# 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 1nfjA 89 2.51e-21 1h0xA 100 3.28e-20 d.68.6.1 76451 1nh9A 87 5.11e-20 1udvA 89 3.81e-10 1r7aA 504 1.40e-01 1j5rA 371 2.54e-01 1ml8A 134 2.77e-01 d.227.1.2 85013 1o2dA 371 4.71e-01 e.22.1.2 86591 1seiA 130 6.14e-01 1seiA d.140.1.1 41463 1fbaA 361 8.41e-01 1fbaA c.1.10.1 29120 1cz3A 168 9.21e-01 1d1gA c.71.1.1 34891 1lxnA 99 9.82e-01 d.58.48.1 84737 2pia 321 1.07e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1d1gA 168 1.21e+00 1d1gA c.71.1.1 34889 1bpyA 335 1.28e+00 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1odkA 235 1.54e+00 c.56.2.1 86863 1aky 221 1.64e+00 1zin c.37.1.1 31896 g.41.2.1 45197 1draA 159 1.68e+00 1vdrA c.71.1.1 34831 1k4nA 192 1.81e+00 d.32.1.5 72059 1bpb 248 1.89e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1jmkC 230 1.90e+00 c.69.1.22 71747 1oxkB 134 2.01e+00 1hq3B 126 2.39e+00 1aoiD a.22.1.1 16444 1px5A 349 2.41e+00 1rpl 251 2.43e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1qm4A 396 2.44e+00 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1oi7A 288 2.48e+00 c.2.1.8 87049 c.23.4.1 87050 1bq3B 246 2.48e+00 1qhfA c.60.1.1 33979 1gveA 327 2.51e+00 c.1.7.1 70597 1bu5A 147 2.69e+00 5nul c.23.5.1 31155 1f4pA 147 3.00e+00 5nul c.23.5.1 59651 1j9eA 147 3.01e+00 c.23.5.1 62756 1hu4A 288 3.19e+00 1hu4A 1n5dA 288 3.19e+00 c.2.1.2 80030 1e58A 249 3.21e+00 1qhfA c.60.1.1 59262 1vhwA 253 3.70e+00 1rlkA 117 3.97e+00 1ra9 159 4.21e+00 1vdrA c.71.1.1 34820 1g5hA 454 4.22e+00 1g5hA c.51.1.1 60270 d.104.1.1 60271 1lxjA 104 4.32e+00 d.58.48.1 84736 1xyzA 347 4.34e+00 1taxA c.1.8.3 28804 2frvA 264 4.75e+00 2frvA e.19.1.1 43303 1q8rA 120 4.81e+00 1nwaA 203 4.85e+00 d.58.28.1 86295 1h1wA 289 5.09e+00 d.144.1.7 83460 1hzpA 335 5.28e+00 1hn9A c.95.1.1 61455 c.95.1.1 61456 1j5xA 342 5.36e+00 c.80.1.1 71591 1nom 248 5.47e+00 1bpyA a.60.12.1 75929 d.218.1.2 75930 1io2A 213 5.66e+00 1ekeA c.55.3.1 62612 1nzjA 298 5.75e+00 1j09A 468 5.78e+00 a.97.1.1 77025 c.26.1.1 77026 1pbn 289 5.93e+00 1b8oA c.56.2.1 33771 6dfr 159 6.07e+00 1vdrA c.71.1.1 34874 1ukuA 102 6.09e+00 1wba 175 6.21e+00 1wba b.42.4.1 25591 1nxcA 478 6.22e+00 1pg5A 299 6.49e+00 1jubA 311 6.51e+00 1dtdA 303 6.68e+00 1aye c.56.5.1 33823 1luaA 287 6.81e+00 c.2.1.7 78216 c.58.1.4 78217 1g59A 468 7.05e+00 a.97.1.1 60257 c.26.1.1 60258 1i50K 120 7.13e+00 d.74.3.2 61765 1qgoA 264 7.68e+00 1qgoA c.92.1.2 35596 1l3iA 192 7.78e+00 c.66.1.22 77676 1eqtA 68 7.92e+00 1b3aA d.9.1.1 37412 1b3aA 67 7.93e+00 1b3aA d.9.1.1 37410 1qhfA 240 7.97e+00 1qhfA c.60.1.1 33960 2fx2 147 8.16e+00 1rcf c.23.5.1 31158 1m7gA 211 8.29e+00 c.37.1.4 78724 1k75A 434 8.30e+00 c.82.1.2 68253 1gln 468 8.67e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1kzhA 555 9.13e+00 c.89.1.1 73361 3ldh 330 9.35e+00 3ldh i.12.1.1 46015 1p42A 270 9.88e+00 d.14.1.7 87754 d.14.1.7 87755 1kamA 194 9.90e+00 c.26.1.3 72254 1kmiZ 214 1.01e+01 h.4.11.1 72752 1cf2O 337 1.02e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1i1gA 141 1.03e+01 a.4.5.32 65982 d.58.4.2 65983 1pswA 348 1.05e+01 c.87.1.7 88287 1ir6A 424 1.09e+01 c.107.1.2 71342 2bby 69 1.10e+01 2bby a.4.5.15 16148 1kp0A 402 1.14e+01 c.55.2.1 72834 d.127.1.1 72835 1kvdB 77 1.16e+01 1kveB 1kveB 77 1.16e+01 1kveB 1aye 401 1.23e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1m3uA 264 1.23e+01 c.1.12.8 84784 1jo0A 98 1.27e+01 d.68.4.1 77140 1aoeA 192 1.30e+01 1aoeA c.71.1.1 34923 1mbxC 106 1.31e+01 d.45.1.2 78929 1qgdA 662 1.32e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1jp4A 308 1.32e+01 1jp4A e.7.1.1 63223 1mku 123 1.35e+01 1poa a.133.1.2 19590 1humA 69 1.35e+01 1b3aA d.9.1.1 37397 1lu9A 287 1.35e+01 c.2.1.7 78210 c.58.1.4 78211 1hyeA 313 1.36e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1b65A 375 1.36e+01 1b65A d.154.1.1 42020 1h0cA 392 1.39e+01 c.67.1.3 83424 1ldg 316 1.41e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1jem 87 1.42e+01 1ptf d.94.1.1 40548 1rxyA 253 1.44e+01 1pwhA 327 1.45e+01 1lx7A 253 1.48e+01 c.56.2.1 74329 1r9fA 136 1.49e+01 1krhA 338 1.49e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1tdj 514 1.50e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1pbtA 244 1.52e+01 2dorA 311 1.57e+01 2dorA c.1.4.1 28593 1dz4A 414 1.59e+01 1phd a.104.1.1 18903 6ldh 330 1.61e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1v1rB 342 1.63e+01 1kaeA 434 1.66e+01 c.82.1.2 72247 1rkuA 206 1.66e+01 1b7gO 340 1.67e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1cp2A 269 1.68e+01 1cp2A c.37.1.10 32269 1gvnB 287 1.75e+01 c.37.1.21 76354 1akr 147 1.77e+01 1rcf c.23.5.1 31152 1gxuA 91 1.78e+01 d.58.10.1 76378 2bopA 85 1.78e+01 2bopA d.58.8.1 39217 1fnmA 691 1.78e+01 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 1h5qA 265 1.80e+01 1cydA c.2.1.2 60643 1t2dA 322 1.82e+01 1nslA 184 1.82e+01 d.108.1.1 86137 1ln4A 104 1.83e+01 d.68.4.1 74043 1avqA 228 1.86e+01 1avqA c.52.1.13 33326 1v54E 109 1.89e+01 1gz6A 319 1.89e+01 c.2.1.2 76410 1iu8A 206 1.90e+01 c.56.4.1 71436 1b8oA 284 1.93e+01 1b8oA c.56.2.1 33762 1nr3A 122 1.95e+01 d.236.1.1 86092 2occE 109 1.97e+01 2occE a.118.11.1 19224 1gikA 261 1.98e+01 1g1eB 89 2.02e+01 1g1eB a.59.1.1 17931 1qmqA 414 2.02e+01 1phd a.104.1.1 18907 1nrwA 288 2.05e+01 c.108.1.10 86128 1olsB 342 2.07e+01 1phd 414 2.09e+01 1phd a.104.1.1 18913 1phg 414 2.10e+01 1phd a.104.1.1 18910 1rztA 331 2.11e+01 1h7wB 1025 2.16e+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 1sphA 88 2.16e+01 1ptf d.94.1.1 40544 1ceqA 316 2.18e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 5cpp 414 2.19e+01 1phd a.104.1.1 18935 1e3tA 203 2.19e+01 1d4oA c.31.1.4 31749 1j1qA 261 2.19e+01 1nijA 318 2.26e+01 c.37.1.10 85741 d.237.1.1 85742 1uu3A 310 2.26e+01 1iz7A 295 2.32e+01 c.69.1.8 76982 1cv2A 296 2.34e+01 1bn6A c.69.1.8 34680 1uzbA 516 2.36e+01 3grx 82 2.36e+01 1aba c.47.1.1 32769 1ipaA 274 2.42e+01 c.116.1.1 71254 d.79.3.3 71255 1gt8D 1025 2.42e+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 1o66A 275 2.45e+01 1h7wD 1025 2.48e+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 1g4iA 123 2.52e+01 1poa a.133.1.2 60241 1k6iA 352 2.56e+01 c.2.1.2 68223 1i7pA 274 2.57e+01 b.43.4.2 66048 c.25.1.1 66049 1ctf 74 2.57e+01 1ctf d.45.1.1 38759 1lct 333 2.57e+01 1cb6A c.94.1.2 35836 1k6xA 352 2.58e+01 c.2.1.2 68238 1gteA 1025 2.63e+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 1trb 320 2.68e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1une 123 2.70e+01 1poa a.133.1.2 19583 1cb6A 691 2.70e+01 1cb6A c.94.1.2 35840 c.94.1.2 35841 1b00A 127 2.71e+01 3chy c.23.1.1 31122 1bby 69 2.73e+01 2bby a.4.5.15 16149 1j9jA 247 2.77e+01 c.106.1.1 62758 1vk0A 206 2.80e+01 1dorA 311 2.80e+01 2dorA c.1.4.1 28595 1ojaA 520 2.85e+01 1i6uA 130 2.87e+01 d.140.1.1 61850 1m2eA 135 2.87e+01 c.23.1.5 78478 1k3fA 253 2.90e+01 c.56.2.1 68105 1gthB 1025 2.93e+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 1dbwA 126 2.94e+01 1dbwA c.23.1.1 31095 1t2aA 375 2.98e+01 1cliA 345 2.98e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1gt8A 1025 2.99e+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 1o89A 345 3.03e+01 1gteD 1025 3.04e+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 1h7wA 1025 3.05e+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 3.06e+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 1rg9A 383 3.06e+01 2pgd 482 3.13e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1bn6A 294 3.13e+01 1bn6A c.69.1.8 34678 1fuiA 591 3.17e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1hi0P 664 3.17e+01 1hi0P e.8.1.6 61051 1s3eA 520 3.23e+01 1h7xA 1025 3.30e+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 1ej6B 1275 3.30e+01 i.7.1.1 45968 4bp2 130 3.31e+01 1poa a.133.1.2 19584 1h7xD 1025 3.31e+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 1b7eA 420 3.33e+01 1b7eA c.55.3.4 33680 1bn7A 294 3.36e+01 1bn6A c.69.1.8 34677 1squA 155 3.38e+01 1gt8B 1025 3.41e+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 1mxb 383 3.44e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1eokA 290 3.45e+01 1eokA c.1.8.5 28991 1h7xC 1025 3.45e+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 1lvl 458 3.46e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1cqwA 295 3.50e+01 1b6g c.69.1.8 34679 1elkA 157 3.51e+01 1dvpA a.118.9.2 19217 1phb 414 3.52e+01 1phd a.104.1.1 18906 1kngA 156 3.53e+01 c.47.1.10 72777 1q1rA 431 3.59e+01 3pnp 289 3.61e+01 1b8oA c.56.2.1 33763 1skyB 502 3.68e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1kfiA 572 3.70e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1dtwB 342 3.71e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1g60A 260 3.74e+01 c.66.1.11 70151 1lssA 140 3.79e+01 c.2.1.9 74246 1fecA 490 3.87e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1m5yA 408 3.89e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 3pgm 241 3.93e+01 1qhfA c.60.1.1 33982 1bhjA 292 3.95e+01 1xvaA c.66.1.5 34189 1a8s 273 3.96e+01 1brt c.69.1.12 34710 1uvjA 664 3.96e+01