# 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 1lktA 104 4.39e-01 1lktA b.90.1.1 28398 2f4qA 346 8.30e-01 1ffyA 917 1.07e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 1.07e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1m93C 41 1.68e+00 1tp6A 128 2.16e+00 d.17.4.12 107184 1vjfA 180 2.31e+00 d.116.1.1 100809 1yx1A 264 2.69e+00 1qauA 112 2.92e+00 1qauA b.36.1.1 24779 1qavB 115 3.07e+00 1qauA b.36.1.1 24780 1u0tA 307 3.31e+00 e.52.1.1 107567 1yaxA 153 3.68e+00 1eagA 342 5.03e+00 1eagA b.50.1.2 26826 1gpeA 587 5.87e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1cdq 77 5.97e+00 1cds g.7.1.3 44459 1yqtA 538 6.32e+00 2go8A 122 6.37e+00 1isaA 192 6.45e+00 1avmA a.2.11.1,d.44.1.1 15731,38724 1iscA 192 6.46e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1cqyA 99 6.77e+00 1b9zA b.3.1.1 22527 2c3vA 102 6.81e+00 1dcjA 81 6.96e+00 1dcjA d.68.3.3 59115 1cds 77 7.05e+00 1cds g.7.1.3 44461 3ezmA 101 7.73e+00 3ezmA b.89.1.1 28395 1d4oA 184 7.76e+00 1d4oA c.31.1.4 31748 1ui0A 205 8.29e+00 c.18.1.2 99411 1tqzA 133 8.31e+00 1lwdA 413 8.72e+00 c.77.1.1 78265 1m7xA 617 1.05e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 2cvzA 289 1.10e+01 1bxwA 172 1.12e+01 1bxwA f.4.1.1 43743 1xewY 172 1.19e+01 1b8iB 63 1.25e+01 1akhA a.4.1.1 16011 1qx4A 274 1.30e+01 b.43.4.2,c.25.1.1 104624,104625 1b8qA 127 1.36e+01 1qauA b.36.1.1 24781 1qq2A 199 1.37e+01 1qq2A c.47.1.10 33064 1ebdA 455 1.41e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1v74A 107 1.44e+01 d.243.1.1 100442 1zip 217 1.56e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1zkdA 387 1.66e+01 1ijqA 316 1.68e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1m9sA 605 1.69e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1qhoA 686 1.74e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1emwA 88 1.75e+01 1emwA d.27.1.1 38448 1qjpA 171 1.75e+01 1bxwA f.4.1.1 43742 1sqeA 109 1.79e+01 d.58.4.5 105908 2bjbA 462 1.79e+01 1uasA 362 1.81e+01 b.71.1.1,c.1.8.1 88388,88389 2bzoB 79 1.92e+01 1kjvA 284 1.92e+01 b.1.1.2,d.19.1.1 77421,77422 1iiyA 101 1.95e+01 b.89.1.1 66152 1zin 217 1.98e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1xqaA 113 2.01e+01 1byrA 155 2.04e+01 1byrA d.136.1.1 41450 1jjgA 102 2.10e+01 b.40.4.5 71696 1lv9A 77 2.12e+01 d.9.1.1 78233 1o7xD 377 2.16e+01 a.103.1.1 81174 2dg5B 190 2.17e+01 1o7xC 377 2.18e+01 a.103.1.1 81173 1cuk 203 2.26e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1u58A 253 2.26e+01 1mkeA 152 2.32e+01 b.55.1.4 79231 1obr 326 2.38e+01 1aye c.56.5.2 33828 1o7xB 377 2.38e+01 a.103.1.1 81172 1bywA 110 2.40e+01 1bywA d.110.3.6 40912 1iezA 217 2.43e+01 d.115.1.2 66129 1skoA 143 2.44e+01 d.110.7.1 105676 2cfuA 658 2.52e+01 1vr9A 213 2.59e+01 1h4rA 314 2.81e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2akrA 285 2.84e+01 1vetA 124 2.85e+01 d.110.7.1 108553 2fhxA 246 2.87e+01 1tzaA 134 2.91e+01 b.1.23.1 107468 2gk3A 256 2.92e+01 2bzuA 181 2.94e+01 1omiA 248 2.95e+01 b.82.3.3,a.4.5.4 87079,87080 1w41A 101 2.98e+01 1n9lA 109 3.03e+01 d.110.3.6 85468 1vjvA 415 3.04e+01 d.3.1.9 108632 2fa8A 105 3.05e+01 2cu3A 64 3.07e+01 1pqzA 238 3.09e+01 b.1.1.2,d.19.1.1 104297,104298 1h7mA 102 3.11e+01 d.79.3.1 83485 1tyyA 339 3.27e+01 1wm3A 72 3.29e+01 2fh5A 185 3.37e+01 1odzA 386 3.39e+01 c.1.8.3 86889 1iwdA 215 3.41e+01 d.3.1.1 83756 1y9wA 140 3.44e+01 2dln 306 3.47e+01 1iow c.30.1.2,d.142.1.1 31715,41483 2fikA 287 3.49e+01 2fafA 608 3.50e+01 1nrlA 316 3.54e+01 a.123.1.1 92091 1vq2A 193 3.83e+01 1iow 306 3.84e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1z5lA 285 3.85e+01 1b9wA 89 4.02e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1cch 82 4.04e+01 451c a.3.1.1 15902 1hjp 203 4.10e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1huxA 270 4.13e+01 1huxA c.55.1.5 61278 1pufB 73 4.14e+01 a.4.1.1 95132 1vemA 516 4.15e+01 1cv8 174 4.16e+01 1cv8 d.3.1.1 37089 5bcaA 516 4.18e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1w9hA 427 4.18e+01 1zq7A 207 4.18e+01 1efaA 333 4.20e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1bpv 112 4.22e+01 1bpv b.1.2.1 22071 1b9zA 516 4.24e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1txkA 498 4.26e+01 b.1.18.2,b.30.5.9 107425,107426 1itcA 516 4.27e+01 b.3.1.1,c.1.8.1 83705,83706 1cor 82 4.40e+01 451c a.3.1.1 15903 1ryaA 160 4.41e+01 d.113.1.5 105122 1i7pA 274 4.42e+01 b.43.4.2,c.25.1.1 66048,66049 1p6oA 161 4.43e+01 c.97.1.2 94185 1m65A 245 4.44e+01 c.6.3.1 84847 1yuzA 202 4.47e+01 1uaqA 158 4.66e+01 c.97.1.2 88386 1umkA 275 4.68e+01 1te7A 103 4.75e+01 1dg9A 157 4.84e+01 1dg9A c.44.1.1 32637 1cd1A 315 4.87e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1e39A 571 4.92e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1rgs 288 4.94e+01 1rgs b.82.3.2,b.82.3.2 28146,28147 1g5aA 628 4.99e+01 b.71.1.1,c.1.8.1 65152,65153 1gsa 316 4.99e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1jyeA 349 5.05e+01 c.93.1.1 67455 1ckaA 57 5.15e+01 1ckaA b.34.2.1 24459 1m13A 316 5.15e+01 a.123.1.1 84746 1yhfA 115 5.17e+01 1bvh 157 5.29e+01 1dg9A c.44.1.1 32640 2ciaA 102 5.29e+01 1ne6A 283 5.30e+01 b.82.3.2,b.82.3.2 91831,91832 1l9gA 192 5.31e+01 c.18.1.2 84568 1kllA 130 5.32e+01 d.32.1.2 72720 1m64A 571 5.34e+01 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1c0eA 157 5.36e+01 1dg9A c.44.1.1 32638 1j9yA 385 5.37e+01 1j9yA c.1.8.3 62791 1y8qB 640 5.41e+01 2d1uA 104 5.42e+01 1bj8 109 5.43e+01 1bquA b.1.2.1 22070 1b07A 59 5.44e+01 1ckaA b.34.2.1 24461 2db9A 149 5.54e+01 1qmvA 197 5.54e+01 1qq2A c.47.1.10 33066 1fjgP 88 5.55e+01 1emwA d.27.1.1 38444 1phr 157 5.56e+01 1dg9A c.44.1.1 32635 1ugjA 141 5.60e+01 b.41.1.3 107826 1h8eG 272 5.61e+01 1e79G c.49.2.1 60756 1jofA 365 5.62e+01 b.69.10.1 71775 1ne9A 335 5.63e+01 d.108.1.4,d.108.1.4 91839,91840 1xwwA 157 5.65e+01 1gyxA 76 5.67e+01 d.80.1.1 76387 1ri9A 102 5.68e+01 b.34.2.1 97506 1a15A 67 5.74e+01 1a15A d.9.1.1 37451 1qjdA 571 5.78e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1ndh 272 5.78e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1p2hA 571 5.82e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1kssA 571 5.82e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1xfsA 178 5.86e+01 d.129.3.5 109589 1ttzA 87 5.99e+01 c.47.1.1 107309 3nul 130 6.01e+01 3nul d.110.1.1 40891 1b72B 87 6.03e+01 1akhA a.4.1.1 16001 1pczA 191 6.08e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1x54A 434 6.22e+01 1woyA 500 6.29e+01 1wh5A 80 6.37e+01 1y0pA 571 6.38e+01 1i86A 389 6.43e+01 c.95.1.2,c.95.1.2 66068,66069 1q9iA 571 6.45e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1a0k 131 6.45e+01 3nul d.110.1.1 40892 1aojA 60 6.48e+01 1aojA b.34.2.1 24555 1f2tB 148 6.51e+01 1f2tB 1ny1A 240 6.56e+01 c.6.2.3 86395 1lj1A 571 6.60e+01 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1mtpB 43 6.90e+01 1hdj 77 7.03e+01 1bqz a.2.3.1 15696 1ka9H 200 7.07e+01 c.23.16.1 77308 1tksA 204 7.20e+01 d.115.1.2 107114 1ab2 109 7.38e+01 1lckA d.93.1.1 40506 1i0cA 60 7.41e+01 1aojA b.34.2.1 61485 1culA 217 7.44e+01 1azsA d.58.29.1 39417 1ttwA 138 7.46e+01 d.198.1.1 107308 1th8A 145 7.71e+01 d.122.1.3 106908 1z0wA 207 7.71e+01 1g8kA 825 7.81e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1oshA 232 7.85e+01 a.123.1.1 93496 1o7nA 449 7.86e+01 b.33.1.2,d.129.3.3 81162,81163 1cr5A 189 7.94e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1k75A 434 8.03e+01 c.82.1.2 68253 1pvmA 184 8.03e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ndoA 449 8.09e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 2amhA 207 8.10e+01 2a2pA 129 8.18e+01 1eg9A 449 8.20e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1tkeA 224 8.20e+01 1t0qC 86 8.24e+01 d.15.12.1 106222 1bu6O 501 8.30e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1aisA 182 8.33e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1nzjA 298 8.40e+01 c.26.1.1 92377 2ci9A 102 8.41e+01 2ghrA 302 8.43e+01 1bi5A 389 8.47e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1ry9A 145 8.49e+01 d.198.1.1 98094 1yw5A 177 8.53e+01 2hgf 97 8.61e+01 1bhtA g.10.1.1 44607 1ap8 213 8.70e+01 1ap8 d.86.1.1 40151 1jtdB 273 8.72e+01 b.69.5.2 67265 1wzcA 249 8.76e+01 1azsA 220 8.92e+01 1azsA d.58.29.1 39416