# 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 2bitX 165 4.14e-41 1dywA 173 7.01e-41 2cpl b.62.1.1 27505 1awsA 164 1.82e-40 2cpl b.62.1.1 27431 1awqA 164 2.05e-40 2cpl b.62.1.1 27461 1ihgA 370 2.19e-40 2cpl a.118.8.1,b.62.1.1 62380,62381 1yndA 165 2.50e-40 2cpl 165 2.55e-40 2cpl b.62.1.1 27420 1cwoA 165 2.56e-40 2cpl b.62.1.1 27445 1a58 177 6.23e-40 2cpl b.62.1.1 27495 2rmcA 182 6.35e-40 2cpl b.62.1.1 27491 1zcxA 178 9.50e-40 1qoiA 177 1.59e-39 2cpl b.62.1.1 27490 2cfeA 162 4.18e-39 1vdnA 162 4.81e-39 1xo7A 166 4.91e-39 1h0pA 182 1.01e-38 b.62.1.1 76450 2a2nA 176 1.47e-36 1zkcA 197 1.89e-36 1xwnA 174 5.46e-36 2fu0A 160 4.88e-35 2b71A 196 1.89e-34 1j2aA 166 2.71e-30 b.62.1.1 90779 1v9tA 166 4.62e-30 b.62.1.1 108451 1lopA 164 7.28e-30 2cpl b.62.1.1 27510 1clh 166 2.00e-29 2cpl b.62.1.1 27512 1zx8A 136 3.81e-02 1mxiA 160 2.24e-01 c.116.1.1 79646 1qupA 222 4.44e+00 1qupA b.1.8.1,d.58.17.1 22301,39352 2gk3A 256 6.42e+00 1g7fA 298 6.70e+00 1pty c.45.1.2 60330 1vr0A 247 7.65e+00 1wriA 93 8.35e+00 1uunA 184 8.37e+00 f.6.1.2 100012 2b8mA 117 8.81e+00 1qmpA 130 9.34e+00 1dz3A c.23.1.1 31106 1mdbA 539 9.73e+00 e.23.1.1 79008 2bdvA 231 1.08e+01 1wggA 96 1.14e+01 1wloA 136 1.20e+01 1ezwA 349 1.21e+01 1ezwA c.1.16.3 29558 1e9pA 151 1.22e+01 1mfmA b.1.8.1 22215 1kv9A 668 1.33e+01 a.3.1.6,b.70.1.1 73056,73057 1dz3A 130 1.34e+01 1dz3A c.23.1.1 31105 1b77A 228 1.35e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1oa4A 222 1.36e+01 b.29.1.11 86731 1gc1H 229 1.40e+01 1gc1H b.1.1.1,b.1.1.2 20265,21265 1pvtA 238 1.46e+01 c.74.1.1 95189 2ex4A 241 1.60e+01 1cbjA 151 1.61e+01 1mfmA b.1.8.1 22213 1q0eA 152 1.64e+01 b.1.8.1 95504 1gggA 226 1.66e+01 1lst c.94.1.1 35817 1ciy 590 1.68e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1svmA 377 1.71e+01 2f71A 298 1.91e+01 2aexA 346 1.93e+01 1pbyA 489 1.94e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1agx 331 1.97e+01 4pgaA c.88.1.1 35564 1wu7A 434 2.23e+01 1yoxA 250 2.26e+01 1gggB 226 2.27e+01 1lst c.94.1.1 35818 1rx0A 393 2.31e+01 a.29.3.1,e.6.1.1 98007,98008 1sq2N 113 2.32e+01 b.1.1.1 105881 1fnhA 271 2.37e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1do6A 124 2.37e+01 1do6A b.1.13.1 22361 1jjuA 489 2.40e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 1k87A 669 2.46e+01 a.176.1.1,c.1.23.2 77286,77287 1mua 256 2.47e+01 2cba b.74.1.1 27831 1yo1A 260 2.50e+01 1pa1A 310 2.52e+01 c.45.1.2 94404 1b2iA 83 2.57e+01 5hpgA g.14.1.1 44640 1dim 381 2.62e+01 3sil b.68.1.1 27544 1eeoA 321 2.64e+01 1pty c.45.1.2 32655 1mooA 260 2.70e+01 b.74.1.1 79359 1bf8 205 2.70e+01 1qpxA b.1.11.1,b.7.2.1 22332,23214 1wdnA 226 2.71e+01 1lst c.94.1.1 35816 1aax 321 2.77e+01 1pty c.45.1.2 32657 1a49A 530 2.78e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1zk5A 176 2.79e+01 1kb9B 352 2.86e+01 d.185.1.1,d.185.1.1 77313,77314 2sodB 152 2.95e+01 1mfmA b.1.8.1 22242 1zoxA 113 3.00e+01 1w96A 554 3.00e+01 1s8nA 205 3.03e+01 c.23.1.1 105374 1c0eA 157 3.04e+01 1dg9A c.44.1.1 32638 1amm 174 3.06e+01 1amm b.11.1.1,b.11.1.1 23587,23588 4gcr 174 3.06e+01 1amm b.11.1.1,b.11.1.1 23589,23590 3sil 379 3.13e+01 3sil b.68.1.1 27542 1vqvA 306 3.16e+01 1ezvB 352 3.17e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 2sil 381 3.18e+01 3sil b.68.1.1 27543 1ptvA 321 3.24e+01 1pty c.45.1.2 32665 1barA 140 3.25e+01 1bfg b.42.1.1 25504 1a8s 273 3.29e+01 1brt c.69.1.12 34710 2cba 260 3.29e+01 2cba b.74.1.1 27821 2madH 373 3.32e+01 2bbkH b.69.2.1 27639 1lugA 259 3.38e+01 b.74.1.1 91127 1ux6A 350 3.39e+01 b.29.1.16,g.75.1.1 100145,100146 1kq4A 232 3.39e+01 d.207.1.1 68791 1vj0A 380 3.62e+01 b.35.1.2,c.2.1.1 100786,100787 2pkaA 80 3.68e+01 2pkaA b.47.1.2 26302 1q5fA 156 3.78e+01 d.24.1.1 104536 1dqiA 124 3.88e+01 1do6A b.1.13.1 22357 2b4wA 315 3.89e+01 1bu6O 501 3.90e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1httA 423 4.04e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 1xm0A 147 4.12e+01 1m8uA 173 4.14e+01 b.11.1.1,b.11.1.1 91233,91234 1caj 260 4.45e+01 2cba b.74.1.1 27841 12ca 260 4.48e+01 2cba b.74.1.1 27942 2bm3A 166 4.55e+01 1zvnA 99 4.58e+01 1lq9A 112 4.64e+01 d.58.4.3 78129 1vi6A 208 4.67e+01 c.23.15.1 100736 1qwgA 251 4.68e+01 c.1.27.1 96473 1wchA 315 4.69e+01 1nbfA 353 4.74e+01 d.3.1.9 80387 1r4wA 226 4.86e+01 c.47.1.13 97050 1vqoD 177 4.87e+01 1zirA 173 4.97e+01 2azpA 318 4.97e+01 1h4xA 117 5.01e+01 1auz c.13.2.1 60626 1o04A 500 5.03e+01 c.82.1.1 86508 1x9uA 116 5.08e+01 1o9wA 177 5.31e+01 b.2.3.5 86713 1lf7A 182 5.32e+01 b.60.1.1 73878 1iw2A 182 5.33e+01 b.60.1.1 71468 1o26A 232 5.35e+01 d.207.1.1 86566 1p63A 144 5.44e+01 b.42.1.1 94153 1dc1A 323 5.46e+01 1dc1A c.52.1.11 33321 1u0sY 118 5.55e+01 c.23.1.1 107566 1r3nA 462 5.62e+01 c.56.5.4,d.58.19.1 96945,96946 2hnp 321 5.68e+01 1pty c.45.1.2 32678 1jj2D 176 5.83e+01 1ffkD d.77.1.1 63088 1f24A 402 5.85e+01 1rom a.104.1.1 18953 1j5eE 161 5.91e+01 d.14.1.1,d.50.1.2 71547,71548 2kaiA 80 6.05e+01 2pkaA b.47.1.2 26306 1gowA 489 6.06e+01 1qvbA c.1.8.4 28981 1fjgE 162 6.07e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1a5y 330 6.09e+01 1pty c.45.1.2 32673 1a45 173 6.10e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1ffk1 177 6.15e+01 1ffk1 2fimA 276 6.16e+01 1tmy 120 6.17e+01 1dbwA c.23.1.1 31083 1jfbA 404 6.19e+01 a.104.1.1 66624 1v3rA 116 6.22e+01 1ul7A 102 6.24e+01 d.129.6.1 99540 1x36A 237 6.28e+01 1pv5A 264 6.29e+01 d.251.1.1 95150 1yzxA 226 6.30e+01 2pii 112 6.33e+01 2pii d.58.5.1 39071 1crzA 403 6.38e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1c5kA 439 6.40e+01 1crzA b.68.4.1,c.51.2.1 27630,33212 2b06A 155 6.40e+01 1o91A 178 6.44e+01 b.22.1.1 92656 1phr 157 6.45e+01 1dg9A c.44.1.1 32635 1rlhA 173 6.50e+01 d.256.1.1 97646 2cy7A 396 6.50e+01 1usuB 170 6.60e+01 d.83.2.1 99886 2b7yA 182 6.60e+01 1vfjA 116 6.60e+01 1uwsA 489 6.66e+01 c.1.8.4 108073 1eysH 259 6.69e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1n25A 368 6.79e+01 c.37.1.20 85264 1jqzA 146 6.83e+01 b.42.1.1 67109 1dg9A 157 6.89e+01 1dg9A c.44.1.1 32637 1bvh 157 7.32e+01 1dg9A c.44.1.1 32640 1f0iA 504 7.35e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 2b59A 187 7.35e+01 1v0wA 506 7.37e+01 d.136.1.2,d.136.1.2 108220,108221 1o7iA 119 7.38e+01 b.40.4.3 86642 1si6X 282 7.59e+01 1a70 97 7.60e+01 1awd d.15.4.1 37678 1gm6A 175 7.62e+01 b.60.1.1 70272 2biqA 219 7.69e+01 1z4xA 532 7.72e+01 2g6yA 217 7.76e+01 1befA 181 7.77e+01 1befA b.47.1.3 26419 1wn0A 145 7.92e+01 1bqcA 302 7.92e+01 1bqcA c.1.8.3 28831 1rom 403 8.07e+01 1rom a.104.1.1 18963 1s2oA 244 8.08e+01 1z4vA 532 8.13e+01 1uumA 372 8.18e+01 c.1.4.1 100010 1z2lA 423 8.27e+01 1sglA 209 8.28e+01 d.124.1.1 105536 1gt8A 1025 8.47e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1e88A 160 8.49e+01 g.14.1.2,g.14.1.2,g.27.1.1 44669,44670,44950 1pty 321 8.54e+01 1pty c.45.1.2 32656 1xebA 150 8.60e+01 1bv8A 138 8.61e+01 1ayoA b.2.4.1 22430 1pil 112 8.66e+01 2pii d.58.5.1 39072 1elpA 173 8.68e+01 1amm b.11.1.1,b.11.1.1 23596,23597 1frrA 95 8.70e+01 1awd d.15.4.1 37674 1a04A 215 8.73e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1iz1A 294 8.81e+01 a.4.5.37,c.94.1.1 83823,83824 1v9sA 208 8.84e+01 1y21A 282 8.94e+01 1xwwA 157 8.98e+01