# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.soe.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 2w01A 208 1.39e-26 1azsA 220 4.07e-25 1azsA d.58.29.1 39416 1culA 217 5.06e-25 1azsA d.58.29.1 39417 2wz1A 219 5.54e-25 1wc3A 219 1.37e-24 d.58.29.1 114495 1wc1A 226 1.41e-24 d.58.29.1 114492 1azsB 212 2.91e-22 1azsA d.58.29.1 39423 1ybtA 184 1.96e-21 1fx2A 235 1.37e-20 1fx2A d.58.29.1 39430 1fx4A 231 3.71e-20 1fx2A d.58.29.1 39431 1ab8A 220 4.90e-20 1azsA d.58.29.1 39414 1y10A 407 1.05e-19 3iclA 171 1.37e-04 3i5aA 334 6.06e-04 2qv6A 268 3.74e-03 3i5bA 179 5.26e-03 3i5cA 206 7.18e-03 3breA 358 1.16e-02 3lmbA 165 1.78e-01 2o02A 230 1.82e-01 a.118.7.1 148541 1uzbA 516 1.93e-01 c.82.1.1 100220 1qjaA 245 2.52e-01 1qjaA a.118.7.1 19204 2bjkA 516 2.93e-01 1qjbA 245 3.88e-01 1qjaA a.118.7.1 19202 1w25A 459 3.97e-01 c.23.1.1,c.23.1.1,d.58.29.2 114090,114091,114092 2aydA 76 7.40e-01 3ezuA 342 8.65e-01 2o98A 242 8.90e-01 a.118.7.1 138950 3hvaA 177 9.38e-01 2br9A 234 9.76e-01 1zj8A 566 1.04e+00 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 146003,146004,146005,146006 2c1nA 258 1.08e+00 a.118.7.1 129640 1xcgA 368 1.12e+00 a.87.1.1,b.55.1.1 115120,115121 1txdA 385 1.16e+00 a.87.1.1,b.55.1.1 107422,107423 3hywA 430 1.22e+00 1wj2A 78 1.27e+00 g.79.1.1 114689 2dfaA 250 1.38e+00 c.6.2.5 131469 2es7A 142 1.38e+00 c.47.1.20 132314 2b05A 246 1.68e+00 2gebA 185 1.75e+00 2fncA 381 2.18e+00 2vpnA 316 2.19e+00 1v6tA 255 2.26e+00 c.6.2.5 113550 3lw1A 253 2.26e+00 1o9dA 260 2.39e+00 a.118.7.1 86689 3fcrA 458 2.50e+00 2cjgA 449 2.51e+00 2jjfA 449 2.59e+00 2jjeA 449 2.74e+00 3l8hA 179 2.82e+00 2jjhA 449 2.93e+00 2jejA 358 3.05e+00 d.240.1.1,e.8.1.7 138284,138285 3khrA 341 3.28e+00 1o4sA 389 3.29e+00 c.67.1.1 86620 1ohvA 472 3.41e+00 c.67.1.4 93031 2dskA 311 3.51e+00 3gg4A 554 3.69e+00 2a8jA 420 4.13e+00 3hheA 255 4.23e+00 3a46A 289 4.46e+00 1qd1A 325 5.00e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 3bs4A 260 5.03e+00 2iv2X 715 5.13e+00 b.52.2.2,c.81.1.1 137714,137715 1f80D 81 5.53e+00 1acp a.28.1.1 59686 1jx4A 352 5.72e+00 d.240.1.1,e.8.1.7 90378,90379 3kpkA 434 5.79e+00 1tz9A 367 6.07e+00 c.1.15.6 107466 2x2bA 78 6.24e+00 3h4tA 404 6.40e+00 2o1xA 629 6.71e+00 2v8hA 474 6.73e+00 2f2bA 246 6.75e+00 1r3nA 462 6.79e+00 c.56.5.4,d.58.19.1 96945,96946 3a42A 295 7.16e+00 1q9jA 422 7.33e+00 c.43.1.2,c.43.1.2 104590,104591 2isbA 192 7.52e+00 c.8.9.1 137601 2a8lA 420 7.72e+00 3kpiA 434 7.85e+00 1icpA 376 8.50e+00 1oyc c.1.4.1 62270 3g6mA 406 8.57e+00 3l0qA 554 8.67e+00 2va8A 715 8.71e+00 3gyyA 341 9.36e+00 1m41A 380 9.86e+00 c.1.16.4 78595 2nvpA 435 1.01e+01 a.102.1.8 148478 3i4jA 430 1.05e+01 2fmyA 220 1.08e+01 2j1dG 483 1.14e+01 2zyhA 475 1.24e+01 2a8mA 420 1.25e+01 2d69A 430 1.30e+01 c.1.14.1,d.58.9.1 131292,131293 3f14A 112 1.32e+01 3bdkA 386 1.33e+01 1gylA 369 1.34e+01 1gox c.1.4.1 28610 1tb3A 352 1.37e+01 c.1.4.1 119205 2q8uA 336 1.37e+01 3douA 191 1.38e+01 3hvwA 176 1.41e+01 2zyrA 484 1.41e+01 2obdA 476 1.45e+01 3d6kA 422 1.48e+01 1vljA 407 1.50e+01 e.22.1.2 108832 2zyiA 475 1.52e+01 2qn6B 93 1.54e+01 d.58.51.1 150914 2plc 274 1.59e+01 2plc 2plcA 274 1.59e+01 c.1.18.2 29614 3eleA 398 1.63e+01 2zysA 479 1.66e+01 2o2cA 613 1.69e+01 3ighX 486 1.70e+01 3g8rA 350 1.74e+01 1knyA 253 1.79e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 3dffA 273 1.85e+01 1goxA 369 1.92e+01 c.1.4.1 28607 1gox 370 1.92e+01 1gox 2clbA 188 1.97e+01 1mk4A 157 2.05e+01 d.108.1.1 84979 2wzhA 737 2.07e+01 1cfr 285 2.18e+01 1cfr 2e3zA 465 2.18e+01 1cfrA 285 2.19e+01 c.52.1.7 33312 1nnwA 252 2.25e+01 d.159.1.5 80674 2cxnA 557 2.29e+01 2gshA 414 2.33e+01 1u0fA 564 2.39e+01 c.80.1.2 112912 3dni 260 2.40e+01 3dni 3k1tA 432 2.45e+01 1hg5A 289 2.45e+01 1hg5A a.7.8.2,a.118.9.3 90360,90361 3drnA 161 2.45e+01 2p3zA 415 2.48e+01 1g0uG 252 2.49e+01 d.153.1.4 41952 1zxxA 319 2.50e+01 2x5bA 761 2.51e+01 2elaA 175 2.52e+01 2vg0A 227 2.53e+01 2vvnA 737 2.55e+01 a.246.1.1,c.1.8.10,d.92.2.3 153634,153635,153636 1n5dA 288 2.56e+01 c.2.1.2 80030 3ignA 177 2.58e+01 1wznA 252 2.58e+01 c.66.1.43 121525 2rexB 197 2.61e+01 3e38A 343 2.68e+01 2choA 716 2.69e+01 a.246.1.1,c.1.8.10,d.92.2.3 130479,130480,130481 1ktgA 138 2.72e+01 d.113.1.1 72972 3gjzA 336 2.81e+01 2i5qA 415 2.86e+01 1wywA 230 2.87e+01 c.18.1.2 144566 2o3iA 405 2.87e+01 e.73.1.1 148577 3boxA 415 2.87e+01 2vg1A 228 2.89e+01 2dplA 308 2.93e+01 1itwA 741 2.93e+01 c.77.1.2 76793 2dvzA 314 2.94e+01 3k2gA 364 2.99e+01 2i09A 403 2.99e+01 c.76.1.5,d.327.1.1 136946,136947 2ivxA 257 3.00e+01 a.74.1.1,a.74.1.1 147813,147814 2diuA 96 3.03e+01 2waxA 193 3.05e+01 3m7vA 413 3.08e+01 2rbdA 171 3.09e+01 1ll0A 339 3.12e+01 c.68.1.14 73995 3gjuA 460 3.12e+01 1c4xA 285 3.13e+01 1c4xA c.69.1.10 34684 1z6rA 406 3.14e+01 a.4.5.63,c.55.1.10,c.55.1.10 124557,124558,124559 3e70C 328 3.15e+01 1rypA 243 3.16e+01 1pmaA d.153.1.4 41932 2x59A 761 3.21e+01 1pea 385 3.22e+01 1pea 2j3mA 572 3.26e+01 2gifA 1057 3.27e+01 1mioB 458 3.28e+01 1qguB c.92.2.3 35602 1n3lA 372 3.30e+01 c.26.1.1 79966 2hf9A 226 3.30e+01 2g0dA 409 3.31e+01 a.102.6.1 147057 2z61A 370 3.34e+01 1cnt1 187 3.42e+01 1cnt3 1vgjA 184 3.43e+01 1o58A 303 3.44e+01 c.79.1.1 92491 1atnD 260 3.46e+01 3dni d.151.1.1 41793 1d0iA 156 3.47e+01 2dhqA c.23.13.1 31383 2dnjA 260 3.48e+01 3dni d.151.1.1 41790 2prsA 284 3.50e+01 1peaA 385 3.51e+01 c.93.1.1 35662 1nv8A 284 3.52e+01 c.66.1.30 86224 3bp8A 406 3.52e+01 a.4.5.63,c.55.1.10,c.55.1.10 155463,155464,155465 1zavA 180 3.55e+01 d.58.62.1 145962 1nqkA 381 3.69e+01 c.1.16.4 92050 2wabA 341 3.74e+01 1w6tA 444 3.80e+01 c.1.11.1,d.54.1.1 120670,120671 1d2fA 390 3.82e+01 1d2fA c.67.1.3 34411 2qgqA 304 3.84e+01 2j8sA 1055 3.84e+01 3lhlA 287 3.95e+01 3iprA 150 4.00e+01 2ipcA 997 4.03e+01 2g0wA 296 4.05e+01 c.1.15.4 134503 1rknA 110 4.15e+01 b.40.1.1 111855 1eps 427 4.15e+01 1eps 1ohtA 215 4.16e+01 d.118.1.1 87036 2q8pA 260 4.16e+01 1m5sA 297 4.19e+01 d.58.33.1,d.58.33.1 74511,74512 1qw9A 502 4.22e+01 b.71.1.2,c.1.8.3 96466,96467 1q6aA 107 4.23e+01 a.186.1.1 95966 1a3c 181 4.24e+01 1a3c 1a3cA 181 4.24e+01 c.61.1.1 34095 2h7aA 110 4.30e+01 d.350.1.1 147236 1gtzA 156 4.33e+01 c.23.13.1 70539 1hf8A 289 4.35e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 2kk4A 95 4.38e+01 1d2gA 292 4.41e+01 1xvaA c.66.1.5 34187 2p8gA 162 4.46e+01 2ausA 334 4.47e+01 1cnt3 187 4.48e+01 1cnt3 2d5kA 156 4.48e+01 2p10A 286 4.50e+01 c.1.12.9 149144 1t8hA 277 4.63e+01 d.194.1.2 106664 3futA 271 4.64e+01 2i4rA 102 4.65e+01 c.149.1.1 147501 1ffkE 119 4.77e+01 1ffkE d.79.3.1 39812 3pmgA 561 4.78e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2gc9A 179 4.80e+01 b.60.1.6 134972 3ij6A 312 4.81e+01 2py6A 409 4.85e+01 c.66.1.56 149932 2qpqA 301 4.90e+01 2q01A 497 4.99e+01 2wlvA 144 5.03e+01 3hdoA 360 5.03e+01 3hjbA 574 5.14e+01 1gwiA 411 5.17e+01 a.104.1.1 76364 2x1yA 761 5.19e+01 2waoA 341 5.20e+01 1dqrA 557 5.26e+01 1dqrA c.80.1.2 35305 3ko5A 164 5.31e+01 3eufA 328 5.37e+01 3h3dX 323 5.37e+01 2jynA 146 5.41e+01 1z2lA 423 5.55e+01 c.56.5.4,d.58.19.1 124383,124384 3cpqA 110 5.56e+01 3fi7A 183 5.60e+01 1hm5A 558 5.62e+01 c.80.1.2 76717 3i5tA 476 5.63e+01 1goiA 499 5.65e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1aj8A 371 5.67e+01 1aj8A a.103.1.1 18900 3bblA 287 5.73e+01 1hjxA 362 5.75e+01 c.1.8.5,d.26.3.1 83512,83513 1su0B 159 5.80e+01 d.224.1.2 106015 1io2A 213 5.86e+01 1ekeA c.55.3.1 62612 1e4fT 419 5.88e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1txnA 328 5.94e+01 d.248.1.1 112779 3g98A 111 5.98e+01 2vpzA 765 6.05e+01 1jkeA 145 6.08e+01 c.110.1.1 66791 2h7cA 542 6.20e+01 c.69.1.1 136207 2fjcA 156 6.24e+01 a.25.1.1 133559 3cj1A 456 6.25e+01 2ckwA 515 6.25e+01 2ej8A 160 6.26e+01 3dliA 240 6.26e+01 1n8fA 350 6.29e+01 c.1.10.4 85397 1ko7A 314 6.31e+01 c.98.2.1,c.91.1.2 72797,72798 1yrbA 262 6.41e+01 c.37.1.10 123915 3fy1A 395 6.41e+01 1fbaA 361 6.45e+01 1fbaA c.1.10.1 29120 2fcaA 213 6.46e+01 c.66.1.53 133262 1s8nA 205 6.52e+01 c.23.1.1 105374 1y2qA 143 6.52e+01 1f2vA 219 6.52e+01 1f2vA c.23.17.1 59627 1u02A 239 6.53e+01 c.108.1.15 107538 1h4gA 207 6.55e+01 b.29.1.11 70863 2ghaA 382 6.56e+01 1chmA 401 6.64e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1hqkA 154 6.66e+01 c.16.1.1 65902 2fyxA 143 6.71e+01 d.58.57.1 134411 1sotA 320 6.71e+01 b.36.1.4,b.47.1.1 105852,105853 1f4lA 551 6.73e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1wdjA 187 6.78e+01 c.52.1.27 114536 3kd8A 399 6.86e+01 2q7eA 291 6.95e+01 1x3qA 57 6.95e+01 b.34.13.2 121669 1ev5A 264 6.96e+01 1bkpA d.117.1.1 40935 3bljA 221 6.98e+01 1iatA 557 6.99e+01 1dqrA c.80.1.2 62123 1p3hA 99 7.07e+01 b.35.1.1 87734 2ftpA 302 7.11e+01 2oznB 140 7.17e+01 1r8gA 372 7.25e+01 d.128.1.3 104845 2hbvA 334 7.30e+01 c.1.9.15 136320 2qvbA 297 7.32e+01 1nedA 183 7.36e+01 1nedA d.153.1.4 41974 3g68A 352 7.37e+01 1lxnA 99 7.38e+01 d.58.48.1 84737 2aynA 404 7.39e+01 d.3.1.9 127563 3if2A 444 7.41e+01 3gmgA 170 7.42e+01 2o0rA 411 7.57e+01 1wleA 501 7.59e+01 3icjA 534 7.65e+01 2a22A 215 7.66e+01 d.159.1.7 126025 2arkA 188 7.66e+01 c.23.5.8 127202 2be1A 339 7.70e+01 2vqxA 341 7.79e+01 1ia9A 280 7.82e+01 1ia9A d.144.1.5 62113 1z3eA 132 7.89e+01 c.47.1.12 124400 2a40B 260 7.89e+01 d.151.1.1 126139 1gg1A 350 7.92e+01 1qr7A c.1.10.4 29187 2w2aA 194 7.95e+01