# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1lkxA 697 6.97e-02 c.37.1.9 73981 1x3xA 82 9.68e-02 1i9sA 210 8.02e-01 1i9sA c.45.1.1 62099 2c46A 241 1.25e+00 1tx4B 178 1.25e+00 1ctqA c.37.1.8 32045 1jr7A 311 1.93e+00 b.82.2.3 63255 1kmqA 184 2.00e+00 c.37.1.8 84412 1nr6A 473 2.41e+00 a.104.1.1 92085 2b2nA 344 3.65e+00 1ie9A 259 4.48e+00 1db1A a.123.1.1 62318 1sceA 112 4.66e+00 1puc d.97.1.1 40676 1lvk 762 4.92e+00 1lvk b.34.3.1,c.37.1.9 24576,32173 1wv2A 265 5.34e+00 1q4uA 151 5.42e+00 d.38.1.5 95828 1z08A 170 5.46e+00 1vom 762 5.68e+00 1lvk b.34.3.1,c.37.1.9 24577,32174 1db1A 259 5.70e+00 1db1A a.123.1.1 19329 1vj0A 380 6.20e+00 b.35.1.2,c.2.1.1 100786,100787 1n6bA 473 6.38e+00 a.104.1.1 85359 1ar72 272 6.48e+00 1aym2 1hxs2 272 6.64e+00 1d0yA 761 7.03e+00 1lvk b.34.3.1,c.37.1.9 24581,32178 1yqfA 203 7.20e+00 1f7zA 233 8.61e+00 5ptp b.47.1.2 59681 1s6cA 183 8.74e+00 a.39.1.5 98594 1i7hA 111 8.78e+00 d.15.4.1 71122 1puc 105 8.97e+00 1puc d.97.1.1 40675 1uvzA 119 8.98e+00 1w4vA 119 9.02e+00 1zkiA 133 9.31e+00 1gc5A 467 9.85e+00 1gc5A c.72.1.3 60429 1kqfC 217 1.04e+01 f.21.1.1 72874 2akaA 776 1.06e+01 1mnd 762 1.08e+01 1lvk b.34.3.1,c.37.1.9 24591,32188 1efcA 393 1.20e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1ypqA 135 1.32e+01 2sas 185 1.41e+01 2sas a.39.1.5 17258 1ow4A 129 1.41e+01 a.39.2.1 93628 1ijtA 128 1.44e+01 1bfg b.42.1.1 62510 3rp2A 224 1.46e+01 1a7s b.47.1.2 26298 1y60A 169 1.60e+01 1dw9A 156 1.68e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 2coeA 120 1.69e+01 1htoA 477 1.73e+01 d.15.9.1,d.128.1.1 70987,70988 1nd7A 374 1.74e+01 d.148.1.1 91817 1anb 223 1.81e+01 5ptp b.47.1.2 25998 4ptp 223 1.84e+01 1gmuA 143 1.89e+01 b.107.1.1,d.58.38.1 65335,65336 2fcr 173 1.89e+01 1rcf c.23.5.1 31151 1dwkA 156 1.93e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1up8A 598 1.95e+01 a.111.1.2 99710 1w9iA 770 1.96e+01 1anc 223 1.99e+01 5ptp b.47.1.2 25982 2gf6A 135 2.01e+01 1m7bA 184 2.10e+01 c.37.1.8 74572 1jpmA 366 2.21e+01 c.1.11.2,d.54.1.1 67031,67032 1fouA 309 2.22e+01 1fouA e.27.1.1 43364 2a5dA 175 2.26e+01 1zzgA 415 2.30e+01 1hj9A 226 2.35e+01 b.47.1.2 65845 1kbqA 273 2.36e+01 c.23.5.3 68391 5ptp 223 2.39e+01 5ptp b.47.1.2 25831 1dpo 223 2.44e+01 5ptp b.47.1.2 25975 1ucpA 91 2.46e+01 a.77.1.5 99186 1mc2A 122 2.52e+01 a.133.1.2 74622 1ovnA 248 2.53e+01 a.71.1.1,c.47.1.7 93602,93603 1amhA 223 2.56e+01 5ptp b.47.1.2 25994 1r5zA 323 2.59e+01 f.40.1.1 97135 1d4aA 273 2.61e+01 1d4aA c.23.5.3 31219 2a1xA 308 2.67e+01 1exmA 405 2.70e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2atxA 194 2.70e+01 1and 223 2.71e+01 5ptp b.47.1.2 25985 2c78A 405 2.73e+01 2bwvA 440 2.74e+01 1lj0A 92 2.76e+01 d.120.1.1 78019 1ha3A 405 2.77e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1e55A 512 2.82e+01 1e70M c.1.8.4 28934 1az9 457 2.82e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1h49A 512 2.83e+01 c.1.8.4 83477 2bvcA 486 2.87e+01 1cwxA 44 2.87e+01 1cwxA j.54.1.1 46338 1s1eA 224 3.00e+01 1aipA 405 3.04e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1qbgA 272 3.06e+01 1d4aA c.23.5.3 31227 2g0qA 173 3.07e+01 1qhbA 596 3.08e+01 1qhbA a.111.1.2 19055 1gmwA 143 3.11e+01 b.107.1.1,d.58.38.1 65347,65348 1je5A 206 3.15e+01 1je5A b.40.4.7 62909 1b13A 54 3.24e+01 1rb9 g.41.5.1 45227 1bdc 60 3.27e+01 1fc2C a.8.1.1 16350 1fzqA 181 3.34e+01 1hurA c.37.1.8 32060 1yr1A 119 3.38e+01 2abk 211 3.39e+01 2abk a.96.1.1 18743 1eueA 86 3.44e+01 1cyo d.120.1.1 59504 2gk9A 426 3.51e+01 1htqA 477 3.52e+01 d.15.9.1,d.128.1.1 71035,71036 1ll2A 333 3.55e+01 c.68.1.14 74005 1b2oA 54 3.59e+01 1rb9 g.41.5.1 45233 1j96A 323 3.62e+01 c.1.7.1 71616 1poiA 317 3.70e+01 1poiA c.124.1.2 34153 1aipE 405 3.77e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1g8jB 133 3.79e+01 1g8jB b.33.1.1 24439 1aksA 125 3.82e+01 5ptp b.47.1.2 25969 2d0iA 333 3.82e+01 1oqyA 368 3.85e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 2c5qA 240 3.86e+01 1gox 370 3.89e+01 1gox c.1.4.1 28607 1wl9A 440 3.95e+01 1a16 440 3.99e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1sqhA 312 4.03e+01 d.108.1.5 98966 1e58A 249 4.07e+01 1qhfA c.60.1.1 59262 1efuA 385 4.20e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1iro 54 4.33e+01 1rb9 g.41.5.1 45223 1rtxA 123 4.38e+01 a.1.1.1 97827 1b2jA 54 4.38e+01 1rb9 g.41.5.1 45231 1eljA 381 4.39e+01 4mbp c.94.1.1 35791 2ganA 190 4.47e+01 1jw2A 72 4.51e+01 a.23.5.1 67372 1ky3A 182 4.54e+01 c.37.1.8 73193 1k1vA 41 4.54e+01 a.37.1.1 71999 2anxA 146 4.58e+01 1mctA 223 4.58e+01 5ptp b.47.1.2 25961 1an0A 190 4.63e+01 1ctqA c.37.1.8 32066 1s83A 223 4.68e+01 b.47.1.2 98718 2ge7A 108 4.69e+01 1xw5A 217 4.70e+01 1j0fA 100 4.71e+01 c.47.1.14 90739 1xrtA 467 4.74e+01 2fgoA 82 4.74e+01 1s9rA 410 4.74e+01 d.126.1.4 98758 1p9cA 45 4.80e+01 j.105.1.1 94386 1lxyA 409 4.82e+01 d.126.1.4 91154 2clbA 188 4.89e+01 2a31A 223 4.89e+01 1an1E 223 5.00e+01 5ptp b.47.1.2 25970 1va6A 518 5.06e+01 1uok 558 5.10e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1avwA 223 5.30e+01 5ptp b.47.1.2 25965 1a4rA 191 5.46e+01 1ctqA c.37.1.8 32063 1h9hE 223 5.48e+01 b.47.1.2 103810 1b5m 84 5.53e+01 1cyo d.120.1.1 41073 1s1pA 331 5.59e+01 c.1.7.1 98350 2c2hA 192 5.60e+01 1a4uA 254 5.61e+01 1b16A c.2.1.2 29878 2c4jA 218 5.63e+01 1i4nA 251 5.69e+01 c.1.2.4 71114 1sbyA 254 5.89e+01 1b16A 254 6.00e+01 1b16A c.2.1.2 29875 1pyoB 105 6.14e+01 1atg 231 6.28e+01 1atg c.94.1.1 35834 1jr3A 373 6.34e+01 a.80.1.1,c.37.1.20 63245,63246 2g9mA 133 6.36e+01 2fujA 137 6.39e+01 1nf3A 195 6.50e+01 c.37.1.8 85594 1fniA 223 6.50e+01 5ptp b.47.1.2 25962 1e66A 543 6.54e+01 c.69.1.1 59291 1etu 394 6.62e+01 1efcA c.37.1.8 64737 1wh8A 111 6.67e+01 1g8kB 133 6.75e+01 1g8jB b.33.1.1 24435 1qidA 537 6.76e+01 2bce c.69.1.1 34593 1rsgA 516 6.85e+01 1lcf 691 6.85e+01 1cb6A c.94.1.2,c.94.1.2 35838,35839 1cb6A 691 6.85e+01 1cb6A c.94.1.2,c.94.1.2 35840,35841 1awpA 92 6.94e+01 1cyo d.120.1.1 41071 4rxn 54 6.99e+01 1rb9 g.41.5.1 45226 5rxn 54 6.99e+01 1rb9 g.41.5.1 45225 1ponB 36 7.04e+01 1ponB 1xzoA 174 7.06e+01 1lam 484 7.08e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1uwmA 106 7.09e+01 1nkxA 348 7.09e+01 c.94.1.2 91943 1e9mA 106 7.11e+01 1ayfA d.15.4.1 59397 1n46A 258 7.16e+01 a.123.1.1 85315 1xiwA 105 7.18e+01 1jbaA 204 7.20e+01 1rec a.39.1.5 17330 1aqcA 172 7.23e+01 1x11A b.55.1.2 26983 1nrfA 262 7.26e+01 e.3.1.1 92086 1ql3A 99 7.40e+01 1ycc a.3.1.1 15822 1nwbA 124 7.43e+01 b.124.1.1 86296 1nekA 588 7.43e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1brfA 53 7.44e+01 1rb9 g.41.5.1 45236 2h79A 269 7.45e+01 1bq8A 54 7.47e+01 1rb9 g.41.5.1 45237 1bq9A 54 7.47e+01 1rb9 g.41.5.1 45238 1ef1C 90 7.47e+01 1ef1C a.137.5.1 19642 1nn5A 215 7.57e+01 c.37.1.1 85892 1oi2A 366 7.57e+01 c.119.1.2 103802 1u94A 356 7.63e+01 c.37.1.11,d.48.1.1 107743,107744 1q92A 197 7.63e+01 c.108.1.8 96250 1mh9A 197 7.73e+01 c.108.1.8 79118 1y4lA 121 7.73e+01 1vxrA 537 7.79e+01 2bce c.69.1.1 34595 1ea5A 537 7.80e+01 2bce c.69.1.1 34592 1b0lA 691 7.88e+01 1cb6A c.94.1.2,c.94.1.2 35847,35848 1b1xA 689 8.04e+01 1cb6A c.94.1.2,c.94.1.2 35865,35866 8rxnA 52 8.07e+01 1rb9 g.41.5.1 45215 1vhoA 346 8.21e+01 b.49.3.1,c.56.5.4 100694,100695 2aj2A 208 8.25e+01 1fa0B 537 8.28e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39336,75839,75840 1top 162 8.37e+01 1ncx a.39.1.5 17223 1s8fA 177 8.38e+01 c.37.1.8 105370 1acj 537 8.45e+01 2bce c.69.1.1 34588 1dt6A 473 8.50e+01 1dt6A a.104.1.1 18977 1bllE 488 8.51e+01 1lam c.50.1.1,c.56.5.3 33170,33833 1ecsA 126 8.51e+01 1ecsA d.32.1.2 59407 1ncx 162 8.58e+01 1ncx a.39.1.5 17222 1yk4A 52 8.59e+01 1v7oA 165 8.60e+01 d.67.1.2 100480 1r61A 207 8.74e+01 c.8.8.1 97138 1aii 323 8.76e+01 1avc a.65.1.1 18150 1ctdA 36 8.78e+01 1ctdA a.39.1.5 17230 1iapA 211 8.80e+01 a.91.1.1 62119 1rxdA 159 8.82e+01 1rb9 53 8.84e+01 1rb9 g.41.5.1 45214 1knt 58 8.88e+01 1bpi g.8.1.1 44538 1e9cA 215 8.99e+01 c.37.1.1 64808 1t00A 112 8.99e+01