# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1debA 54 1.77e+00 1debA h.1.18.1 45660 1pb6A 212 2.19e+00 a.4.1.9,a.121.1.1 88017,88018 1nh1A 330 2.26e+00 e.45.1.1 91871 1jkw 323 2.82e+00 1jkw a.74.1.1,a.74.1.1 18356,18357 1kxu 333 3.60e+00 1jkw a.74.1.1,a.74.1.1 18358,18359 1yg2A 179 4.18e+00 1jeqA 609 4.19e+00 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 1h4lD 147 5.01e+00 a.74.1.1 70873 1sesA 421 5.62e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 2aucA 126 6.25e+00 2b61A 377 8.31e+00 1ku1A 230 8.56e+00 a.118.3.1 72996 1h68A 239 9.11e+00 f.13.1.1 60664 1xkqA 280 9.58e+00 1l8dA 112 9.98e+00 h.4.12.1 73687 1ce9C 34 1.02e+01 1ce9C h.1.3.1 45485 1p4wA 99 1.02e+01 a.4.6.2 87783 1ce9A 34 1.08e+01 1ce9C h.1.3.1 45483 2fggA 101 1.09e+01 1fmhA 33 1.16e+01 1fmhB k.6.1.1 46409 1f45B 197 1.20e+01 1f45B a.26.1.1 59642 2bl0B 145 1.22e+01 1h99A 224 1.26e+01 a.142.1.1,a.142.1.1 60814,60815 1unlD 208 1.28e+01 1lk3A 160 1.40e+01 a.26.1.3 73950 1mwmA 320 1.41e+01 c.55.1.1,c.55.1.1 79580,79581 1oqcA 125 1.47e+01 a.24.15.1 87264 1m4iA 181 1.54e+01 d.108.1.1 74457 1tmzA 32 1.58e+01 1tmzA k.1.1.1 46376 1jfkA 134 1.64e+01 a.39.1.5 66639 1syyA 346 1.77e+01 a.25.1.2 106126 1aj8A 371 1.79e+01 1aj8A a.103.1.1 18900 1q1vA 70 1.86e+01 a.159.4.1 104479 2cw9A 194 1.93e+01 1ehyA 294 1.95e+01 1ehyA c.69.1.11 34693 1nfkA 325 1.99e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1a0rG 65 2.04e+01 1tbgE a.137.3.1 19639 1h2sA 225 2.07e+01 f.13.1.1 76578 1dowA 205 2.11e+01 1dovA a.24.9.1 16626 2eulA 156 2.11e+01 1vjxA 157 2.15e+01 a.25.1.1 100837 127l 164 2.19e+01 d.2.1.3 36745 1m12A 84 2.22e+01 a.64.1.1 84745 1fmhB 33 2.24e+01 1fmhB k.6.1.1 46410 1o6zA 303 2.37e+01 c.2.1.5,d.162.1.1 81107,81108 1imvA 398 2.39e+01 e.1.1.1 62591 1cq3A 233 2.40e+01 1cq3A b.27.1.1 23923 1yhnB 65 2.43e+01 109l 164 2.53e+01 1l92 d.2.1.3 36781 1pmi 440 2.54e+01 1pmi b.82.1.3 28114 1ziiA 34 2.54e+01 2ztaA h.1.3.1 45479 2ztaA 34 2.54e+01 2ztaA h.1.3.1 45474 2az4A 429 2.60e+01 1yfoA 302 2.60e+01 2shpA c.45.1.2 32681 1gehA 444 2.61e+01 c.1.14.1,d.58.9.1 65181,65182 1ihqA 38 2.61e+01 k.31.1.1 66144 1wn0A 145 2.66e+01 1q1gA 276 2.67e+01 c.56.2.1 95574 1jgjA 217 2.72e+01 1c3wA f.13.1.1 62952 1p9iA 31 2.77e+01 h.1.10.1 94390 1zw0A 66 2.78e+01 1lw9A 164 2.80e+01 d.2.1.3 84727 1bw0A 416 2.83e+01 1bw0A c.67.1.1 34385 103l 167 2.86e+01 1l92 d.2.1.3 36870 1ekjB 221 2.90e+01 1ekjB c.53.2.1 33365 147l 164 2.92e+01 1l92 d.2.1.3 36864 1mhlC 466 2.94e+01 1mhlC 2adoA 196 2.97e+01 1d2vC 466 3.00e+01 1mhlC 1cxpC 466 3.06e+01 1mhlC 1ekjA 221 3.10e+01 1ekjB c.53.2.1 33364 152l 164 3.13e+01 1l92 d.2.1.3 36904 2bduA 297 3.19e+01 1t6sA 162 3.21e+01 197l 164 3.23e+01 1l92 d.2.1.3 36911 1gm5A 780 3.23e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301 113l 164 3.24e+01 1l92 d.2.1.3 36678 1cf9A 753 3.25e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 2g09A 297 3.28e+01 145l 164 3.28e+01 1l92 d.2.1.3 36860 1lshA 1056 3.30e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2vsgA 358 3.31e+01 2vsgA h.4.1.1 45780 1fnuA 221 3.32e+01 3seb b.40.2.2,d.15.6.1 25212,37801 2f6hX 419 3.37e+01 1p80A 753 3.37e+01 c.23.16.3,e.5.1.1 94337,94338 1konA 249 3.37e+01 e.39.1.1 72823 164l 164 3.40e+01 1l92 d.2.1.3 36714 2fvhA 120 3.44e+01 1l92 164 3.46e+01 1l92 d.2.1.3 36629 1ffyA 917 3.46e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 3.46e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1e7tA 59 3.46e+01 126l 164 3.52e+01 1l92 d.2.1.3 36699 158l 164 3.57e+01 1l92 d.2.1.3 36747 1jihA 531 3.58e+01 d.240.1.1,e.8.1.7 90374,90375 141l 164 3.63e+01 1l92 d.2.1.3 36863 2a3qA 170 3.68e+01 167lA 164 3.68e+01 1l92 d.2.1.3 36937 1eq1A 166 3.72e+01 a.63.1.1 64910 171l 164 3.74e+01 1l92 d.2.1.3 36962 128l 164 3.77e+01 1l92 d.2.1.3 36634 1xesA 413 3.77e+01 1p65A 73 3.78e+01 d.254.1.1 94156 143l 164 3.80e+01 1l92 d.2.1.3 36857 146l 164 3.86e+01 1l92 d.2.1.3 36763 1b9xB 68 3.87e+01 1tbgE a.137.3.1 19638 1ny6A 267 3.88e+01 c.37.1.20 92321 176lA 164 3.89e+01 1l92 d.2.1.3 36942 1wmiB 67 3.90e+01 1f5vA 240 3.91e+01 1bkjA d.90.1.1 40255 2ftuA 118 3.92e+01 161l 164 3.92e+01 1l92 d.2.1.3 36636 196l 164 3.95e+01 1l92 d.2.1.3 36927 1gwiA 411 3.95e+01 a.104.1.1 76364 162l 164 3.95e+01 1l92 d.2.1.3 36749 118l 164 4.00e+01 1l92 d.2.1.3 36642 177l 164 4.02e+01 1l92 d.2.1.3 36958 119l 164 4.02e+01 1l92 d.2.1.3 36622 1qkmA 255 4.03e+01 3erdA a.123.1.1 19309 125l 164 4.03e+01 1l92 d.2.1.3 36672 1lg2A 365 4.04e+01 c.1.8.5,d.26.3.1 77950,77951 198l 164 4.04e+01 1l92 d.2.1.3 36785 180lA 164 4.06e+01 1l92 d.2.1.3 36867 195l 164 4.06e+01 1l92 d.2.1.3 36841 1dovA 181 4.06e+01 1dovA a.24.9.1 16627 130l 164 4.07e+01 1l92 d.2.1.3 36638 131l 164 4.07e+01 1l92 d.2.1.3 36685 142l 164 4.09e+01 1l92 d.2.1.3 36874 163l 164 4.10e+01 1l92 d.2.1.3 36658 1h8aC 128 4.10e+01 a.4.1.3,a.4.1.3 65731,65732 199l 164 4.10e+01 1l92 d.2.1.3 36855 175lA 164 4.13e+01 1l92 d.2.1.3 36924 138l 164 4.13e+01 1l92 d.2.1.3 36679 1qamA 244 4.14e+01 2ercA c.66.1.24 34220 140l 164 4.15e+01 1l92 d.2.1.3 36891 2a6cA 83 4.15e+01 159l 164 4.17e+01 1l92 d.2.1.3 36682 120l 164 4.21e+01 1l92 d.2.1.3 36720 170l 164 4.22e+01 1l92 d.2.1.3 36968 1b6iA 164 4.22e+01 1l92 d.2.1.3 36945 1lqwA 183 4.30e+01 d.167.1.1 74210 2bcjB 340 4.32e+01 156l 164 4.33e+01 1l92 d.2.1.3 36709 111l 164 4.37e+01 1l92 d.2.1.3 36661 166l 164 4.38e+01 1l92 d.2.1.3 36681 1kddA 36 4.39e+01 h.1.3.1 68472 1p36A 164 4.40e+01 d.2.1.3 93978 1lm4A 194 4.43e+01 d.167.1.1 84626 2ts1 419 4.43e+01 2ts1 c.26.1.1 31564 157l 164 4.43e+01 1l92 d.2.1.3 36717 1ug7A 128 4.44e+01 a.24.24.1 107824 1lox 662 4.47e+01 1lox a.119.1.2,b.12.1.1 19238,23638 155l 164 4.48e+01 1l92 d.2.1.3 36762 115l 164 4.50e+01 1l92 d.2.1.3 36700 2occF 98 4.50e+01 2occF g.41.5.3 45256 1h6oA 204 4.53e+01 a.146.1.1 60689 1mc2A 122 4.56e+01 a.133.1.2 74622 168lA 164 4.64e+01 1l92 d.2.1.3 36975 112l 164 4.65e+01 1l92 d.2.1.3 36677 165l 164 4.66e+01 1l92 d.2.1.3 36680 2etxA 209 4.67e+01 1v54F 98 4.70e+01 g.41.5.3 100327 144l 164 4.74e+01 1l92 d.2.1.3 36893 108l 164 4.74e+01 1l92 d.2.1.3 36669 114l 164 4.81e+01 1l92 d.2.1.3 36663 1gotG 73 4.85e+01 1tbgE a.137.3.1 19629 110l 164 4.86e+01 1l92 d.2.1.3 36684 2fpqA 444 4.89e+01 129l 164 4.95e+01 1l92 d.2.1.3 36660 1h8lA 380 4.97e+01 b.3.2.1,c.56.5.1 65737,65738 1ymtA 246 4.98e+01 1f83A 425 4.99e+01 1f82A d.92.1.7 40306 102l 165 5.02e+01 1l92 d.2.1.3 36724 1a7m 180 5.03e+01 1lki a.26.1.1 16830 107l 164 5.03e+01 1l92 d.2.1.3 36690 160l 164 5.08e+01 1l92 d.2.1.3 36748 169lA 164 5.11e+01 1l92 d.2.1.3 36963 1sedA 117 5.11e+01 a.219.1.1 105449 4tmkA 213 5.12e+01 5tmpA c.37.1.1 31930 1akn 579 5.14e+01 2bce c.69.1.1 34626 1l58 164 5.17e+01 1l92 d.2.1.3 36635 137lA 164 5.33e+01 1l92 d.2.1.3 36791 1foeA 377 5.34e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 5tmpA 213 5.37e+01 5tmpA c.37.1.1 31931 2mysB 166 5.40e+01 1wdcB a.39.1.5 17308 139l 164 5.45e+01 1l92 d.2.1.3 36643 1dx4A 586 5.46e+01 2bce c.69.1.1 34622 2cb5A 453 5.46e+01 3gcb d.3.1.1 37035 172l 164 5.48e+01 1l92 d.2.1.3 36905 1w4xA 542 5.55e+01 c.3.1.5,c.3.1.5 109171,109172 1dipB 78 5.56e+01 1dipB h.1.12.1 45633 1aqlA 532 5.57e+01 2bce c.69.1.1 34627 2a0jA 149 5.58e+01 1ihjA 98 5.58e+01 1pdr b.36.1.1 62382 1yviA 149 5.61e+01 123l 164 5.61e+01 1l92 d.2.1.3 36697 122l 164 5.63e+01 1l92 d.2.1.3 36667 1h21A 247 5.70e+01 a.138.1.3 76510 2gq1A 332 5.72e+01 1rkeA 262 5.77e+01 a.24.9.1,a.24.9.1 97608,97609 2ercA 244 5.78e+01 2ercA c.66.1.24 34224 4lbd 267 5.80e+01 2lbd a.123.1.1 19289 173l 164 5.85e+01 1l92 d.2.1.3 36728 1kd9A 36 6.01e+01 h.1.3.1 68466 1p8cA 145 6.01e+01 a.152.1.2 94354 104lA 166 6.02e+01 1l92 d.2.1.3 36969 1zmbA 290 6.03e+01 1gotB 340 6.04e+01 1tbgA b.69.4.1 27648 1vkeA 133 6.04e+01 a.152.1.2 108650 2bo4A 397 6.07e+01 1ggwA 140 6.09e+01 1ggwA a.39.1.5 60490 1tikA 213 6.10e+01 c.23.5.3 107003 2lbd 267 6.12e+01 2lbd a.123.1.1 19287 1pveA 72 6.14e+01 a.189.1.1 104322 1a8q 274 6.14e+01 1brt c.69.1.12 34702 2fcwA 109 6.15e+01 1swyA 164 6.17e+01 1sx7A 164 6.17e+01 1dipA 78 6.19e+01 1dipA h.1.12.1 45632 149l 164 6.20e+01 1l92 d.2.1.3 36959 151l 164 6.22e+01 1l92 d.2.1.3 36944 1yub 245 6.25e+01 2ercA c.66.1.24 34219 1sauA 115 6.28e+01 1dofA 403 6.31e+01 1c3cA a.127.1.1 19429 1cjtA 217 6.43e+01 1azsA d.58.29.1 39419 1hwyA 501 6.51e+01 1hwyA c.2.1.7,c.58.1.1 30262,33910 1quuA 250 6.53e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1wb0A 445 6.54e+01 1o4sA 389 6.56e+01 c.67.1.1 86620 1pal 108 6.57e+01 1a75A a.39.1.4 17209 2aaxA 275 6.57e+01 1zvzA 279 6.57e+01 1jmoA 480 6.58e+01 e.1.1.1 77138 2pvbA 107 6.59e+01 1a75A a.39.1.4 17205 1envA 123 6.61e+01 1envA h.3.2.1 45726 1edi 56 6.62e+01 1fc2C a.8.1.1 16349 1hkkA 364 6.64e+01 c.1.8.5,d.26.3.1 90634,90635 2au3A 407 6.71e+01 1egwA 77 6.73e+01 1mnmA d.88.1.1 40234 1azsA 220 6.76e+01 1azsA d.58.29.1 39416 1iv8A 720 6.76e+01 b.71.1.1,c.1.8.1 76842,76843 1ovnA 248 6.84e+01 a.71.1.1,c.47.1.7 93602,93603 1c7uA 85 6.86e+01 1mnmA d.88.1.1 40238 1llnA 262 6.89e+01 d.165.1.1 84625 1mli 96 7.06e+01 1mli d.58.4.1 39070 1o3uA 135 7.09e+01 a.24.16.3 86615 1e5pA 151 7.10e+01 1bj7 b.60.1.1 59272 1gakA 141 7.16e+01 1gakA a.19.1.1 16415 1qmuA 380 7.25e+01 1qmuA b.3.2.1,c.56.5.1 22534,33827 1a8s 273 7.29e+01 1brt c.69.1.12 34710 1exzA 141 7.38e+01 1exzA a.26.1.2 16877 1tw9A 206 7.62e+01 a.45.1.1,c.47.1.5 107381,107382 1lj2A 110 7.71e+01 h.1.13.2 73926 1txjA 171 7.74e+01 b.88.1.2 107424 1z5rA 306 7.76e+01 1pzlA 237 7.80e+01 a.123.1.1 104393 1ns5A 155 7.85e+01 c.116.1.3 80705 1tbgE 68 7.90e+01 1tbgE a.137.3.1 19630 1pvaA 110 7.95e+01 1a75A a.39.1.4 17207 1attB 411 7.98e+01 1ovaA e.1.1.1 42639 1cxqA 162 8.01e+01 1cxqA c.55.3.2 33621 1qkkA 155 8.06e+01 1dbwA c.23.1.1 31104 1pwxA 254 8.13e+01 c.2.1.2 95262 2mtaC 147 8.14e+01 2mtaC a.3.1.1 15908 1xmiA 291 8.17e+01 1zmtA 254 8.21e+01 2fbyA 205 8.28e+01 1dvh 79 8.30e+01 1c53 a.3.1.1 15802 1t01A 255 8.36e+01 a.24.9.1,a.24.9.1 106188,106189 1wzdA 215 8.39e+01 1td6A 306 8.43e+01 2bzsA 236 8.45e+01 1eqcA 394 8.45e+01 1cz1A c.1.8.3 28811 1sg0A 230 8.46e+01 1fcyA 236 8.47e+01 2lbd a.123.1.1 19282 1iw0A 215 8.50e+01 a.132.1.1 83720 1s4nA 348 8.51e+01 c.68.1.16 98501 1z72A 225 8.51e+01 1pulA 125 8.56e+01 1k28A 584 8.75e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1ui5A 215 8.76e+01 a.4.1.9,a.121.1.1 107856,107857 1lmhA 184 8.76e+01 d.167.1.1 74036 1v9nA 360 8.83e+01 1ddcA 247 8.88e+01 1ddcA 1otfA 62 8.90e+01 1otfA d.80.1.1 39820 1sflA 238 8.93e+01 1y0uA 96 8.97e+01