# 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 7.73e-01 1lktA b.90.1.1 28398 1ffyA 917 2.06e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 2.06e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 2f4qA 346 2.33e+00 1u0tA 307 3.58e+00 e.52.1.1 107567 1m93C 41 3.85e+00 1vjfA 180 4.51e+00 d.116.1.1 100809 1tp6A 128 4.70e+00 d.17.4.12 107184 1qauA 112 4.85e+00 1qauA b.36.1.1 24779 1yx1A 264 4.85e+00 1eagA 342 5.02e+00 1eagA b.50.1.2 26826 1qavB 115 5.07e+00 1qauA b.36.1.1 24780 1yaxA 153 5.68e+00 1gpeA 587 6.21e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1yqtA 538 6.35e+00 1cdq 77 6.97e+00 1cds g.7.1.3 44459 1cds 77 7.83e+00 1cds g.7.1.3 44461 1isaA 192 8.78e+00 1avmA a.2.11.1,d.44.1.1 15731,38724 1iscA 192 8.78e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 2c3vA 102 1.01e+01 1dcjA 81 1.01e+01 1dcjA d.68.3.3 59115 1tqzA 133 1.03e+01 3ezmA 101 1.04e+01 3ezmA b.89.1.1 28395 1cqyA 99 1.05e+01 1b9zA b.3.1.1 22527 1lwdA 413 1.13e+01 c.77.1.1 78265 1ui0A 205 1.18e+01 c.18.1.2 99411 2cvzA 289 1.49e+01 1sqeA 109 1.51e+01 d.58.4.5 105908 1zkdA 387 1.57e+01 1bxwA 172 1.65e+01 1bxwA f.4.1.1 43743 1xewY 172 1.67e+01 2go8A 122 1.76e+01 1ijqA 316 1.84e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1m9sA 605 1.87e+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 1qx4A 274 1.89e+01 b.43.4.2,c.25.1.1 104624,104625 1lv9A 77 1.91e+01 d.9.1.1 78233 2bzoB 79 2.04e+01 1b8qA 127 2.08e+01 1qauA b.36.1.1 24781 1zip 217 2.10e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1v74A 107 2.17e+01 d.243.1.1 100442 1m7xA 617 2.19e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1qhoA 686 2.19e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1qq2A 199 2.24e+01 1qq2A c.47.1.10 33064 2gk3A 256 2.31e+01 1b8iB 63 2.32e+01 1akhA a.4.1.1 16011 1iiyA 101 2.44e+01 b.89.1.1 66152 2fh5A 185 2.49e+01 1n9lA 109 2.49e+01 d.110.3.6 85468 1kjvA 284 2.50e+01 b.1.1.2,d.19.1.1 77421,77422 1zin 217 2.50e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1emwA 88 2.54e+01 1emwA d.27.1.1 38448 1qjpA 171 2.63e+01 1bxwA f.4.1.1 43742 1tyyA 339 2.63e+01 1odzA 386 2.75e+01 c.1.8.3 86889 2bjbA 462 2.78e+01 1d4oA 184 2.79e+01 1d4oA c.31.1.4 31748 1byrA 155 2.83e+01 1byrA d.136.1.1 41450 1xqaA 113 2.86e+01 1huxA 270 2.92e+01 1huxA c.55.1.5 61278 1cv8 174 3.00e+01 1cv8 d.3.1.1 37089 1u58A 253 3.01e+01 2a2pA 129 3.05e+01 2fhxA 246 3.05e+01 2dg5B 190 3.09e+01 1mkeA 152 3.26e+01 b.55.1.4 79231 1vr9A 213 3.27e+01 1dg9A 157 3.27e+01 1dg9A c.44.1.1 32637 1yuzA 202 3.33e+01 1uasA 362 3.35e+01 b.71.1.1,c.1.8.1 88388,88389 1wm3A 72 3.36e+01 1o7xC 377 3.36e+01 a.103.1.1 81173 2cfuA 658 3.39e+01 1o7xD 377 3.40e+01 a.103.1.1 81174 1bvh 157 3.43e+01 1dg9A c.44.1.1 32640 1bywA 110 3.45e+01 1bywA d.110.3.6 40912 1c0eA 157 3.52e+01 1dg9A c.44.1.1 32638 1ebdA 455 3.53e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2cu3A 64 3.62e+01 2fa8A 105 3.63e+01 1w41A 101 3.78e+01 2akrA 285 3.79e+01 2bzuA 181 3.81e+01 1skoA 143 3.83e+01 d.110.7.1 105676 1o7xB 377 3.83e+01 a.103.1.1 81172 1xwwA 157 3.90e+01 1h7mA 102 3.92e+01 d.79.3.1 83485 2dln 306 3.94e+01 1iow c.30.1.2,d.142.1.1 31715,41483 1h4rA 314 3.97e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1phr 157 4.08e+01 1dg9A c.44.1.1 32635 1nrlA 316 4.11e+01 a.123.1.1 92091 1obr 326 4.15e+01 1aye c.56.5.2 33828 2fikA 287 4.17e+01 1iow 306 4.22e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1bpv 112 4.29e+01 1bpv b.1.2.1 22071 1vetA 124 4.32e+01 d.110.7.1 108553 1z5lA 285 4.32e+01 1j9yA 385 4.35e+01 1j9yA c.1.8.3 62791 1vjvA 415 4.50e+01 d.3.1.9 108632 1pqzA 238 4.55e+01 b.1.1.2,d.19.1.1 104297,104298 1txkA 498 4.55e+01 b.1.18.2,b.30.5.9 107425,107426 1iwdA 215 4.57e+01 d.3.1.1 83756 1iezA 217 4.58e+01 d.115.1.2 66129 2dchX 216 4.65e+01 1jjgA 102 4.67e+01 b.40.4.5 71696 1omiA 248 4.71e+01 b.82.3.3,a.4.5.4 87079,87080 1y9wA 140 4.73e+01 1p6oA 161 4.75e+01 c.97.1.2 94185 5bcaA 516 4.75e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1vemA 516 4.76e+01 1b9zA 516 4.77e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1itcA 516 4.90e+01 b.3.1.1,c.1.8.1 83705,83706 1zq7A 207 4.93e+01 3nul 130 4.93e+01 3nul d.110.1.1 40891 1i7pA 274 4.95e+01 b.43.4.2,c.25.1.1 66048,66049 1w9hA 427 5.07e+01 1ttwA 138 5.18e+01 d.198.1.1 107308 1uaqA 158 5.19e+01 c.97.1.2 88386 1ap8 213 5.19e+01 1ap8 d.86.1.1 40151 1a0k 131 5.26e+01 3nul d.110.1.1 40892 1yhfA 115 5.32e+01 1ryaA 160 5.33e+01 d.113.1.5 105122 1umkA 275 5.33e+01 1ugjA 141 5.33e+01 b.41.1.3 107826 1h8eG 272 5.37e+01 1e79G c.49.2.1 60756 2db9A 149 5.56e+01 1te7A 103 5.63e+01 1gyxA 76 5.64e+01 d.80.1.1 76387 1o7nA 449 5.68e+01 b.33.1.2,d.129.3.3 81162,81163 1e39A 571 5.70e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1cch 82 5.71e+01 451c a.3.1.1 15902 2gw6A 123 5.72e+01 1b9wA 89 5.72e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 2fafA 608 5.86e+01 1ckaA 57 5.94e+01 1ckaA b.34.2.1 24459 1jtdB 273 5.96e+01 b.69.5.2 67265 1e19A 314 6.00e+01 1b7bA c.73.1.1 34967 1ndoA 449 6.03e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1eg9A 449 6.04e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1rgs 288 6.18e+01 1rgs b.82.3.2,b.82.3.2 28146,28147 1m64A 571 6.24e+01 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1b07A 59 6.25e+01 1ckaA b.34.2.1 24461 1d0iA 156 6.25e+01 2dhqA c.23.13.1 31383 1ndh 272 6.34e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1g59A 468 6.40e+01 a.97.1.1,c.26.1.1 60257,60258 1pczA 191 6.45e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1iujA 106 6.48e+01 d.58.4.5 90701 1cor 82 6.48e+01 451c a.3.1.1 15903 1cd1A 315 6.56e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1gsa 316 6.62e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1qmvA 197 6.64e+01 1qq2A c.47.1.10 33066 1ne6A 283 6.67e+01 b.82.3.2,b.82.3.2 91831,91832 1kssA 571 6.71e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1p2hA 571 6.71e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1qjdA 571 6.74e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1mtpB 43 6.86e+01 1fjgP 88 6.94e+01 1emwA d.27.1.1 38444 1ynmA 247 6.98e+01 1uh6A 100 7.07e+01 d.15.1.1 99394 1cuk 203 7.21e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1gw1A 376 7.33e+01 c.1.8.3 76361 1y0pA 571 7.35e+01 1ne9A 335 7.43e+01 d.108.1.4,d.108.1.4 91839,91840 1q9iA 571 7.47e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1f2tB 148 7.49e+01 1f2tB 1l9gA 192 7.50e+01 c.18.1.2 84568 1lj1A 571 7.52e+01 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1tiiD 99 7.60e+01 1tiiD b.40.2.1 24965 1qb5D 99 7.64e+01 b.40.2.1 88357 1m13A 316 7.87e+01 a.123.1.1 84746 1aisA 182 7.92e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1lgpA 116 8.00e+01 b.26.1.2 73890 1j09A 468 8.10e+01 a.97.1.1,c.26.1.1 77025,77026 1bj8 109 8.13e+01 1bquA b.1.2.1 22070 1xc3A 302 8.26e+01 1ay2 159 8.27e+01 2pil d.24.1.1 38377 2ciaA 102 8.31e+01 2pil 159 8.32e+01 2pil d.24.1.1 38376 1g5aA 628 8.39e+01 b.71.1.1,c.1.8.1 65152,65153 1th8A 145 8.39e+01 d.122.1.3 106908 1j7gA 144 8.45e+01 c.110.1.1 84130 1t0qC 86 8.48e+01 d.15.12.1 106222 1kllA 130 8.55e+01 d.32.1.2 72720 1d3uA 181 8.56e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1vq2A 193 8.58e+01 2gaiA 633 8.69e+01 1c3oE 1073 8.80e+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 18564,31493,31685,31686,41530,41531 1keeE 1073 8.81e+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 68508,68509,68510,68511,68512,68513 1efaA 333 8.94e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1d4tA 104 8.95e+01 1d4tA d.93.1.1 40537