# 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 1zq9A 285 6.10e-40 1qyrA 252 7.84e-38 c.66.1.24 104657 1qamA 244 4.17e-28 2ercA c.66.1.24 34220 2ercA 244 6.53e-28 2ercA c.66.1.24 34224 1yub 245 1.04e-23 2ercA c.66.1.24 34219 1jg1A 235 1.43e-15 c.66.1.7 66661 1ve3A 227 7.60e-15 1l3iA 192 1.10e-13 c.66.1.22 77676 1dl5A 317 3.22e-13 1dl5A c.66.1.7,d.197.1.1 64720,64721 1uwvA 433 3.28e-13 b.40.4.12,c.66.1.40 100128,100129 1xxlA 239 6.82e-13 1wznA 252 1.00e-12 1dusA 194 1.55e-12 1dusA c.66.1.4 34182 1vl5A 260 4.42e-12 c.66.1.41 108720 1wy7A 207 1.11e-11 1g6q2 328 2.85e-11 1g6q2 2fytA 340 7.97e-11 1nv8A 284 1.07e-10 c.66.1.30 86224 1ufkA 254 1.11e-10 c.66.1.39 99340 1y8cA 246 1.71e-10 1f3lA 321 2.16e-10 1g6q2 c.66.1.6 59630 1i9gA 280 2.55e-10 c.66.1.13 62090 2avnA 260 4.09e-10 2as0A 396 6.81e-10 1i4wA 353 1.09e-09 c.66.1.24 66028 1kr5A 226 2.16e-09 c.66.1.7 68847 1m6yA 301 2.33e-09 a.60.13.1,c.66.1.23 78716,78717 1i1nA 226 2.58e-09 c.66.1.7 71102 1xvaA 292 4.03e-09 1xvaA c.66.1.5 34183 1bhjA 292 4.05e-09 1xvaA c.66.1.5 34189 2b25A 336 5.63e-09 1d2gA 292 6.01e-09 1xvaA c.66.1.5 34187 1kpgA 287 6.46e-09 c.66.1.18 68735 2fk8A 318 1.30e-08 1l1eA 287 1.53e-08 c.66.1.18 73454 2gh1A 301 1.69e-08 1ne2A 200 2.25e-08 c.66.1.32 85586 2admA 421 2.81e-08 2admA c.66.1.27 34238 1im8A 244 3.20e-08 c.66.1.14 66212 1o54A 277 3.59e-08 c.66.1.13 92482 1yb2A 275 3.84e-08 2ex4A 241 3.90e-08 1g38A 393 3.91e-08 2admA c.66.1.27 60235 1wxxA 382 4.38e-08 2frnA 278 4.60e-08 1aqjA 421 4.84e-08 2admA c.66.1.27 34242 1sqgA 429 5.85e-08 a.79.1.3,c.66.1.38 105912,105913 1xtpA 254 6.95e-08 1kp9B 287 1.19e-07 c.66.1.18 68734 1mjfA 281 5.07e-07 c.66.1.17 79198 1qzzA 374 7.72e-07 a.4.5.29,c.66.1.12 96719,96720 1yzhA 214 1.31e-06 1zdzA 302 1.64e-06 1wg8A 285 2.55e-06 2fpoA 202 3.35e-06 2fhpA 187 3.53e-06 1vlmA 219 4.18e-06 c.66.1.41 108836 1uirA 314 4.75e-06 c.66.1.17 99429 1ri5A 298 5.84e-06 c.66.1.34 97502 1nw3A 416 9.18e-06 c.66.1.31 86288 2b9eA 303 2.39e-05 1jsxA 207 2.57e-05 c.66.1.20 71846 2esrA 177 2.76e-05 1inlA 296 2.85e-05 c.66.1.17 66220 1jq3A 296 3.19e-05 c.66.1.17 67079 1ixkA 315 3.65e-05 c.66.1.38 90716 1nt2A 210 4.19e-05 c.66.1.3 86149 1ws6A 171 5.90e-05 1h1dA 221 1.12e-04 c.66.1.1 83452 1vid 221 1.27e-04 1vid c.66.1.1 34178 1zx0A 236 2.06e-04 1xclA 235 3.14e-04 1xdzA 240 3.66e-04 1g55A 343 4.66e-04 1g55A c.66.1.26 34247 1jvbA 347 5.87e-04 b.35.1.2,c.2.1.1 77181,77182 2avdA 219 8.51e-04 2f8lA 344 1.35e-03 1u2zA 433 1.99e-03 c.66.1.31 107626 1g8aA 227 3.94e-03 c.66.1.3 90506 2bzgA 232 4.09e-03 1sb8A 352 4.55e-03 c.2.1.2 105410 1jqeA 292 4.61e-03 c.66.1.19 71789 2c7pA 327 4.87e-03 1fbnA 230 5.01e-03 1fbnA c.66.1.3 34181 1e3jA 352 5.90e-03 1e3jA b.35.1.2,c.2.1.1 24765,29781 1pl8A 356 7.92e-03 b.35.1.2,c.2.1.1 94878,94879 1fjgM 126 9.35e-03 1fjfM a.156.1.1 16293 1o9gA 250 1.00e-02 c.66.1.29 86692 1fjxA 327 1.00e-02 6mhtA c.66.1.26 34228 1g8sA 230 1.06e-02 c.66.1.3 90507 2c0cA 362 1.11e-02 1fpxA 352 1.38e-02 1fpxA a.4.5.29,c.66.1.12 59950,59951 1fmcA 255 1.39e-02 1cydA c.2.1.2 29856 3mhtA 327 1.56e-02 6mhtA c.66.1.26 34234 1xseA 295 1.75e-02 1zkdA 387 1.75e-02 1fp2A 352 1.80e-02 1fpxA a.4.5.29,c.66.1.12 59941,59942 1ej0A 180 1.90e-02 1ej0A c.66.1.2 34179 1bg6 359 1.92e-02 1bg6 a.100.1.5,c.2.1.6 18810,30214 1xhlA 297 1.95e-02 c.2.1.2 109591 1g60A 260 1.98e-02 c.66.1.11 70151 1pedA 351 2.17e-02 1pedA b.35.1.2,c.2.1.1 24753,29769 2c07A 285 2.17e-02 2aotA 292 2.95e-02 1l9kA 305 3.01e-02 c.66.1.25 84569 2bgkA 278 3.37e-02 1xkqA 280 3.49e-02 1jqbA 351 3.63e-02 b.35.1.2,c.2.1.1 77151,77152 1v3vA 333 3.63e-02 b.35.1.2,c.2.1.1 108345,108346 1y5mA 276 3.76e-02 1h2bA 359 3.78e-02 b.35.1.2,c.2.1.1 90543,90544 1kevA 351 3.96e-02 1pedA b.35.1.2,c.2.1.1 24749,29765 1dctA 324 4.09e-02 6mhtA c.66.1.26 34244 1xu9A 286 4.21e-02 1gegA 256 4.23e-02 1ybvA c.2.1.2 29888 1nytA 271 4.42e-02 c.2.1.7,c.58.1.5 86417,86418 1uufA 369 4.89e-02 b.35.1.2,c.2.1.1 100006,100007 1joa 447 5.01e-02 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1zemA 262 5.24e-02 1y9aA 360 6.05e-02 1pjzA 203 6.58e-02 c.66.1.36 94794 2ag5A 246 6.62e-02 1nhs 447 6.63e-02 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1nhp 447 6.76e-02 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1spxA 278 6.99e-02 c.2.1.2 98958 2avyM 117 7.28e-02 1fcdA 401 7.52e-02 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1kolA 398 7.55e-02 b.35.1.2,c.2.1.1 77474,77475 1nw8A 319 9.81e-02 c.66.1.11 86292 1cydA 244 1.00e-01 1cydA c.2.1.2 29825 1up6A 416 1.08e-01 c.2.1.5,d.162.1.2 107976,107977 1reoA 486 1.15e-01 c.3.1.2,d.16.1.5 97325,97326 1iy8A 267 1.19e-01 c.2.1.2 83774 1ab5A 125 1.25e-01 3chy c.23.1.1 31056 1eg2A 319 1.27e-01 1eg2A c.66.1.11 34249 1mu5A 471 1.43e-01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1djnA 729 1.44e-01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1ej6A 1289 1.70e-01 i.7.1.1 45967 1f8fA 371 1.83e-01 b.35.1.2,c.2.1.1 83246,83247 1ep2B 261 1.86e-01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1f8rA 498 1.93e-01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1ep3B 262 1.94e-01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2a14A 263 2.46e-01 2bllA 345 2.48e-01 1z5bA 469 2.55e-01 1u9jA 358 2.57e-01 1hmy 327 2.63e-01 6mhtA c.66.1.26 34229 1o94A 729 2.64e-01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1ionA 243 2.66e-01 c.37.1.10 62633 2tmdA 729 2.69e-01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2g5cA 281 2.70e-01 1djqA 729 2.98e-01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1i5rA 327 2.98e-01 c.2.1.2 83668 1ab6A 125 3.03e-01 3chy c.23.1.1 31054 1a27 289 3.22e-01 1fds c.2.1.2 29839 1rjdA 334 3.31e-01 c.66.1.37 97558 1t3wA 148 3.38e-01 1fdt 327 3.55e-01 1fds c.2.1.2 29841 1z7bA 358 3.71e-01 6mhtA 327 3.82e-01 6mhtA c.66.1.26 34226 1bdb 277 3.84e-01 1bdb c.2.1.2 29874 1ykfA 352 3.91e-01 1pedA b.35.1.2,c.2.1.1 24757,29773 1up7A 417 3.99e-01 1p1xA 260 4.03e-01 c.1.10.1 104060 1yt8A 539 4.23e-01 1jclA 260 4.49e-01 c.1.10.1 66501 1ae1A 273 4.54e-01 1bdb c.2.1.2 29943 1jcjA 260 4.56e-01 c.1.10.1 66499 1cye 129 4.64e-01 3chy c.23.1.1 31077 1booA 323 4.75e-01 1booA c.66.1.11 34248 1khhA 198 5.25e-01 c.66.1.16 68615 1p1cA 199 6.98e-01 c.66.1.16 87669 1ja9A 274 7.19e-01 c.2.1.2 62817 1qe5A 266 7.53e-01 1b8oA c.56.2.1 33784 1axgA 374 7.98e-01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1s1hM 132 8.16e-01 i.1.1.1 105165 1wcv1 257 8.47e-01 3chy 128 8.82e-01 3chy c.23.1.1 31038 1a71A 374 8.91e-01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1s1eA 224 9.16e-01 1q0sA 259 9.19e-01 c.66.1.28 95509 1zcjA 463 9.28e-01 1m6eX 359 1.01e+00 c.66.1.35 91188 1yqdA 366 1.01e+00 1zmdA 474 1.03e+00 1u3wA 374 1.03e+00 1ebdA 455 1.05e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1yzfA 195 1.18e+00 1hnnA 282 1.19e+00 c.66.1.15 65895 1heuA 374 1.19e+00 2ohxA b.35.1.2,c.2.1.1 60979,60980 1orrA 347 1.25e+00 c.2.1.2 93460 1fds 327 1.25e+00 1fds c.2.1.2 29838 1g3qA 237 1.29e+00 1hyqA c.37.1.10 60237 2dpmA 284 1.30e+00 2dpmA c.66.1.28 34246 1jbeA 128 1.32e+00 3chy c.23.1.1 62845 1jtvA 327 1.39e+00 c.2.1.2 84230 1yf3A 259 1.45e+00 2g1uA 155 1.48e+00 1oxkB 134 1.51e+00 c.23.1.1 93691 2an3A 289 1.53e+00 1e6mA 128 1.70e+00 3chy c.23.1.1 31039 1on2A 142 1.70e+00 a.4.5.24,a.76.1.1 87103,87104 1m64A 571 1.73e+00 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1hetA 374 1.78e+00 2ohxA b.35.1.2,c.2.1.1 60975,60976 2b69A 343 1.83e+00 1axeA 374 1.84e+00 2ohxA b.35.1.2,c.2.1.1 24681,29697 1e2tA 284 1.96e+00 1e2tA d.3.1.5 37121 1lj1A 571 2.05e+00 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1a36A 592 2.06e+00 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 1e8aA 91 2.06e+00 1b4cA a.39.1.2 17188 1jcfA 344 2.12e+00 c.55.1.1,c.55.1.1 62878,62879 1kssA 571 2.13e+00 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1k8tA 510 2.18e+00 e.41.1.1 68316 1v9dA 340 2.19e+00 a.207.1.1 100535 2ohxA 374 2.27e+00 2ohxA b.35.1.2,c.2.1.1 24669,29685 1u55A 188 2.30e+00 d.278.1.1 107677 1q7bA 244 2.32e+00 c.2.1.2 96026 2cvjA 180 2.36e+00 1wdnA 226 2.36e+00 1lst c.94.1.1 35816 1d7yA 408 2.45e+00 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1xg5A 279 2.50e+00 1kdgA 546 2.51e+00 c.3.1.2,d.16.1.1 77337,77338 1p2hA 571 2.56e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2gdzA 267 2.60e+00 1a31A 538 2.60e+00 1a36A d.163.1.2,e.15.1.1 42170,43263 1e39A 571 2.63e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1y0pA 571 2.70e+00 1qjdA 571 2.70e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1q9iA 571 2.75e+00 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1ee2A 373 2.97e+00 2ohxA b.35.1.2,c.2.1.1 24663,29679 1p3dA 475 3.05e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1x0lA 333 3.08e+00 1n8kA 374 3.15e+00 b.35.1.2,c.2.1.1 80298,80299 1gz5A 456 3.42e+00 c.87.1.6 76406 1mvoA 136 3.49e+00 c.23.1.1 79513 1scfA 273 3.59e+00 1exzA a.26.1.2 16873 1zk7A 467 3.66e+00 1ydwA 362 3.72e+00 1p77A 272 3.86e+00 c.2.1.7,c.58.1.5 94214,94215 1nriA 306 3.88e+00 c.80.1.3 86123 2bszA 278 3.92e+00 1tt7A 330 4.12e+00 1wlyA 333 4.15e+00 1yb5A 351 4.16e+00 1u08A 386 4.19e+00 c.67.1.1 107543 1snyA 267 4.24e+00 c.2.1.2 105833 1w4xA 542 4.28e+00 c.3.1.5,c.3.1.5 109171,109172 1z2cB 383 4.57e+00 2evaA 307 4.58e+00 1agnA 373 4.62e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1fl2A 310 4.67e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1ej9A 563 4.70e+00 1a36A d.163.1.2,e.15.1.1 42172,43265 1f8gA 384 4.70e+00 1sayA c.2.1.4,c.23.12.2 59695,59696 3ladA 476 4.79e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1a35A 538 4.84e+00 1a36A d.163.1.2,e.15.1.1 42171,43264 2b4lA 268 4.90e+00 1j6uA 469 4.91e+00 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1qg6A 261 5.13e+00 1eny c.2.1.2 29919 1zejA 293 5.24e+00 1w6uA 302 5.57e+00 1mioB 458 5.57e+00 1qguB c.92.2.3 35602 2udpA 338 5.65e+00 1xel c.2.1.2 29791 1i24A 404 5.76e+00 c.2.1.2 83663 2f7fA 494 6.14e+00 1c14A 262 6.16e+00 1eny c.2.1.2 29927 1pvvA 315 6.17e+00 c.78.1.1,c.78.1.1 95190,95191 1jceA 344 6.83e+00 c.55.1.1,c.55.1.1 62876,62877 8adh 374 6.92e+00 2ohxA b.35.1.2,c.2.1.1 24690,29706 1k4tA 592 6.99e+00 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1fqvJ 149 7.00e+00 1fqvD a.157.1.1,d.42.1.1 19266,38670 1xqwA 293 7.05e+00 1kepA 348 7.06e+00 c.2.1.2 68536 1ui5A 215 7.53e+00 a.4.1.9,a.121.1.1 107856,107857 1zbqA 327 7.86e+00 1hulA 108 8.21e+00 1hulA a.26.1.2 16865 1xel 338 8.27e+00 1xel c.2.1.2 29786 2ax3A 502 8.38e+00 1lssA 140 8.75e+00 c.2.1.9 74246 2bnxA 386 9.06e+00 1xfuA 747 9.12e+00 1a9z 338 9.22e+00 1xel c.2.1.2 29795 1uayA 242 9.27e+00 c.2.1.2 88390 1a2xA 159 9.57e+00 1ncx a.39.1.5 17251 1udb 338 9.70e+00 1xel c.2.1.2 29787 4gr1 478 9.72e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30461,30462,40162 1l5zA 155 9.84e+00 c.23.1.1 77722 1wdcC 156 1.01e+01 1wdcC a.39.1.5 17317 1oc2A 348 1.01e+01 c.2.1.2 92765 2c31A 568 1.02e+01 1kvs 338 1.04e+01 1xel c.2.1.2 29799 1vj0A 380 1.06e+01 b.35.1.2,c.2.1.1 100786,100787 1qqvA 67 1.07e+01 1qqvA a.14.1.1 16379 1coy 507 1.07e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 3grs 478 1.08e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1mtzA 293 1.09e+01 c.69.1.7 79467 1a9y 338 1.09e+01 1xel c.2.1.2 29789 1wfdA 93 1.10e+01 1z0sA 278 1.10e+01 1ybvA 283 1.15e+01 1ybvA c.2.1.2 29948 1ggwA 140 1.15e+01 1ggwA a.39.1.5 60490 2c6cA 707 1.18e+01 1qrrA 394 1.20e+01 1qrrA c.2.1.2 29824 1dc7A 124 1.20e+01 1dbwA c.23.1.1 31093 1udc 338 1.20e+01 1xel c.2.1.2 29785 1djxB 624 1.21e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1s6cA 183 1.22e+01 a.39.1.5 98594 1zsyA 357 1.22e+01 1qsgA 265 1.24e+01 1eny c.2.1.2 29935 1kgsA 225 1.27e+01 a.4.6.1,c.23.1.1 68596,68597 1ys7A 233 1.30e+01 1ojaA 520 1.31e+01 c.3.1.2,d.16.1.5 93096,93097 1y9kA 157 1.33e+01 1fqvD 149 1.42e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1edoA 244 1.43e+01 1ybvA c.2.1.2 29896 1y7lA 316 1.43e+01 1gvnB 287 1.43e+01 c.37.1.21 76354 1z82A 335 1.44e+01 1a1s 314 1.46e+01 1othA c.78.1.1,c.78.1.1 35258,35259 1vk8A 106 1.55e+01 d.58.48.1 108636 1un8A 552 1.55e+01 c.119.1.2,a.208.1.1 103806,99661 5pal 109 1.56e+01 1a75A a.39.1.4 17215 1c4oA 664 1.57e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 2b5gA 171 1.59e+01 1ldg 316 1.59e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 3cox 507 1.60e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1gz6A 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