# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1vk1A 242 4.47e-03 d.268.1.2 108634 1xb4A 202 8.19e-02 1u5tC 202 2.83e-01 a.4.5.54,a.4.5.54 107688,107689 1fgs 428 1.29e+00 1fgs c.59.1.2,c.72.2.2 33959,34962 2bbhA 269 1.50e+00 1rboC 123 2.48e+00 1rboC d.73.1.1 39634 8rucI 123 2.48e+00 1rboC d.73.1.1 39629 1t5oA 351 2.49e+00 c.124.1.5 106459 2cohA 202 3.20e+00 1r1hA 696 3.38e+00 d.92.1.4 104756 1dmtA 696 3.41e+00 1dmtA d.92.1.4 40296 1qz9A 416 3.88e+00 c.67.1.3 96621 2aelA 374 4.13e+00 1jbwA 428 4.25e+00 c.59.1.2,c.72.2.2 62860,62861 1kiyA 374 4.44e+00 a.128.1.5 72555 1jfgA 374 4.76e+00 a.128.1.5 66636 1yyqA 374 4.89e+00 1ynuA 473 5.14e+00 1jfaA 374 5.64e+00 a.128.1.5 66622 1o5zA 442 6.28e+00 c.59.1.2,c.72.2.2 92530,92531 1ne7A 289 7.18e+00 c.124.1.1 91833 1at1A 310 7.32e+00 3csuA c.78.1.1,c.78.1.1 35168,35169 1g4yR 148 7.37e+00 1cll a.39.1.5 60252 1d9tA 289 7.67e+00 1deaA 1ekxA 311 7.78e+00 3csuA c.78.1.1,c.78.1.1 35088,35089 1wf3A 301 7.82e+00 1c7gA 456 8.42e+00 c.67.1.2 90415 1l2uA 245 8.91e+00 c.1.2.3 73516 8atcA 310 9.00e+00 3csuA c.78.1.1,c.78.1.1 35132,35133 1taq 832 9.54e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1m7yA 435 9.87e+00 c.67.1.4 78761 1id1A 153 1.04e+01 1id1A c.2.1.9 62286 1pmt 203 1.08e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 1h7eA 245 1.11e+01 c.68.1.13 60717 1hc7A 477 1.21e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 3cln 148 1.29e+01 1cll a.39.1.5 17286 2a0fA 310 1.31e+01 1iuhA 198 1.31e+01 d.61.1.2 83711 1acmA 310 1.32e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 1kepA 348 1.32e+01 c.2.1.2 68536 1zs9A 261 1.32e+01 1oc2A 348 1.33e+01 c.2.1.2 92765 1a5v 162 1.35e+01 1cxqA c.55.3.2 33629 1asu 162 1.38e+01 1cxqA c.55.3.2 33626 1vsd 152 1.39e+01 1cxqA c.55.3.2 33625 1btmA 252 1.41e+01 1amk c.1.1.1 28513 1a4yA 460 1.49e+01 1a4yA c.10.1.1 30852 1l5wA 796 1.52e+01 c.87.1.4 73605 1y9kA 157 1.52e+01 2bneA 241 1.55e+01 2bnfB 241 1.55e+01 1zz1A 369 1.57e+01 1wrjA 156 1.73e+01 1ahr 146 1.79e+01 1cll a.39.1.5 17287 1b8gA 429 1.82e+01 1b8gA c.67.1.4 34499 1jdrA 294 1.84e+01 1ryc a.93.1.1 62908 1cll 148 1.86e+01 1cll a.39.1.5 17263 2c8mA 262 1.98e+01 2f3yA 148 2.06e+01 1xfxO 149 2.06e+01 1z5zA 271 2.06e+01 2b9eA 303 2.09e+01 1i3kA 348 2.10e+01 1xel c.2.1.2 61595 1vcbB 112 2.20e+01 1vcbB d.42.1.1 38633 1dseA 292 2.22e+01 1ryc a.93.1.1 59130 2minA 491 2.25e+01 1qguA c.92.2.3 35609 1apxA 249 2.27e+01 1ryc a.93.1.1 18669 1tplA 426 2.32e+01 1ax4A c.67.1.2 34387 3csuA 310 2.39e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1ek6A 348 2.46e+01 1xel c.2.1.2 29800 2glsA 470 2.57e+01 1lgr d.15.9.1,d.128.1.1 37851,41181 1a2g 291 2.58e+01 1ryc a.93.1.1 18620 1yzvA 204 2.67e+01 2arsA 262 2.76e+01 1hl9A 449 2.78e+01 b.71.1.3,c.1.8.11 90650,90651 1w0bA 102 2.81e+01 a.7.11.1 108985 1dd9A 338 2.93e+01 1dd9A e.13.1.1 43254 3minC 491 2.95e+01 1qguA c.92.2.3 35607 1osa 148 2.98e+01 1cll a.39.1.5 17300 1gv3A 248 2.98e+01 a.2.11.1,d.44.1.1 70585,70586 1qryA 80 2.99e+01 2hddA a.4.1.1 16016 1sk7A 198 3.01e+01 a.132.1.2 105671 1fp4A 492 3.06e+01 c.92.2.3 76187 5rubA 490 3.11e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1ahpA 797 3.12e+01 1a8i c.87.1.4 35544 1wy9A 147 3.17e+01 1vhnA 318 3.17e+01 c.1.4.1 100693 1lla 628 3.21e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1ll1 590 3.23e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18488,18499,21864 1pdz 434 3.26e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1avsA 90 3.31e+01 1cll a.39.1.5 17226 1t1uA 639 3.34e+01 1hl8A 449 3.34e+01 b.71.1.3,c.1.8.11 90646,90647 1hfuA 503 3.35e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1cx4A 305 3.37e+01 b.82.3.2,b.82.3.2 59099,59100 2b34A 199 3.38e+01 1xw4X 110 3.39e+01 1innA 166 3.40e+01 1j98A d.185.1.2 62608 1vjeA 166 3.40e+01 d.185.1.2 100807 2bw3A 534 3.42e+01 1exqA 154 3.47e+01 1b9dA c.55.3.2 33646 2ffjA 300 3.50e+01 1wr7A 41 3.53e+01 1gwcA 230 3.57e+01 a.45.1.1,c.47.1.5 70660,70661 1psrA 100 3.72e+01 1psrA a.39.1.2 17180 1lkoA 191 3.72e+01 a.25.1.1,g.41.5.1 78063,78064 1xriA 151 3.79e+01 1a2xA 159 3.81e+01 1ncx a.39.1.5 17251 1wi9A 72 3.81e+01 1x6vA 630 3.86e+01 1yqgA 263 3.90e+01 1aj0 282 3.92e+01 1aj2 c.1.21.1 29667 1z0kB 69 3.94e+01 1ncx 162 4.05e+01 1ncx a.39.1.5 17222 1top 162 4.05e+01 1ncx a.39.1.5 17223 1a0cA 438 4.07e+01 1a0cA c.1.15.3 29529 1gs5A 258 4.11e+01 c.73.1.2 70395 1vloA 381 4.13e+01 b.44.2.1,d.250.1.1 108838,108839 1lnzA 342 4.13e+01 b.117.1.1,c.37.1.8 78112,78113 1exrA 148 4.13e+01 1cll a.39.1.5 17299 1yzsA 121 4.17e+01 1x9mA 698 4.24e+01 1q7fA 286 4.36e+01 b.68.9.1 96036 1ccg 291 4.43e+01 1ryc a.93.1.1 18627 1k6iA 352 4.43e+01 c.2.1.2 68223 1a2f 291 4.43e+01 1ryc a.93.1.1 18619 1obdA 306 4.45e+01 d.143.1.1 86767 1w98B 283 4.47e+01 1svmA 377 4.49e+01 2fv1A 377 4.49e+01 3uagA 437 4.51e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30652,33953,34956 4uagA 437 4.52e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1tn4 159 4.52e+01 1ncx a.39.1.5 17248 1i0dA 332 4.52e+01 1pscA c.1.9.3 61487 1ac4 294 4.53e+01 1ryc a.93.1.1 18657 1uag 437 4.58e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30653,33954,34957 1gqyA 475 4.58e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1r6dA 337 4.60e+01 c.2.1.2 97148 1eqnA 321 4.60e+01 1dd9A e.13.1.1 43256 1juvA 193 4.61e+01 c.71.1.1 90912 1g6oA 330 4.63e+01 1g6oA c.37.1.11 32430 1eywA 331 4.64e+01 1pscA c.1.9.3 29057 1ak8 76 4.68e+01 1cll a.39.1.5 17281 1xw3A 110 4.70e+01 2eutA 294 4.74e+01 1pb6A 212 4.75e+01 a.4.1.9,a.121.1.1 88017,88018 2awpA 198 4.77e+01 2bhoA 130 4.79e+01 1gz0A 253 4.82e+01 c.116.1.1,d.79.3.3 76391,76392 1g0rA 293 4.90e+01 1g0rA c.68.1.6 34532 2a1fA 247 4.92e+01 1pd21 199 4.92e+01 1pd21 1mioB 458 4.97e+01 1qguB c.92.2.3 35602 1r6uA 437 5.01e+01 c.26.1.1 97163 1p3dA 475 5.03e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ryc 294 5.04e+01 1ryc a.93.1.1 18601 1ds4A 292 5.11e+01 1ryc a.93.1.1 59129 2rslA 140 5.18e+01 2rslA c.53.1.1 33345 1yal 218 5.25e+01 1cs8A d.3.1.1 37025 1iwmA 186 5.35e+01 b.125.1.2 83758 2a0mA 316 5.44e+01 1yz4A 160 5.46e+01 1hzyA 332 5.47e+01 1pscA c.1.9.3 61468 1gt1A 159 5.47e+01 b.60.1.1 90515 1hn2A 159 5.47e+01 b.60.1.1 65890 2bivA 243 5.50e+01 1ymqA 261 5.56e+01 1ftt 68 5.58e+01 2hddA a.4.1.1 15997 2b5dX 528 5.58e+01 1b7gO 340 5.66e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1fxoA 293 5.71e+01 1g0rA c.68.1.6 34524 2etvA 346 5.71e+01 1obpA 159 5.75e+01 1obpA b.60.1.1 27092 1pscA 365 5.75e+01 1pscA c.1.9.3 29058 2bbrA 195 5.76e+01 2cyp 294 5.79e+01 1ryc a.93.1.1 18600 1a48 306 5.83e+01 1a48 d.143.1.1 41590 1o70A 324 6.02e+01 b.118.1.1,b.118.1.1 81115,81116 1myf 153 6.09e+01 1a6m a.1.1.2 15147 1wd5A 208 6.11e+01 1xkqA 280 6.17e+01 1wtaA 275 6.17e+01 1zbyA 294 6.19e+01 1z53A 294 6.20e+01 1pujA 282 6.21e+01 c.37.1.8 88294 1ebdA 455 6.25e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1b4pA 217 6.29e+01 a.45.1.1,c.47.1.5 83158,83159 1gd9A 389 6.30e+01 c.67.1.1 60454 1mdoA 393 6.31e+01 c.67.1.4 79013 1mkrA 294 6.31e+01 a.93.1.1 84997 1k9sA 237 6.46e+01 c.56.2.1 68359 2fnjC 96 6.49e+01 1qycA 308 6.50e+01 c.2.1.2 96581 1ipaA 274 6.56e+01 c.116.1.1,d.79.3.3 71254,71255 1tzzA 392 6.58e+01 1pylA 97 6.59e+01 d.1.1.2 104391 1wddS 128 6.60e+01 1ddeA 338 6.61e+01 1dd9A e.13.1.1 43255 1hi2A 135 6.61e+01 7rsa d.5.1.1 61057 1gqvA 135 6.63e+01 d.5.1.1 70376 1pk9A 237 6.73e+01 c.56.2.1 94823 1z7xW 461 6.73e+01 1mkzA 172 6.79e+01 c.57.1.1 84998 1zelA 298 6.82e+01 1xuuA 349 6.85e+01 1d4bA 122 6.87e+01 1d4bA d.15.2.1 37638 1p0yA 444 6.89e+01 a.166.1.1,b.85.7.3 87654,87655 1u2wA 122 6.91e+01 1t7pA 698 6.98e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1t6t1 118 7.02e+01 1nksA 194 7.04e+01 1nksA c.37.1.1 31886 1xgwA 176 7.04e+01 1s2wA 295 7.10e+01 c.1.12.7 98407 2bp1A 360 7.15e+01 1h5rA 293 7.29e+01 c.68.1.6 65623 1k6xA 352 7.34e+01 c.2.1.2 68238 1zrn 232 7.35e+01 1qq5A c.108.1.1 43323 1cqzA 554 7.42e+01 1cr6B c.69.1.11,c.108.1.2 34689,43339 1cxqA 162 7.45e+01 1cxqA c.55.3.2 33621 1k1xA 659 7.48e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1vd5A 377 7.51e+01 a.102.1.7 108518 1cf2O 337 7.58e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1zj6A 187 7.60e+01 1nnwA 252 7.65e+01 d.159.1.5 80674 1vgvA 384 7.66e+01 c.87.1.3 100608 1cz1A 394 7.69e+01 1cz1A c.1.8.3 28839 1o1yA 239 7.72e+01 c.23.16.1 86554 1jud 232 7.79e+01 1qq5A c.108.1.1 43325 1lm8C 96 7.81e+01 d.42.1.1 74034 1qgoA 264 7.94e+01 1qgoA c.92.1.2 35596 2g5dA 422 7.95e+01 2bi7A 384 7.96e+01 1f2rI 100 8.03e+01 1c9fA d.15.2.1 37641 2bsjA 133 8.03e+01 1aihA 170 8.07e+01 1aihA d.163.1.1 42149 1ox3A 109 8.09e+01 h.1.17.1 93668 1atzB 189 8.13e+01 1atzA c.62.1.1 34133 1b3oA 514 8.18e+01 1ak5 c.1.5.1 28640 1ecl 597 8.20e+01 1ecl e.10.1.1 43238 1a8y 367 8.21e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1w85A 368 8.29e+01 1zac 90 8.31e+01 1ncx a.39.1.5 17236 1wrdA 103 8.38e+01 1vmeA 410 8.46e+01 c.23.5.1,d.157.1.3 108893,108894 1x3aA 100 8.46e+01 1pamA 686 8.49e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 2bexA 460 8.49e+01 1lmzA 187 8.59e+01 a.96.1.4 74037 1vqrA 297 8.69e+01 1ad1A 266 8.70e+01 1aj2 c.1.21.1 29668 1mznA 240 8.71e+01 a.123.1.1 79704 1gjnA 153 8.74e+01 a.1.1.2 70191 1qh3A 260 8.78e+01 1qh5A d.157.1.2 42059 1pu1A 94 8.79e+01 d.266.1.1 104307 1ggzA 148 8.79e+01 a.39.1.5 70176 1mvcA 240 8.81e+01 a.123.1.1 79499 1gdeA 389 8.87e+01 c.67.1.1 60456 1m2rA 327 8.88e+01 d.144.1.7 84760 1v5xA 203 8.89e+01 c.1.2.4 100377 1aj2 282 8.95e+01 1aj2 c.1.21.1 29665 1rusA 490 8.97e+01 1burA c.1.14.1,d.58.9.1 29388,39294 1f6dA 376 8.99e+01 1f6dA c.87.1.3 35467 1xgkA 352 9.00e+01