# 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.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 1az9 457 6.77e-62 1az9 c.55.2.1 33547 d.127.1.1 41164 1a16 440 2.74e-61 1az9 c.55.2.1 33548 d.127.1.1 41165 1wy2A 351 7.52e-61 1pv9A 348 2.65e-60 c.55.2.1 95157 d.127.1.1 95158 1chmA 401 4.73e-37 1chmA c.55.2.1 33545 d.127.1.1 41142 1kp0A 402 1.84e-35 c.55.2.1 72834 d.127.1.1 72835 4matA 278 7.64e-31 1c24A d.127.1.1 41150 1xnzA 264 9.69e-31 2matA 264 1.02e-30 1c24A d.127.1.1 41146 1c24A 263 1.44e-30 1c24A d.127.1.1 41148 1mat 264 1.48e-30 1c24A d.127.1.1 41152 1o0xA 262 2.16e-27 d.127.1.1 80755 1qxyA 252 3.32e-25 d.127.1.1 96565 1xgsA 295 2.74e-18 1bn5 a.4.5.25 16216 d.127.1.1 41153 1b6a 478 8.60e-13 1bn5 a.4.5.25 16223 d.127.1.1 41160 1bn5 478 9.22e-13 1bn5 a.4.5.25 16224 d.127.1.1 41161 1t0fA 276 9.87e-02 1f1zA 273 1.83e-01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1faoA 126 6.99e-01 1faoA b.55.1.1 26974 1b24A 188 8.54e-01 1b24A d.95.2.1 40573 d.95.2.1 40574 1fxzA 476 1.63e+00 b.82.1.2 65059 b.82.1.2 65060 1w5nA 337 1.67e+00 1fyhA 258 1.71e+00 1d9cA a.26.1.3 16907 a.26.1.3 16908 1r89A 437 2.05e+00 a.160.1.3 97221 d.218.1.7 97222 d.58.16.2 97223 1uarA 285 2.08e+00 1rd5A 262 2.11e+00 1ub0A 258 2.14e+00 c.72.1.2 88394 1gzgA 337 2.21e+00 c.1.10.3 70805 1l2lA 457 2.28e+00 c.72.1.3 77656 1avbA 226 2.28e+00 1led b.29.1.1 24158 1b4kA 337 2.30e+00 1b4kA c.1.10.3 29184 1rwtA 232 2.30e+00 f.43.1.1 97992 1ofuA 320 2.53e+00 c.32.1.1 86972 d.79.2.1 86973 1hjzA 192 2.63e+00 c.50.1.2 83520 1ia6A 441 2.76e+00 a.102.1.2 76738 1dtwB 342 2.91e+00 1qs0B c.36.1.7 31828 c.48.1.2 33102 1ew6A 137 3.08e+00 1ewaA a.1.1.2 15637 1ewaA 137 3.08e+00 1ewaA a.1.1.2 15639 1fnnA 389 3.24e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1vkcA 158 3.56e+00 1fqvJ 149 3.57e+00 1fqvD a.157.1.1 19266 d.42.1.1 38670 1jx4A 352 3.59e+00 d.240.1.1 90378 e.8.1.7 90379 1cqzA 554 3.61e+00 1cr6B c.108.1.2 43339 c.69.1.11 34689 1kv7A 488 3.74e+00 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1vhuA 211 3.74e+00 c.50.1.2 100703 1x7yB 342 3.84e+00 1ks8A 433 4.03e+00 a.102.1.2 77519 1cr6B 554 4.05e+00 1cr6B c.108.1.2 43338 c.69.1.11 34688 1h5qA 265 4.07e+00 1cydA c.2.1.2 60643 1lylA 504 4.10e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1ew6B 137 4.17e+00 1ewaA a.1.1.2 15638 1io2A 213 4.42e+00 1ekeA c.55.3.1 62612 1fqvD 149 4.44e+00 1fqvD a.157.1.1 19263 d.42.1.1 38667 1yr0A 175 4.45e+00 1a4iA 301 4.54e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1tyv 542 4.57e+00 1tyv b.80.1.6 28038 1tyu 543 4.82e+00 1tyv b.80.1.6 28037 1rp4A 389 5.04e+00 1olsB 342 5.24e+00 c.36.1.7 93332 c.48.1.2 93333 2gbp 309 5.48e+00 1gca c.93.1.1 35657 1gp4A 356 5.54e+00 b.82.2.1 65439 1qnf 484 5.81e+00 1qnf a.99.1.1 18777 c.28.1.1 31632 1owlA 484 5.93e+00 a.99.1.1 93647 c.28.1.1 93648 1jr3E 334 6.18e+00 a.80.1.1 63253 c.37.1.20 63254 1e1oA 504 6.24e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1tsp 559 6.57e+00 1tyv b.80.1.6 28044 1gp6A 356 6.64e+00 b.82.2.1 65441 1nkoA 132 6.70e+00 b.1.1.1 85829 1pdo 135 6.72e+00 1pdo c.54.1.1 33376 1fnmA 691 6.78e+00 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1v1rB 342 7.38e+00 1y0eA 223 7.72e+00 1mv8A 436 8.07e+00 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1obr 326 8.20e+00 1aye c.56.5.2 33828 1j09A 468 8.29e+00 a.97.1.1 77025 c.26.1.1 77026 1diaA 306 8.44e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1cm7A 363 8.45e+00 1cnzA c.77.1.1 35063 1cdwA 179 8.68e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1pty 321 8.81e+00 1pty c.45.1.2 32656 1g59A 468 8.86e+00 a.97.1.1 60257 c.26.1.1 60258 1amoA 615 9.24e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1ihmA 530 9.25e+00 1ihmA b.121.4.3 62385 1cnzA 363 9.35e+00 1cnzA c.77.1.1 35061 1o7sA 127 9.38e+00 b.1.1.1 86644 1qa1A 554 9.55e+00 1tyv b.80.1.6 28047 1jqjC 343 9.57e+00 a.80.1.1 67097 c.37.1.20 67098 1hl9A 449 9.79e+00 b.71.1.3 90650 c.1.8.11 90651 1gca 309 9.85e+00 1gca c.93.1.1 35659 1qo7A 394 9.90e+00 1qo7A c.69.1.11 34697 1w5fA 353 1.02e+01 1ax0 239 1.06e+01 1led b.29.1.1 24042 1eeoA 321 1.07e+01 1pty c.45.1.2 32655 1b6tA 159 1.07e+01 1b6tA c.26.1.3 31600 1nh1A 330 1.09e+01 e.45.1.1 91871 1vpdA 299 1.10e+01 1q6hA 224 1.11e+01 d.26.1.1 95975 1gthB 1025 1.11e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1gzcA 239 1.13e+01 b.29.1.1 70803 1q18A 332 1.13e+01 1i12A 160 1.17e+01 1i21A d.108.1.1 61515 1juk 248 1.20e+01 1a53 c.1.2.4 28567 1fjgB 256 1.20e+01 1fjfB c.23.15.1 31400 1iw7C 1119 1.21e+01 e.29.1.1 71474 1v4aA 440 1.21e+01 1dar 691 1.22e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1dkxA 219 1.24e+01 1dkzA a.8.4.1 90339 b.130.1.1 90340 1vhnA 318 1.27e+01 c.1.4.1 100693 1o1fC 147 1.30e+01 i.15.1.1 80997 1igs 248 1.31e+01 1a53 c.1.2.4 28565 1ltlA 279 1.32e+01 b.40.4.11 84701 1rwiA 270 1.32e+01 b.68.9.1 97987 1eejA 216 1.34e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1n3lA 372 1.34e+01 c.26.1.1 79966 1b8aA 438 1.35e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1qltA 560 1.35e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1mlvA 444 1.36e+01 a.166.1.1 79283 b.85.7.3 79284 1g6oA 330 1.38e+01 1g6oA c.37.1.11 32430 2hnp 321 1.39e+01 1pty c.45.1.2 32678 1wr8A 231 1.39e+01 1qq1A 559 1.40e+01 1tyv b.80.1.6 28041 1tidB 119 1.44e+01 1x9gA 200 1.46e+01 1j58A 385 1.47e+01 b.82.1.2 71531 1lehA 364 1.48e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1muhA 481 1.48e+01 c.55.3.4 79485 1mgn 154 1.49e+01 1a6m a.1.1.2 15097 1ecl 597 1.53e+01 1ecl e.10.1.1 43238 1l8qA 324 1.53e+01 a.4.12.2 77809 c.37.1.20 77810 1pea 385 1.57e+01 1pea c.93.1.1 35662 1bykA 255 1.58e+01 1bykA c.93.1.1 35706 1f20A 435 1.58e+01 b.43.4.1 64932 c.25.1.4 64933 1qjcA 158 1.59e+01 1b6tA c.26.1.3 63328 1ptvA 321 1.60e+01 1pty c.45.1.2 32665 1vc1A 110 1.66e+01 1b1cA 181 1.67e+01 1amoA c.23.5.2 31212 1qycA 308 1.69e+01 c.2.1.2 96581 1cb6A 691 1.71e+01 1cb6A c.94.1.2 35840 c.94.1.2 35841 1e8gA 560 1.71e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1nipA 289 1.72e+01 1cp2A c.37.1.10 32263 1uyrA 737 1.72e+01 c.14.1.4 100188 c.14.1.4 100189 1a53 247 1.73e+01 1a53 c.1.2.4 28564 1umdB 324 1.74e+01 c.36.1.7 99600 c.48.1.2 99601 1nar 290 1.74e+01 1nar c.1.8.5 28988 1dxy 333 1.76e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 9gafA 295 1.79e+01 1apyA d.153.1.5 42008 1dkzA 219 1.80e+01 1dkzA a.8.4.1 90345 b.130.1.1 90346 1i1dA 161 1.84e+01 1i21A d.108.1.1 61526 1s72M 194 1.85e+01 1qxhA 167 1.86e+01 c.47.1.10 96528 1ja9A 274 1.89e+01 c.2.1.2 62817 1i21A 159 1.90e+01 1i21A d.108.1.1 61549 1pvtA 238 1.91e+01 c.74.1.1 95189 1fb6A 105 1.91e+01 1thx c.47.1.1 32739 1gq2A 555 1.92e+01 c.2.1.7 70308 c.58.1.3 70309 1tu1A 148 1.94e+01 1jq3A 296 1.95e+01 c.66.1.17 67079 1w1kA 560 1.96e+01 1pa1A 310 1.97e+01 c.45.1.2 94404 1ffkB 338 2.00e+01 1ffkB b.43.3.2 25719 1hx0A 496 2.00e+01 b.71.1.1 61346 c.1.8.1 61347 1gthC 1025 2.01e+01 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1vqsA 116 2.03e+01 1xfkA 336 2.05e+01 1musA 477 2.05e+01 c.55.3.4 79494 1gc5A 467 2.08e+01 1gc5A c.72.1.3 60429 1cd1A 315 2.09e+01 1cd1A b.1.1.2 21579 d.19.1.1 38155 1x9zA 188 2.09e+01 1iakB 185 2.12e+01 1iakB b.1.1.2 21626 d.19.1.1 38200 1sz2A 332 2.13e+01 1d2qA 173 2.17e+01 1d4vB b.22.1.1 23894 1p4kA 295 2.22e+01 d.153.1.5 87772 1gteA 1025 2.22e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1r6xA 395 2.26e+01 b.122.1.3 97167 c.26.1.5 97168 1bvyF 191 2.27e+01 1bvyF c.23.5.1 31207 1g7fA 298 2.27e+01 1pty c.45.1.2 60330 1ja1A 622 2.29e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1w3jA 468 2.31e+01 1gln 468 2.31e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1tllA 688 2.33e+01 1i1rB 181 2.35e+01 1i1rB a.26.1.1 61548 1sviA 195 2.37e+01 1sgmA 191 2.41e+01 1ars 396 2.43e+01 1ajsA c.67.1.1 34287 1qr0A 228 2.45e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1f3iA 481 2.48e+01 1b7eA 1kjvA 284 2.48e+01 b.1.1.2 77421 d.19.1.1 77422 1hmcA 148 2.49e+01 1hmcB a.26.1.2 16867 1gzqA 300 2.49e+01 b.1.1.2 70818 d.19.1.1 70819 1vi1A 345 2.53e+01 c.77.1.4 100724 1gt8A 1025 2.55e+01 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1ddgA 374 2.57e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1g13A 162 2.59e+01 1g13A b.95.1.1 60194 1bzpA 153 2.60e+01 1a6m a.1.1.2 15020 1txoA 237 2.61e+01 1u4qA 322 2.68e+01 1mw9X 592 2.71e+01 e.10.1.1 91480 1jgcA 161 2.71e+01 a.25.1.1 66673 1hbzA 498 2.71e+01 1cf9A e.5.1.1 60937 1bx2B 191 2.73e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1ctt 294 2.74e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1w33A 181 2.75e+01 1v8hA 107 2.76e+01 1gthD 1025 2.76e+01 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 1ydwA 362 2.77e+01 1ek1A 554 2.77e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1h7wB 1025 2.77e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1imjA 210 2.78e+01 c.69.1.23 71246 1gthA 1025 2.80e+01 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1h7xD 1025 2.81e+01 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1uslA 170 2.81e+01 c.121.1.1 99871 1gt8C 1025 2.82e+01 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1vj5A 555 2.83e+01 c.108.1.2 100799 c.69.1.11 100800 1fofA 246 2.83e+01 1fofA e.3.1.1 42763 1r8eA 278 2.84e+01 1pu5A 164 2.86e+01 1bpr 191 2.86e+01 1dkzA b.130.1.1 43319 1bncA 449 2.86e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1cuk 203 2.88e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1gwcA 230 2.88e+01 a.45.1.1 70660 c.47.1.5 70661 1vl8A 267 2.90e+01 1mw7A 240 2.92e+01 e.39.1.1 79557 1gt8B 1025 2.93e+01 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1h7wA 1025 2.94e+01 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1h7xB 1025 2.95e+01 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1qtrA 317 2.96e+01 1qtrA c.69.1.7 34660 1h7xA 1025 2.97e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1aurA 218 2.98e+01 1auoA c.69.1.14 34718 1gteD 1025 3.00e+01 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1h7xC 1025 3.03e+01 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1bynA 128 3.04e+01 1rsy b.7.1.2 23193 1dgjA 907 3.07e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1ur5A 309 3.09e+01 c.2.1.5 99807 d.162.1.1 99808 1ddzA 496 3.14e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1ruwA 69 3.17e+01 1k2xA 177 3.20e+01 d.153.1.5 90929 1qg0A 308 3.22e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1p8cA 145 3.22e+01 a.152.1.2 94354 1h7wD 1025 3.23e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1guzA 310 3.23e+01 c.2.1.5 65586 d.162.1.1 65587 1bx4A 345 3.24e+01 1bx4A c.72.1.1 34935 1cgt 684 3.28e+01 1cxlA b.1.18.2 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1j0fA 100 3.29e+01 c.47.1.14 90739 1nf2A 268 3.30e+01 c.108.1.10 91849 1fp6A 289 3.32e+01 1cp2A c.37.1.10 32243 1hy3A 294 3.37e+01 c.37.1.5 71090 1nhcA 336 3.38e+01 b.80.1.3 91879 1ig8A 486 3.39e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1vaoA 560 3.40e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1gu3A 149 3.43e+01 b.18.1.14 76350 1vqtA 213 3.44e+01 1g3mA 294 3.47e+01 c.37.1.5 83268 1spa 396 3.48e+01 1ajsA c.67.1.1 34291 1sbzA 197 3.48e+01 1dpgA 485 3.51e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1ogiA 303 3.54e+01 b.43.4.2 92914 c.25.1.1 92915 1f52A 468 3.54e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1jmtA 104 3.56e+01 d.58.7.3 63180 1l7lA 121 3.57e+01 b.18.1.16 77790 1fts 295 3.61e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1b2rA 304 3.62e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1jayA 212 3.65e+01 c.2.1.6 66478 1rr7A 129 3.65e+01 1iwhA 141 3.67e+01 a.1.1.2 76882 3pmgA 561 3.67e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1nhkL 144 3.70e+01 1npk d.58.6.1 39142 1delA 241 3.71e+01 1dekA c.37.1.1 31844 1lgr 468 3.71e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1orvA 728 3.71e+01 b.70.3.1 87354 c.69.1.24 87355 1mb4A 370 3.73e+01 c.2.1.3 78908 d.81.1.1 78909 1qksA 567 3.74e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1jxhA 288 3.75e+01 c.72.1.2 67415 1gt8D 1025 3.75e+01 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 2spo 154 3.79e+01 1a6m a.1.1.2 15053 1tml 286 3.80e+01 1tml c.6.1.1 30656 1f74A 293 3.82e+01 1nal3 c.1.10.1 29079 2lgsA 468 3.83e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1m40A 263 3.85e+01 e.3.1.1 74437 1o97D 320 3.85e+01 c.26.2.3 81233 c.31.1.2 81234 1dv2A 452 3.91e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1josA 128 3.93e+01 d.52.7.1 84191