Query gi|254780148|ref|YP_003064561.1| transcription antitermination protein NusG [Candidatus Liberibacter asiaticus str. psy62] Match_columns 177 No_of_seqs 123 out of 1849 Neff 8.0 Searched_HMMs 23785 Date Sun May 22 16:12:16 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780148.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1m1h_A Transcription antitermi 100.0 0 0 317.6 11.0 174 1-176 9-248 (248) 2 2jvv_A Transcription antitermi 100.0 0 0 296.8 6.9 173 3-175 7-180 (181) 3 2oug_A Transcriptional activat 100.0 6.8E-40 2.8E-44 257.6 -10.0 161 3-176 2-162 (162) 4 1nz8_A Transcription antitermi 100.0 2.5E-30 1E-34 200.3 10.1 110 2-111 1-116 (119) 5 1nz9_A Transcription antitermi 99.6 8.3E-15 3.5E-19 107.4 7.7 56 120-175 2-57 (58) 6 3lpe_A Putative transcription 98.3 1.8E-06 7.6E-11 57.5 8.0 82 3-108 10-91 (92) 7 3h7h_B Transcription elongatio 97.8 1E-05 4.4E-10 52.9 3.1 89 1-109 4-95 (106) 8 2exu_A Transcription initiatio 97.5 0.00011 4.8E-09 46.7 5.5 83 4-108 103-190 (200) 9 2e6z_A Transcription elongatio 97.1 0.00046 2E-08 43.0 4.6 54 120-175 5-58 (59) 10 1vq8_T 50S ribosomal protein L 96.6 0.0027 1.1E-07 38.4 5.2 37 120-156 40-76 (120) 11 2e70_A Transcription elongatio 96.6 0.004 1.7E-07 37.4 5.8 45 125-173 20-64 (71) 12 2ckk_A KIN17; beta barrel, rib 96.5 0.005 2.1E-07 36.8 6.2 52 124-176 72-126 (127) 13 2wwb_L 60S ribosomal protein L 96.5 0.0038 1.6E-07 37.6 5.3 37 120-156 47-83 (127) 14 2zkr_t 60S ribosomal protein L 96.2 0.0067 2.8E-07 36.1 5.3 52 120-171 46-102 (145) 15 2do3_A Transcription elongatio 96.0 0.012 5E-07 34.6 5.9 44 121-166 16-59 (69) 16 2ftc_N Mitochondrial ribosomal 95.3 0.022 9.3E-07 33.0 4.9 35 126-160 1-36 (96) 17 2zjr_R 50S ribosomal protein L 95.1 0.025 1E-06 32.7 4.7 37 120-156 13-49 (115) 18 3bbo_W Ribosomal protein L24; 94.6 0.0037 1.5E-07 37.6 -0.7 38 119-156 65-102 (191) 19 2j01_Y 50S ribosomal protein L 92.7 0.0076 3.2E-07 35.8 -1.8 40 121-160 5-45 (110) 20 2jz2_A SSL0352 protein; SH3-li 92.6 0.37 1.5E-05 25.7 6.8 52 123-176 2-55 (66) 21 3ofq_U 50S ribosomal protein L 80.7 0.1 4.2E-06 29.1 -2.2 35 121-156 2-36 (102) 22 2joy_A 50S ribosomal protein L 79.6 2.1 8.6E-05 21.2 4.3 34 122-156 3-36 (96) 23 3hht_B NitrIle hydratase beta 77.4 2.5 0.0001 20.7 4.1 30 118-147 137-176 (229) 24 1ugp_B NitrIle hydratase beta 76.6 2.2 9.3E-05 21.0 3.7 30 118-147 134-173 (226) 25 2eqm_A PHD finger protein 20-l 75.8 3.9 0.00016 19.5 5.0 42 119-162 16-57 (88) 26 1vbk_A Hypothetical protein PH 63.2 4.2 0.00018 19.3 2.7 57 11-89 19-75 (307) 27 2f5k_A MORF-related gene 15 is 58.8 8.7 0.00037 17.4 5.2 43 119-162 19-61 (102) 28 2zzd_A Thiocyanate hydrolase s 57.2 9.3 0.00039 17.3 4.5 52 95-146 8-70 (126) 29 1dj7_B Ferredoxin thioredoxin 54.1 10 0.00043 17.0 3.5 52 124-176 2-73 (75) 30 1vq8_Q 50S ribosomal protein L 43.2 16 0.00065 15.9 7.5 52 122-175 33-94 (96) 31 2d9t_A Tudor domain-containing 41.9 16 0.00068 15.8 5.9 53 120-176 7-62 (78) 32 3a8g_B NitrIle hydratase subun 38.4 18 0.00078 15.5 3.1 63 80-145 75-155 (212) 33 1wjs_A KIAA1798 protein; MBT d 34.6 21 0.00089 15.1 3.0 14 59-72 38-51 (127) 34 1wjq_A KIAA1798 protein; MBT d 32.3 23 0.00098 14.9 3.4 40 118-161 9-50 (107) 35 2e5p_A Protein PHF1, PHD finge 29.7 26 0.0011 14.6 5.4 50 119-173 6-57 (68) 36 3kbg_A 30S ribosomal protein S 28.4 27 0.0011 14.5 4.7 33 119-151 135-167 (213) 37 1g5v_A SurviVal motor neuron p 28.2 27 0.0012 14.5 5.7 51 121-175 9-62 (88) 38 1mhn_A SurviVal motor neuron p 23.0 34 0.0014 13.9 5.4 50 122-175 3-55 (59) 39 2eqj_A Metal-response element- 21.5 37 0.0015 13.7 5.0 51 119-174 10-62 (66) No 1 >1m1h_A Transcription antitermination protein NUSG; transcription termination, RNP motif, immunoglobulin fold, nucleic acid interaction; 1.95A {Aquifex aeolicus} SCOP: b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A Probab=100.00 E-value=0 Score=317.59 Aligned_cols=174 Identities=41% Similarity=0.716 Sum_probs=161.7 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEE-------------------------------- Q ss_conf 988618999528853899999999999779811143266313101277-------------------------------- Q gi|254780148|r 1 MTPRWYIVQVYSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSV-------------------------------- 48 (177) Q Consensus 1 M~~~Wyvv~t~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~-------------------------------- 48 (177) |.++||++||.||+|++|+++|++++...++++++.+|.+|++++... T Consensus 9 m~kkWYvv~t~SG~E~kVk~~le~~i~~~~~~~~i~~v~vP~e~v~e~~~~~k~k~~~~~~~~~~~~~~~~~~~~~~~~i 88 (248) T 1m1h_A 9 LEKKWYALQVEPGKENEAKENLLKVLELEGLKDLVDEVIVPAEEKVVIRAQGKEKYRLSLKGNARDISVLGKKGVTTFRI 88 (248) T ss_dssp CCCEEEEEEECTTCHHHHHHHHHHHHHHTTCGGGEEEEECSSEEEEEEEETTEEEEEEESSSSCEEEEEECSSSEEEEEE T ss_pred HCCCEEEEEEECCCHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEEEEECCCCEEEECCCCCCCCCCCCCCCCCCCEEEE T ss_conf 05866999826695899999999999877972344089904279999962763012002332222211012345521453 Q ss_pred ----------------------------------ECCEEEEEECCEECEEEEEEEECCCCCHHHHHCCCEEEEEECCCCC Q ss_conf ----------------------------------2020356641203309999996186522444203303664327886 Q gi|254780148|r 49 ----------------------------------RKGRKVNSERRFFPGYVLIKAVMTDKVYHTIKDTPKVIGFLGTGEN 94 (177) Q Consensus 49 ----------------------------------~~g~~~~~~~plfpgYiFv~~~~~~~~~~~i~~t~gV~~~l~~~~~ 94 (177) ++|+++.++++||||||||++++++++|+.|++|+||++||+++++ T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~gkk~~~er~LFPGYVFV~~~~~~~~~~~Ir~t~GV~~fVg~g~~ 168 (248) T 1m1h_A 89 ENGEVKVVESVEGDTCVNAPPISKPGQKITCKENKTEAKIVLDNKIFPGYILIKAHMNDKLLMAIEKTPHVFRPVMVGGK 168 (248) T ss_dssp CSSCEEEEECSTTCGGGGSCCBCSTTCEEEETTTTEEEEEEEECSSSTTEEEEEECCCHHHHHHHHTSTTEEEECEETTE T ss_pred ECCCEEEECCCCCCCCCCCCCCCCCCCCCCHHHCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCEEEEEECCCE T ss_conf 03310110023443222223334554321101104783699984358848999987272168887367424775206981 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHE Q ss_conf 10025889999997653222100001234789779995187789719999982889889999981687047885678712 Q gi|254780148|r 95 PSPVTDSEIEHIMNQVEAAVQRPVSSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVE 174 (177) Q Consensus 95 P~~i~~~ei~~l~~~~~~~~~~~~~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~ie 174 (177) |+||++++|+.|+..++++.. .....|.+||.|+|++|||+|++|.|.++|.+++|++|+++||||.|+|+|+++||+ T Consensus 169 P~pl~~~EI~~il~~~~~~~~--~~~~~f~~Gd~V~I~~GPF~g~~G~V~eid~ek~rv~Vlv~ifGR~tpVel~~~qVe 246 (248) T 1m1h_A 169 PVPLKEEEVQNILNQIKRGVK--PSKVEFEKGDQVRVIEGPFMNFTGTVEEVHPEKRKLTVMISIFGRMTPVELDFDQVE 246 (248) T ss_dssp ECEECHHHHHHHHHHTTC-------------------------------------------------------------- T ss_pred EEECCHHHHHHHHHHHHCCCC--CCCCEECCCCEEEEEECCCCCCEEEEEEECCCCCEEEEEEEECCCCEEEEECHHHEE T ss_conf 014599999999987654666--654300179889994158999479999981888999999981699637987689978 Q ss_pred EC Q ss_conf 33 Q gi|254780148|r 175 KI 176 (177) Q Consensus 175 ki 176 (177) || T Consensus 247 Ki 248 (248) T 1m1h_A 247 KI 248 (248) T ss_dssp -- T ss_pred EC T ss_conf 29 No 2 >2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G Probab=100.00 E-value=0 Score=296.84 Aligned_cols=173 Identities=46% Similarity=0.897 Sum_probs=161.6 Q ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHHHHHCC Q ss_conf 86189995288538999999999997798111432663131012772020356641203309999996186522444203 Q gi|254780148|r 3 PRWYIVQVYSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYHTIKDT 82 (177) Q Consensus 3 ~~Wyvv~t~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~~i~~t 82 (177) ++|||++|+||+|++|+++|+++++..+++++++++|+|+++..+.++|+++.+.+||||||||++++++++.|+.|++| T Consensus 7 k~WYvv~t~~~~E~kv~~~L~~~~~~~~l~~~~~ev~~P~~~~~~~~~gk~~~~~~plFPGYvFv~~~~~~~~~~~i~~t 86 (181) T 2jvv_A 7 KRWYVVQAFSGFEGRVATSLREHIKLHNMEDLFGEVMVPTEEVVEIRGGQRRKSERKFFPGYVLVQMVMNDASWHLVRSV 86 (181) T ss_dssp -------------------------------------------------------------------------------- T ss_pred CEEEEEEEECCCHHHHHHHHHHHHHHCCHHHHCCEEECCEEEEEEECCCEEEEEEEEECCCEEEEEEECCCCCEEEEECC T ss_conf 73999994789269999999999987173330548746478999971986899669852747999997489718998633 Q ss_pred CEEEEEEC-CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECC Q ss_conf 30366432-78861002588999999765322210000123478977999518778971999998288988999998168 Q gi|254780148|r 83 PKVIGFLG-TGENPSPVTDSEIEHIMNQVEAAVQRPVSSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFG 161 (177) Q Consensus 83 ~gV~~~l~-~~~~P~~i~~~ei~~l~~~~~~~~~~~~~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~G 161 (177) +||+++++ .++.|.|+++++++.++..+........+...|++||+|+|++|||+|++|.|.++|.+++|++|+++||| T Consensus 87 ~gv~~~v~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gd~V~I~~GPf~g~~g~v~~v~~~k~r~~V~l~i~G 166 (181) T 2jvv_A 87 PRVMGFIGGTSDRPAPISDKEVDAIMNRLQQVGDKPRPKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFG 166 (181) T ss_dssp ------------------------------------CCCCCCCTTEEEEECSSTTTTEEEEEEEEETTTTEEEEEEEETT T ss_pred CCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCEEEEEEEECCCCEEEEEEEECC T ss_conf 88257657765488889989999999986431334653221007988999136899968999998077899999999679 Q ss_pred CEEEEEECHHHHEE Q ss_conf 70478856787123 Q gi|254780148|r 162 RVTPVELAYNQVEK 175 (177) Q Consensus 162 r~~~v~l~~~~iek 175 (177) |.|+|++++++|+| T Consensus 167 r~~~v~v~~~~v~k 180 (181) T 2jvv_A 167 RATPVELDFSQVEK 180 (181) T ss_dssp EEEEEEECTTTEEE T ss_pred CCEEEEECHHHEEE T ss_conf 95689987899880 No 3 >2oug_A Transcriptional activator RFAH; transcription factor, virulence, transcription pausing, transcription elongation; 2.10A {Escherichia coli} Probab=100.00 E-value=6.8e-40 Score=257.56 Aligned_cols=161 Identities=17% Similarity=0.305 Sum_probs=145.1 Q ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHHHHHCC Q ss_conf 86189995288538999999999997798111432663131012772020356641203309999996186522444203 Q gi|254780148|r 3 PRWYIVQVYSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYHTIKDT 82 (177) Q Consensus 3 ~~Wyvv~t~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~~i~~t 82 (177) ++|||++|+||+|++|+++|++ +++++|+|+.+..+.++|+++.+.+|||||||||+++..+..|+.|+++ T Consensus 2 k~Wyvv~t~~~~E~~~~~~L~~---------~g~~~f~P~~~~~~~~~~k~~~~~~plfpgYvFv~~~~~~~~~~~i~~~ 72 (162) T 2oug_A 2 QSWYLLYCKRGQLQRAQEHLER---------QAVNCLAPMITLEKIVRGKRTAVSEPLFPNYLFVEFDPEVIHTTTINAT 72 (162) T ss_dssp CEEEEEEECTTTHHHHHHHHHH---------TTCEEECCEEEEEEESSSSEEEEEEESSTTEEEEEECTTTSCHHHHHHS T ss_pred CCEEEEEEECCHHHHHHHHHHH---------CCCEEEEEEEEEEEEECCEEEEEEEECCCCEEEEEECCCCCEEEEEECC T ss_conf 8799999869989999999996---------6998982639999998999999998768968999942455468888545 Q ss_pred CEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCC Q ss_conf 30366432788610025889999997653222100001234789779995187789719999982889889999981687 Q gi|254780148|r 83 PKVIGFLGTGENPSPVTDSEIEHIMNQVEAAVQRPVSSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGR 162 (177) Q Consensus 83 ~gV~~~l~~~~~P~~i~~~ei~~l~~~~~~~~~~~~~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr 162 (177) +||+++|+++++|.+||+++|+.|+...+.... ....+.+||+|+|.+|||+|++|.|.++|++ .|+.|++++||+ T Consensus 73 ~gv~~~l~~~~~p~~i~~~~i~~l~~~~~~~~~---~~~~~~~Gd~V~I~~Gpf~g~~g~v~~~~~~-~r~~v~l~~lg~ 148 (162) T 2oug_A 73 RGVSHFVRFGASPAIVPSAVIHQLSVYKPKDIV---DPATPYPGDKVIITEGAFEGFQAIFTEPDGE-ARSMLLLNLINK 148 (162) T ss_dssp TTEEEECCSSSSSCCCCCHHHHHHHHCC-----------------CTTHHHHHHHHHHHHTTCSSHH-HHHHHHHHHHHH T ss_pred CCEEEECCCCCCCCCCCHHHHHHHHHHCCCCCC---CCCCCCCCCEEEEEECCCCCCEEEEEEECCC-CEEEEEEHHCCC T ss_conf 765577148980241889999998734556764---5544337878999426999949999998898-879999677198 Q ss_pred EEEEEECHHHHEEC Q ss_conf 04788567871233 Q gi|254780148|r 163 VTPVELAYNQVEKI 176 (177) Q Consensus 163 ~~~v~l~~~~ieki 176 (177) +++|+++.++|+|| T Consensus 149 ~~~v~v~~~~l~ki 162 (162) T 2oug_A 149 EIKHSVKNTEFRKL 162 (162) T ss_dssp HHHHHHHC------ T ss_pred CEEEEECHHHEEEC T ss_conf 37999878996969 No 4 >1nz8_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: d.58.42.1 Probab=99.97 E-value=2.5e-30 Score=200.32 Aligned_cols=110 Identities=31% Similarity=0.681 Sum_probs=101.2 Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEEECC-EEEEEECCEECEEEEEEEECCC-----CC Q ss_conf 88618999528853899999999999779811143266313101277202-0356641203309999996186-----52 Q gi|254780148|r 2 TPRWYIVQVYSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSVRKG-RKVNSERRFFPGYVLIKAVMTD-----KV 75 (177) Q Consensus 2 ~~~Wyvv~t~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~~~g-~~~~~~~plfpgYiFv~~~~~~-----~~ 75 (177) +++|||+||+||+|++|+++|++++...++++.++++|+|++++.+.++| +++.+.+|||||||||++++++ ++ T Consensus 1 ~mkWYvv~t~sg~E~~v~~~L~~~~~~~~l~~~~~~v~vP~~~~~~~~~ggk~~~~~~~lFPGYiFV~~~l~d~~~~~~~ 80 (119) T 1nz8_A 1 SIEWYAVHTLVGQEEKAKANLEKRIKAFGLQDKIFQVLIPTEEVVELREGGKKEVVRKKLFPGYLFIQMDLGDEEEPNEA 80 (119) T ss_dssp CCEEEEEECCTTTHHHHHHHHHHHHHHHTCTTTCCEEECSEEEEEEECSSSCEEEEEEESSTTEEEEEECCCSSSSCCHH T ss_pred CCEEEEEEEECCCHHHHHHHHHHHHHHCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCEEEEEEEECCCCCCHHH T ss_conf 96499999688948999999999998739632254788678888999848726888775479579999993665664014 Q ss_pred HHHHHCCCEEEEEECCCCCCCCCCHHHHHHHHHHHH Q ss_conf 244420330366432788610025889999997653 Q gi|254780148|r 76 YHTIKDTPKVIGFLGTGENPSPVTDSEIEHIMNQVE 111 (177) Q Consensus 76 ~~~i~~t~gV~~~l~~~~~P~~i~~~ei~~l~~~~~ 111 (177) |+.|++|+||++|||++++|+||+++||++|+.... T Consensus 81 ~~~I~~t~gV~~fvg~~~~P~pv~~~Ei~~il~~~g 116 (119) T 1nz8_A 81 WEVVRGTPGITGFVGAGMRPVPLSPDEVRHILEVSG 116 (119) T ss_dssp HHHHHHSTTCCCCCCSSSSSCBCCHHHHHHHHHHHT T ss_pred HHHHHCCCCCEEECCCCCEECCCCHHHHHHHHHHHC T ss_conf 354145999059868999856089999999999738 No 5 >1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 Probab=99.55 E-value=8.3e-15 Score=107.37 Aligned_cols=56 Identities=50% Similarity=0.841 Sum_probs=53.8 Q ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEE Q ss_conf 12347897799951877897199999828898899999816870478856787123 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEK 175 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~iek 175 (177) ...|++||.|+|++|||+|++|.|.++|.+++|++|+++||||.|+|+++++|||| T Consensus 2 ~v~F~~Gd~V~V~~GpF~g~~g~V~~i~~~~~rv~Vll~ifGr~t~vel~~~~veK 57 (58) T 1nz9_A 2 QVAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVMVTIFGRETPVELDFSQVVK 57 (58) T ss_dssp CCSCCTTCEEEECSGGGTTCEEEEEEEETTTTEEEEEEESSSSEEEEEECGGGEEE T ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCCCEEEECHHHEEC T ss_conf 22306999999903689998999999918899999999944998237369899870 No 6 >3lpe_A Putative transcription antitermination protein NU; transcription regulation, SPT4, SPT5, NUSG, archaea, evoluti directed RNA polymerase; 1.90A {Methanocaldococcus jannaschii} PDB: 3ewg_A Probab=98.33 E-value=1.8e-06 Score=57.45 Aligned_cols=82 Identities=28% Similarity=0.426 Sum_probs=63.8 Q ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHHHHHCC Q ss_conf 86189995288538999999999997798111432663131012772020356641203309999996186522444203 Q gi|254780148|r 3 PRWYIVQVYSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYHTIKDT 82 (177) Q Consensus 3 ~~Wyvv~t~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~~i~~t 82 (177) +.-|+++|++|+|+.++..|.++....+++ ++.+++| +-+.|||||++....+....++.. T Consensus 10 ~~ifaVk~t~G~E~~va~~l~~k~~~~~l~--I~Si~~p-----------------~~lkGYIyVEA~~~~~V~~ai~gl 70 (92) T 3lpe_A 10 HMIFAVRTMVGQEKNIAGLMASRAEKEQLD--VYSILAS-----------------ESLKGYVLVEAETKGDVEELIKGM 70 (92) T ss_dssp CCEEEEEECTTCHHHHHHHHHHHHHHTTCC--EEEEEEC-----------------TTSTTEEEEEESSHHHHHHHHTTC T ss_pred CEEEEEECCCCHHHHHHHHHHHHHCCCCCC--EEEEEEC-----------------CCCCEEEEEEECCHHHHHHHHHCC T ss_conf 638999846982999999999985289986--5999954-----------------998279999959889999998546 Q ss_pred CEEEEEECCCCCCCCCCHHHHHHHHH Q ss_conf 30366432788610025889999997 Q gi|254780148|r 83 PKVIGFLGTGENPSPVTDSEIEHIMN 108 (177) Q Consensus 83 ~gV~~~l~~~~~P~~i~~~ei~~l~~ 108 (177) +++.+.+ |..+|-+||++++. T Consensus 71 ~~v~~~~-----~~~vp~~E~~~~L~ 91 (92) T 3lpe_A 71 PRVRGIV-----PGTIAIEEIEPLLT 91 (92) T ss_dssp TTEEEEC-----SSCCCHHHHHHHHC T ss_pred CCEECCC-----CCCCCHHHHHHHCC T ss_conf 6574204-----66528999986349 No 7 >3h7h_B Transcription elongation factor SPT5; helices surrounding beta sheet, activator, metal-binding, nucleus, repressor, transcription regulation, zinc; 1.55A {Homo sapiens} Probab=97.78 E-value=1e-05 Score=52.89 Aligned_cols=89 Identities=16% Similarity=0.200 Sum_probs=59.3 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHHHHCC---CHHHCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHH Q ss_conf 988618999528853899999999999779---81114326631310127720203566412033099999961865224 Q gi|254780148|r 1 MTPRWYIVQVYSNCEKKAVESIGGRLSRSG---LDHLVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYH 77 (177) Q Consensus 1 M~~~Wyvv~t~~~~E~~v~~~L~~~~~~~~---~~~~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~ 77 (177) |.|+=|+++|++|+|+.++..|.++..... -+-.++.+|.| +-++|||||++....+... T Consensus 4 ~DP~iw~Vk~~~G~E~~va~~i~~k~~~~~~~~~~l~I~Sv~~p-----------------~~lkGyIyVEA~~~~~V~~ 66 (106) T 3h7h_B 4 MDPNLWTVKCKIGEERATAISLMRKFIAYQFTDTPLQIKSVVAP-----------------EHVKGYIYVEAYKQTHVKQ 66 (106) T ss_dssp CCCEEEEEECCTTCHHHHHHHHHHHHHHHTTSSSCCCCCEEEEC-----------------TTCCSEEEEEESSHHHHHH T ss_pred CCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEECC-----------------CCCCEEEEEEECCHHHHHH T ss_conf 89977999868980899999999999873246997650799824-----------------8883689998798899999 Q ss_pred HHHCCCEEEEEECCCCCCCCCCHHHHHHHHHH Q ss_conf 44203303664327886100258899999976 Q gi|254780148|r 78 TIKDTPKVIGFLGTGENPSPVTDSEIEHIMNQ 109 (177) Q Consensus 78 ~i~~t~gV~~~l~~~~~P~~i~~~ei~~l~~~ 109 (177) .++..+++.+.. ..+.-+|-+||.+++.. T Consensus 67 ai~Gi~~v~~~~---~~~~lVpi~Em~~~L~~ 95 (106) T 3h7h_B 67 AIEGVGNLRLGY---WNQQMVPIKEMTDVLKV 95 (106) T ss_dssp HHTTCGGGGGGS---SCCEECCGGGTTGGGCC T ss_pred HHHCCHHHCCCC---CCCCEECHHHHHHHCCC T ss_conf 985212212556---84617749997765513 No 8 >2exu_A Transcription initiation protein SPT4/SPT5; helixs surrounding beta sheet; 2.23A {Saccharomyces cerevisiae} Probab=97.54 E-value=0.00011 Score=46.68 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=56.1 Q ss_pred CEEEEEECCCCHHHHHHHHHHHH---HHCCCHH--HCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHHH Q ss_conf 61899952885389999999999---9779811--143266313101277202035664120330999999618652244 Q gi|254780148|r 4 RWYIVQVYSNCEKKAVESIGGRL---SRSGLDH--LVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYHT 78 (177) Q Consensus 4 ~Wyvv~t~~~~E~~v~~~L~~~~---~~~~~~~--~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~~ 78 (177) .=|+++|++|+|+.++.+|-++. .+.+-.+ .++.+|.| +=++|||||++....+.... T Consensus 103 sIw~Vrc~~GkErevv~~Im~K~~~l~~~~~~~~l~I~Sif~p-----------------~~lKGYIyVEA~~~~~V~~a 165 (200) T 2exu_A 103 TIWGVRCRPGKEKELIRKLLKKKFNLDRAMGKKKLKILSIFQR-----------------DNYTGRIYIEAPKQSVIEKF 165 (200) T ss_dssp CEEEEEECTTCHHHHHHHHHHHHHHHHHHSCSSCCCCCEEECC-----------------TTSTTEEEEECSCHHHHHHH T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEC-----------------CCCCEEEEEEECCHHHHHHH T ss_conf 5799975787179999999999999873146898766999956-----------------99747999987988999999 Q ss_pred HHCCCEEEEEECCCCCCCCCCHHHHHHHHH Q ss_conf 420330366432788610025889999997 Q gi|254780148|r 79 IKDTPKVIGFLGTGENPSPVTDSEIEHIMN 108 (177) Q Consensus 79 i~~t~gV~~~l~~~~~P~~i~~~ei~~l~~ 108 (177) +...++|.+. .+..+|-+||.+|+. T Consensus 166 i~Gl~~v~~~-----~~~lVpi~Em~~lL~ 190 (200) T 2exu_A 166 CNGVPDIYIS-----QKLLIPVQELPLLLK 190 (200) T ss_dssp HTTCTTEEEE-----EEEECCGGGHHHHHC T ss_pred HHCCCCEECC-----CCCEECHHHHHHHCC T ss_conf 8525001334-----651058899876466 No 9 >2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=97.11 E-value=0.00046 Score=43.01 Aligned_cols=54 Identities=20% Similarity=0.302 Sum_probs=43.9 Q ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEE Q ss_conf 12347897799951877897199999828898899999816870478856787123 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEK 175 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~iek 175 (177) ...|.+||.|+|..|-++|+.|.|.+++. ..++|..+.-+=..+++++..+|+| T Consensus 5 ~~~F~~GD~VeV~~GEl~~l~G~V~~v~~--d~Vti~p~~~~L~~~l~fp~~~LrK 58 (59) T 2e6z_A 5 SSGFQPGDNVEVCEGELINLQGKILSVDG--NKITIMPKHEDLKDMLEFPAQELRK 58 (59) T ss_dssp CSSCCTTSEEEECSSTTTTCEEEECCCBT--TEEEEEECCSSCCSCEEEETTTEEE T ss_pred CCCCCCCCEEEEECCEECCCEEEEEEECC--CEEEEEECCCCCCCCEEECHHHCCC T ss_conf 36549999899922676377999999729--9999977740358507607898734 No 10 >1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Probab=96.61 E-value=0.0027 Score=38.43 Aligned_cols=37 Identities=43% Similarity=0.548 Sum_probs=33.3 Q ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 1234789779995187789719999982889889999 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ...+..||.|.|+.|.|+|-+|.|.+++..++++.|. T Consensus 40 ~~~IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~~rV~Ve 76 (120) T 1vq8_T 40 NVRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVE 76 (120) T ss_dssp EEECCTTCEEEECSSTTTTCEEEEEEEETTTTEEEET T ss_pred CCCEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEE T ss_conf 3315079999995667699753299998679999994 No 11 >2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=96.56 E-value=0.004 Score=37.39 Aligned_cols=45 Identities=24% Similarity=0.537 Sum_probs=35.0 Q ss_pred CCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHH Q ss_conf 8977999518778971999998288988999998168704788567871 Q gi|254780148|r 125 VGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQV 173 (177) Q Consensus 125 ~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~i 173 (177) +|+.|+|..|||+|+.|.|.+++.. .+.|+++.-.+. |.++-++| T Consensus 20 iGktV~I~~GpyKG~~G~Vkd~t~~--~~rVELhs~~K~--V~V~r~~l 64 (71) T 2e70_A 20 IGQTVRISQGPYKGYIGVVKDATES--TARVELHSTCQT--ISVDRQRL 64 (71) T ss_dssp TTSEEEECSSTTTTCEEEEEEECSS--CEEEEESSSCCE--EEECTTTE T ss_pred CCCEEEEEECCCCCEEEEEEECCCC--EEEEEEECCCEE--EEEEHHHE T ss_conf 5888899663768868999965288--799998158769--99898880 No 12 >2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens} Probab=96.55 E-value=0.005 Score=36.83 Aligned_cols=52 Identities=19% Similarity=0.431 Sum_probs=42.5 Q ss_pred CCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEE---CCCEEEEEECHHHHEEC Q ss_conf 789779995187789719999982889889999981---68704788567871233 Q gi|254780148|r 124 EVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVI---FGRVTPVELAYNQVEKI 176 (177) Q Consensus 124 ~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i---~Gr~~~v~l~~~~ieki 176 (177) ++|+.|.|+.|++.|..|.+.++|.++..+.|.++- -|+ +...++++++-|+ T Consensus 72 k~g~~V~Vv~G~~rG~~g~L~~id~~~~~~~v~l~~~~~~~~-~v~~~~yddickl 126 (127) T 2ckk_A 72 APGKRILVLNGGYRGNEGTLESINEKTFSATIVIETGPLKGR-RVEGIQYEDISKL 126 (127) T ss_dssp CTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEEECSSTTTTC-EEEEEEGGGEEEB T ss_pred CCCCEEEEEECCCCCCEEEEEEEECCCCEEEEEECCCCCCCC-EEEECCHHHHHCC T ss_conf 899979998467678589999993436889999715887675-8972488997401 No 13 >2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_L 2ww9_L 1s1i_U Probab=96.49 E-value=0.0038 Score=37.58 Aligned_cols=37 Identities=22% Similarity=0.227 Sum_probs=33.1 Q ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 1234789779995187789719999982889889999 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ...+..||.|.|+.|.|+|-+|.|.+++..++++.|. T Consensus 47 s~~IrkGD~V~Vi~G~~KGk~GkV~~V~~~~~kV~VE 83 (127) T 2wwb_L 47 ALPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVD 83 (127) T ss_dssp EEECCTTSEEEECSSSSTTCEEEEEEEETTTTEEEES T ss_pred CCEEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEE T ss_conf 1106079999997743489413699998779999991 No 14 >2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Probab=96.20 E-value=0.0067 Score=36.07 Aligned_cols=52 Identities=21% Similarity=0.200 Sum_probs=38.0 Q ss_pred CCCCCCCCEEEEECCCCCCCE-EEEEEECCCCCEEEEE----EEECCCEEEEEECHH Q ss_conf 123478977999518778971-9999982889889999----981687047885678 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFN-GIVKNVDEEKSRVHVE----VVIFGRVTPVELAYN 171 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~-g~v~~i~~~~~r~~V~----v~i~Gr~~~v~l~~~ 171 (177) ......||.|.|+.|.|+|.+ |.|..+|..+.++.|. -..=|..+++-++.+ T Consensus 46 s~pVrkgD~V~V~RG~fkG~e~GKV~~V~~k~~~I~VEgvt~~K~dG~~v~~pIhpS 102 (145) T 2zkr_t 46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGTTVHVGIHPS 102 (145) T ss_dssp CCBCCTTCEEEECSSTTTTCCSEEEEEEETTTTEEEETTCEEECSSCCEEECCBCGG T ss_pred CEEECCCCEEEEEECCCCCCCCCEEEEEEECCCEEEECCEEEECCCCCEEECCCCCC T ss_conf 120136999999727978876867999980751999756689826997761352751 No 15 >2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Probab=96.04 E-value=0.012 Score=34.58 Aligned_cols=44 Identities=25% Similarity=0.343 Sum_probs=36.5 Q ss_pred CCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEE Q ss_conf 2347897799951877897199999828898899999816870478 Q gi|254780148|r 121 VFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPV 166 (177) Q Consensus 121 ~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v 166 (177) ..|++||.|+|++|-++|-.|.|.+++. .++.++-+.-.++..| T Consensus 16 K~F~~GDHVkVi~G~~~GetGlVV~v~~--~~v~~~sD~t~~Ei~V 59 (69) T 2do3_A 16 KYFKMGDHVKVIAGRFEGDTGLIVRVEE--NFVILFSDLTMHELKV 59 (69) T ss_dssp SSCCTTCEEEESSSTTTTCEEEEEEECS--SCEEEEESSSCSEEEE T ss_pred EECCCCCEEEEECCEECCCCEEEEEEEC--CEEEEEECCCCCEEEE T ss_conf 5134998389906568697579999969--9999985899878999 No 16 >2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_N Probab=95.29 E-value=0.022 Score=32.99 Aligned_cols=35 Identities=26% Similarity=0.272 Sum_probs=30.5 Q ss_pred CCEEEEECCCCCCCEEEEEEECCCCCEEEEE-EEEC Q ss_conf 9779995187789719999982889889999-9816 Q gi|254780148|r 126 GERVCVSDGPFASFNGIVKNVDEEKSRVHVE-VVIF 160 (177) Q Consensus 126 G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~-v~i~ 160 (177) ||+|.|++|..+|-.|.|.+++.+++++.|. +++- T Consensus 1 GD~V~VisGkdKGk~G~Vl~V~~~~~~ViVeGvN~~ 36 (96) T 2ftc_N 1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTH 36 (96) T ss_pred CCEEEEEECCCCCCCEEEEEEECCCCEEEEECEEEE T ss_conf 999999068989970799999986899999465999 No 17 >2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V Probab=95.11 E-value=0.025 Score=32.69 Aligned_cols=37 Identities=27% Similarity=0.325 Sum_probs=32.7 Q ss_pred CCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 1234789779995187789719999982889889999 Q gi|254780148|r 120 SVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 120 ~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ...+..||.|.|++|.-+|-.|.|.+++..++++.|. T Consensus 13 K~kikkGD~V~VisGkdKGK~G~Vl~V~~k~n~ViVe 49 (115) T 2zjr_R 13 KLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVE 49 (115) T ss_dssp CCSSCTTSEEECCSSSSTTCEEEEEEEETTTTEEEES T ss_pred CEEEECCCEEEEEECCCCCCCEEEEEEECCCCEEEEE T ss_conf 2023179999991557899717899998889999996 No 18 >3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Probab=94.56 E-value=0.0037 Score=37.64 Aligned_cols=38 Identities=21% Similarity=0.270 Sum_probs=32.9 Q ss_pred CCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 01234789779995187789719999982889889999 Q gi|254780148|r 119 SSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 119 ~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ....++.||+|.|++|..+|-.|.|.+++.+++++.|. T Consensus 65 ~K~~IKkGD~V~VIsGkDKGK~G~Vl~V~~k~n~ViVe 102 (191) T 3bbo_W 65 HKRHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIK 102 (191) T ss_dssp TSCCSCCSSCEEECSSSSTTCCCSCCCCCSSSCCCCCS T ss_pred EEEECCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE T ss_conf 21001589999992568999432798998679999996 No 19 >2j01_Y 50S ribosomal protein L24; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.1 PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ... Probab=92.70 E-value=0.0076 Score=35.76 Aligned_cols=40 Identities=35% Similarity=0.410 Sum_probs=33.3 Q ss_pred CCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE-EEEC Q ss_conf 234789779995187789719999982889889999-9816 Q gi|254780148|r 121 VFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE-VVIF 160 (177) Q Consensus 121 ~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~-v~i~ 160 (177) ..+..||.|.|++|+.+|-.|.|.+++.+++++.|. +++- T Consensus 5 ~kikkGD~V~VisGkdKGK~G~Vl~V~~~~~~ViVeGvN~~ 45 (110) T 2j01_Y 5 MHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIV 45 (110) T ss_dssp CCSCCSSCEECCSSTTSSCCBSCCCCCCTTCBCCTTSCCCC T ss_pred CEEECCCEEEEEECCCCCCEEEEEEEECCCCEEEEECCEEE T ss_conf 48757999999168889971789999898999999783756 No 20 >2jz2_A SSL0352 protein; SH3-like, synechocystis SP. PCC 6803, target SGR42, PSI, protein structure initiative; NMR {Synechocystis SP} PDB: 3c4s_A Probab=92.63 E-value=0.37 Score=25.67 Aligned_cols=52 Identities=19% Similarity=0.286 Sum_probs=40.9 Q ss_pred CCCCCEEEEEC--CCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEEC Q ss_conf 47897799951--8778971999998288988999998168704788567871233 Q gi|254780148|r 123 FEVGERVCVSD--GPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEKI 176 (177) Q Consensus 123 ~~~G~~V~I~~--Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~ieki 176 (177) +-||..|+|.+ -++-|++|.|.++.+ ++|-|+++=-.=.-.|++.++++|.+ T Consensus 2 ILPG~~V~V~n~~~~Y~gy~G~VQRvsd--gkaaVLFEGgnWDKlvTf~L~eLe~v 55 (66) T 2jz2_A 2 IFPGATVRVTNVDDTYYRFEGLVQRVSD--GKAAVLFENGNWDKLVTFRLSELEAV 55 (66) T ss_dssp CCTTCEEEECCTTSTTBTCEEEEEEEET--TEEEEEEESSSCEEEEEEESTTEEEC T ss_pred CCCCCEEEEECCCCCEEHEEEEEEEECC--CEEEEEECCCCCEEEEEEEHHHCEEE T ss_conf 3599889986898860010589999419--90899957997217899881154464 No 21 >3ofq_U 50S ribosomal protein L24; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 2j28_U* 3fik_U 2wwq_U 3ofr_U* 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U 3i20_U 3i22_U 3kcr_U 3orb_U* 3e1b_O 3e1d_O 2qam_U* 1p85_S 1p86_S ... Probab=80.70 E-value=0.1 Score=29.06 Aligned_cols=35 Identities=31% Similarity=0.264 Sum_probs=28.3 Q ss_pred CCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 234789779995187789719999982889889999 Q gi|254780148|r 121 VFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 121 ~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ..+..||.|.|++|..+|-.|.|.++..+ +++.|. T Consensus 2 akIkkGD~V~VisGkdKGK~G~Vl~v~~~-~rviVe 36 (102) T 3ofq_U 2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSS-GKVIVE 36 (102) T ss_dssp CCSCSSCCBCCCSSSSCSCCBCCCCCCSS-SCCCCS T ss_pred CCCCCCCEEEEEECCCCCCCEEEEEEECC-CEEEEE T ss_conf 86317999999479889974589999589-969997 No 22 >2joy_A 50S ribosomal protein L14E; protein solution structure, structural genomics, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A Probab=79.62 E-value=2.1 Score=21.20 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=27.8 Q ss_pred CCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE Q ss_conf 34789779995187789719999982889889999 Q gi|254780148|r 122 FFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVE 156 (177) Q Consensus 122 ~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~ 156 (177) ..++|--|.+..||++|-.+.|.++- |++|+.|. T Consensus 3 ~VEvGRVv~i~~G~~~GKl~vIvdii-D~~rvLVd 36 (96) T 2joy_A 3 AIEVGRICVKVKGREAGSKCVIVDII-DDNFVLVT 36 (96) T ss_dssp SSSTTEEEECSSSSTTCCEEEEEEEC-SSSCEEEE T ss_pred CEECCEEEEEEECCCCCCEEEEEEEE-CCCEEEEE T ss_conf 56457899994078789789999997-79869997 No 23 >3hht_B NitrIle hydratase beta subunit; alpha and beta proteins (A+B), lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_B 1v29_B Probab=77.35 E-value=2.5 Score=20.71 Aligned_cols=30 Identities=27% Similarity=0.335 Sum_probs=23.6 Q ss_pred CCCCCCCCCCEEEEEC----------CCCCCCEEEEEEEC Q ss_conf 0012347897799951----------87789719999982 Q gi|254780148|r 118 VSSVFFEVGERVCVSD----------GPFASFNGIVKNVD 147 (177) Q Consensus 118 ~~~~~~~~G~~V~I~~----------Gpf~g~~g~v~~i~ 147 (177) ...+.|++||+|+|.+ +...|..|+|..+. T Consensus 137 ~~~p~F~vGd~Vrv~~~~~~gHtR~P~Y~rg~~G~i~~~~ 176 (229) T 3hht_B 137 SASPRFKVGERIKTKNIHPTGHTRFPRYARDKYGVIDEVY 176 (229) T ss_dssp SSCCSCCTTCEEEECCCCCSSCCSCCGGGTTCEEEEEEEE T ss_pred CCCCCCCCCCEEEEECCCCCCCCCCHHHHCCCEEEEEEEE T ss_conf 8898567898778842789985006577678746999883 No 24 >1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin cobalt, hydration, lyase; HET: BUA; 1.63A {Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B 1ugq_B 1ugr_B 1ugs_B Probab=76.64 E-value=2.2 Score=21.01 Aligned_cols=30 Identities=20% Similarity=0.121 Sum_probs=23.2 Q ss_pred CCCCCCCCCCEEEEECC----------CCCCCEEEEEEEC Q ss_conf 00123478977999518----------7789719999982 Q gi|254780148|r 118 VSSVFFEVGERVCVSDG----------PFASFNGIVKNVD 147 (177) Q Consensus 118 ~~~~~~~~G~~V~I~~G----------pf~g~~g~v~~i~ 147 (177) ...+.|++||+|+|.+- ...|..|+|..+. T Consensus 134 ~~~p~F~vGd~Vrv~~~~~~gHtR~P~Y~rg~~G~I~~~~ 173 (226) T 1ugp_B 134 DRPPKFKEGDVVRFSTASPKGHARRARYVRGKTGTVVKHH 173 (226) T ss_dssp SSCCSCCTTCEEEECCCCCSSCCCCCGGGTTCEEEEEEEE T ss_pred CCCCCCCCCCEEEECCCCCCCCEECCHHHCCCEEEEEEEE T ss_conf 8998478999899787899882017366678756999985 No 25 >2eqm_A PHD finger protein 20-like 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2jtf_A Probab=75.79 E-value=3.9 Score=19.55 Aligned_cols=42 Identities=19% Similarity=0.245 Sum_probs=30.2 Q ss_pred CCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCC Q ss_conf 01234789779995187789719999982889889999981687 Q gi|254780148|r 119 SSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGR 162 (177) Q Consensus 119 ~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr 162 (177) +...|++|+++.+.+---.-+.+.|..++....++ +|.+-|- T Consensus 16 p~~~F~vG~kLEa~D~~~~w~~a~v~~v~~~g~~v--~VhfdGw 57 (88) T 2eqm_A 16 PGITFEIGARLEALDYLQKWYPSRIEKIDYEEGKM--LVHFERW 57 (88) T ss_dssp SSCCCCSSCEEEEECTTSCEEEEEEEEEETTTTEE--EEEESSS T ss_pred CCCCCCCCCEEEEECCCCCEEEEEEEEEECCCCEE--EEEECCC T ss_conf 98634548899998389996999999996349999--9998999 No 26 >1vbk_A Hypothetical protein PH1313; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 1.90A {Pyrococcus horikoshii OT3} SCOP: c.26.2.6 d.308.1.1 Probab=63.21 E-value=4.2 Score=19.33 Aligned_cols=57 Identities=16% Similarity=0.108 Sum_probs=35.0 Q ss_pred CCCCHHHHHHHHHHHHHHCCCHHHCCEEEEECCCCEEEECCEEEEEECCEECEEEEEEEECCCCCHHHHHCCCEEEEEE Q ss_conf 2885389999999999977981114326631310127720203566412033099999961865224442033036643 Q gi|254780148|r 11 YSNCEKKAVESIGGRLSRSGLDHLVTEITIPSERVVSVRKGRKVNSERRFFPGYVLIKAVMTDKVYHTIKDTPKVIGFL 89 (177) Q Consensus 11 ~~~~E~~v~~~L~~~~~~~~~~~~~~~v~~P~~~~~~~~~g~~~~~~~plfpgYiFv~~~~~~~~~~~i~~t~gV~~~l 89 (177) +...|+...+||++.+...++... +++ .-.|++++..+..++.-..+..++||.++- T Consensus 19 R~~fe~~L~~Ni~~~L~~~~~~~~--~v~--------------------~~~~ri~v~~~~~~e~~~~L~~vfGI~s~s 75 (307) T 1vbk_A 19 RSWFEKILMNNIREALVTEEVPYK--EIF--------------------SRHGRIIVKTNSPKEAANVLVRVFGIVSIS 75 (307) T ss_dssp HHHHHHHHHHHHHHHHHHTTCCCS--EEE--------------------EETTEEEEECSCHHHHHHHHTTSTTEEEEE T ss_pred HHHHHHHHHHHHHHHHHHCCCCCE--EEE--------------------EECCEEEEECCCHHHHHHHHHHCCCCCEEE T ss_conf 999999999999999875699825--999--------------------975799997599799999998638986497 No 27 >2f5k_A MORF-related gene 15 isoform 1; beta barrel, gene regulation; 2.20A {Homo sapiens} SCOP: b.34.13.3 PDB: 2efi_A Probab=58.76 E-value=8.7 Score=17.43 Aligned_cols=43 Identities=23% Similarity=0.315 Sum_probs=32.8 Q ss_pred CCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCC Q ss_conf 01234789779995187789719999982889889999981687 Q gi|254780148|r 119 SSVFFEVGERVCVSDGPFASFNGIVKNVDEEKSRVHVEVVIFGR 162 (177) Q Consensus 119 ~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr 162 (177) +...|++|++|.+..|+.- ++|.|.+++..++...-+|..-|= T Consensus 19 p~~~f~~Ge~Vl~~~~~~~-Y~AkVl~v~~~~~~~~Y~VHY~Gw 61 (102) T 2f5k_A 19 PKPKFQEGERVLCFHGPLL-YEAKCVKVAIKDKQVKYFIHYSGW 61 (102) T ss_dssp CSCSCCTTCEEEEESSSSE-EEEEEEEEEEETTEEEEEEEETTS T ss_pred CCCCCCCCCEEEEEECCEE-EEEEEEEEEECCCCEEEEEEECCC T ss_conf 9984378999999979927-898999999759926999995787 No 28 >2zzd_A Thiocyanate hydrolase subunit alpha; scnase, cobalt, metalloprotein, sulfenic acid, sulfinic acid, nitrIle hydratase, carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus thioparus} PDB: 2dd4_A 2dxb_A 2dd5_A* 2dxc_A* Probab=57.16 E-value=9.3 Score=17.27 Aligned_cols=52 Identities=15% Similarity=0.155 Sum_probs=30.3 Q ss_pred CCCCCHHHHHHHHHHHHHHHHH-HCCCCCCCCCCEEEEEC----------CCCCCCEEEEEEE Q ss_conf 1002588999999765322210-00012347897799951----------8778971999998 Q gi|254780148|r 95 PSPVTDSEIEHIMNQVEAAVQR-PVSSVFFEVGERVCVSD----------GPFASFNGIVKNV 146 (177) Q Consensus 95 P~~i~~~ei~~l~~~~~~~~~~-~~~~~~~~~G~~V~I~~----------Gpf~g~~g~v~~i 146 (177) |.--....++.....-...... ......|++||+|++.+ +...|..|+|..+ T Consensus 8 ~~~~r~~~~~~~~~~G~P~~~~~~~~~prF~vGD~Vrv~~~~p~gHtRlP~YvRGk~G~I~~~ 70 (126) T 2zzd_A 8 PVWDRTHHAKMATGIGDPQCFKGMAGKSKFNVGDRVRIKDLPDLFYTRTMTYTRGATGTIVRL 70 (126) T ss_dssp CCCCSSHHHHHHTTTCTTGGGTTTTCSCSSCTTCEEEECCCCCSSCCSSCGGGTTCEEEEEEE T ss_pred CCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCHHHCCCEEEEEEE T ss_conf 367631235665325796302365789934789999982489999404767778987899997 No 29 >1dj7_B Ferredoxin thioredoxin reductase: variable chain; 4Fe-4S cluster binding fold with CXCX16CXCX8CXC binding motif, electron transport; 1.60A {Synechocystis SP} SCOP: b.34.4.3 PDB: 2pu9_B 2pvo_B 2puo_B 2puk_B 2pvd_B 2pvg_B Probab=54.06 E-value=10 Score=16.99 Aligned_cols=52 Identities=25% Similarity=0.265 Sum_probs=32.0 Q ss_pred CCCCEEEEEC-----------CC---CCCCEEEEEEECC-CCCEE-----EEEEEECCCEEEEEECHHHHEEC Q ss_conf 7897799951-----------87---7897199999828-89889-----99998168704788567871233 Q gi|254780148|r 124 EVGERVCVSD-----------GP---FASFNGIVKNVDE-EKSRV-----HVEVVIFGRVTPVELAYNQVEKI 176 (177) Q Consensus 124 ~~G~~V~I~~-----------Gp---f~g~~g~v~~i~~-~~~r~-----~V~v~i~Gr~~~v~l~~~~ieki 176 (177) ++||+|+|.+ |+ +.|++|+|..+-. =++|- -+.+.+ +..-.+-+-.+++|-| T Consensus 2 kvGdrVrV~~sv~VyhhP~hr~~~fDl~G~eGeV~~~v~~wkGr~ISanlP~~V~F-~~kf~aHlredElE~i 73 (75) T 1dj7_B 2 NVGDRVRVTSSVVVYHHPEHKKTAFDLQGMEGEVAAVLTEWQGRPISANLPVLVKF-EQRFKAHFRPDEVTLI 73 (75) T ss_dssp CTTCEEEECSCCEESCCTTSTTSCEECTTCEEEEEEECSEETTEECCCSSCEEEEE-TTTEEEEECGGGEEEC T ss_pred CCCCEEEEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCEECCCCCEEEEE-CCCEEEEECHHHEEEC T ss_conf 88999998001899848765798845688777776787313796956997699997-4311378654362441 No 30 >1vq8_Q 50S ribosomal protein L21E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_Q* 1vq5_Q* 1vq6_Q* 1vq7_Q* 1s72_Q* 1vq9_Q* 1vqk_Q* 1vql_Q* 1vqm_Q* 1vqn_Q* 1vqo_Q* 1vqp_Q* 1yhq_Q* 1yi2_Q* 1yij_Q* 1yit_Q* 1yj9_Q* 1yjn_Q* 1yjw_Q* 2otj_Q* ... Probab=43.22 E-value=16 Score=15.93 Aligned_cols=52 Identities=19% Similarity=0.289 Sum_probs=37.4 Q ss_pred CCCCCCEEEEEC-C---------CCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEE Q ss_conf 347897799951-8---------77897199999828898899999816870478856787123 Q gi|254780148|r 122 FFEVGERVCVSD-G---------PFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEK 175 (177) Q Consensus 122 ~~~~G~~V~I~~-G---------pf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~iek 175 (177) .|++||.|.|.- | -|.|-.|.|....+ .-..|.+..-++.-.+-+-.+.|++ T Consensus 33 ~f~~GD~V~I~idpsv~kGMPh~~yhGkTG~V~~~~g--~a~~V~v~~g~k~K~i~vr~eHlk~ 94 (96) T 1vq8_Q 33 EFDDGEKVHLKIDPSVPNGRFHPRFDGQTGTVEGKQG--DAYKVDIVDGGKEKTIIVTAAHLRR 94 (96) T ss_dssp CCCTTCEEEECCCTTCCSSCCCGGGTTCEEEEEEEET--TEEEEEEEETTEEEEEEECGGGEEE T ss_pred HCCCCCEEEEEECCCCCCCCCCCCCCCCCEEEEEECC--EEEEEEEECCCEEEEEEECHHHCCC T ss_conf 0269988999736971138875211487357994367--3999999628714799966566456 No 31 >2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.34.9.1 Probab=41.94 E-value=16 Score=15.81 Aligned_cols=53 Identities=11% Similarity=0.245 Sum_probs=36.8 Q ss_pred CCCCCCCCEEEEE---CCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEEC Q ss_conf 1234789779995---18778971999998288988999998168704788567871233 Q gi|254780148|r 120 SVFFEVGERVCVS---DGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEKI 176 (177) Q Consensus 120 ~~~~~~G~~V~I~---~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~ieki 176 (177) ...+++|+.+... || .=+.|.|.+++.++..+.|.+-=+|.. -.++.++|..+ T Consensus 7 ~~~wkvG~~C~A~~~~D~--~wYRa~I~~i~~~~~~~~V~fvDYGn~--e~V~~~~Lr~l 62 (78) T 2d9t_A 7 GKVWKPGDECFALYWEDN--KFYRAEVEALHSSGMTAVVKFTDYGNY--EEVLLSNIKPV 62 (78) T ss_dssp CCCCCTTCEEEEECTTTC--CEEEEEEEEECSSSSEEEEEETTTTEE--EEEEGGGEEEC T ss_pred CCCCCCCCEEEEEECCCC--CEEEEEEEEECCCCCEEEEEEEECCCE--EEEEHHHEEEC T ss_conf 740473999999989889--699999999837899899999908996--99877990898 No 32 >3a8g_B NitrIle hydratase subunit beta; Fe, iron, lyase, metal-binding, oxidation; 1.11A {Rhodococcus erythropolis} PDB: 2ahj_B 2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B 2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 2qdy_B 3a8h_B 3a8l_B 3a8o_B 3a8m_B 1ahj_B Probab=38.42 E-value=18 Score=15.48 Aligned_cols=63 Identities=24% Similarity=0.275 Sum_probs=34.6 Q ss_pred HCCCEEEEEECCCCCCCCCCHHHHHHHHHHHH--------HHHHHHCCCCCCCCCCEEEEEC----------CCCCCCEE Q ss_conf 20330366432788610025889999997653--------2221000012347897799951----------87789719 Q gi|254780148|r 80 KDTPKVIGFLGTGENPSPVTDSEIEHIMNQVE--------AAVQRPVSSVFFEVGERVCVSD----------GPFASFNG 141 (177) Q Consensus 80 ~~t~gV~~~l~~~~~P~~i~~~ei~~l~~~~~--------~~~~~~~~~~~~~~G~~V~I~~----------Gpf~g~~g 141 (177) +-+-++..+|-..+ .|+.+|++......- .+...+.....|++||+|+|.+ +...|..| T Consensus 75 ~Wl~ale~lLvekG---~it~~EL~a~~~~~~~~~~~~~~~g~~~~~~~p~F~vGd~Vrv~~~~~~gHtRlP~Y~rgk~G 151 (212) T 3a8g_B 75 RYVIGVATLMVEKG---ILTQDELESLAGGPFPLSRPSESEGRPAPVETTTFEVGQRVRVRDEYVPGHIRMPAYCRGRVG 151 (212) T ss_dssp HHHHHHHHHHHHTT---SSCHHHHHHHHTSCCCCCCCCSCCCCCCCSCCCCCCTTCEEEECCCCCSSCCSCCGGGTTCEE T ss_pred HHHHHHHHHHHHCC---CCCHHHHHCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCEEEECCCCCCCCEECCHHHCCCEE T ss_conf 99999999999839---978999964535677655411204898768898679999899754899983016166668747 Q ss_pred EEEE Q ss_conf 9999 Q gi|254780148|r 142 IVKN 145 (177) Q Consensus 142 ~v~~ 145 (177) +|.. T Consensus 152 ~I~~ 155 (212) T 3a8g_B 152 TISH 155 (212) T ss_dssp EEEE T ss_pred EEEE T ss_conf 9987 No 33 >1wjs_A KIAA1798 protein; MBT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.34.9.3 Probab=34.59 E-value=21 Score=15.11 Aligned_cols=14 Identities=0% Similarity=-0.327 Sum_probs=8.5 Q ss_pred CEECEEEEEEEECC Q ss_conf 20330999999618 Q gi|254780148|r 59 RFFPGYVLIKAVMT 72 (177) Q Consensus 59 plfpgYiFv~~~~~ 72 (177) .+.-+|++++.+-- T Consensus 38 ~v~g~~l~l~~dg~ 51 (127) T 1wjs_A 38 EVCGYRIKLHFDGY 51 (127) T ss_dssp EEETTEEEEEETTS T ss_pred EEECCEEEEEECCC T ss_conf 87899999996899 No 34 >1wjq_A KIAA1798 protein; MBT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.34.9.3 Probab=32.31 E-value=23 Score=14.89 Aligned_cols=40 Identities=25% Similarity=0.252 Sum_probs=26.0 Q ss_pred CCCCCCCCCCEEEEEC--CCCCCCEEEEEEECCCCCEEEEEEEECC Q ss_conf 0012347897799951--8778971999998288988999998168 Q gi|254780148|r 118 VSSVFFEVGERVCVSD--GPFASFNGIVKNVDEEKSRVHVEVVIFG 161 (177) Q Consensus 118 ~~~~~~~~G~~V~I~~--Gpf~g~~g~v~~i~~~~~r~~V~v~i~G 161 (177) .+...|++|.++++++ .|..=..+.|.++.+ +++.| .+-| T Consensus 9 ~P~~~F~vGmKLEavD~~~p~~i~vAtV~~v~g--~~l~v--~~DG 50 (107) T 1wjq_A 9 KPPHGFQKKMKLEVVDKRNPMFIRVATVADTDD--HRVKV--HFDG 50 (107) T ss_dssp CCSSSCCSSCEEEEECTTCTTCEEEEEEEEECS--SCEEE--ECSS T ss_pred CCCCCCCCCCEEEEECCCCCCEEEEEEEEEEEC--CEEEE--EECC T ss_conf 898526679999988788983689999999889--99999--9788 No 35 >2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens} Probab=29.73 E-value=26 Score=14.62 Aligned_cols=50 Identities=20% Similarity=0.281 Sum_probs=32.1 Q ss_pred CCCCCCCCCEEEEE--CCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHH Q ss_conf 01234789779995--18778971999998288988999998168704788567871 Q gi|254780148|r 119 SSVFFEVGERVCVS--DGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQV 173 (177) Q Consensus 119 ~~~~~~~G~~V~I~--~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~i 173 (177) +.+.|..|+.|... ||- =+-|.|.+++.+..+..|.+ .-.+.--+.+.+| T Consensus 6 s~p~f~~G~~VLarW~Dg~--fYlg~I~~V~~~~~~c~V~F---~Dns~~wV~~Kdi 57 (68) T 2e5p_A 6 SGPRLWEGQDVLARWTDGL--LYLGTIKKVDSAREVCLVQF---EDDSQFLVLWKDI 57 (68) T ss_dssp CCCCCCTTCEEEEECTTSS--EEEEEEEEEETTTTEEEEEE---TTTEEEEEETTTE T ss_pred CCCCCCCCCEEEEEECCCC--EEEEEEEEEECCCCEEEEEE---ECCCEEEEEEECC T ss_conf 8876335878998840685--85557999825898899999---4597899997415 No 36 >3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Probab=28.38 E-value=27 Score=14.48 Aligned_cols=33 Identities=9% Similarity=0.387 Sum_probs=27.9 Q ss_pred CCCCCCCCCEEEEECCCCCCCEEEEEEECCCCC Q ss_conf 012347897799951877897199999828898 Q gi|254780148|r 119 SSVFFEVGERVCVSDGPFASFNGIVKNVDEEKS 151 (177) Q Consensus 119 ~~~~~~~G~~V~I~~Gpf~g~~g~v~~i~~~~~ 151 (177) ....|++|..+-|+.|-=.|..|.|.++....+ T Consensus 135 ~~i~fe~G~~~~vtgG~n~GrvG~I~~Ie~~~~ 167 (213) T 3kbg_A 135 EIIKMQPGNKAYITAGSHVNQTGTISKIEAKEG 167 (213) T ss_dssp EEECCSTTCEEEECSSTTTTCEEEEEEECCCSC T ss_pred EEEECCCCCEEEEECCCCCCEEEEEEEEEEECC T ss_conf 888236999999958852644699999997258 No 37 >1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation; NMR {Homo sapiens} SCOP: b.34.9.1 Probab=28.15 E-value=27 Score=14.46 Aligned_cols=51 Identities=14% Similarity=0.279 Sum_probs=35.9 Q ss_pred CCCCCCCEEEEE---CCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEE Q ss_conf 234789779995---1877897199999828898899999816870478856787123 Q gi|254780148|r 121 VFFEVGERVCVS---DGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEK 175 (177) Q Consensus 121 ~~~~~G~~V~I~---~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~iek 175 (177) ..+++|+.+... +| .=+.|.|.+++.+.+.+.|.+.=+|..-.| ++++|.. T Consensus 9 ~~wkvG~~C~A~~s~D~--~wYRA~I~~i~~~~~~~~V~fvDYGn~e~V--~~~~L~~ 62 (88) T 1g5v_A 9 QQWKVGDKCSAIWSEDG--CIYPATIASIDFKRETCVVVYTGYGNREEQ--NLSDLLS 62 (88) T ss_dssp CCCCSSCEEEEECTTTC--CEEEEEEEEEETTTTEEEEEETTTCCEEEE--EGGGCBC T ss_pred CCCCCCCEEEEEECCCC--CEEEEEEEEECCCCCEEEEEEEECCCEEEE--CHHHHCC T ss_conf 66875999999988789--698999998537899699999926997998--0999057 No 38 >1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy, RNA binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 Probab=22.97 E-value=34 Score=13.87 Aligned_cols=50 Identities=14% Similarity=0.270 Sum_probs=35.0 Q ss_pred CCCCCCEEEEE---CCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHEE Q ss_conf 34789779995---1877897199999828898899999816870478856787123 Q gi|254780148|r 122 FFEVGERVCVS---DGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVEK 175 (177) Q Consensus 122 ~~~~G~~V~I~---~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~iek 175 (177) .+++|+.+... +|- =+.|.|.+++.+.+.+.|.+.=+|..-.| +.++|.+ T Consensus 3 ~wkvG~~C~A~~~~D~~--wYRA~I~~i~~~~~~~~V~fvDYGn~e~V--~~~~L~~ 55 (59) T 1mhn_A 3 QWKVGDKCSAIWSEDGC--IYPATIASIDFKRETCVVVYTGYGNREEQ--NLSDLLS 55 (59) T ss_dssp CCCTTCEEEEECTTTSC--EEEEEEEEEETTTTEEEEEETTTTEEEEE--EGGGCBC T ss_pred CCCCCCEEEEEECCCCC--EEEEEEEEECCCCCEEEEEEECCCCEEEE--EHHHCCC T ss_conf 68759999999987898--98899999718899999999648998998--9999789 No 39 >2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus} Probab=21.49 E-value=37 Score=13.69 Aligned_cols=51 Identities=22% Similarity=0.383 Sum_probs=32.6 Q ss_pred CCCCCCCCCEEEE--ECCCCCCCEEEEEEECCCCCEEEEEEEECCCEEEEEECHHHHE Q ss_conf 0123478977999--5187789719999982889889999981687047885678712 Q gi|254780148|r 119 SSVFFEVGERVCV--SDGPFASFNGIVKNVDEEKSRVHVEVVIFGRVTPVELAYNQVE 174 (177) Q Consensus 119 ~~~~~~~G~~V~I--~~Gpf~g~~g~v~~i~~~~~r~~V~v~i~Gr~~~v~l~~~~ie 174 (177) +...|..|+.|-+ .||-| +-|.|.+++...++..|.+ .-.+.--+.+.+|. T Consensus 10 ~~~~f~~GedVLarwtDg~f--YlgtI~~V~~~~~~clV~F---~D~s~~wv~~kdi~ 62 (66) T 2eqj_A 10 PACKFEEGQDVLARWSDGLF--YLGTIKKINILKQSCFIIF---EDSSKSWVLWKDIQ 62 (66) T ss_dssp CCCCSCTTCEEEEECTTSCE--EEEEEEEEETTTTEEEEEE---TTTEEEEEETTTEE T ss_pred HHHHCCCCCEEEEEECCCCE--EEEEEEEEECCCCEEEEEE---ECCCEEEEEEECCC T ss_conf 10101579889999316868--7767899834797799999---34976889933142 Done!