# List of top-scoring protein chains for t06-100-30-str2-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 1hlvA 131 2.11e-01 a.4.1.7,a.4.1.7 65854,65855 1s69A 124 6.46e-01 a.1.1.1 105305 1sedA 117 6.89e-01 a.219.1.1 105449 1ywfA 296 1.05e+00 1w2yA 229 1.07e+00 a.204.1.1 109140 1whzA 70 1.10e+00 1pyaB 228 1.16e+00 1pyaB 1b8zA 90 1.27e+00 1huuA a.55.1.1 17902 1a41 234 1.31e+00 1a41 d.163.1.2 42174 1zljA 78 1.57e+00 1ugjA 141 1.87e+00 b.41.1.3 107826 1u20A 212 2.04e+00 1ekeA 230 2.56e+00 1ekeA c.55.3.1 33572 2cfxA 144 2.61e+00 1zbsA 291 2.70e+00 1rkbA 173 2.85e+00 2cg4A 152 3.04e+00 1z77A 200 3.29e+00 1s9jA 341 3.67e+00 1wkaA 147 3.99e+00 1g5cA 170 4.03e+00 1g5cA c.53.2.1 60264 1t2dA 322 4.05e+00 c.2.1.5,d.162.1.1 99084,99085 2bjbA 462 4.17e+00 1aua 296 4.26e+00 1aua a.5.3.1,c.13.1.1 16290,30882 1l9vA 317 4.31e+00 d.13.2.1,d.216.1.1 73760,73761 1t3qA 168 4.49e+00 a.56.1.1,d.15.4.2 106367,106368 1u9lA 70 4.80e+00 a.60.4.2 107751 1l6xB 34 5.34e+00 k.13.1.1 73644 1jnrA 643 5.60e+00 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1knvA 293 5.64e+00 c.52.1.7 68707 1kdgA 546 5.66e+00 c.3.1.2,d.16.1.1 77337,77338 2fjbA 643 5.67e+00 1p7tA 731 5.99e+00 c.1.13.1 94319 1my6A 199 6.62e+00 a.2.11.1,d.44.1.1 85232,85233 1ta3B 303 6.83e+00 c.1.8.3 106732 2ccmA 191 7.03e+00 1pb6A 212 7.11e+00 a.4.1.9,a.121.1.1 88017,88018 2cfaA 217 7.17e+00 2c30A 321 7.52e+00 2a97A 439 7.59e+00 1rlzA 369 8.64e+00 c.31.1.1 104989 1sd4A 126 9.04e+00 a.4.5.39 105428 1iv3A 152 9.13e+00 d.79.5.1 76828 1ka2A 499 9.33e+00 d.92.1.5 77305 1x42A 232 9.34e+00 2fx0A 201 9.48e+00 2au5A 139 9.68e+00 1l7vA 326 9.94e+00 f.22.1.1 73672 1fvkA 189 9.96e+00 1fvkA c.47.1.13 90351 1keaA 221 1.04e+01 a.96.1.2 68491 1ok7A 366 1.05e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1j55A 95 1.16e+01 a.39.1.2 77078 1l8nA 679 1.18e+01 c.1.8.10,d.92.2.2 84564,84565 1zv1A 65 1.18e+01 2bsjA 133 1.23e+01 1fc3A 120 1.23e+01 1fc3A a.4.6.3 16237 1mdc 133 1.24e+01 1hmt b.60.1.2 27198 2fnuA 375 1.27e+01 1kutA 230 1.29e+01 d.143.1.1 73017 1v7nV 163 1.29e+01 a.26.1.2 100476 5pal 109 1.30e+01 1a75A a.39.1.4 17215 1neeA 138 1.30e+01 d.241.1.1,g.59.1.1 91841,91842 1pufA 77 1.35e+01 a.4.1.1 95131 1li5A 461 1.36e+01 a.27.1.1,c.26.1.1 73912,73913 2gaiA 633 1.37e+01 1to2E 281 1.40e+01 1tca 317 1.42e+01 1tca c.69.1.17 34726 1je8A 82 1.48e+01 a.4.6.2 77108 1d5yA 292 1.53e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1uz5A 402 1.53e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1x3lA 440 1.57e+01 2gfnA 209 1.57e+01 1o4sA 389 1.66e+01 c.67.1.1 86620 1ffyA 917 1.67e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1ka1A 357 1.70e+01 e.7.1.1 68369 1t1jA 125 1.70e+01 c.137.1.1 106249 3tmkA 216 1.74e+01 3tmkA c.37.1.1 31920 1pmzA 86 1.78e+01 a.39.1.10 104195 1io2A 213 1.84e+01 1ekeA c.55.3.1 62612 2ahyA 110 1.88e+01 2c5rA 67 1.89e+01 1s5jA 847 1.90e+01 1lw1A 177 1.90e+01 a.152.1.1 74290 1gu9A 177 2.06e+01 a.152.1.1 65540 1nrvA 105 2.08e+01 d.93.1.1 86126 1wovA 250 2.11e+01 1cs1A 386 2.16e+01 1ibjA c.67.1.3 34399 1z2iA 358 2.18e+01 1yxmA 303 2.31e+01 5eau 548 2.33e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1tv8A 340 2.34e+01 c.1.28.3 107352 1hruA 188 2.36e+01 1hruA d.115.1.1 40926 1fjlA 81 2.37e+01 2hddA a.4.1.1 16017 1hm6A 346 2.38e+01 1avc a.65.1.1 18147 1rx0A 393 2.38e+01 a.29.3.1,e.6.1.1 98007,98008 1o65A 246 2.45e+01 b.58.1.2 92544 1z8uA 102 2.46e+01 1v3yA 192 2.52e+01 2vhbA 146 2.52e+01 2vhbA a.1.1.2 15629 1k8uA 90 2.54e+01 a.39.1.2 72181 1ci4A 89 2.59e+01 1qckA a.60.5.1 17970 1m3kA 392 2.62e+01 c.95.1.1,c.95.1.1 78565,78566 1wpnA 188 2.62e+01 1m7yA 435 2.67e+01 c.67.1.4 78761 1h3qA 140 2.67e+01 d.110.4.3 76652 1wzdA 215 2.73e+01 1s6cA 183 2.76e+01 a.39.1.5 98594 1q0pA 223 2.77e+01 c.62.1.1 95507 1f1eA 154 2.88e+01 a.22.1.2 64927 1i88A 389 2.90e+01 c.95.1.2,c.95.1.2 66070,66071 1nn5A 215 2.98e+01 c.37.1.1 85892 1xmxA 385 2.99e+01 1m6eX 359 3.01e+01 c.66.1.35 91188 2aeuA 374 3.08e+01 1wy9A 147 3.10e+01 1oaoA 674 3.20e+01 e.26.1.2 86744 1pufB 73 3.20e+01 a.4.1.1 95132 1qc7A 101 3.24e+01 1qc7A a.118.14.1 18456 1bed 181 3.33e+01 1fvkA c.47.1.13 90330 1yozA 116 3.35e+01 1alu 186 3.42e+01 1alu a.26.1.1 16826 2fp4B 395 3.46e+01 1j1vA 94 3.47e+01 a.4.12.2 83981 1bg4 302 3.49e+01 1taxA c.1.8.3 28806 2cobA 70 3.51e+01 2gvkA 317 3.52e+01 1iugA 352 3.52e+01 c.67.1.3 90699 1sfxA 109 3.53e+01 a.4.5.50 105505 1m4tA 392 3.53e+01 c.95.1.1,c.95.1.1 78617,78618 1y88A 199 3.54e+01 1cojA 212 3.60e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2g7gA 213 3.65e+01 2fexA 188 3.66e+01 2gh1A 301 3.67e+01 1res 43 3.69e+01 1ret a.4.1.2 16023 1zuhA 168 3.77e+01 1aisB 200 3.80e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1vj7A 393 3.81e+01 a.211.1.1,d.218.1.8 100801,100802 1vqzA 341 3.93e+01 1ve4A 206 3.95e+01 1mba 147 4.05e+01 2fal a.1.1.2 15149 1qz9A 416 4.05e+01 c.67.1.3 96621 2cchB 260 4.08e+01 1v32A 101 4.13e+01 a.42.1.1 100277 1ow1A 195 4.16e+01 b.131.1.3 93625 2a6cA 83 4.18e+01 1h4vB 421 4.23e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1c52 131 4.27e+01 1c52 a.3.1.1 15810 2f4mB 61 4.29e+01 1qh5A 260 4.31e+01 1qh5A d.157.1.2 42057 1u7kA 131 4.39e+01 1s28A 132 4.41e+01 d.198.1.1 105223 1m1nA 491 4.43e+01 c.92.2.3 78417 1w0dA 337 4.44e+01 2g8lA 299 4.49e+01 1khyA 148 4.53e+01 a.174.1.1 77410 1yh2A 175 4.57e+01 1o8rA 94 4.57e+01 d.234.1.1 86677 1j6wA 175 4.61e+01 1j98A d.185.1.2 62663 1tg7A 971 4.61e+01 1eexB 224 4.74e+01 1dioB c.51.3.1 33213 2acmB 55 4.77e+01 1sh0A 510 4.83e+01 e.8.1.4 98876 1x58A 62 4.83e+01 1v96A 149 4.98e+01 1zy4A 303 4.99e+01 1vjxA 157 5.02e+01 a.25.1.1 100837 1vljA 407 5.06e+01 e.22.1.2 108832 1zwyA 185 5.07e+01 3thiA 371 5.07e+01 2thiA c.94.1.1 35792 1nnwA 252 5.11e+01 d.159.1.5 80674 2hddA 61 5.13e+01 2hddA a.4.1.1 15971 1wh5A 80 5.13e+01 1j54A 186 5.14e+01 c.55.3.5 77077 1id0A 152 5.14e+01 d.122.1.3 66111 2guhA 214 5.14e+01 1j5wA 298 5.21e+01 d.104.1.1 71589 1zmoA 244 5.24e+01 1vdlA 80 5.25e+01 a.5.2.1 108528 1o08A 221 5.26e+01 c.108.1.6 86525 2dbbA 151 5.28e+01 2c7nA 74 5.33e+01 2cr5A 109 5.36e+01 1lmzA 187 5.42e+01 a.96.1.4 74037 1sur 215 5.43e+01 1sur c.26.2.2 31620 1tdzA 272 5.46e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 2ga1A 106 5.53e+01 1u0jA 267 5.55e+01 c.37.1.20 107546 3grs 478 5.59e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1dciA 275 5.66e+01 1dciA c.14.1.3 30918 1tgrA 52 5.66e+01 1mdoA 393 5.67e+01 c.67.1.4 79013 1ui5A 215 5.69e+01 a.4.1.9,a.121.1.1 107856,107857 2a11A 242 5.76e+01 1po5A 476 5.80e+01 a.104.1.1 94963 1no4A 97 5.80e+01 h.1.24.1 85918 1rybA 212 5.81e+01 c.56.3.1 98098 1u14A 172 5.88e+01 c.51.4.3 107579 2f5uA 447 5.89e+01 1ngnA 155 5.89e+01 a.96.1.2 85697 2d1sA 548 5.90e+01 1dm5A 315 5.92e+01 1avc a.65.1.1 18186 2c4nA 250 5.93e+01 1qusA 322 5.94e+01 1ltm d.2.1.6 36991 1fpoA 171 5.97e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2cmxA 118 6.00e+01 1eexA 554 6.01e+01 1dioA c.1.19.3 29650 1vliA 385 6.05e+01 b.85.1.1,c.1.10.6 108830,108831 2fa8A 105 6.11e+01 1pq1A 196 6.15e+01 f.1.4.1 94986 1xk7A 408 6.21e+01 1vrmA 325 6.23e+01 1bqbA 301 6.28e+01 1hyt d.92.1.2 58962 1lm5A 214 6.29e+01 d.211.2.1 74029 1p0yA 444 6.29e+01 a.166.1.1,b.85.7.3 87654,87655 1twfB 1224 6.30e+01 2a72A 146 6.31e+01 2g7uA 257 6.32e+01 1dlwA 116 6.34e+01 1dlyA a.1.1.1 14982 1t6fA 37 6.43e+01 h.1.28.1 106565 1ayl 541 6.45e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1l5pA 93 6.45e+01 d.15.4.1 73598 1zbqA 327 6.45e+01 2ezk 99 6.47e+01 2ezk a.4.1.2 16027 1r0rE 274 6.50e+01 c.41.1.1 96735 1pu1A 94 6.51e+01 d.266.1.1 104307 1n1fA 159 6.64e+01 a.26.1.3 79803 1jk7A 323 6.65e+01 1auiA d.159.1.3 63144 1lw7A 365 6.68e+01 c.26.1.3,c.37.1.1 74295,74296 1whvA 100 6.72e+01 2gtsA 86 6.78e+01 1t9bA 677 6.78e+01 1y43B 173 6.81e+01 1yhvA 297 6.83e+01 2if1 126 6.86e+01 2if1 d.64.1.1 39547 1p32A 209 6.90e+01 1p32A d.25.1.1 38379 1ct9A 553 6.91e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1jggA 60 6.91e+01 2hddA a.4.1.1 62950 1c7gA 456 6.93e+01 c.67.1.2 90415 2cu3A 64 6.94e+01 2af6A 258 6.97e+01 1xuuA 349 6.97e+01 1vi0A 206 6.97e+01 a.4.1.9,a.121.1.1 100720,100721 1qb2A 109 7.02e+01 1qb2A a.36.1.1 17125 2h21A 440 7.08e+01 1mn8A 100 7.11e+01 a.61.1.6 79318 1szhA 161 7.13e+01 a.226.1.1 106157 1nzjA 298 7.17e+01 c.26.1.1 92377 1t95A 240 7.18e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1cnzA 363 7.21e+01 1cnzA c.77.1.1 35061 1wkuA 254 7.25e+01 1d8bA 81 7.28e+01 1d8bA a.60.8.1 18094 1wu4A 396 7.30e+01 1k61A 60 7.31e+01 a.4.1.1 77270 1r1uA 106 7.33e+01 a.4.5.5 104771 1tkjA 284 7.35e+01 1yiiA 320 7.35e+01 2h3bA 494 7.38e+01 1oz9A 150 7.39e+01 d.92.1.15 93808 1r1tA 122 7.41e+01 a.4.5.5 104769 1qgiA 259 7.42e+01 1qgiA d.2.1.7 37001 1qd1A 325 7.44e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1m0kA 262 7.47e+01 f.13.1.1 78344 2f57A 317 7.50e+01 1pa2A 306 7.57e+01 1bgp a.93.1.1 18693 1vhyA 257 7.62e+01 b.122.1.2,c.116.1.5 100714,100715 1kewA 361 7.68e+01 c.2.1.2 68544 1j1iA 296 7.68e+01 c.69.1.10 83977 1tc3C 51 7.74e+01 1tc3C a.4.1.2 16025 1c1dA 355 7.96e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1v54J 59 7.97e+01 f.23.4.1 100331 1h6pA 203 7.97e+01 a.146.1.1 60690 1yemA 179 7.98e+01 1hqsA 423 8.07e+01 1iso c.77.1.1 61154 1szwA 379 8.10e+01 d.265.1.4 99047 1qq9A 284 8.17e+01 1xjo c.56.5.4 33841 1s7zA 117 8.18e+01 a.159.3.1 98715 2cosA 54 8.19e+01 1h16A 759 8.21e+01 c.7.1.1 76462 2b18A 164 8.22e+01 1y10A 407 8.23e+01 1gk9B 557 8.25e+01 1vkeA 133 8.29e+01 a.152.1.2 108650 1x0oA 119 8.31e+01 1yarH 217 8.32e+01 2h0uA 217 8.34e+01 1evyA 366 8.39e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1ri5A 298 8.46e+01 c.66.1.34 97502 1qjtA 99 8.47e+01 1eh2 a.39.1.6 17335 1wi6A 88 8.50e+01 1rktA 205 8.50e+01 a.4.1.9,a.121.1.1 97623,97624 1gcvB 136 8.50e+01 1cg5B a.1.1.2 15589 1p4kA 295 8.58e+01 d.153.1.5 87772 2oatA 439 8.60e+01 2dkb c.67.1.4 34452 1ukfA 188 8.61e+01 d.3.1.10 99488 1o6zA 303 8.62e+01 c.2.1.5,d.162.1.1 81107,81108 2bfwA 200 8.69e+01 1ur1A 378 8.75e+01 c.1.8.3 99804 1t7lA 766 8.75e+01 1cqxA 403 8.75e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1q8dA 108 8.83e+01 a.228.1.1 104554 1qz8A 113 8.88e+01 b.140.1.1 96619 1yqeA 282 8.90e+01 1tzvA 142 8.97e+01 a.79.1.1 107526 1v4sA 455 8.98e+01 c.55.1.3,c.55.1.3 100309,100310