# List of top-scoring protein chains for t04-100-30-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 1zbmA 280 1.09e-01 1z6nA 167 3.71e-01 2d1eA 248 4.86e-01 2f6hX 419 4.98e-01 2f9fA 177 6.15e-01 1utg 70 8.04e-01 1utg a.101.1.1 18813 2utgA 70 1.08e+00 1utg a.101.1.1 18814 1wpbA 172 1.17e+00 1w9gA 104 1.18e+00 1wz7A 111 1.20e+00 1qjtA 99 1.30e+00 1eh2 a.39.1.6 17335 1ad3A 452 1.39e+00 1ad3A c.82.1.1 35335 2cyeA 133 1.71e+00 1xklA 273 1.73e+00 1c3pA 375 1.86e+00 1c3pA c.42.1.2 32606 1g97A 459 1.95e+00 1fwyA b.81.1.4,c.68.1.5 60394,60395 2ew2A 316 2.01e+00 1whtA 256 2.12e+00 1ivyA c.69.1.5 34646 1uekA 275 2.36e+00 d.14.1.5,d.58.26.5 88483,88484 1zcbA 362 2.73e+00 2tct 207 2.92e+00 2tct a.4.1.9,a.121.1.1 16063,19240 1p5zB 263 3.03e+00 c.37.1.1 87815 1ci9A 392 3.07e+00 e.3.1.1 64767 1tag 324 3.15e+00 1cipA a.66.1.1,c.37.1.8 18197,32080 1tadA 324 3.28e+00 1cipA a.66.1.1,c.37.1.8 18194,32077 1jw2A 72 3.41e+00 a.23.5.1 67372 1q3eA 207 3.59e+00 b.82.3.2 95669 1h2eA 207 3.61e+00 c.60.1.1 70857 1zwxA 301 3.62e+00 2fi9A 128 3.63e+00 1pmzA 86 3.86e+00 a.39.1.10 104195 1ay7B 89 3.90e+00 1ay7B c.9.1.1 30836 1jl3A 139 3.95e+00 c.44.1.1 66826 1w24A 182 4.04e+00 1ka8A 100 4.34e+00 a.4.5.20 72241 2c07A 285 4.53e+00 1dp4A 435 4.65e+00 1dp4A c.93.1.1 35710 1je0A 236 4.74e+00 c.56.2.1 66581 1rvgA 305 4.94e+00 c.1.10.2 97920 1bjx 110 5.31e+00 1bjx c.47.1.2 32774 1hm9A 468 5.73e+00 b.81.1.4,c.68.1.5 65866,65867 1u7eB 154 5.97e+00 1yovA 537 6.10e+00 1keaA 221 6.67e+00 a.96.1.2 68491 1k6xA 352 6.84e+00 c.2.1.2 68238 1z1dA 103 6.85e+00 1uu1A 335 6.91e+00 c.67.1.1 99993 1jf8A 131 7.32e+00 c.44.1.1 66621 1xgkA 352 7.83e+00 1f00I 282 7.97e+00 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1whsA 255 8.23e+00 1ivyA c.69.1.5 34649 1ex1A 605 8.40e+00 1ex1A c.1.8.7,c.23.11.1 29013,31347 1r45A 204 8.47e+00 1e6cA 173 8.59e+00 1shkA c.37.1.2 59296 2fz0A 149 8.69e+00 1y37A 304 8.86e+00 1z2aA 168 9.01e+00 1el5A 389 9.23e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1a6i 217 9.35e+00 2tct a.4.1.9,a.121.1.1 16066,19243 1f0iA 504 9.52e+00 1f0iA d.136.1.2,d.136.1.2 59566,59567 1kg0C 136 9.53e+00 d.169.1.1 72445 1ycdA 243 9.87e+00 2be3A 226 1.00e+01 1zwwA 256 1.01e+01 1atzA 189 1.03e+01 1atzA c.62.1.1 34132 1s1hM 132 1.05e+01 i.1.1.1 105165 1dpuA 99 1.08e+01 1dpuA a.4.5.16 16150 1su4A 994 1.09e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1xvjA 109 1.09e+01 1y1xA 191 1.18e+01 1cc5 83 1.23e+01 1cc5 a.3.1.1 15901 1alvA 173 1.25e+01 1alvA a.39.1.8 17370 1q5nA 454 1.26e+01 a.127.1.1 95901 1hqz1 141 1.29e+01 1np8A 159 1.32e+01 a.39.1.8 92022 1x38A 602 1.35e+01 1pzqA 60 1.35e+01 a.34.3.1 95466 2es9A 115 1.35e+01 1u7gA 385 1.38e+01 f.44.1.1 107723 1k9uA 78 1.40e+01 a.39.1.10 84348 1ou0A 207 1.41e+01 c.23.17.1 93536 1pp7U 131 1.46e+01 a.4.5.44 94973 2aghC 31 1.47e+01 1v9jA 113 1.51e+01 d.52.6.1 100542 1n6aA 259 1.51e+01 b.76.2.1,b.85.7.1 80121,80122 2fvtA 135 1.52e+01 1rwyA 109 1.53e+01 a.39.1.4 98002 1jtdB 273 1.53e+01 b.69.5.2 67265 1v5xA 203 1.56e+01 c.1.2.4 100377 1qmgA 524 1.57e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1tq4A 413 1.61e+01 c.37.1.8 107201 1fhoA 119 1.63e+01 1fhoA b.55.1.1 26982 1o0xA 262 1.65e+01 d.127.1.1 80755 1vk4A 298 1.71e+01 c.72.1.1 100850 1e5pA 151 1.74e+01 1bj7 b.60.1.1 59272 1e8yA 966 1.76e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1mpgA 282 1.78e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 2aaoA 166 1.81e+01 1wpgA 994 1.86e+01 1eulA 994 1.89e+01 1eulA 1abv 134 1.91e+01 1abv a.70.1.1 18317 1qo7A 394 1.93e+01 1qo7A c.69.1.11 34697 1a8q 274 1.93e+01 1brt c.69.1.12 34702 1fknA 391 1.95e+01 1fknA b.50.1.2 26879 1f5vA 240 1.96e+01 1bkjA d.90.1.1 40255 1x8dA 104 1.97e+01 1xo7A 166 1.98e+01 1mxiA 160 2.00e+01 c.116.1.1 79646 1svy 114 2.00e+01 1svy d.109.1.1 40831 1bouB 302 2.05e+01 1bouB c.56.6.1 33859 1pjr 724 2.07e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 7aatA 401 2.08e+01 1ajsA c.67.1.1 34250 1x3lA 440 2.14e+01 1br1B 150 2.26e+01 1wdcC a.39.1.5 17309 1zm8A 259 2.28e+01 1nz6A 101 2.29e+01 a.2.3.1 86441 1eyhA 144 2.29e+01 1eduA a.118.9.1 19214 1zoqC 47 2.37e+01 2tmdA 729 2.38e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2gs8A 317 2.42e+01 1e7uA 961 2.44e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1djqA 729 2.45e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1ucpA 91 2.46e+01 a.77.1.5 99186 1djnA 729 2.47e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1efvA 315 2.48e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 1kamA 194 2.50e+01 c.26.1.3 72254 4cpv 109 2.56e+01 1a75A a.39.1.4 17198 1zr5A 214 2.57e+01 1n6jG 35 2.60e+01 1z2wA 192 2.61e+01 1aq0A 306 2.62e+01 1aq0A c.1.8.3 28842 2bwkA 121 2.66e+01 1ei5A 520 2.67e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1sl8A 191 2.67e+01 2anuA 255 2.68e+01 1ir3A 306 2.71e+01 1fmk d.144.1.7 41702 5pal 109 2.72e+01 1a75A a.39.1.4 17215 1aj8A 371 2.78e+01 1aj8A a.103.1.1 18900 1lxnA 99 2.78e+01 d.58.48.1 84737 1q0uA 219 2.78e+01 c.37.1.19 95512 1whzA 70 2.79e+01 1wlmA 151 2.85e+01 1ogqA 313 2.87e+01 c.10.2.8 86996 2c31A 568 2.90e+01 2gar 212 2.93e+01 2gar c.65.1.1 34161 1h3oB 76 2.95e+01 a.22.1.3 76645 1rro 108 2.96e+01 1a75A a.39.1.4 17195 1sgzA 389 2.99e+01 b.50.1.2 98872 1lc5A 364 3.03e+01 c.67.1.1 73827 1xhlA 297 3.04e+01 c.2.1.2 109591 2f6kA 307 3.05e+01 2aaa 484 3.14e+01 7taa b.71.1.1,c.1.8.1 27777,28764 2rmcA 182 3.14e+01 2cpl b.62.1.1 27491 1v37A 177 3.14e+01 1iupA 282 3.18e+01 c.69.1.10 76815 1c3yA 108 3.19e+01 1c3yA a.39.2.1 17387 2eboA 74 3.20e+01 2eboA h.3.2.1 45754 1wmmA 145 3.24e+01 1uk8A 282 3.27e+01 c.69.1.10 107907 1n1bA 549 3.46e+01 a.102.4.1,a.128.1.3 79799,79800 1jkxA 212 3.50e+01 c.65.1.1 66813 1wy3A 35 3.59e+01 1garA 212 3.61e+01 2gar c.65.1.1 34162 1p9qC 256 3.62e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1h8bA 75 3.73e+01 a.39.1.7 60736 1c4rA 182 3.73e+01 1c4rA b.29.1.4 24229 1s62A 106 3.74e+01 1bxyA 60 3.76e+01 1bxyA d.59.1.1 39525 1vkmA 297 3.77e+01 c.138.1.1 108670 2g84A 197 3.78e+01 1ku0A 388 3.79e+01 c.69.1.18 72994 1dfoA 417 3.80e+01 1bj4A c.67.1.4 34480 1qu9A 128 3.83e+01 1qu9A d.79.1.1 39755 1qnaA 200 3.88e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1z3eA 132 3.91e+01 1mjnA 179 3.99e+01 c.62.1.1 79210 1o2dA 371 4.09e+01 e.22.1.2 86591 1kcxA 518 4.11e+01 b.92.1.3,c.1.9.6 90953,90954 2az4A 429 4.13e+01 1oaiA 59 4.17e+01 a.5.2.3 81255 1m7bA 184 4.18e+01 c.37.1.8 74572 1pvaA 110 4.18e+01 1a75A a.39.1.4 17207 1vp8A 201 4.24e+01 2a5sA 284 4.27e+01 1v63A 101 4.39e+01 a.21.1.1 108391 1kpgA 287 4.41e+01 c.66.1.18 68735 1xahA 354 4.44e+01 1knqA 175 4.49e+01 c.37.1.17 72786 1yd9A 193 4.49e+01 1f1mA 164 4.50e+01 1ggqA a.24.12.1 59598 1irqA 71 4.52e+01 a.43.1.4 66297 1ywnA 316 4.64e+01 1mbyA 88 4.66e+01 d.223.1.1 78931 1f3mA 80 4.66e+01 1f3mA j.66.1.1 46358 1g6oA 330 4.67e+01 1g6oA c.37.1.11 32430 1u53A 196 4.67e+01 2bleA 367 4.67e+01 1y71A 130 4.68e+01 1cmbA 104 4.70e+01 1cmbA a.43.1.5 17460 1z54A 132 4.76e+01 1yobA 179 4.83e+01 2aobA 99 4.83e+01 1ep3B 262 4.84e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1z4eA 153 4.89e+01 1aru 344 4.90e+01 1arv a.93.1.1 18589 1zfpE 98 4.95e+01 1griA d.93.1.1 40465 1jvr 137 4.98e+01 1jvr a.61.1.2 18132 1lucA 355 4.98e+01 1lucA c.1.16.1 29547 1cmcA 104 4.98e+01 1cmbA a.43.1.5 17462 1f20A 435 5.00e+01 b.43.4.1,c.25.1.4 64932,64933 1jfiA 98 5.00e+01 1jfiA a.22.1.3 62936 1l7vA 326 5.03e+01 f.22.1.1 73672 1f1eA 154 5.04e+01 a.22.1.2 64927 1i6iA 366 5.04e+01 1bg2 c.37.1.9 61844 1f4pA 147 5.05e+01 5nul c.23.5.1 59651 1cipA 353 5.05e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1ukuA 102 5.11e+01 d.58.5.2 99533 2c1vA 338 5.15e+01 1srrA 124 5.17e+01 1dz3A c.23.1.1 31110 1jg1A 235 5.19e+01 c.66.1.7 66661 1rfzA 168 5.19e+01 a.195.1.1 97411 2as9A 210 5.27e+01 1t46A 313 5.29e+01 d.144.1.7 106397 1q32A 544 5.30e+01 d.136.1.3,d.136.1.3 104507,104508 2blrA 206 5.32e+01 1kwnA 207 5.34e+01 b.25.1.1 77568 1o94A 729 5.34e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1jyrA 96 5.34e+01 d.93.1.1 71969 1rqwA 207 5.37e+01 b.25.1.1 97781 1hkhA 279 5.44e+01 c.69.1.12 90628 1pwaA 162 5.44e+01 b.42.1.1 95211 1m7yA 435 5.53e+01 c.67.1.4 78761 2b3yA 888 5.58e+01 1b8gA 429 5.60e+01 1b8gA c.67.1.4 34499 1ah7 245 5.61e+01 1ah7 a.124.1.1 19339 1g7oA 215 5.63e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1reqB 637 5.65e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1jj2I 145 5.66e+01 1ffkG c.21.1.1 63094 1rp0A 284 5.70e+01 2ffjA 300 5.73e+01 2b5iD 217 5.76e+01 1i36A 264 5.78e+01 a.100.1.8,c.2.1.6 71108,71109 1ont 22 5.80e+01 j.31.1.2 46232 1smxA 96 5.82e+01 b.40.4.5 105772 1hl9A 449 5.85e+01 b.71.1.3,c.1.8.11 90650,90651 1z9iA 53 5.86e+01 1wybA 392 5.95e+01 1zi8A 236 5.98e+01 1j6pA 418 6.02e+01 b.92.1.4,c.1.9.9 77089,77090 1wycA 392 6.08e+01 1z92B 219 6.09e+01 1h1nA 305 6.09e+01 c.1.8.3 70855 1ru8A 232 6.13e+01 c.26.2.1 97849 1cpcA 162 6.14e+01 1cpcA a.1.1.3 15643 1tw4A 125 6.14e+01 2cxnA 557 6.17e+01 1ynuA 473 6.20e+01 1bgvA 449 6.21e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1usrA 454 6.25e+01 b.68.1.1 99881 1j1iA 296 6.28e+01 c.69.1.10 83977 1tp9A 162 6.30e+01 1hrdA 449 6.32e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1yriA 35 6.32e+01 1zpvA 91 6.36e+01 1svsA 353 6.39e+01 c.37.1.8 106051 2bs3C 256 6.43e+01 1wveC 80 6.51e+01 1pylA 97 6.52e+01 d.1.1.2 104391 1ydwA 362 6.53e+01 1tns 76 6.59e+01 1qpmA a.6.1.7 16228 1ji6A 589 6.61e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1lfpA 249 6.65e+01 e.39.1.1 73885 1bvyF 191 6.66e+01 1bvyF c.23.5.1 31207 1ag9A 175 6.67e+01 1rcf c.23.5.1 31178 1qlaC 256 6.69e+01 1qlaC f.21.2.1 43722 1vgwA 231 6.72e+01 c.68.1.13 100612 1vqzA 341 6.75e+01 1u09A 476 6.81e+01 e.8.1.4 107545 1lyxA 248 6.85e+01 c.1.1.1 78304 1chmA 401 6.89e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1g3mA 294 6.91e+01 c.37.1.5 83268 1i6pA 220 6.92e+01 1ddzA c.53.2.1 61848 1xu2R 47 6.93e+01 1din 236 6.96e+01 1din c.69.1.9 34682 1gdvA 85 6.98e+01 1ctj a.3.1.1 60458 1u0fA 564 7.03e+01 1p6pA 125 7.03e+01 b.60.1.2 87839 1qxoA 388 7.06e+01 d.258.1.1 96539 1uayA 242 7.08e+01 c.2.1.2 88390 1i1iP 681 7.09e+01 1i1iP d.92.1.5 40297 1jvwA 167 7.13e+01 d.26.1.1 71907 2cxxA 190 7.13e+01 2ftbA 125 7.26e+01 1mq4A 272 7.30e+01 d.144.1.7 91391 2cygA 312 7.37e+01 1xbbA 291 7.48e+01 1ad2 228 7.53e+01 1ad2 e.24.1.1 43353 1rgeA 96 7.53e+01 1rgeA d.1.1.2 36028 1xgwA 176 7.56e+01 1m6dA 214 7.61e+01 d.3.1.1 84849 1diiC 80 7.61e+01 1diiC a.3.1.1 15925 1e4yA 214 7.65e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1m8jA 181 7.65e+01 c.26.1.3 84875 1zvyA 136 7.68e+01 1w36C 1122 7.73e+01 2b0aA 186 7.74e+01 1j0aA 325 7.77e+01 c.79.1.1 83871 1t9hA 307 7.86e+01 1ki1B 352 7.97e+01 a.87.1.1,b.55.1.1 72497,72498 1vfvA 366 8.07e+01 c.37.1.9 108592 1fxjA 331 8.12e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1cvl 319 8.22e+01 1cvl c.69.1.18 34786 1z7mA 344 8.24e+01 1sjdA 368 8.29e+01 c.1.11.2,d.54.1.1 105632,105633 2bj7A 138 8.29e+01 1bg6 359 8.32e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1d3vA 323 8.35e+01 1d3vA c.42.1.1 32559 1m45A 148 8.38e+01 a.39.1.5 78598 1lniA 96 8.40e+01 d.1.1.2 74046 1hq3A 129 8.40e+01 1aoiC a.22.1.1 16434 1thv 207 8.43e+01 1thv b.25.1.1 23904 1zhpA 238 8.43e+01 1zhrA 238 8.45e+01 1wdcC 156 8.50e+01 1wdcC a.39.1.5 17317 1zhmA 238 8.52e+01 1ql0A 241 8.54e+01 1qaeA d.4.1.2 37139 1kcfA 258 8.55e+01 a.140.2.1,c.55.3.7 68434,68435 1o6zA 303 8.58e+01 c.2.1.5,d.162.1.1 81107,81108 1brt 277 8.72e+01 1brt c.69.1.12 34699 1lycA 343 8.83e+01 a.93.1.1 74344 2g8lA 299 8.85e+01 2aotA 292 8.85e+01 1jqeA 292 8.92e+01 c.66.1.19 71789 2d8sA 80 8.97e+01