# 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 2kruA 63 8.57e-10 2hd0A 128 1.43e-01 2yv9A 291 2.12e-01 1id3B 102 5.02e-01 a.22.1.1 66113 3bpqB 88 5.35e-01 1tzyD 103 8.66e-01 a.22.1.1 107533 1kx5B 102 8.81e-01 a.22.1.1 77594 1aoiB 87 9.03e-01 1aoiB a.22.1.1 16470 1iz7A 295 1.01e+00 c.69.1.8 76982 1cv2A 296 1.01e+00 1bn6A c.69.1.8 34680 2hueC 84 1.02e+00 a.22.1.1 136776 2bw2A 140 1.12e+00 2da4A 80 1.12e+00 3cz7A 364 1.23e+00 2wmmA 162 1.39e+00 3h7eA 237 1.46e+00 2qzcA 214 1.51e+00 1pamA 686 2.09e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1mj5A 302 2.39e+00 c.69.1.8 91285 1h7mA 102 2.45e+00 d.79.3.1 83485 1w41A 101 2.52e+00 d.79.3.1 145812 3d35A 388 2.53e+00 2rimA 457 2.60e+00 2zfnA 460 2.94e+00 1g8iA 190 3.30e+00 1rec a.39.1.5 60363 2yr1A 257 3.62e+00 1ru8A 232 4.33e+00 c.26.2.1 97849 1khyA 148 4.47e+00 a.174.1.1 77410 3d9nA 145 4.48e+00 1zuaX 317 4.52e+00 2o14A 375 5.19e+00 b.18.1.32,c.23.10.8 148544,148545 1wqgA 185 5.50e+00 d.67.3.1 145821 1m5yA 408 5.52e+00 a.223.1.2,d.26.1.1,d.26.1.1 78664,78665,78666 1b67A 68 5.77e+00 1a7w a.22.1.2 16474 2d13A 227 5.88e+00 c.26.2.1 131121 1aoyA 78 6.08e+00 a.4.5.3 16087 3g6eY 142 6.10e+00 3gkrA 336 6.31e+00 2cpgA 45 7.40e+00 2cpgA a.43.1.3 17455 1sr8A 298 7.46e+00 e.54.1.1 105959 1cxlA 686 7.87e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1ot1A 686 7.92e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1d3cA 686 8.33e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 3hhsA 694 8.38e+00 1y66A 52 8.51e+00 1a7w 69 8.55e+00 1a7w 1a7wA 69 8.55e+00 a.22.1.2 16477 1gp2G 71 8.91e+00 1tbgE a.137.3.1 19635 3hyjA 198 8.96e+00 1b01A 45 9.00e+00 2cpgA a.43.1.3 17458 1h3oA 75 9.09e+00 a.22.1.3 76644 1oglA 283 9.52e+00 a.204.1.1 92922 1vqoI 162 9.80e+00 a.4.7.1 120370 1f1eA 154 1.01e+01 a.22.1.2 64927 1ldfA 281 1.04e+01 f.19.1.1 73845 1ne9A 335 1.04e+01 d.108.1.4,d.108.1.4 91839,91840 3i05A 395 1.04e+01 1jj2X 240 1.05e+01 1ffkV c.9.2.1 63109 1qhoA 686 1.05e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 3cmaY 240 1.06e+01 c.9.2.1 156794 1a4rA 191 1.06e+01 1ctqA c.37.1.8 32063 1vqoY 241 1.07e+01 c.9.2.1 120386 3iibA 444 1.10e+01 1mioB 458 1.17e+01 1qguB c.92.2.3 35602 1u02A 239 1.18e+01 c.108.1.15 107538 1w5tA 412 1.18e+01 a.4.5.11,c.37.1.20 114255,114256 1ug2A 95 1.19e+01 a.4.1.3 107823 3g9dA 297 1.23e+01 2v1nA 111 1.27e+01 1mzbA 136 1.39e+01 a.4.5.42 91497 3gxqA 54 1.41e+01 1shkA 173 1.49e+01 1shkA c.37.1.2 31932 1ewxA 146 1.54e+01 1ewxA c.47.1.10 33062 1qk8A 146 1.54e+01 1ewxA c.47.1.10 33061 1jfiB 179 1.59e+01 1jfiB a.22.1.3 62937 2pjpA 121 1.62e+01 2atxA 194 1.66e+01 c.37.1.8 127315 3hqaA 73 1.73e+01 3c64A 179 1.92e+01 1iqcA 308 1.95e+01 a.3.1.5,a.3.1.5 66266,66267 1e6cA 173 2.01e+01 1shkA c.37.1.2 59296 1p4cA 380 2.02e+01 c.1.4.1 94100 3giyA 380 2.04e+01 3gycA 393 2.08e+01 1wy7A 207 2.21e+01 c.66.1.32 121433 1mbe 53 2.21e+01 1mbe 3bmvA 683 2.21e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 155416,155417,155418,155419 3fhgA 207 2.21e+01 2grjA 192 2.25e+01 1o8xA 146 2.25e+01 c.47.1.10 86681 3h0lB 478 2.28e+01 1guuA 52 2.30e+01 a.4.1.3 83332 1qg6A 261 2.38e+01 1eny c.2.1.2 29919 2fp1A 166 2.43e+01 a.130.1.4 133891 2f6lA 166 2.44e+01 a.130.1.4 133049 2p0tA 176 2.50e+01 a.290.1.1 149141 2hhcA 330 2.52e+01 1ixh 321 2.52e+01 1ixh 1ixhA 321 2.52e+01 c.94.1.1 35761 1a54A 321 2.52e+01 1ixh c.94.1.1 35763 3c3pA 210 2.53e+01 1i1iP 681 2.56e+01 1i1iP d.92.1.5 40297 1dioA 554 2.59e+01 1dioA c.1.19.3 29656 1eexA 554 2.63e+01 1dioA c.1.19.3 29650 2hzdA 82 2.65e+01 2o5vA 359 2.74e+01 2fe3A 145 2.74e+01 3hkxA 283 2.79e+01 1ass 159 2.80e+01 1a6dA 1assA 159 2.80e+01 c.8.5.2 30818 1n1bA 549 2.86e+01 a.102.4.1,a.128.1.3 79799,79800 1yrnA 61 2.91e+01 1akhA a.4.1.1 15981 3khaA 95 2.94e+01 1m2rA 327 2.95e+01 d.144.1.7 84760 1evlA 401 2.96e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 2hu9A 130 2.96e+01 1gpiA 431 3.00e+01 b.29.1.10 65450 3hwuA 147 3.04e+01 1xuqA 212 3.05e+01 2nsaA 170 3.10e+01 1akhA 61 3.17e+01 1akhA a.4.1.1 15980 1nf3A 195 3.19e+01 c.37.1.8 85594 2vywA 148 3.28e+01 1wn0A 145 3.28e+01 a.24.10.2 121070 1o6jA 150 3.30e+01 c.47.1.10 81089 3fblA 82 3.33e+01 2eenA 183 3.34e+01 3cnqS 266 3.36e+01 3kyzA 125 3.36e+01 1sceA 112 3.39e+01 1puc d.97.1.1 40676 1bmbA 123 3.40e+01 1griA d.93.1.1 40466 3f49S 266 3.42e+01 3fozA 316 3.42e+01 2ivxA 257 3.43e+01 a.74.1.1,a.74.1.1 147813,147814 1y9wA 140 3.50e+01 d.108.1.1 122783 1rrzA 86 3.59e+01 a.7.10.1 105086 3dg6A 367 3.61e+01 3bi7A 212 3.65e+01 b.122.1.12 155298 3cjwA 244 3.72e+01 1jggA 60 3.72e+01 2hddA a.4.1.1 62950 1jh3A 107 3.74e+01 d.66.1.4 71661 1enh 54 3.77e+01 2hddA 1ukxA 137 3.77e+01 d.20.1.3 107919 1hddC 61 3.87e+01 2hddA a.4.1.1 15978 2o0i1 180 3.89e+01 1hfeL 421 3.90e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 3crjA 199 3.93e+01 1mxgA 435 4.01e+01 b.71.1.1,c.1.8.1 85193,85194 1fx8A 281 4.03e+01 f.19.1.1 43651 2gptA 523 4.05e+01 1ywmA 200 4.05e+01 1v0jA 399 4.11e+01 3ic7A 126 4.30e+01 1pufA 77 4.31e+01 a.4.1.1 95131 3i3vA 405 4.33e+01 2woeA 299 4.40e+01 1an0A 190 4.42e+01 1ctqA c.37.1.8 32066 1uumA 372 4.42e+01 c.1.4.1 100010 1eyvA 156 4.46e+01 1eyvA a.79.1.1 18446 1ecfB 504 4.54e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 2gf4A 100 4.54e+01 a.8.10.1 135074 2rgiA 98 4.55e+01 1ecfA 504 4.55e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 3h5tA 366 4.57e+01 2do1A 55 4.59e+01 a.140.2.1 131595 1kjsA 74 4.64e+01 a.50.1.1 17792 2rjbA 455 4.64e+01 1qynA 153 4.68e+01 d.33.1.1 96597 2vofA 157 4.68e+01 1ywfA 296 4.75e+01 c.45.1.5 124144 2comA 124 4.76e+01 a.4.1.18 130679 1x93A 55 4.77e+01 a.43.1.3 145859 2c29D 337 4.77e+01 1vm7A 311 4.81e+01 c.72.1.1 108884 2js9A 99 4.85e+01 2o7sA 523 4.86e+01 1l8aA 886 4.97e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1i1rB 181 4.98e+01 1i1rB a.26.1.1 61548 2rcvA 202 5.02e+01 1b72A 97 5.05e+01 2hddA a.4.1.1 16000 1qxyA 252 5.05e+01 d.127.1.1 96565 1irzA 64 5.05e+01 a.4.1.11 76772 1i5gA 144 5.07e+01 1ewxA c.47.1.10 61784 2qg3A 208 5.09e+01 2pjkA 178 5.15e+01 3iwtA 178 5.15e+01 1i49A 224 5.17e+01 1i49A a.238.1.2 61679 2ieaA 886 5.17e+01 c.36.1.6,c.36.1.10,c.48.1.1 137294,137295,137296 2ivyA 101 5.19e+01 d.58.58.1 147817 1v77A 212 5.25e+01 c.6.3.2 108402 1x13A 401 5.26e+01 1om1A 332 5.29e+01 d.144.1.7 93347 1ztrA 61 5.33e+01 a.4.1.1 125655 2zndA 172 5.34e+01 1i4dA 224 5.41e+01 a.238.1.2 61682 2boyA 254 5.46e+01 2scpA 174 5.54e+01 2scpA a.39.1.5 17256 1nvpD 108 5.59e+01 a.32.1.1,b.56.1.1 92213,92214 3kjhA 254 5.60e+01 1ffkV 143 5.63e+01 1ffkV c.9.2.1 30849 3jw4A 148 5.67e+01 2jt1A 77 5.70e+01 3dq0A 516 5.70e+01 2ztmA 260 5.70e+01 3ft7A 55 5.93e+01 2c08A 204 5.96e+01 a.238.1.1 129578 2zcxA 231 6.04e+01 2p4hX 322 6.09e+01 1bdtA 53 6.15e+01 1bazA a.43.1.1 17433 2kl8A 85 6.24e+01 2wocA 299 6.30e+01 2v6vA 156 6.34e+01 1tafA 68 6.35e+01 1tafA a.22.1.3 16481 1gph1 465 6.35e+01 1ecfB 3ktfA 103 6.44e+01 1w1oA 534 6.45e+01 d.58.32.4,d.145.1.1 109071,109072 2ce7A 476 6.50e+01 a.269.1.1,c.37.1.20 130312,130313 2ppqA 322 6.51e+01 d.144.1.6 149782 1i3zA 103 6.56e+01 d.93.1.1 83667 1bazA 53 6.57e+01 1bazA a.43.1.1 17421 1qk3A 233 6.58e+01 1qk3A c.61.1.1 34031 3bmaA 407 6.63e+01 2fiyA 309 6.65e+01 e.59.1.1 133540 1y0uA 96 6.66e+01 a.4.5.5 116310 3dxtA 354 6.69e+01 1e1dA 553 6.74e+01 1e1dA e.26.1.1 43363 2w83C 77 6.77e+01 1mszA 86 6.77e+01 d.68.7.1 79428 1pot 325 6.88e+01 1pot 1potA 325 6.88e+01 c.94.1.1 35807 1mgsA 73 6.94e+01 1tvxA d.9.1.1 37389 2wk6A 482 6.96e+01 2tpt 440 6.98e+01 1brwA 2c9oA 456 6.99e+01 1ep3A 311 7.06e+01 2dorA c.1.4.1 28597 3dsbA 157 7.10e+01 7atjA 308 7.11e+01 1bgp a.93.1.1 18673 1ao0A 459 7.17e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1t56A 216 7.35e+01 a.4.1.9,a.121.1.1 106428,106429 1yt8A 539 7.43e+01 c.46.1.2,c.46.1.2,c.46.1.2,c.46.1.2 123996,123997,123998,123999 3bhpA 60 7.44e+01 1nkd 65 7.47e+01 1nkd 1nkdA 65 7.47e+01 a.30.1.1 16974 1s6cA 183 7.75e+01 a.39.1.5 98594 2o35A 105 7.78e+01 a.293.1.1 148566 2pfsA 150 7.83e+01 1hqvA 191 7.89e+01 1hqvA a.39.1.8 61160 1brwA 433 7.91e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2heoA 67 7.94e+01