (107) T ss_dssp HHHHHHHHTCCEE T ss_pred HHHHHHHCCCCCC T ss_conf 9999987399745 No 33 >>3jyv_I 40S ribosomal protein S16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_I (I:) Probab=27.24 E-value=38 Score=14.05 Aligned_cols=17 Identities=18% Similarity=0.280 Sum_probs=14.9 Q ss_pred CCCCCCCEEEEEEEEEE Q ss_conf 56785110168888530 Q gi|254780874|r 192 EASGRVHTSAATVAVLP 208 (357) Q Consensus 192 es~gR~hTS~a~V~V~P 208 (357) -+.|||.||.|.|.+.| T Consensus 3 ~~~GrRKta~A~v~l~~ 19 (138) T 3jyv_I 3 QTFGKKKSATAVAHVKA 19 (138) T ss_dssp CCCCCSSSCEEEEEEEE T ss_pred EEECCCEEEEEEEEEEC T ss_conf 41664720899999984 No 34 >>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutation, protein-DNA complex, DNA mispair, cancer, ABC transporter ATPase; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B* (B:419-624,B:672-732) Probab=26.25 E-value=28 Score=15.00 Aligned_cols=60 Identities=13% Similarity=0.174 Sum_probs=39.6 Q ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 786898999999999999985385315799999999987999999999999999989999 Q gi|254780874|r 3 FLSHKQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDL 62 (357) Q Consensus 3 mi~~~kL~~l~~rl~ELE~~Lsdp~~w~d~~klsKe~s~L~~iv~~~~~~~~~~~ei~el 62 (357) +-|-..++.|..|++-++..+.++++-.......+...++..+...+............+ T Consensus 23 ~~Pl~d~~~I~~Rqd~Ve~l~~n~~~~~~l~~~Lk~~~D~~rll~ki~~~~~~~~~~~~~ 82 (267) T 2o8b_B 23 CAPLCNHYAINDRLDAIEDLMVVPDKISEVVELLKKLPDLERLLSKIHNVGSPLKSQNHP 82 (267) T ss_dssp HSCBCCHHHHHHHHHHHHHHHTCHHHHHHHHHHHTTCCCHHHHHHHHHHHHCHHHHHHCG T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHCCCC T ss_conf 756655677777899987664021067899999744896055545543046743320452 No 35 >>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline + tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A {Thermus thermophilus} (A:27-68,A:112-272,A:378-477) Probab=26.20 E-value=39 Score=13.93 Aligned_cols=72 Identities=17% Similarity=-0.014 Sum_probs=56.0 Q ss_pred EEEEE-CCCCCCHHHHHHHHHHHHHHHHHHHC-CCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEE Q ss_conf 78862-26885217889999999999998764-98400132113544772111377750311121000246502 Q gi|254780874|r 113 ILEIR-AGTGGSEAALFVGDLFRMYERYAALR-KWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHR 184 (357) Q Consensus 113 ilEI~-aGaGG~EA~dwA~~L~rMY~r~ae~~-gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHR 184 (357) ..|++ .-+--.+|..|...++.+|.++.++- +-.+.+...++++.++...-++.|......|....-+.+|. T Consensus 89 ~~E~htf~~~~E~a~~~~~~~l~~y~~i~~~L~~ip~~~~~~~~~e~~~~a~~t~diE~~~~~g~~~e~gt~~~ 162 (303) T 1hc7_A 89 WQEGHTAHATREEAEEEVRRMLSIYARLAREYAAIPVIEGLKTEKEKFAGAVYTTTIEALMKDGKALQAGTSHY 162 (303) T ss_dssp EEEEEEEESSHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCTTTSCTTSSEEEEEEEECTTSCEEEEEEEEE T ss_pred EEEHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHC T ss_conf 22033210317778899999999999975411443110365313233343133451887523323312573420 No 36 >>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC), SH3 domain, endocytosis; 1.56A {Homo sapiens} PDB: 1ki1_B (A:) Probab=25.81 E-value=17 Score=16.61 Aligned_cols=66 Identities=15% Similarity=0.222 Sum_probs=50.9 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEE-EEEECCCC Q ss_conf 8999999999999876498400132113544772111377750311121000246502-67612545 Q gi|254780874|r 127 LFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHR-VQRVPATE 192 (357) Q Consensus 127 dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHR-vqRip~~e 192 (357) ......|.+|..||....=...+++...-....++...-...+......|-..+-..+ |||||... T Consensus 110 ~~~~~~~~~Y~~Y~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~l~s~li~PvqRi~rY~ 176 (510) T 3jzy_A 110 AAELSHMQAYIRFCSCQLNGAALLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQRITRYP 176 (510) T ss_dssp ------------------------------------------------------------------- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 9987777999999997899999999987307899999998622732256878999988887776767 No 37 >>2pih_A Protein YMCA; regulate community development, structural genomics, PSI-2, protein structure initiative; 2.10A {Bacillus subtilis} (A:) Probab=25.46 E-value=40 Score=13.83 Aligned_cols=58 Identities=12% Similarity=0.221 Sum_probs=32.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6786898999999999999985385315799999999987999999999999999989999 Q gi|254780874|r 2 VFLSHKQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDL 62 (357) Q Consensus 2 ~mi~~~kL~~l~~rl~ELE~~Lsdp~~w~d~~klsKe~s~L~~iv~~~~~~~~~~~ei~el 62 (357) .|+.... |.....+|...+...+-..++.++.+.+..=..+.+.+..|.....++... T Consensus 2 ~~i~~~~---I~d~A~eL~~aI~~seEy~~yk~a~~~i~~d~ea~~li~ef~~~q~el~~~ 59 (151) T 2pih_A 2 TLYSKKD---IVQQARNLAKXISETEEVDFFKRAEAQINENDKVSTIVNQIKALQKQAVNL 59 (151) T ss_dssp CCBCHHH---HHHHHHHHHHHHTTBHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH T ss_pred CCCHHHH---HHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH T ss_conf 7430999---999999999998739999999999999970999999999999999999999 No 38 >>2jya_A AGR_C_3324P, uncharacterized protein ATU1810; protein with unknown function ATU1810, ontario centre for structural proteomics; NMR {Agrobacterium tumefaciens str} (A:) Probab=25.02 E-value=24 Score=15.52 Aligned_cols=18 Identities=22% Similarity=0.342 Sum_probs=12.3 Q ss_pred HHHHHHCCCCCCHHHHCC Q ss_conf 999876498400132113 Q gi|254780874|r 137 ERYAALRKWKVEVLSSSD 154 (357) Q Consensus 137 ~r~ae~~gwk~eii~~~~ 154 (357) ..||+++||.++|.+-.+ T Consensus 65 Iayaek~G~~y~V~~p~~ 82 (106) T 2jya_A 65 EAYAQRKGIEYRVILPKE 82 (106) T ss_dssp HHHHHHHTCEEEECCCTT T ss_pred HHHHHHCCCEEEEECCCC T ss_conf 999998796599981586 No 39 >>2ord_A Acoat, acetylornithine aminotransferase; TM1785, acetylornithine aminotransferase (EC 2.6.1.11) (acoat), structural genomics; HET: MSE PLP; 1.40A {Thermotoga maritima MSB8} PDB: 2e54_A* (A:97-275) Probab=24.61 E-value=36 Score=14.21 Aligned_cols=92 Identities=18% Similarity=0.200 Sum_probs=51.9 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHHHCCCCCEEEEEECCCCCCC--- Q ss_conf 68852178899999999999987649840013211354477211137775031112100024650267612545678--- Q gi|254780874|r 119 GTGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRVQRVPATEASG--- 195 (357) Q Consensus 119 GaGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~Lk~E~GvHRvqRip~~es~g--- 195 (357) ..+|+||.+.|=.|.|.|.+=.... +..|+....+-. |.-..+..+++...| ........++...+|+....- T Consensus 7 ~~SGseA~e~AiklAr~~~~~~~~g--r~~Ii~~~~~yH-G~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 82 (179) T 2ord_A 7 ANTGTEANEAAIKIARKYGKKKSEK--KYRILSAHNSFH-GRTLGSLTATGQPKY-QKPFEPLVPGFEYFEFNNVEDLRR 82 (179) T ss_dssp ESSHHHHHHHHHHHHHHHHHHHCTT--CCEEEEEBTCCC-CSSHHHHHHSBCHHH-HGGGCSCCTTEEEECTTCHHHHHH T ss_pred CCCCCCCCCHHHHHEEEECCCCCCC--CCEEEEECCCCC-CCCCCCEECCCCCCC-CCCCCCCCCCCCCCCCCHHHHHHH T ss_conf 6774000210122101100135777--614888538888-886432543688233-578888899845558560999997 Q ss_pred CCCEEEEEEEEEECCCCCC Q ss_conf 5110168888530334332 Q gi|254780874|r 196 RVHTSAATVAVLPEAAEID 214 (357) Q Consensus 196 R~hTS~a~V~V~P~~~~~~ 214 (357) ..+...|.|.+-|...+.. T Consensus 83 ~~~~~~a~~~~epv~~~~g 101 (179) T 2ord_A 83 KXSEDVCAVFLEPIQGESG 101 (179) T ss_dssp HCCTTEEEEEECSEECTTT T ss_pred HCCCCEEEEEEECCCCCCC T ss_conf 3589767999962557889 No 40 >>1oao_C CODH, carbon monoxide dehydrogenase alpha subunit; electron transfer, oxidoreductase, acetyl-COA formation, WOOD/ljungdahl pathway; 1.90A {Moorella thermoacetica} (C:588-729) Probab=24.13 E-value=32 Score=14.56 Aligned_cols=17 Identities=18% Similarity=0.446 Sum_probs=10.5 Q ss_pred HHHHCCCCCEEEEEECC Q ss_conf 21000246502676125 Q gi|254780874|r 174 SRMKFESGVHRVQRVPA 190 (357) Q Consensus 174 g~Lk~E~GvHRvqRip~ 190 (357) .+|+.+.|.+|||+.|. T Consensus 69 KFl~adGG~~RiVWMPk 85 (142) T 1oao_C 69 KFISADGGIARIVWMPK 85 (142) T ss_dssp TTTGGGTGGGGEEECCH T ss_pred CCEECCCCEEEEEECCH T ss_conf 12214788156887819 No 41 >>1n4k_A Inositol 1,4,5-trisphosphate receptor type 1; IP3 receptor, IP3-binding core, calcium channel,protein- ligand complex, B-trefoil fold; HET: I3P; 2.20A {Mus musculus} (A:1-213) Probab=23.98 E-value=37 Score=14.07 Aligned_cols=18 Identities=28% Similarity=0.407 Sum_probs=12.6 Q ss_pred CCCCEEEEEECCCCEEEE Q ss_conf 321215889649844888 Q gi|254780874|r 239 TTDSAVRITHIPTGIMVT 256 (357) Q Consensus 239 ~t~savri~H~ptgi~v~ 256 (357) +..+.+||.|+.||---. T Consensus 75 ~~~d~iRL~H~~Tg~yL~ 92 (213) T 1n4k_A 75 YWNSLFRFKHLATGHYLA 92 (213) T ss_dssp ----CEEEEETTTCCEEE T ss_pred ECCCEEEEEECCCCCEEE T ss_conf 369848989704685344 No 42 >>1amu_A GRSA, gramicidin synthetase 1; peptide synthetase, adenylate forming; HET: PHE AMP; 1.90A {Bacillus brevis} (A:174-204,A:354-430) Probab=23.79 E-value=33 Score=14.46 Aligned_cols=57 Identities=7% Similarity=-0.097 Sum_probs=41.9 Q ss_pred HCCCCCCHHHHCCCCCCCCCEEEEEEECCCHH-HHHHCCCCCEEEEEECCCCCCCCCC Q ss_conf 64984001321135447721113777503111-2100024650267612545678511 Q gi|254780874|r 142 LRKWKVEVLSSSDNDDGGYKEIVATISGRGVF-SRMKFESGVHRVQRVPATEASGRVH 198 (357) Q Consensus 142 ~~gwk~eii~~~~ge~aGik~v~~~I~G~~aY-g~Lk~E~GvHRvqRip~~es~gR~h 198 (357) .+|+.+.|++..-.+.+.-.--.+.|+|+.++ ||+..+...++..+-.++...++-+ T Consensus 30 ~~G~~v~IvD~~G~~v~~g~~GeL~v~gp~~~~gY~~~~~~t~~~f~~~~~~~~~~w~ 87 (108) T 1amu_A 30 EHNTQIYIVDENLQLKSVGEAGELCIGGEGLARGYWKRPELTSQKFVDNPFVPGEKLY 87 (108) T ss_dssp ESTEEEEEECTTSCBCCTTCEEEEEEEETTCCCEETTCHHHHHHHEEECSSSTTSEEE T ss_pred CCEEEEEECCCCCEECCCCCEEEEEECCCCCCCCCEECCCCCCEEEEECCCCCCCCEE T ss_conf 3313576505785256999725999636854563021000330125541345898514 No 43 >>2j01_H 50S ribosomal protein L6; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (H:1-81) Probab=23.61 E-value=40 Score=13.88 Aligned_cols=61 Identities=16% Similarity=0.337 Sum_probs=46.7 Q ss_pred EECCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCEEEEE-CC-CCCHHHHHHHHHHHHHHH Q ss_conf 303343322245434799985288875200063212158896498448884-36-541358999999999999 Q gi|254780874|r 207 LPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHIPTGIMVTS-SE-KSQHQNRLRAMKVLRARL 277 (357) Q Consensus 207 ~P~~~~~~~~i~~~dl~i~~~rssG~GGQ~vN~t~savri~H~ptgi~v~~-~e-RsQ~~Nk~~A~~~L~~~l 277 (357) ++.|+.+++.++...+.|. ||-|.-.-.....|.+.+..--|+|++ ++ | |.+||--+-.-| T Consensus 9 I~IP~~V~v~i~~~~i~vk-----Gp~G~l~~~~~~~v~~~~~~~~i~v~~~~~~k-----k~~a~~GT~rsl 71 (81) T 2j01_H 9 IPVPKGVSVEVAPGRVKVK-----GPKGELEVPVSPEMRVVVEEGVVRVERPSDER-----RHKSLHGLTRTL 71 (81) T ss_dssp ---CTTCEEEECSSCEEEE-----CSSCCEECCCCSSSCCCCCSSSCCCCCSCCCH-----HHHHHHHHHHHH T ss_pred CCCCCCCEEEEECCEEEEE-----CCCEEEEEEECCCCCCCCCCCCEEEEECCCCH-----HHHHHHHHHHHH T ss_conf 1069998899979999998-----39988999953454321035215898415404-----678999999999 No 44 >>1u4g_A Elastase, pseudolysin; , inhibition, peptidase family M4, hydrolase; HET: HPI; 1.40A {Pseudomonas aeruginosa} (A:1-133) Probab=23.36 E-value=38 Score=14.01 Aligned_cols=34 Identities=15% Similarity=0.301 Sum_probs=29.1 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHC Q ss_conf 8852178899999999999987649840013211 Q gi|254780874|r 120 TGGSEAALFVGDLFRMYERYAALRKWKVEVLSSS 153 (357) Q Consensus 120 aGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~ 153 (357) +...+|...|+..+.||..|..++++.-.++... T Consensus 71 ~aavdA~~~a~~vyDyyk~~~~RnsiD~~~~s~V 104 (133) T 1u4g_A 71 SPLNDAHFFGGVVFKLYRDWFGTSPLTHKLYMKV 104 (133) T ss_dssp CHHHHHHHHHHHHHHHHHHHHSSCSSSSCEEEEE T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEE T ss_conf 2678999998999999999828998577843788 No 45 >>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} (A:119-491) Probab=22.90 E-value=45 Score=13.50 Aligned_cols=16 Identities=38% Similarity=0.436 Sum_probs=9.3 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 8999999999999985 Q gi|254780874|r 8 QICDLKNRFAEIELRM 23 (357) Q Consensus 8 kL~~l~~rl~ELE~~L 23 (357) ||+.|++++.+|++++ T Consensus 1 k~~~lk~~~~~~~e~~ 16 (373) T 1m1j_A 1 RIVTLKQRVATQVNRI 16 (373) T ss_dssp HHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHH T ss_conf 9999999999999999 No 46 >>1sq4_A GLXB, glyoxylate-induced protein; structural genomics, double beta barrel protein, PSI, protein structure initiative; 2.70A {Pseudomonas aeruginosa} (A:1-43,A:164-278) Probab=22.57 E-value=22 Score=15.70 Aligned_cols=42 Identities=14% Similarity=0.256 Sum_probs=29.0 Q ss_pred HCCCCCCHHHHCCCCCCCCCEEE------EEEECCCHHH----HHHCCCCCE Q ss_conf 64984001321135447721113------7775031112----100024650 Q gi|254780874|r 142 LRKWKVEVLSSSDNDDGGYKEIV------ATISGRGVFS----RMKFESGVH 183 (357) Q Consensus 142 ~~gwk~eii~~~~ge~aGik~v~------~~I~G~~aYg----~Lk~E~GvH 183 (357) ...|.+.|+++.||+.-|++++- ...+|.++|. |-.-|+|-- T Consensus 68 ~~D~n~hI~~F~PG~~~~~~EtH~~~hG~~vl~GqgvyrLg~~wiE~eagd~ 119 (158) T 1sq4_A 68 RHDXHVNIVNFEPGGVIPFAETHVXEHGLYVLEGKAVYRLNQDWVEVEAGDF 119 (158) T ss_dssp TCSEEEEEEEECSSSEESCCCCCSEEEEEEEEECEEEEEETTEEEEEETTCE T ss_pred CCCCEEEEEEECCCCEECCCCCCCCEEEEEEECCEEEEEECCEEEEECCCCE T ss_conf 6552479999768960414142675269999646799999999999469989 No 47 >>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (I:) Probab=22.48 E-value=46 Score=13.44 Aligned_cols=17 Identities=24% Similarity=0.321 Sum_probs=13.2 Q ss_pred CCCCCCEEEEEEEEEEC Q ss_conf 67851101688885303 Q gi|254780874|r 193 ASGRVHTSAATVAVLPE 209 (357) Q Consensus 193 s~gR~hTS~a~V~V~P~ 209 (357) +.|||.||.|.|.+.|= T Consensus 74 ~~GrRKta~A~V~l~~G 90 (197) T 3bbn_I 74 GTGRRKCAIARVVLQEG 90 (197) T ss_dssp CCCEETTEEEEEEEEES T ss_pred EECCCCCEEEEEEEECC T ss_conf 54688057999999837 No 48 >>2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- tRNA synthetase, editing, translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB: 2j3m_A* (A:31-242,A:390-455) Probab=22.25 E-value=46 Score=13.41 Aligned_cols=57 Identities=9% Similarity=-0.029 Sum_probs=46.0 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCEEEEEEECCCHHHHH Q ss_conf 885217889999999999998764984001321135447721113777503111210 Q gi|254780874|r 120 TGGSEAALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRM 176 (357) Q Consensus 120 aGG~EA~dwA~~L~rMY~r~ae~~gwk~eii~~~~ge~aGik~v~~~I~G~~aYg~L 176 (357) +...+|..+-.+++.+|.+..++-|..+.++....++.+|..+..+.+..+..|..+ T Consensus 135 ~~~~~a~~~~~~~~~~~~~if~~lgl~~~~v~~~~~~ig~~~s~e~~~~~~~~~~~i 191 (278) T 2j3l_A 135 ADEASLDQSYRDYEKAYSRIFERCGLEFRAIIGDGGAMGGKDSKEFMAISEIGEDTI 191 (278) T ss_dssp SSHHHHHHHHHHHHHHHHHHHHHTTCCEEEEECCGGGGTCSSEEEEEEECTTCSEEE T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCHH T ss_conf 222102567788999999999875102331102232234443420232033343201 No 49 >>1k8q_A Triacylglycerol lipase, gastric; APHA beta hydrolase fold; HET: NAG BOG C11; 2.70A {Canis lupus familiaris} (A:190-286) Probab=20.65 E-value=12 Score=17.71 Aligned_cols=29 Identities=24% Similarity=0.353 Sum_probs=22.9 Q ss_pred ECCCCCCCCCCCCCCCEEEEEECCCCEEE Q ss_conf 52888752000632121588964984488 Q gi|254780874|r 227 MRASGSGGQHVNTTDSAVRITHIPTGIMV 255 (357) Q Consensus 227 ~rssG~GGQ~vN~t~savri~H~ptgi~v 255 (357) +--.|...++.|+|---|=+.|.|.|.++ T Consensus 52 ~~i~G~~~~~~n~t~lp~~l~h~PaG~S~ 80 (97) T 1k8q_A 52 FIICGFDTMNLNMSRLDVYLSHNPAGTSV 80 (97) T ss_dssp HHHHCCCGGGSCGGGHHHHHTTCCCCEEH T ss_pred HHHCCCCHHHCCHHHHHHHHHCCCCCCCH T ss_conf 43136764433767778876303445407 No 50 >>3i1m_I 30S ribosomal protein S9; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_I* 3e1a_W 3e1c_W 1vs5_I 3i1o_I 3i1q_I 3i1s_I 3i1z_I 3i21_I 2qal_I* 1p6g_I 1p87_I 2aw7_I 2avy_I 2i2u_I 2i2p_I* 2qan_I* 2qb9_I* 2qbb_I* 2qbd_I ... (I:) Probab=20.39 E-value=50 Score=13.15 Aligned_cols=19 Identities=37% Similarity=0.431 Sum_probs=15.7 Q ss_pred CCCCCCCCEEEEEEEEEEC Q ss_conf 4567851101688885303 Q gi|254780874|r 191 TEASGRVHTSAATVAVLPE 209 (357) Q Consensus 191 ~es~gR~hTS~a~V~V~P~ 209 (357) ..+.|||.||+|.|.+.|= T Consensus 6 ~~~~GkRKta~A~v~l~~G 24 (130) T 3i1m_I 6 YYGTGRRKSSAARVFIKPG 24 (130) T ss_dssp BCCCCCCSSCEEEEEEESS T ss_pred EEEECCCCCEEEEEEEEEC T ss_conf 8874424258999999926 No 51 >>3esg_A HUTD, putative uncharacterized protein; beta barrel, unknown function; 1.80A {Pseudomonas fluorescens} (A:1-17,A:123-193) Probab=20.36 E-value=50 Score=13.15 Aligned_cols=44 Identities=30% Similarity=0.284 Sum_probs=30.3 Q ss_pred CCCCEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCC----CCEEEEE Q ss_conf 2465026761254567851101688885303343322245----4347999 Q gi|254780874|r 179 ESGVHRVQRVPATEASGRVHTSAATVAVLPEAAEIDVDIP----LEDIRID 225 (357) Q Consensus 179 E~GvHRvqRip~~es~gR~hTS~a~V~V~P~~~~~~~~i~----~~dl~i~ 225 (357) |+=.-|+|++. ...|-++|.-+|.|+-..++++|.++ -+-|+|| T Consensus 18 ~RY~ARLQWld---~~q~f~SsAstvLiFn~~~~v~V~v~~L~~~dcL~ie 65 (88) T 3esg_A 18 ERYHARLQWVD---GVQRFFSTAQTVLVFSVADEVKVLGEKLGHHDCLQVD 65 (88) T ss_dssp TTEEEEEEEEC---SEEEEEECCSEEEEEECSSCEEETTEEECTTCEEEEC T ss_pred CCCEEEEEEEE---CCCEECCCCCEEEEEECCCCEEECCCCCCCCCEEEEC T ss_conf 85189999982---7713458986799999058088987486899889982 Done!