# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1dvoA 152 1.68e-14 1dvoA a.136.1.1 19623 2gyqA 175 9.22e-01 1x8bA 289 1.76e+00 1kk8B 139 2.09e+00 a.39.1.5 77430 1iz7A 295 2.10e+00 c.69.1.8 76982 1mj5A 302 2.27e+00 c.69.1.8 91285 1kqfC 217 2.34e+00 f.21.1.1 72874 1jksA 294 2.52e+00 d.144.1.7 71710 1a26 361 2.52e+00 1a26 a.41.1.1,d.166.1.2 17412,42274 1efyA 350 2.54e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 1cv2A 296 2.86e+00 1bn6A c.69.1.8 34680 1r6vA 671 3.25e+00 1k3rA 268 3.57e+00 b.40.4.10,c.116.1.2 72018,72019 1z1dA 103 3.60e+00 1baq 139 4.23e+00 1baq 1dpuA 99 4.45e+00 1dpuA a.4.5.16 16150 1gw5B 591 4.45e+00 a.118.1.10 70630 1scmB 145 5.09e+00 1wdcB a.39.1.5 17304 1ht9A 76 5.24e+00 4icb a.39.1.1 61252 1lshA 1056 5.29e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2frvB 536 5.70e+00 1h2rL e.18.1.1 43291 1mzbA 136 6.31e+00 a.4.5.42 91497 1wdcB 156 6.60e+00 1wdcB a.39.1.5 17302 1hqvA 191 8.23e+00 1hqvA a.39.1.8 61160 1o9gA 250 8.52e+00 c.66.1.29 86692 2be4A 272 9.13e+00 1d5nA 205 9.27e+00 1avmA a.2.11.1,d.44.1.1 15762,38687 1yf3A 259 9.69e+00 3icb 75 9.90e+00 4icb a.39.1.1 17147 1wyuB 474 1.03e+01 4icb 76 1.04e+01 4icb a.39.1.1 17145 1r2fA 319 1.05e+01 1r2fA a.25.1.2 16800 1qkrA 188 1.06e+01 1qkrA a.24.9.1 16628 2ga1A 106 1.06e+01 1twfF 155 1.07e+01 1jqjC 343 1.07e+01 a.80.1.1,c.37.1.20 67097,67098 1h2rL 534 1.08e+01 1h2rL e.18.1.1 43298 1uujA 88 1.24e+01 a.221.1.1 108046 1rh2F 165 1.25e+01 1rh2F a.26.1.3 16898 1ile 821 1.25e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1wuiL 534 1.29e+01 1h2aL 567 1.29e+01 1h2rL e.18.1.1 43299 1isaA 192 1.30e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1ubkL 534 1.31e+01 e.18.1.1 88422 1svfB 38 1.33e+01 1svfB h.3.2.1 45764 1i7qB 193 1.46e+01 1qdlB c.23.16.1 61902 1iscA 192 1.46e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2gsfA 373 1.46e+01 1ufbA 127 1.47e+01 a.24.16.3 99331 1u35C 120 1.48e+01 1v4xB 146 1.48e+01 a.1.1.2 108364 1nhyA 219 1.49e+01 a.45.1.1,c.47.1.5 80520,80521 1ge9A 184 1.49e+01 1dd5A d.67.3.1 60463 1i50F 155 1.51e+01 a.143.1.2 61760 1tdpA 111 1.53e+01 a.29.8.1 106781 2awpA 198 1.56e+01 1zq4A 693 1.57e+01 1tca 317 1.57e+01 1tca c.69.1.17 34726 1wosA 364 1.58e+01 b.44.2.1,d.250.1.1 109468,109469 1pmzA 86 1.60e+01 a.39.1.10 104195 2c8mA 262 1.60e+01 2bh7A 261 1.63e+01 1k9uA 78 1.75e+01 a.39.1.10 84348 1qklA 127 1.76e+01 1qklA a.143.1.2 39754 1mkaA 171 1.76e+01 1mkaA d.38.1.2 38543 1lk3A 160 1.81e+01 a.26.1.3 73950 1ujnA 348 1.83e+01 e.22.1.1 99460 2arsA 262 1.83e+01 2ci9A 102 1.87e+01 1kgnA 329 1.90e+01 a.25.1.2 68584 1q0sA 259 1.92e+01 c.66.1.28 95509 2nllB 103 1.96e+01 2nllB g.39.1.2 45115 2ae2A 260 1.97e+01 1bdb c.2.1.2 29945 1o4sA 389 1.97e+01 c.67.1.1 86620 1tueA 212 1.97e+01 c.37.1.20 107323 1jo0A 98 2.02e+01 d.68.4.1 77140 1uby 367 2.05e+01 1uby a.128.1.1 19435 1ux5A 411 2.05e+01 a.207.1.1 100144 2tmnE 316 2.06e+01 1hyt d.92.1.2 59055 1i0hA 205 2.12e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1ix9A 205 2.12e+01 a.2.11.1,d.44.1.1 76899,76900 2bo4A 397 2.12e+01 1b43A 340 2.14e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1ln4A 104 2.15e+01 d.68.4.1 74043 1hyt 316 2.20e+01 1hyt d.92.1.2 59005 8tlnE 316 2.20e+01 1hyt d.92.1.2 59075 1hw1A 239 2.21e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1e3mA 800 2.21e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1itf 165 2.24e+01 1b5l a.26.1.3 16899 1howA 373 2.24e+01 1hcl d.144.1.7 41679 1ea7A 310 2.27e+01 c.41.1.1 70086 1z7dA 433 2.28e+01 1ps1A 337 2.37e+01 1ps1A a.128.1.4 19450 2a6sA 84 2.39e+01 6tmnE 316 2.42e+01 1hyt d.92.1.2 59071 1fps 348 2.43e+01 1uby a.128.1.1 19436 1vl6A 388 2.55e+01 c.2.1.7,c.58.1.3 108724,108725 1wb9A 800 2.57e+01 1ydiA 263 2.57e+01 1v7cA 351 2.65e+01 c.79.1.1 100446 1v6cA 441 2.67e+01 1y9zA 441 2.68e+01 1php 394 2.68e+01 16pk c.86.1.1 35452 1usyA 275 2.69e+01 1yyvA 131 2.72e+01 1wwiA 148 2.81e+01 1h4lD 147 2.83e+01 a.74.1.1 70873 12asA 330 2.93e+01 12asA d.104.1.1 40783 1ialA 453 2.99e+01 1bk5A a.118.1.1 19116 1ki1B 352 3.06e+01 a.87.1.1,b.55.1.1 72497,72498 1jpaA 312 3.07e+01 d.144.1.7 67011 1keiA 316 3.13e+01 d.92.1.2 77349 1v3wA 173 3.15e+01 b.81.1.5 100291 1ggzA 148 3.15e+01 a.39.1.5 70176 1z2iA 358 3.17e+01 2fswA 107 3.17e+01 1u2zA 433 3.20e+01 c.66.1.31 107626 1zvzA 279 3.21e+01 1jkiA 533 3.22e+01 c.2.1.3,d.81.1.3 71704,71705 1i1qB 192 3.29e+01 1qdlB c.23.16.1 61544 1jgcA 161 3.29e+01 a.25.1.1 66673 2fu4A 83 3.29e+01 2crbA 97 3.32e+01 1z2cB 383 3.38e+01 1yruB 74 3.38e+01 1d9cA 121 3.42e+01 1d9cA a.26.1.3 16901 1bcfA 158 3.47e+01 1bcfA a.25.1.1 16648 1vdxA 184 3.50e+01 1idsA 207 3.54e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1nm8A 616 3.54e+01 c.43.1.3,c.43.1.3 85872,85873 1gv3A 248 3.64e+01 a.2.11.1,d.44.1.1 70585,70586 1rkeA 262 3.64e+01 a.24.9.1,a.24.9.1 97608,97609 2es4D 332 3.65e+01 1t01A 255 3.67e+01 a.24.9.1,a.24.9.1 106188,106189 1ve3A 227 3.71e+01 1ybhA 590 3.75e+01 1lc5A 364 3.76e+01 c.67.1.1 73827 1tzzA 392 3.77e+01 1ijxA 127 3.78e+01 1ijxA a.141.1.1 62511 2ffsA 157 3.80e+01 1vgjA 184 4.00e+01 1zvdA 380 4.05e+01 1fyhA 258 4.18e+01 1d9cA a.26.1.3,a.26.1.3 16907,16908 1n2aA 201 4.22e+01 a.45.1.1,c.47.1.5 91553,91554 1a31A 538 4.23e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1r64A 481 4.23e+01 b.18.1.20,c.41.1.1 97140,97141 1ot5A 477 4.25e+01 b.18.1.20,c.41.1.1 87409,87410 1a0fA 201 4.25e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1xfxO 149 4.27e+01 1p4fA 293 4.34e+01 d.144.1.7 104063 1kwjA 68 4.46e+01 a.138.1.1 68877 2bnxA 386 4.50e+01 1hiwA 133 4.50e+01 1hiwA a.61.1.1 18122 1v4aA 440 4.52e+01 a.24.16.4,d.218.1.9 108350,108351 2comA 124 4.53e+01 1a35A 538 4.59e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1dszB 85 4.60e+01 2nllB g.39.1.2 45108 1ej9A 563 4.62e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 2f3yA 148 4.70e+01 1zwwA 256 4.75e+01 1usmA 80 4.78e+01 d.74.1.1 99876 1p1jA 533 4.79e+01 c.2.1.3,d.81.1.3 87687,87688 1rq6A 62 4.81e+01 1yumA 242 4.81e+01 1f1sA 814 4.85e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1y6nL 145 4.86e+01 2bdwA 362 4.91e+01 1hg2A 289 4.94e+01 1hg5A a.7.8.2,a.118.9.3 90358,90359 1ciy 590 4.99e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1a2q 275 5.02e+01 1gci c.41.1.1 32512 1sup 275 5.02e+01 1gci c.41.1.1 32510 1aqn 275 5.04e+01 1gci c.41.1.1 32514 1swxA 209 5.05e+01 a.224.1.1 106075 1t3wA 148 5.06e+01 2ajrA 331 5.07e+01 1vd2A 89 5.21e+01 d.15.2.2 108517 1dk5A 322 5.27e+01 1dk5A a.65.1.1 18192 2b7aA 293 5.27e+01 2ct8A 497 5.31e+01 2anuA 255 5.35e+01 1ldfA 281 5.37e+01 f.19.1.1 73845 1f1uA 323 5.37e+01 d.32.1.3,d.32.1.3 83200,83201 1zbmA 280 5.37e+01 1hf8A 289 5.39e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1jajA 174 5.39e+01 d.218.1.2 66471 1f1xA 322 5.56e+01 d.32.1.3,d.32.1.3 83208,83209 1q7lB 88 5.57e+01 1tkiA 321 5.64e+01 1tkiA d.144.1.7 41638 1zs4A 83 5.72e+01 1w27A 714 5.80e+01 2b25A 336 5.91e+01 1tfjA 219 5.93e+01 1e2xA 243 6.00e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 2bryA 497 6.14e+01 1eswA 500 6.17e+01 1cwyA c.1.8.1 59500 1l6nA 289 6.20e+01 a.61.1.1,a.73.1.1 73624,73625 1lkcA 364 6.21e+01 c.67.1.1 73978 2ff4A 388 6.22e+01 1ov9A 50 6.24e+01 a.155.1.1 93591 1wbeA 209 6.32e+01 1c9bA 207 6.32e+01 1tfb a.74.1.2,a.74.1.2 18372,18373 1kx9A 112 6.46e+01 a.118.21.1 77602 1yy5B 513 6.47e+01 1h0aA 158 6.47e+01 a.118.9.1 76434 1hbxG 157 6.49e+01 1awcA a.4.5.21 60934 2fnjC 96 6.51e+01 1cwyA 500 6.51e+01 1cwyA c.1.8.1 28789 1dliA 402 6.59e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1dx4A 586 6.65e+01 2bce c.69.1.1 34622 1wmiA 90 6.66e+01 1bg1A 722 6.69e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1i7gA 287 6.71e+01 a.123.1.1 71121 1x6iA 91 6.72e+01 1fftB 315 6.73e+01 1cyx b.6.1.2,f.17.2.1 23025,43628 1dljA 402 6.74e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1ak9 275 6.75e+01 1gci c.41.1.1 32517 1lw6E 281 6.79e+01 c.41.1.1 74293 1t9xA 1049 6.84e+01 1volA 204 6.87e+01 1tfb a.74.1.2,a.74.1.2 18370,18371 1k75A 434 6.87e+01 c.82.1.2 68253 1to2E 281 6.88e+01 1frvB 536 6.93e+01 1h2rL e.18.1.1 43296 2bvaA 292 7.07e+01 1h54A 754 7.08e+01 a.102.1.4,b.30.5.3 60634,60635 2g7sA 194 7.24e+01 1tm9A 137 7.39e+01 a.225.1.1 107150 2ciaA 102 7.41e+01 1jadA 251 7.52e+01 h.4.10.1 66461 1wmgA 103 7.53e+01 1kaeA 434 7.55e+01 c.82.1.2 72247 2c1vA 338 7.62e+01 1v6sA 390 7.70e+01 c.86.1.1 100424 1cojA 212 7.78e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1phnA 162 7.84e+01 1cpcA a.1.1.3 15641 1tz9A 367 7.89e+01 c.1.15.6 107466 1y0vH 146 7.94e+01 5pal 109 8.00e+01 1a75A a.39.1.4 17215 2xat 212 8.06e+01 2xat b.81.1.3 28058 1xpcA 248 8.08e+01 1k1aA 241 8.13e+01 d.211.1.1 67992 1lkvX 232 8.23e+01 a.118.14.1 73980 1am7A 158 8.30e+01 1am7A d.2.1.4 36981 1bc8C 93 8.41e+01 1awcA a.4.5.21 16168 1ijyA 130 8.45e+01 1ijxA a.141.1.1 62517 1fgkA 310 8.49e+01 1fgkA d.144.1.7 41693 1zgyA 272 8.49e+01 1qwoA 442 8.51e+01 c.60.1.2 104620 1qc7A 101 8.52e+01 1qc7A a.118.14.1 18456 3mdeA 385 8.52e+01 3mdeA a.29.3.1,e.6.1.1 16594,42855 3mddA 385 8.63e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 1omiA 248 8.65e+01 b.82.3.3,a.4.5.4 87079,87080 1fewA 184 8.66e+01 1fewA a.7.4.1 16334 1rm6C 161 8.72e+01 1qddA 144 8.75e+01 1qddA d.169.1.1 42324 1dkgA 197 8.86e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1ig5A 75 8.89e+01 4icb a.39.1.1 62363 1is1A 185 8.98e+01 d.67.3.1 83704