# 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.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 2arzA 247 9.66e-44 b.45.1.1 127225 1xhnA 184 4.37e-30 b.45.1.1 122007 1vl7A 157 9.64e-17 b.45.1.1 108732 1rfeA 162 1.01e-11 b.45.1.1 111796 1w9aA 147 5.76e-09 b.45.1.1 114408 2aq6A 147 8.62e-09 b.45.1.1 127156 2hq9A 149 1.34e-07 b.45.1.1 136659 2fhqA 141 1.85e-07 b.45.1.1 133497 1t9mA 214 5.22e-07 b.45.1.1 112364 2hhzA 150 3.95e-06 1ty9A 222 4.72e-06 b.45.1.1 112827 2htiA 185 1.11e-05 b.45.1.1 136744 2htdA 140 1.95e-05 2i02A 148 4.32e-05 b.45.1.1 136936 2iabA 155 5.04e-05 2ig6A 150 9.92e-05 1nrgA 261 1.10e-04 b.45.1.1 80694 2re7A 134 1.76e-04 1g79A 218 2.53e-04 1ci0A b.45.1.1 25752 1dnlA 199 3.15e-04 1ci0A b.45.1.1 25753 1w3oA 216 4.21e-04 b.45.1.1 114142 2asfA 137 4.93e-04 b.45.1.1 127253 2hq7A 146 8.93e-04 b.45.1.1 136657 2fg9A 178 2.46e-03 b.45.1.1 133426 2a2jA 246 7.87e-03 b.45.1.1 126033 3cp3A 148 9.11e-03 2furA 209 1.00e-02 b.45.1.1 134185 3ba3A 145 1.93e-02 2i51A 195 5.60e-02 1axj 122 1.11e-01 1axj 2ou5A 175 1.18e-01 2ol5A 202 1.72e-01 1ci0A 228 2.48e-01 1ci0A b.45.1.1 25750 3b5mA 205 4.55e-01 3bgyA 237 4.63e-01 2qeaA 160 6.43e-01 2ej9A 237 9.97e-01 1flmA 122 1.09e+00 1axj b.45.1.1 25747 1taq 832 1.09e+00 1taq 1xjcA 169 1.24e+00 c.37.1.10 115387 1k8kD 300 1.27e+00 d.198.2.1,d.198.2.1 68309,68310 2zatA 260 1.65e+00 2plgA 163 1.77e+00 2p2vA 288 1.84e+00 2asuB 234 1.93e+00 1kamA 194 1.96e+00 c.26.1.3 72254 2iciA 227 2.01e+00 1j1nA 492 3.23e+00 c.94.1.1 83978 2ijaA 295 3.23e+00 2pfrA 294 3.31e+00 2nrrA 159 3.43e+00 1b43A 340 3.80e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 1iyjB 817 4.15e+00 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 2ix0A 663 4.17e+00 1ud9A 245 4.22e+00 d.131.1.2,d.131.1.2 107768,107769 2jbwA 386 4.26e+00 2vfkA 205 4.33e+00 2pzzA 147 4.40e+00 2id0A 644 4.47e+00 1y4tA 322 4.64e+00 c.94.1.1 116464 1drmA 131 4.74e+00 1drmA d.110.3.2 40908 2h1nA 567 5.11e+00 1u02A 239 5.49e+00 c.108.1.15 107538 2co7B 221 5.52e+00 1ro7A 259 6.31e+00 c.130.1.1 97667 1ysjA 404 6.53e+00 c.56.5.4,d.58.19.1 123975,123976 2qe6A 274 6.72e+00 1j5kA 89 6.76e+00 d.51.1.1 71565 1r3dA 264 6.76e+00 c.69.1.35 111680 3czqA 304 6.78e+00 1gcvA 140 6.84e+00 1cg5B a.1.1.2 15410 2qvcA 313 7.27e+00 1lswA 131 7.36e+00 d.110.3.2 78181 1s3iA 310 7.42e+00 b.46.1.1,c.65.1.1 98435,98436 2nr4A 213 7.95e+00 1vjuA 309 9.01e+00 d.248.1.1 100835 3c6qA 311 9.14e+00 2rijA 387 9.64e+00 1oaoA 674 1.02e+01 e.26.1.2 86744 2e4sA 189 1.03e+01 1vz6A 393 1.04e+01 d.154.1.2 108949 2ywrA 216 1.04e+01 2rcfA 91 1.08e+01 2rghA 571 1.15e+01 1squA 155 1.21e+01 d.252.1.1 98971 3b7cA 122 1.22e+01 2vd8A 391 1.22e+01 2zmfA 189 1.28e+01 1nvtA 287 1.32e+01 c.2.1.7,c.58.1.5 86270,86271 2p19A 149 1.35e+01 1zzkA 82 1.38e+01 d.51.1.1 125909 2o8gI 225 1.43e+01 2ftsA 419 1.47e+01 b.85.6.1,b.103.1.1,c.57.1.2 134079,134080,134081 1uocA 289 1.49e+01 c.55.3.9 99686 1k3eA 156 1.50e+01 d.198.1.1 68103 1qg6A 261 1.55e+01 1eny c.2.1.2 29919 1ujqA 305 1.56e+01 c.1.12.7 99463 1wuuA 399 1.57e+01 d.14.1.5,d.58.26.7 114900,114901 2ps2A 371 1.58e+01 2icnB 118 1.61e+01 1i9aA 182 1.72e+01 1i9aA d.113.1.2 62082 1miuA 738 1.72e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1zhvA 134 1.77e+01 d.58.18.8,d.58.18.8 125109,125110 2bbeA 108 1.78e+01 2qmaA 497 1.81e+01 1ef1A 294 1.83e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1b9hA 388 1.86e+01 1b9hA c.67.1.4 34488 2ebuA 112 1.89e+01 1kngA 156 1.92e+01 c.47.1.10 72777 2z99A 219 2.05e+01 1jb0D 138 2.09e+01 1jb0D d.187.1.1 62823 1nar 290 2.10e+01 1nar 1narA 290 2.10e+01 c.1.8.5 28988 2clqA 295 2.16e+01 2h3hA 313 2.24e+01 2p0wA 324 2.29e+01 1ykdA 398 2.32e+01 1x84A 189 2.33e+01 d.113.1.2 121795 1fy7A 278 2.36e+01 1fy7A d.108.1.1 40817 1r3nA 462 2.38e+01 c.56.5.4,d.58.19.1 96945,96946 2qxiA 224 2.39e+01 1fsuA 492 2.42e+01 c.76.1.2 35032 1x6vA 630 2.43e+01 b.122.1.3,c.26.1.5,c.37.1.4 121755,121756,121757 2j0eA 266 2.46e+01 2ge7A 108 2.51e+01 d.254.1.2 135049 2hqqA 298 2.52e+01 1pvxA 194 2.55e+01 1axkA b.29.1.11 24341 2tbd 134 2.62e+01 2tbd 2v8hA 474 2.63e+01 1k5nA 276 2.64e+01 b.1.1.2,d.19.1.1 77266,77267 1mp9A 198 2.74e+01 d.129.1.1,d.129.1.1 91385,91386 2vozA 346 2.75e+01 2fufA 134 2.87e+01 d.89.1.1 134120 2d81A 318 2.89e+01 2d80A 318 2.91e+01 2yzkA 178 2.93e+01 2j7uA 635 2.93e+01 1y3nA 490 3.07e+01 c.94.1.1 122597 1wdkC 390 3.17e+01 c.95.1.1,c.95.1.1 109258,109259 1q2lA 939 3.18e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 2ew5A 181 3.20e+01 1pjzA 203 3.22e+01 c.66.1.36 94794 2jbvA 546 3.24e+01 1tjlA 151 3.32e+01 a.2.14.1,g.39.1.13 107027,107028 2i8lA 156 3.34e+01 1mdwA 328 3.39e+01 d.3.1.3 84934 2f5xA 312 3.50e+01 1y0eA 223 3.58e+01 c.1.2.5 116297 1jfuA 186 3.60e+01 c.47.1.10 62940 2vugA 389 3.63e+01 2hlzA 312 3.70e+01 1q15A 503 3.76e+01 c.26.2.1,d.153.1.1 95538,95539 1v3wA 173 3.82e+01 b.81.1.5 100291 2de3A 365 3.83e+01 2nsqA 155 3.87e+01 2dc4A 165 3.97e+01 3cox 507 3.99e+01 1b8sA 3coxA 507 3.99e+01 c.3.1.2,d.16.1.1 30332,37863 2ckiA 262 4.00e+01 1jkxA 212 4.05e+01 c.65.1.1 66813 1xj4A 119 4.09e+01 d.110.3.2 122027 2euiA 153 4.10e+01 d.108.1.1 132387 1zpvA 91 4.17e+01 d.58.18.7 125475 2p3yA 491 4.19e+01 2a4xA 138 4.21e+01 d.32.1.2 126166 1ps9A 671 4.26e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1ew3A 159 4.30e+01 1mup b.60.1.1 27114 3bjuA 521 4.32e+01 2pd1A 104 4.34e+01 2ozpA 345 4.36e+01 2ftrA 108 4.47e+01 d.58.4.15 134077 1kr4A 125 4.53e+01 d.58.5.2 72889 1vd5A 377 4.53e+01 a.102.1.7 108518 1yycA 174 4.57e+01 1zc1A 208 4.62e+01 1u7bA 261 4.64e+01 d.131.1.2,d.131.1.2 113083,113084 2vchA 480 4.65e+01 2fb1A 226 4.67e+01 a.4.5.68,d.113.1.6 133225,133226 1v5sA 126 4.68e+01 d.129.6.1 108384 2ptfA 233 4.73e+01 2i7cA 283 4.82e+01 451cA 82 4.85e+01 a.3.1.1 15904 2pq8A 278 4.90e+01 1x8dA 104 4.92e+01 3b9oA 440 4.95e+01 1bd0A 388 4.99e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 2ahfA 377 5.00e+01 1t71A 281 5.03e+01 d.159.1.9 112283 1dqyA 283 5.08e+01 1dqyA c.69.1.3 34640 2ojwA 384 5.08e+01 1mzyA 333 5.12e+01 b.6.1.3,b.6.1.3 103848,103849 2a0jA 149 5.13e+01 2bdtA 189 5.13e+01 c.37.1.25 128344 2ga9A 297 5.14e+01 c.66.1.25 134885 2hufA 393 5.28e+01 1d6jA 211 5.34e+01 1d6jA c.37.1.4 31940 1idsA 207 5.38e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1gnlA 544 5.55e+01 e.26.1.1 70287 2q9kA 151 5.56e+01 1ynaA 194 5.71e+01 b.29.1.11 24335 1f3yA 165 5.77e+01 d.113.1.1 59635 2vfrA 422 5.84e+01 1iwmA 186 5.84e+01 b.125.1.2 83758 1b9vA 390 5.84e+01 2qwc b.68.1.1 27603 2zgwA 235 5.86e+01 2qzjA 136 5.87e+01 1hfoA 113 5.93e+01 d.80.1.3 61006 1ri5A 298 5.94e+01 c.66.1.34 97502 1c14A 262 6.05e+01 1eny c.2.1.2 29927 1va4A 279 6.06e+01 c.69.1.12 108458 1xwl 580 6.06e+01 1xwl 1h5yA 253 6.08e+01 c.1.2.1 65638 1wdeA 294 6.12e+01 c.90.1.1 114534 1gnxA 479 6.13e+01 c.1.8.4 76241 1wueA 386 6.14e+01 c.1.11.2,d.54.1.1 114892,114893 1ohvA 472 6.17e+01 c.67.1.4 93031 1a9xA 1058 6.24e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1l5oA 356 6.26e+01 c.39.1.1 77711 2on5A 206 6.27e+01 1t7vA 278 6.28e+01 b.1.1.2,d.19.1.1 112302,112303 1ur1A 378 6.30e+01 c.1.8.3 99804 1b0jA 754 6.32e+01 1amj c.8.2.1,c.83.1.1 30719,35395 1otjA 283 6.37e+01 b.82.2.5 93517 1pg4A 652 6.40e+01 e.23.1.1 88067 2h2wA 312 6.42e+01 1vm8A 534 6.45e+01 c.68.1.5 113670 1yz7A 188 6.47e+01 2ql8A 143 6.48e+01 1qsgA 265 6.56e+01 1eny c.2.1.2 29935 1zkkA 167 6.58e+01 1dqzA 280 6.58e+01 1dqyA c.69.1.3 34638 1tlk 154 6.68e+01 1tlk 1j5uA 136 6.74e+01 d.208.1.1 71584 1t62A 166 6.74e+01 b.122.1.4 106541 1c3oA 1073 6.79e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1cs0A 1073 6.80e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1j98A 157 6.81e+01 1j98A d.185.1.2 62755 2bkfA 87 6.83e+01 d.15.2.2 128699 1d0vA 356 7.05e+01 1d0vA c.39.1.1 32476 1fhgA 154 7.11e+01 1tlk b.1.1.4 21706 2e85A 159 7.13e+01 1y89A 238 7.19e+01 2p4pA 86 7.23e+01 2gm3A 175 7.25e+01 c.26.2.4 135354 2hhvA 580 7.26e+01 c.55.3.5,e.8.1.1 136514,136515 2i2lA 142 7.31e+01 2h4uA 145 7.34e+01 d.38.1.5 136082 2yzqA 282 7.40e+01 3b7nA 320 7.51e+01 2ckfA 454 7.54e+01 2bkxA 242 7.61e+01 3bdvA 191 7.63e+01 1u4bA 580 7.63e+01 c.55.3.5,e.8.1.1 107664,107665 1nk4A 580 7.66e+01 c.55.3.5,e.8.1.1 91923,91924 2bdpA 580 7.72e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 2gar 212 7.74e+01 2gar 1l3sA 580 7.75e+01 c.55.3.5,e.8.1.1 84521,84522 1ffkI 194 7.81e+01 1ffkI d.12.1.2 37494 2sak 121 7.88e+01 2sak 2sakA 121 7.88e+01 d.15.5.1 37711 1csn 298 7.91e+01 1csn 1csnA 298 7.91e+01 d.144.1.7 41664 2b0vA 153 7.92e+01 d.113.1.1 127650 3seb 238 7.97e+01 3seb 3sebA 238 7.97e+01 b.40.2.2,d.15.6.1 25184,37773