# List of top-scoring protein chains for t2k.100-30-dssp-ebghstl 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 4.92e-32 1wc3A 219 2.74e-28 d.58.29.1 114495 1wc1A 226 3.17e-28 d.58.29.1 114492 2wz1A 219 2.80e-26 1ybtA 184 1.50e-24 1culA 217 4.55e-24 1azsA d.58.29.1 39417 1fx2A 235 1.03e-23 1fx2A d.58.29.1 39430 1fx4A 231 1.92e-23 1fx2A d.58.29.1 39431 1azsA 220 5.26e-23 1azsA d.58.29.1 39416 1y10A 407 6.76e-21 1azsB 212 4.32e-20 1azsA d.58.29.1 39423 1ab8A 220 2.73e-17 1azsA d.58.29.1 39414 2qv6A 268 3.43e-04 3lmbA 165 6.66e-03 3iclA 171 6.87e-03 3i5aA 334 8.04e-03 3i5bA 179 1.24e-01 1w25A 459 1.68e-01 c.23.1.1 114090 c.23.1.1 114091 d.58.29.2 114092 2hf9A 226 1.72e-01 2a8mA 420 2.39e-01 1dgjA 907 2.51e-01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 2wm1A 336 2.53e-01 2a8lA 420 2.79e-01 2a8jA 420 2.87e-01 1v6tA 255 3.31e-01 c.6.2.5 113550 2fmyA 220 3.74e-01 3breA 358 5.61e-01 3kqfA 265 6.95e-01 3i5cA 206 7.58e-01 1lgyA 269 7.60e-01 3tgl c.69.1.17 34758 2qdfA 335 7.79e-01 3gmgA 170 8.39e-01 3ezuA 342 8.81e-01 3d36A 244 9.52e-01 2jjhA 449 1.17e+00 2cjgA 449 1.22e+00 2jjfA 449 1.22e+00 2pqmA 343 1.24e+00 2jjeA 449 1.30e+00 2j5gA 263 1.31e+00 1r8gA 372 1.45e+00 d.128.1.3 104845 1jx4A 352 1.59e+00 d.240.1.1 90378 e.8.1.7 90379 3hvaA 177 1.81e+00 3gjzA 336 1.96e+00 2jejA 358 2.32e+00 d.240.1.1 138284 e.8.1.7 138285 1zuoA 186 2.50e+00 d.20.1.1 125680 1rhyA 202 2.60e+00 d.14.1.9 97491 d.14.1.9 97492 1zn8A 180 2.64e+00 c.61.1.1 125376 1duvG 333 2.66e+00 1othA c.78.1.1 35228 c.78.1.1 35229 2hk0A 309 2.82e+00 2aydA 76 2.91e+00 1vkwA 218 3.12e+00 d.90.1.2 108695 1im4A 221 3.23e+00 e.8.1.7 62581 1tgoA 773 3.35e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1taq 832 3.38e+00 1taq 2diuA 96 3.52e+00 3khrA 341 3.55e+00 1tz9A 367 3.86e+00 c.1.15.6 107466 2p3nA 256 3.93e+00 3h4tA 404 3.97e+00 3kruA 343 3.98e+00 2pp6A 102 3.98e+00 b.106.1.2 149728 1ps9A 671 4.01e+00 c.1.4.1 95076 c.3.1.1 95077 c.4.1.1 95078 2ntkA 222 4.03e+00 d.153.2.1 138583 1kuuA 202 4.05e+00 d.153.2.1 73019 3gqcA 504 4.11e+00 2z61A 370 4.36e+00 2ps1A 226 4.42e+00 1n7kA 234 4.46e+00 c.1.10.1 85374 3hywA 430 4.59e+00 2ftpA 302 4.83e+00 3kezA 461 4.89e+00 1mx0A 472 4.97e+00 a.156.1.3 79618 d.14.1.3 79619 d.122.1.2 79620 1m41A 380 5.10e+00 c.1.16.4 78595 1hjxA 362 5.18e+00 c.1.8.5 83512 d.26.3.1 83513 2hzgA 401 5.27e+00 1o4sA 389 5.29e+00 c.67.1.1 86620 1vqtA 213 5.40e+00 c.1.2.3 120417 1w5fA 353 5.51e+00 c.32.1.1 114247 d.79.2.1 114248 1nqkA 381 5.58e+00 c.1.16.4 92050 1jmtA 104 5.72e+00 d.58.7.3 63180 2v0hA 456 5.90e+00 1mioB 458 5.92e+00 1qguB c.92.2.3 35602 3m7vA 413 5.96e+00 3dffA 273 6.16e+00 2gaiA 633 6.17e+00 2nq5A 755 6.18e+00 1atzA 189 6.54e+00 1atzA c.62.1.1 34132 1ta9A 450 6.54e+00 2i09A 403 6.57e+00 c.76.1.5 136946 d.327.1.1 136947 2q8pA 260 6.67e+00 2pg1A 91 6.85e+00 d.39.1.1 139684 1t2dA 322 6.91e+00 c.2.1.5 99084 d.162.1.1 99085 2hkjA 469 6.91e+00 a.156.1.3 136553 d.14.1.3 136554 d.122.1.2 136555 2rilA 99 6.94e+00 2g0bA 198 6.99e+00 2fyxA 143 7.01e+00 d.58.57.1 134411 2vwkA 773 7.02e+00 c.55.3.5 153677 e.8.1.1 153678 3i4jA 430 7.14e+00 2igbA 179 7.17e+00 c.61.1.1 147655 1yzyA 413 7.42e+00 c.146.1.1 124292 1ltlA 279 7.57e+00 b.40.4.11 84701 1n3lA 372 7.99e+00 c.26.1.1 79966 2zbiA 292 8.21e+00 1e15A 499 8.34e+00 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 2qyfB 240 9.05e+00 3kxwA 590 9.11e+00 3hgjA 349 9.22e+00 2pgfA 371 9.23e+00 3fsiA 255 9.57e+00 3fy1A 395 9.75e+00 2o0rA 411 9.95e+00 1vm6A 228 1.01e+01 c.2.1.3 118631 d.81.1.3 108877 3douA 191 1.02e+01 3hdoA 360 1.04e+01 1qr7A 350 1.06e+01 1qr7A c.1.10.4 29191 1bdb 277 1.08e+01 1bdb 1bdbA 277 1.08e+01 c.2.1.2 29874 1xcgA 368 1.08e+01 a.87.1.1 115120 b.55.1.1 115121 2b81A 323 1.08e+01 1wj2A 78 1.11e+01 g.79.1.1 114689 1mu5A 471 1.11e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 2nvpA 435 1.14e+01 a.102.1.8 148478 2pi6A 361 1.15e+01 c.1.8.5 149501 d.26.3.1 149502 2i5eA 211 1.16e+01 c.68.1.21 147510 3g68A 352 1.17e+01 2vg0A 227 1.19e+01 2ga9D 469 1.19e+01 e.69.1.1 145190 3lxxA 239 1.21e+01 3glcA 295 1.21e+01 3emxA 135 1.24e+01 2r9iA 141 1.25e+01 1uluA 261 1.25e+01 c.2.1.2 113292 2v8pA 271 1.26e+01 2es7A 142 1.27e+01 c.47.1.20 132314 1ve2A 235 1.28e+01 c.90.1.1 120008 1j2rA 199 1.28e+01 c.33.1.3 90788 1kssA 571 1.29e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1cmiA 85 1.30e+01 1cmiA d.39.1.1 38551 1q5qA 259 1.30e+01 d.153.1.4 95904 1pea 385 1.33e+01 1pea 1peaA 385 1.33e+01 c.93.1.1 35662 1mml 265 1.34e+01 1mml 1mmlA 265 1.34e+01 e.8.1.2 43015 1ldg 316 1.34e+01 1ceqA 2q8uA 336 1.37e+01 1gwiA 411 1.44e+01 a.104.1.1 76364 2z67A 456 1.47e+01 c.67.1.9 154170 3hkmA 246 1.48e+01 1n91A 108 1.54e+01 d.206.1.1 80326 1n8fA 350 1.54e+01 c.1.10.4 85397 1qd1A 325 1.54e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 2apjA 260 1.55e+01 c.23.10.7 127128 3biyA 380 1.55e+01 3gedA 247 1.56e+01 1j93A 353 1.56e+01 c.1.22.1 66454 3tglA 269 1.58e+01 c.69.1.17 34733 3guyA 230 1.58e+01 3g6mA 406 1.60e+01 3k2gA 364 1.63e+01 2wmiA 606 1.64e+01 2clbA 188 1.65e+01 1eokA 290 1.66e+01 1eokA c.1.8.5 28991 1aj8A 371 1.69e+01 1aj8A a.103.1.1 18900 1gm5A 780 1.71e+01 a.24.21.1 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 3drnA 161 1.72e+01 1bf6A 291 1.75e+01 1pscA c.1.9.3 29065 1flmA 122 1.77e+01 1axj b.45.1.1 25747 1o7dA 298 1.79e+01 c.6.2.1 86641 1gg1A 350 1.81e+01 1qr7A c.1.10.4 29187 2qh9A 184 1.82e+01 1o98A 511 1.82e+01 c.105.1.1 86684 c.76.1.3 86685 1ne9A 335 1.83e+01 d.108.1.4 91839 d.108.1.4 91840 1e6pA 499 1.84e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1ejjA 511 1.84e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 3cg0A 140 1.86e+01 1edoA 244 1.88e+01 1ybvA c.2.1.2 29896 2hrzA 342 1.89e+01 1j5uA 136 1.92e+01 d.208.1.1 71584 1q9iA 571 1.93e+01 a.138.1.3 96273 c.3.1.4 96274 d.168.1.1 96275 2wmkA 606 1.94e+01 2ejcA 280 1.96e+01 2i1mA 333 1.98e+01 1f75A 249 2.00e+01 1f75A c.101.1.1 59662 1lg2A 365 2.00e+01 c.1.8.5 77950 d.26.3.1 77951 3l8hA 179 2.02e+01 2omkA 231 2.04e+01 2q02A 272 2.05e+01 c.1.15.4 149978 5nul 138 2.07e+01 5nul 5nulA 138 2.07e+01 c.23.5.1 31191 1nvpD 108 2.08e+01 a.32.1.1 92213 b.56.1.1 92214 1wb0A 445 2.10e+01 c.1.8.5 120825 d.26.3.1 120826 2zdsA 340 2.11e+01 1ao3A 187 2.11e+01 1atzA c.62.1.1 34134 2pjhB 193 2.13e+01 b.52.2.3 149563 d.31.1.1 149564 2wmiB 606 2.15e+01 3dhnA 227 2.16e+01 5nllA 138 2.18e+01 c.23.5.1 31198 1zghA 260 2.18e+01 b.46.1.1 125028 c.65.1.1 125029 2bj7A 138 2.20e+01 a.43.1.3 128608 d.58.18.4 128609 1hkkA 364 2.21e+01 c.1.8.5 90634 d.26.3.1 90635 3lcdA 329 2.22e+01 3bzwA 274 2.22e+01 c.23.10.9 155792 3e70C 328 2.22e+01 2rgyA 290 2.23e+01 2w3wA 167 2.23e+01 2wlvA 144 2.24e+01 3er9B 479 2.27e+01 1yo3A 102 2.28e+01 2dplA 308 2.29e+01 3cuqB 218 2.29e+01 1nh9A 87 2.29e+01 d.68.6.1 91878 1squA 155 2.30e+01 d.252.1.1 98971 3gd4A 511 2.33e+01 3eleA 398 2.33e+01 1b9hA 388 2.34e+01 1b9hA c.67.1.4 34488 1m64A 571 2.36e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1y0pA 571 2.36e+01 a.138.1.3 122507 c.3.1.4 122508 d.168.1.1 122509 3h5nA 353 2.37e+01 1zfjA 491 2.38e+01 1ak5 c.1.5.1 28638 d.37.1.1 144739 2j3mA 572 2.40e+01 1goiA 499 2.40e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1ursA 402 2.42e+01 c.94.1.1 99833 1wouA 123 2.42e+01 c.47.1.16 109471 2i44A 324 2.43e+01 1xrsA 516 2.44e+01 c.1.19.4 115883 2fdsA 352 2.46e+01 c.1.2.3 133320 2vpnA 316 2.47e+01 2a3nA 355 2.48e+01 2ifaA 208 2.49e+01 d.90.1.1 137329 1iooA 196 2.50e+01 d.124.1.1 71250 1pyiA 96 2.53e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 2e12A 101 2.57e+01 1e39A 571 2.59e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 3h5aA 358 2.59e+01 2aqwA 332 2.61e+01 c.1.2.3 127184 3htnA 149 2.63e+01 3ikfA 166 2.65e+01 3fwmA 751 2.72e+01 3bdkA 386 2.75e+01 2dvtA 327 2.75e+01 c.1.9.15 131793 1ceqA 316 2.77e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 3gycA 393 2.79e+01 1mvwA 840 2.83e+01 i.15.1.1 79523 1ykdA 398 2.84e+01 3fwyA 314 2.84e+01 3gkrA 336 2.84e+01 1wotA 98 2.87e+01 d.218.1.5 109470 2hhjA 267 2.92e+01 c.60.1.1 136497 1m1nB 522 2.93e+01 c.92.2.3 78418 2isbA 192 2.95e+01 c.8.9.1 137601 2hl0A 143 2.95e+01 1w9iA 770 2.98e+01 1g6oA 330 2.98e+01 1g6oA c.37.1.11 32430 2qhpA 296 3.02e+01 2go8A 122 3.05e+01 d.58.4.5 147144 2sns 149 3.08e+01 1snc 2snsA 149 3.08e+01 b.40.1.1 24860 2o2yA 349 3.08e+01 c.2.1.2 138894 2dfaA 250 3.11e+01 c.6.2.5 131469 2p5yA 311 3.13e+01 1t82A 155 3.14e+01 d.38.1.5 106639 2f6kA 307 3.19e+01 c.1.9.15 133047 1df7A 159 3.22e+01 3dfr c.71.1.1 34885 1p2hA 571 3.23e+01 a.138.1.3 93930 c.3.1.4 93931 d.168.1.1 93932 1cuk 203 3.24e+01 1hjp 1cukA 203 3.24e+01 a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 2wp8B 246 3.28e+01 2b4rO 345 3.28e+01 c.2.1.3 127845 d.81.1.1 127846 1efuA 385 3.30e+01 1efcA b.43.3.1 25682 b.44.1.1 25722 c.37.1.8 32115 1nv8A 284 3.30e+01 c.66.1.30 86224 3czqA 304 3.33e+01 3by9A 260 3.34e+01 1jkeA 145 3.35e+01 c.110.1.1 66791 1f3cA 89 3.36e+01 1cmiA d.39.1.1 38557 1zud1 251 3.42e+01 1io1A 398 3.42e+01 1io1A e.32.1.1 62611 3lerA 301 3.43e+01 3k9dA 464 3.44e+01 3e5xA 250 3.55e+01 1tm0A 350 3.57e+01 d.21.1.3 107147 1ki1B 352 3.57e+01 a.87.1.1 72497 b.55.1.1 72498 3a5xA 494 3.57e+01 3cz8A 319 3.58e+01 1wmhA 89 3.58e+01 d.15.2.2 114744 2pgnA 589 3.58e+01 2vqxA 341 3.59e+01 1lwyA 324 3.59e+01 a.96.1.3 78285 d.129.1.2 78286 3ioyA 319 3.59e+01 1a2zA 220 3.61e+01 1a2zA c.56.4.1 33794 3k28A 429 3.61e+01 1ps1A 337 3.63e+01 1ps1A a.128.1.4 19450 3gbhA 213 3.63e+01 1ltqA 301 3.67e+01 c.108.1.9 78208 c.37.1.1 78209 2ixoA 323 3.67e+01 a.268.1.1 137779 2e3zA 465 3.67e+01 3futA 271 3.69e+01 3cc1A 433 3.72e+01 1v9wA 130 3.75e+01 c.47.1.16 108453 1vqoF 120 3.75e+01 d.79.3.1 120368 3k1rA 192 3.77e+01 1ebmA 317 3.78e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1qsaA 618 3.79e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 2z15A 130 3.80e+01 d.370.1.1 153921 1d2kA 392 3.81e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 3hhyA 280 3.82e+01 1p3hA 99 3.87e+01 b.35.1.1 87734 2r79A 283 3.88e+01 1snyA 267 3.90e+01 c.2.1.2 105833 1b76A 442 3.92e+01 1atiA c.51.1.1 33198 d.104.1.1 40747 1fbnA 230 3.94e+01 1fbnA c.66.1.3 34181 3l5lA 363 3.95e+01 3l68A 363 3.95e+01 1vljA 407 3.98e+01 e.22.1.2 108832