# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1eguA 731 1.56e-01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1lxkA 721 2.69e-01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1n7oA 721 2.85e-01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1xfiA 367 4.78e-01 e.50.1.1 109584 1ep3A 311 5.71e-01 2dorA c.1.4.1 28597 1z41A 338 6.55e-01 1i60A 278 6.59e-01 c.1.15.4 71118 1tr1A 447 8.69e-01 1e70M c.1.8.4 28957 1eh9A 558 9.29e-01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1e4iA 447 9.56e-01 1e70M c.1.8.4 59225 1ehaA 558 9.68e-01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 1pz1A 333 1.11e+00 c.1.7.1 95390 1yxyA 234 1.21e+00 1jmeA 455 1.21e+00 a.104.1.1 66885 3pbgA 468 1.34e+00 1e70M c.1.8.4 28951 1uhvA 500 1.36e+00 b.71.1.2,c.1.8.3 99402,99403 1w0mA 226 1.41e+00 c.1.1.1 109027 1mjhB 162 1.66e+00 1mjhA c.26.2.4 31640 2bg5A 324 2.19e+00 1kczA 413 2.36e+00 c.1.11.2,d.54.1.1 68451,68452 1pbgA 468 2.89e+00 1e70M c.1.8.4 28946 2fnaA 357 3.32e+00 2bs9A 503 3.90e+00 1qumA 285 4.51e+00 1qumA c.1.15.1 29393 1mjhA 162 4.62e+00 1mjhA c.26.2.4 31639 1a8s 273 4.66e+00 1brt c.69.1.12 34710 1kkoA 413 4.85e+00 c.1.11.2,d.54.1.1 68675,68676 1ufoA 238 5.24e+00 c.69.1.27 99344 1k6wA 426 5.27e+00 b.92.1.2,c.1.9.5 68236,68237 1agnA 373 5.42e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1ra0A 430 5.42e+00 1qtwA 285 6.02e+00 1qumA c.1.15.1 29392 1d3gA 367 6.04e+00 1d3gA c.1.4.1 28600 1b73A 254 6.19e+00 1b74A c.78.2.1,c.78.2.1 35266,35267 1po0A 751 6.30e+00 f.4.3.3 94960 2bfgA 503 6.50e+00 1kmoA 774 6.57e+00 f.4.3.3 72753 2ajrA 331 6.98e+00 1b0jA 754 7.02e+00 1amj c.8.2.1,c.83.1.1 30719,35395 1zuwA 272 7.55e+00 2b0mA 393 8.23e+00 1j0aA 325 8.37e+00 c.79.1.1 83871 1vaoA 560 8.55e+00 1qltA d.58.32.1,d.145.1.1 39461,41724 7acn 754 8.73e+00 1amj c.8.2.1,c.83.1.1 30717,35393 1b74A 254 9.06e+00 1b74A c.78.2.1,c.78.2.1 35264,35265 8acn 754 9.29e+00 1amj c.8.2.1,c.83.1.1 30724,35400 1vjgA 218 9.43e+00 c.23.10.6 100810 2cxxA 190 9.94e+00 1w1kA 560 1.02e+01 d.58.32.1,d.145.1.1 109059,109060 1yb0A 159 1.05e+01 1amj 754 1.08e+01 1amj c.8.2.1,c.83.1.1 30725,35401 1ps9A 671 1.10e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1d3hA 367 1.13e+01 1d3gA c.1.4.1 28601 1rcuA 195 1.13e+01 c.129.1.1 97295 2anuA 255 1.13e+01 1km4A 247 1.18e+01 c.1.2.3 72740 1u0mA 382 1.20e+01 c.95.1.2,c.95.1.2 107557,107558 1e8gA 560 1.23e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1va4A 279 1.25e+01 c.69.1.12 108458 1e6pA 499 1.25e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 3pga1 337 1.28e+01 4pgaA 1b4uA 139 1.33e+01 1bouA a.88.1.1 18523 1jvnA 555 1.33e+01 c.1.2.1,c.23.16.1 67355,67356 1nbaA 264 1.40e+01 1nbaA c.33.1.3 31753 1x1zA 252 1.42e+01 1ox6A 555 1.45e+01 c.1.2.1,c.23.16.1 87505,87506 1bouA 139 1.46e+01 1bouA a.88.1.1 18521 1wzaA 488 1.49e+01 1jndA 420 1.51e+01 c.1.8.5,d.26.3.1 71757,71758 1o6zA 303 1.52e+01 c.2.1.5,d.162.1.1 81107,81108 1lt8A 406 1.53e+01 c.1.26.1 78186 4xiaA 393 1.55e+01 4xis c.1.15.3 29439 1tqxA 227 1.60e+01 1eblA 317 1.65e+01 1hn9A c.95.1.2,c.95.1.2 35973,35974 1ykjA 394 1.67e+01 2bijA 305 1.68e+01 1tqgA 105 1.80e+01 a.24.10.3 107224 1goiA 499 1.82e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1c96A 753 1.83e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1pbe 394 1.86e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1e15A 499 1.90e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 1qltA 560 2.01e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1hg3A 225 2.05e+01 1hg3A c.1.1.1 61025 2aop 497 2.05e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39503,39504,41427,41428 1hnjA 317 2.06e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1r30A 369 2.08e+01 c.1.28.1 96895 2phh 394 2.12e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1ur4A 399 2.13e+01 1xzoA 174 2.20e+01 4pgaA 337 2.26e+01 4pgaA c.88.1.1 35565 1qoxN 449 2.28e+01 1qoxN c.1.8.4 28978 6acn 754 2.38e+01 1amj c.8.2.1,c.83.1.1 30721,35397 1sfjA 238 2.40e+01 1fsu 492 2.41e+01 1auk c.76.1.2 35032 1hn9A 317 2.42e+01 1hn9A c.95.1.2,c.95.1.2 35977,35978 1mzhA 225 2.43e+01 c.1.10.1 79698 1uumA 372 2.44e+01 c.1.4.1 100010 1k0iA 394 2.45e+01 c.3.1.2,d.16.1.2 67942,67943 1bgj 394 2.47e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 2a33A 215 2.49e+01 1k7cA 233 2.53e+01 c.23.10.4 68267 1k1xA 659 2.53e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1e5eA 404 2.53e+01 1ibjA c.67.1.3 59265 1e5rA 290 2.55e+01 1e5rA b.82.2.4 59276 2fuvA 549 2.61e+01 1o5oA 221 2.70e+01 c.61.1.1 92509 1mioB 458 2.88e+01 1qguB c.92.2.3 35602 1uxy 340 2.97e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1qksA 567 2.97e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1gy8A 397 2.99e+01 c.2.1.2 83376 1fmjA 351 3.01e+01 c.37.1.5 59879 1aoqA 567 3.02e+01 1qksA a.3.1.2,b.70.2.1 15934,27692 1j8mF 297 3.11e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1sazA 381 3.12e+01 1b0zA 445 3.13e+01 2pgi c.80.1.2 35309 2pgi 445 3.13e+01 2pgi c.80.1.2 35308 1deoA 233 3.17e+01 1deoA c.23.10.4 31345 1xrsA 516 3.23e+01 1vb3A 428 3.29e+01 1hyeA 313 3.30e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1t9kA 347 3.32e+01 c.124.1.5 106721 2b7kA 200 3.39e+01 2bwfA 77 3.40e+01 1l9mA 692 3.44e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 73732,73733,73734,73735 1to3A 304 3.57e+01 c.1.10.1 107161 1eblB 317 3.62e+01 1hn9A c.95.1.2,c.95.1.2 35975,35976 1a6r 471 3.69e+01 3gcb d.3.1.1 37033 1rhcA 330 3.75e+01 c.1.16.3 97468 1zy9A 564 3.75e+01 1v25A 541 3.80e+01 e.23.1.1 108275 1ib2A 349 3.86e+01 1ib2A a.118.1.8 62141 1oxxK 353 3.86e+01 b.40.6.3,c.37.1.12 93715,93716 1cj3A 392 3.86e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 7a3hA 303 3.86e+01 7a3hA c.1.8.3 28817 1c7qA 445 3.90e+01 2pgi c.80.1.2 35307 1o9rA 162 4.12e+01 a.25.1.1 86706 1iuqA 367 4.19e+01 c.112.1.1 90703 1ua4A 455 4.33e+01 c.72.1.3 99128 1vjjA 692 4.35e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1tv8A 340 4.43e+01 c.1.28.3 107352 1t13A 158 4.50e+01 1j8yF 297 4.56e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1axgA 374 4.59e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1sr9A 644 4.64e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1aop 497 4.65e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1b7bA 310 4.71e+01 1b7bA c.73.1.1 34963 1o20A 427 4.72e+01 c.82.1.1 86556 1uqrA 154 4.73e+01 c.23.13.1 99779 1zcoA 262 4.76e+01 1p15A 253 4.79e+01 c.45.1.2 93894 1i2oA 316 4.95e+01 1onrA c.1.10.1 61574 1ytvA 366 4.98e+01 1n1fA 159 4.98e+01 a.26.1.3 79803 1ah4 315 4.99e+01 1frb c.1.7.1 28684 1aomA 567 5.03e+01 1qksA b.70.2.1 27694 1qz9A 416 5.05e+01 c.67.1.3 96621 1ykuA 136 5.07e+01 1u8xX 472 5.13e+01 c.2.1.5,d.162.1.2 107741,107742 1a71A 374 5.16e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1mugA 168 5.17e+01 1mugA c.18.1.2 31030 1f74A 293 5.23e+01 1nal3 c.1.10.1 29079 1tvnA 293 5.29e+01 1gjuA 637 5.33e+01 b.71.1.1,c.1.8.1 60580,60581 1m2oA 768 5.33e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1anf 370 5.34e+01 4mbp c.94.1.1 35776 1gcb 454 5.35e+01 3gcb d.3.1.1 37034 1xszA 356 5.39e+01 2bv5A 282 5.47e+01 2ohxA 374 5.65e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1tz9A 367 5.70e+01 c.1.15.6 107466 1onrA 316 5.73e+01 1onrA c.1.10.1 29169 1lg2A 365 5.73e+01 c.1.8.5,d.26.3.1 77950,77951 2exrA 524 5.81e+01 1gegA 256 5.81e+01 1ybvA c.2.1.2 29888 2bp1A 360 5.89e+01 1nt2B 258 5.94e+01 a.183.1.1 86150 1brlA 355 6.05e+01 1lucA c.1.16.1 29553 1o5kA 306 6.06e+01 c.1.10.1 92504 1ww8A 439 6.29e+01 1up8A 598 6.31e+01 a.111.1.2 99710 1skyB 502 6.39e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 8adh 374 6.45e+01 2ohxA b.35.1.2,c.2.1.1 24690,29706 1pea 385 6.46e+01 1pea c.93.1.1 35662 1hkkA 364 6.47e+01 c.1.8.5,d.26.3.1 90634,90635 2b5dX 528 6.54e+01 1yqdA 366 6.55e+01 2b99A 156 6.57e+01 2mbr 340 6.58e+01 2mbr d.145.1.2,d.146.1.1 41749,41762 1n62C 288 6.60e+01 d.87.2.1,d.145.1.3 80094,80095 1tjyA 316 6.66e+01 c.93.1.1 107062 1p9oA 313 6.81e+01 c.72.3.1 94397 1oxsC 353 6.82e+01 b.40.6.3,c.37.1.12 87519,87520 1w3iA 293 6.86e+01 c.1.10.1 109152 1ah0 316 6.89e+01 1frb c.1.7.1 28685 1axeA 374 6.91e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1wb0A 445 7.03e+01 1sflA 238 7.07e+01 6pfkA 319 7.11e+01 3pfk c.89.1.1 35583 1h49A 512 7.16e+01 c.1.8.4 83477 1mqiA 263 7.20e+01 c.94.1.1 91398 1cjtA 217 7.23e+01 1azsA d.58.29.1 39419 1eg2A 319 7.34e+01 1eg2A c.66.1.11 34249 1ubeA 349 7.35e+01 c.37.1.11,d.48.1.1 88412,88413 1n8kA 374 7.36e+01 b.35.1.2,c.2.1.1 80298,80299 1qi9A 556 7.39e+01 1qhbA a.111.1.2 19053 1lfwA 470 7.40e+01 c.56.5.4,d.58.19.1 77942,77943 1ydnA 295 7.42e+01 1hetA 374 7.55e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1heuA 374 7.55e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1n81A 186 7.56e+01 a.185.1.1 85388 1hyhA 309 7.63e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1vp8A 201 7.74e+01 1yifA 533 7.75e+01 1gjwA 637 7.75e+01 b.71.1.1,c.1.8.1 60582,60583 1up7A 417 7.79e+01 1zxiC 288 7.80e+01 2a1rA 430 7.82e+01 2b6cA 220 7.83e+01 1kutA 230 7.88e+01 d.143.1.1 73017 1dvjC 246 7.89e+01 1dvjA c.1.2.3 28548 1fobA 334 7.93e+01 c.1.8.3 83255 1xyzA 347 7.93e+01 1taxA c.1.8.3 28804 1c93A 265 7.95e+01 2ebn c.1.8.5 28998 1r8gA 372 7.95e+01 d.128.1.3 104845 1ecfB 504 7.96e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 4mbp 370 8.05e+01 4mbp c.94.1.1 35777 1fehA 574 8.08e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 2g39A 497 8.15e+01 1hqkA 154 8.21e+01 c.16.1.1 65902 1culA 217 8.24e+01 1azsA d.58.29.1 39417 1f89A 291 8.29e+01 d.160.1.1 64988 1azsA 220 8.30e+01 1azsA d.58.29.1 39416 2citA 282 8.40e+01 1d9eA 284 8.47e+01 1d9eA c.1.10.4 29195 2f20A 240 8.47e+01 2bvfA 459 8.51e+01 1vjpA 394 8.51e+01 c.2.1.3,d.81.1.3 100828,100829 1of8A 370 8.55e+01 c.1.10.4 92819 1u3wA 374 8.56e+01 1jatA 155 8.57e+01 1u9aA d.20.1.1 62818 1rwhA 757 8.65e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1zj8A 566 8.66e+01 1b57A 358 8.74e+01 1dosA c.1.10.2 29177 1cec 343 8.76e+01 1ceo c.1.8.3 28809 3gcb 470 8.80e+01 3gcb d.3.1.1 37032 1jq3A 296 8.84e+01 c.66.1.17 67079 1e55A 512 8.85e+01 1e70M c.1.8.4 28934 1rypG 244 8.89e+01 d.153.1.4 41938 1lzlA 323 8.99e+01 c.69.1.2 78306 1gqiA 708 8.99e+01 c.1.8.10,d.92.2.2 76279,76280