# 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 1nv8A 284 8.38e-16 c.66.1.30 86224 1dusA 194 2.02e-11 1dusA c.66.1.4 34182 2as0A 396 2.22e-10 1l3iA 192 6.62e-09 c.66.1.22 77676 1ufkA 254 2.98e-08 c.66.1.39 99340 1wxxA 382 3.16e-08 1wy7A 207 1.42e-07 2fhpA 187 1.82e-07 1ne2A 200 3.72e-07 c.66.1.32 85586 1g6q2 328 3.89e-07 1g6q2 2fytA 340 3.90e-07 1jg1A 235 4.85e-07 c.66.1.7 66661 1wznA 252 5.89e-07 1ws6A 171 7.78e-07 1f3lA 321 1.18e-06 1g6q2 c.66.1.6 59630 2frnA 278 1.51e-06 1dl5A 317 1.56e-06 1dl5A c.66.1.7,d.197.1.1 64720,64721 1uwvA 433 1.58e-06 b.40.4.12,c.66.1.40 100128,100129 1ve3A 227 1.73e-06 1o54A 277 7.23e-06 c.66.1.13 92482 2esrA 177 9.29e-06 1yzhA 214 9.94e-06 1m6yA 301 1.14e-05 a.60.13.1,c.66.1.23 78716,78717 2f8lA 344 1.37e-05 1qzzA 374 1.54e-05 a.4.5.29,c.66.1.12 96719,96720 1sqgA 429 2.41e-05 a.79.1.3,c.66.1.38 105912,105913 1bhjA 292 4.77e-05 1xvaA c.66.1.5 34189 1d2gA 292 4.99e-05 1xvaA c.66.1.5 34187 1y8cA 246 5.46e-05 1xvaA 292 6.21e-05 1xvaA c.66.1.5 34183 2avdA 219 6.87e-05 1h1dA 221 7.91e-05 c.66.1.1 83452 1i9gA 280 8.15e-05 c.66.1.13 62090 2gh1A 301 8.41e-05 1jsxA 207 9.69e-05 c.66.1.20 71846 2fpoA 202 1.11e-04 1vid 221 1.15e-04 1vid c.66.1.1 34178 1xxlA 239 1.18e-04 1g38A 393 1.24e-04 2admA c.66.1.27 60235 2avnA 260 1.25e-04 1i1nA 226 1.59e-04 c.66.1.7 71102 1vl5A 260 1.92e-04 c.66.1.41 108720 1kr5A 226 1.98e-04 c.66.1.7 68847 2admA 421 2.78e-04 2admA c.66.1.27 34238 2b25A 336 3.87e-04 2ex4A 241 4.08e-04 1im8A 244 4.21e-04 c.66.1.14 66212 1xdzA 240 4.55e-04 1mjfA 281 5.08e-04 c.66.1.17 79198 1o9gA 250 5.66e-04 c.66.1.29 86692 1kpgA 287 7.25e-04 c.66.1.18 68735 1aqjA 421 8.07e-04 2admA c.66.1.27 34242 1g55A 343 8.56e-04 1g55A c.66.1.26 34247 1zdzA 302 8.71e-04 1kp9B 287 1.05e-03 c.66.1.18 68734 1xtpA 254 1.11e-03 1uirA 314 1.17e-03 c.66.1.17 99429 2fk8A 318 1.27e-03 1jvbA 347 1.84e-03 b.35.1.2,c.2.1.1 77181,77182 1l1eA 287 1.96e-03 c.66.1.18 73454 1inlA 296 4.58e-03 c.66.1.17 66220 1vlmA 219 5.33e-03 c.66.1.41 108836 1zq9A 285 5.95e-03 1jq3A 296 1.02e-02 c.66.1.17 67079 1u2zA 433 1.34e-02 c.66.1.31 107626 1ixkA 315 1.48e-02 c.66.1.38 90716 1nw3A 416 1.49e-02 c.66.1.31 86288 1ri5A 298 1.59e-02 c.66.1.34 97502 1eg2A 319 1.59e-02 1eg2A c.66.1.11 34249 1nw8A 319 1.92e-02 c.66.1.11 86292 2a14A 263 2.11e-02 1rjdA 334 3.00e-02 c.66.1.37 97558 1pvvA 315 3.26e-02 c.78.1.1,c.78.1.1 95190,95191 1ej0A 180 3.90e-02 1ej0A c.66.1.2 34179 1nytA 271 5.06e-02 c.2.1.7,c.58.1.5 86417,86418 1af7 274 5.27e-02 1af7 a.58.1.1,c.66.1.8 17928,34203 1bc5A 269 5.31e-02 1af7 a.58.1.1,c.66.1.8 17929,34204 1zemA 262 5.75e-02 2cdcA 366 6.13e-02 1qamA 244 7.33e-02 2ercA c.66.1.24 34220 1jqbA 351 8.33e-02 b.35.1.2,c.2.1.1 77151,77152 1yb2A 275 9.03e-02 1fpxA 352 9.19e-02 1fpxA a.4.5.29,c.66.1.12 59950,59951 1pl8A 356 9.35e-02 b.35.1.2,c.2.1.1 94878,94879 1a1s 314 1.04e-01 1othA c.78.1.1,c.78.1.1 35258,35259 1fp2A 352 1.10e-01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1h2bA 359 1.13e-01 b.35.1.2,c.2.1.1 90543,90544 1pedA 351 1.28e-01 1pedA b.35.1.2,c.2.1.1 24753,29769 1e3jA 352 1.36e-01 1e3jA b.35.1.2,c.2.1.1 24765,29781 2ercA 244 1.51e-01 2ercA c.66.1.24 34224 1zk7A 467 1.53e-01 1obbA 480 1.57e-01 c.2.1.5,d.162.1.2 86760,86761 1yub 245 1.67e-01 2ercA c.66.1.24 34219 1kevA 351 1.70e-01 1pedA b.35.1.2,c.2.1.1 24749,29765 1reoA 486 1.83e-01 c.3.1.2,d.16.1.5 97325,97326 1booA 323 2.08e-01 1booA c.66.1.11 34248 1hnnA 282 2.38e-01 c.66.1.15 65895 1xclA 235 2.44e-01 2c7pA 327 2.69e-01 1nt2A 210 2.72e-01 c.66.1.3 86149 1f8fA 371 2.73e-01 b.35.1.2,c.2.1.1 83246,83247 1wg8A 285 2.79e-01 1q0sA 259 2.91e-01 c.66.1.28 95509 1g60A 260 2.99e-01 c.66.1.11 70151 2an3A 289 3.05e-01 1fjxA 327 3.09e-01 6mhtA c.66.1.26 34228 1yf3A 259 3.17e-01 1l9kA 305 3.86e-01 c.66.1.25 84569 1f2dA 341 3.93e-01 1f2dA c.79.1.1 35298 1ykfA 352 4.01e-01 1pedA b.35.1.2,c.2.1.1 24757,29773 1fmcA 255 4.83e-01 1cydA c.2.1.2 29856 1axgA 374 4.86e-01 2ohxA b.35.1.2,c.2.1.1 24691,29707 2ew2A 316 5.03e-01 1a71A 374 5.06e-01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1f8gA 384 5.41e-01 1sayA c.2.1.4,c.23.12.2 59695,59696 1heuA 374 5.79e-01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1f8rA 498 6.17e-01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1zx0A 236 6.94e-01 1vg0A 650 7.00e-01 c.3.1.3,d.16.1.6 108596,108597 1m64A 571 7.05e-01 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 2b9eA 303 7.16e-01 2ohxA 374 7.16e-01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1hetA 374 7.60e-01 2ohxA b.35.1.2,c.2.1.1 60975,60976 3mhtA 327 8.23e-01 6mhtA c.66.1.26 34234 1j0dA 341 8.34e-01 c.79.1.1 83902 1p2hA 571 8.40e-01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1q9iA 571 8.57e-01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1e39A 571 8.57e-01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1uufA 369 8.87e-01 b.35.1.2,c.2.1.1 100006,100007 1y0pA 571 9.02e-01 1qjdA 571 9.04e-01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1y9aA 360 9.04e-01 1lj1A 571 9.27e-01 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1kssA 571 9.32e-01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1n8kA 374 9.44e-01 b.35.1.2,c.2.1.1 80298,80299 1i4wA 353 9.73e-01 c.66.1.24 66028 1l7dA 384 9.75e-01 c.2.1.4,c.23.12.2 77774,77775 1axeA 374 1.05e+00 2ohxA b.35.1.2,c.2.1.1 24681,29697 1w4xA 542 1.12e+00 c.3.1.5,c.3.1.5 109171,109172 1u3wA 374 1.13e+00 1jcfA 344 1.13e+00 c.55.1.1,c.55.1.1 62878,62879 1ee2A 373 1.17e+00 2ohxA b.35.1.2,c.2.1.1 24663,29679 1d7yA 408 1.18e+00 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1kjqA 391 1.22e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1gesA 450 1.26e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1jceA 344 1.29e+00 c.55.1.1,c.55.1.1 62876,62877 1jqeA 292 1.34e+00 c.66.1.19 71789 1eyzA 392 1.45e+00 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1ja9A 274 1.54e+00 c.2.1.2 62817 1ez1A 392 1.65e+00 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28248,31655,41500 2bcgG 453 1.76e+00 1zcjA 463 1.78e+00 1ukvG 453 1.79e+00 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1mjhB 162 1.93e+00 1mjhA c.26.2.4 31640 1zmdA 474 2.11e+00 1xhlA 297 2.16e+00 c.2.1.2 109591 1c0pA 363 2.41e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 1poiB 260 2.48e+00 1poiB c.124.1.3 34155 1bg6 359 2.48e+00 1bg6 a.100.1.5,c.2.1.6 18810,30214 1yb5A 351 2.57e+00 1vj0A 380 2.72e+00 b.35.1.2,c.2.1.1 100786,100787 2tysB 397 2.91e+00 2tysB c.79.1.1 35272 1b4vA 504 2.92e+00 1b8sA c.3.1.2,d.16.1.1 30334,37865 1b8sA 504 3.08e+00 1b8sA c.3.1.2,d.16.1.1 30335,37866 1ijhA 504 3.12e+00 c.3.1.2,d.16.1.1 66161,66162 1mxtA 504 3.15e+00 c.3.1.2,d.16.1.1 79671,79672 1n1pA 504 3.16e+00 c.3.1.2,d.16.1.1 91546,91547 1n4wA 504 3.16e+00 c.3.1.2,d.16.1.1 91676,91677 2dpmA 284 3.24e+00 2dpmA c.66.1.28 34246 1coy 507 3.27e+00 1b8sA c.3.1.2,d.16.1.1 30333,37864 1up6A 416 3.31e+00 c.2.1.5,d.162.1.2 107976,107977 1q8fA 313 3.52e+00 c.70.1.1 96203 3cox 507 3.55e+00 1b8sA c.3.1.2,d.16.1.1 30332,37863 1joa 447 3.63e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 2ag5A 246 3.66e+00 1qdlB 195 3.86e+00 1qdlB c.23.16.1 31437 8adh 374 3.92e+00 2ohxA b.35.1.2,c.2.1.1 24690,29706 1u6zA 513 3.96e+00 1k8yB 396 4.00e+00 c.79.1.1 72184 1x13A 401 4.25e+00 2bgkA 278 4.38e+00 1nhs 447 4.46e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2cvjA 180 4.49e+00 1r13A 148 4.63e+00 d.169.1.1,h.1.1.1 96782,96783 1yvvA 336 4.63e+00 1orrA 347 4.71e+00 c.2.1.2 93460 1mvoA 136 4.73e+00 c.23.1.1 79513 1ps9A 671 5.01e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1a88A 275 5.09e+00 1brt c.69.1.12 34707 1mjhA 162 5.15e+00 1mjhA c.26.2.4 31639 4gr1 478 5.30e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30461,30462,40162 1fcdA 401 5.53e+00 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1qopB 396 5.58e+00 2tysB c.79.1.1 35270 3grs 478 5.64e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1a50B 396 5.77e+00 2tysB c.79.1.1 35280 1xkqA 280 5.97e+00 1ej6A 1289 6.11e+00 i.7.1.1 45967 1zmoA 244 6.14e+00 1yasA 257 6.37e+00 1qj4A c.69.1.20 34801 1agnA 373 6.59e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1bksB 397 6.73e+00 2tysB c.79.1.1 35285 1nhp 447 6.82e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1kolA 398 6.83e+00 b.35.1.2,c.2.1.1 77474,77475 1qj4A 257 7.15e+00 1qj4A c.69.1.20 34796 1vjtA 483 7.29e+00 c.2.1.5,d.162.1.2 100833,100834 1yoeA 322 7.31e+00 1kewA 361 7.33e+00 c.2.1.2 68544 1v71A 323 7.71e+00 1hkhA 279 7.77e+00 c.69.1.12 90628 1kdgA 546 8.10e+00 c.3.1.2,d.16.1.1 77337,77338 1brt 277 8.24e+00 1brt c.69.1.12 34699 1p3dA 475 8.51e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1chuA 540 8.73e+00 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1hmy 327 8.82e+00 6mhtA c.66.1.26 34229 1dctA 324 8.89e+00 6mhtA c.66.1.26 34244 2aotA 292 8.90e+00 1fbnA 230 9.02e+00 1fbnA c.66.1.3 34181 1a8s 273 9.05e+00 1brt c.69.1.12 34710 1j34A 129 9.13e+00 d.169.1.1 84048 1jgcA 161 9.21e+00 a.25.1.1 66673 2c07A 285 9.40e+00 1g8sA 230 9.59e+00 c.66.1.3 90507 1ebdA 455 9.69e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2c4wA 176 1.01e+01 1ybvA 283 1.02e+01 1ybvA c.2.1.2 29948 1rsgA 516 1.02e+01 1iy8A 267 1.08e+01 c.2.1.2 83774 1f6dA 376 1.13e+01 1f6dA c.87.1.3 35467 1skoA 143 1.13e+01 d.110.7.1 105676 1yh1A 359 1.16e+01 1tdj 514 1.18e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1vgvA 384 1.21e+01 c.87.1.3 100608 3ladA 476 1.23e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1tzjA 338 1.24e+01 1yy5B 513 1.28e+01 1d5tA 433 1.33e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1rp0A 284 1.33e+01 1g0oA 283 1.34e+01 1ybvA c.2.1.2 60181 1q6cA 495 1.40e+01 c.1.8.1 95970 1eo9B 241 1.41e+01 3pchM b.3.6.1 22826 1q25A 432 1.50e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1gegA 256 1.51e+01 1ybvA c.2.1.2 29888 1jjgA 102 1.51e+01 b.40.4.5 71696 2bi7A 384 1.52e+01 1byb 495 1.53e+01 1byb c.1.8.1 28790 1hkvA 453 1.55e+01 b.49.2.3,c.1.6.1 83559,83560 1hpm 386 1.57e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1jznA 135 1.59e+01 d.169.1.1 84262 1v8bA 479 1.60e+01 1b1yA 500 1.62e+01 1byb c.1.8.1 28796 1tk9A 188 1.66e+01 c.80.1.3 107082 1zgmA 248 1.68e+01 2wsyB 396 1.69e+01 2tysB c.79.1.1 35288 1f48A 589 1.71e+01 1f48A c.37.1.10,c.37.1.10 32280,32281 1m6iA 493 1.71e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1a7aA 432 1.71e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1l3sA 580 1.72e+01 c.55.3.5,e.8.1.1 84521,84522 1e5kA 201 1.74e+01 1fr9A c.68.1.8 34578 1hyuA 521 1.74e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1r9lA 309 1.75e+01 c.94.1.1 97262 1tyyA 339 1.77e+01 1kay 381 1.80e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1whvA 100 1.81e+01 2d0oA 610 1.82e+01 1fr9A 194 1.82e+01 1fr9A c.68.1.8 34579 1cydA 244 1.87e+01 1cydA c.2.1.2 29825 1xdwA 331 1.89e+01 1a35A 538 1.93e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1oc2A 348 1.95e+01 c.2.1.2 92765 1ka2A 499 1.96e+01 d.92.1.5 77305 2apr 325 1.99e+01 2er7E b.50.1.2 26819 1g5cA 170 2.00e+01 1g5cA c.53.2.1 60264 1djnA 729 2.01e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1mioB 458 2.03e+01 1qguB c.92.2.3 35602 1zmtA 254 2.04e+01 3aprE 325 2.04e+01 2er7E b.50.1.2 26820 1xx6A 191 2.05e+01 1txvA 452 2.06e+01 1hgxA 183 2.06e+01 1tc1A c.61.1.1 34027 1li4A 432 2.06e+01 c.2.1.4,c.23.12.3 84616,84617 1up7A 417 2.08e+01 1rpnA 335 2.10e+01 c.2.1.2 97708 1jeoA 180 2.15e+01 c.80.1.3 66611 1m6eX 359 2.20e+01 c.66.1.35 91188 2bdpA 580 2.22e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 1b3rA 431 2.26e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1gnd 447 2.27e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1k4tA 592 2.30e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1xwl 580 2.33e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 2fnoA 248 2.34e+01 1ojaA 520 2.35e+01 c.3.1.2,d.16.1.5 93096,93097 1u4bA 580 2.35e+01 c.55.3.5,e.8.1.1 107664,107665 1v3hA 495 2.35e+01 c.1.8.1 108303 1a31A 538 2.36e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 2c31A 568 2.44e+01 1f0kA 364 2.44e+01 1f0kA c.87.1.2 35465 1ats 386 2.45e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1que 303 2.46e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1lvl 458 2.48e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 2d0iA 333 2.50e+01 1wcv1 257 2.51e+01 1q44A 326 2.52e+01 c.37.1.5 95779 1va4A 279 2.54e+01 c.69.1.12 108458 1qh0A 295 2.54e+01 b.43.4.2,c.25.1.1 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