# List of top-scoring protein chains for t04-100-30-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 2plsA 86 6.45e-17 2p4pA 86 1.51e-16 2o1rA 81 1.70e-16 2oaiA 94 2.19e-16 2nqwA 93 5.32e-16 2p13A 90 1.38e-15 2pliA 91 1.65e-15 2r2zA 93 4.00e-15 2rk5A 87 1.57e-12 2p3hA 101 4.02e-11 1ifc 132 9.41e-02 1ifcA 132 9.41e-02 b.60.1.2 27173 1icmA 131 1.03e-01 b.60.1.2 27174 2r6fA 972 4.67e-01 2pp6A 102 4.94e-01 2anrA 178 5.00e-01 2nrlA 147 9.60e-01 2rb7A 364 1.02e+00 1zfjA 491 1.09e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1z06A 189 1.29e+00 c.37.1.8 124301 1c0pA 363 1.56e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 1vmeA 410 1.63e+00 c.23.5.1,d.157.1.3 108893,108894 1vr9A 213 1.65e+00 d.37.1.1,d.37.1.1 120446,120447 1jb7B 260 1.87e+00 1otcB b.40.4.3 62839 1hjxA 362 2.09e+00 c.1.8.5,d.26.3.1 83512,83513 1i8dA 213 2.14e+00 b.43.4.3,b.43.4.3 61953,61954 2ehsA 77 2.47e+00 1wh2A 78 3.01e+00 d.76.1.1 114630 2i6gA 199 3.23e+00 c.66.1.44 137096 2hy1A 280 3.39e+00 2r6gG 296 3.47e+00 1c30B 382 3.92e+00 c.8.3.1,c.23.16.1 30736,31413 1o3yA 166 4.40e+00 c.37.1.8 86618 1yvcA 70 4.47e+00 b.40.4.12 124094 1uptA 171 4.53e+00 c.37.1.8 99767 1mspA 126 4.54e+00 1mspA b.1.11.2 22333 1vlwA 217 4.56e+00 c.1.10.1 108868 2ohdA 151 4.63e+00 1r8sA 164 4.69e+00 c.37.1.8 97247 1wa3A 205 6.65e+00 c.1.10.1 120802 2qo4A 126 6.85e+00 2b3gA 123 6.90e+00 b.40.4.3 127786 2a5dA 175 6.99e+00 c.37.1.8 126172 1l1nA 183 7.15e+00 b.47.1.4 73476 2pa8L 92 7.28e+00 2yvyA 278 7.64e+00 1tvgA 153 7.85e+00 b.18.1.9 112683 2gcuA 245 7.85e+00 2g2kA 170 7.96e+00 1a9xB 379 8.19e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1r4aA 165 8.23e+00 c.37.1.8 96986 1p6pA 125 8.58e+00 b.60.1.2 87839 2ctdA 96 8.64e+00 g.37.1.1,g.37.1.1 130792,130793 2mspA 126 8.66e+00 1mspA b.1.11.2 22335 2aioA 269 8.86e+00 d.157.1.1 126829 1smlA 269 9.11e+00 1smlA d.157.1.1 42053 1tmxA 293 9.29e+00 1kzlA 208 9.53e+00 b.43.4.3,b.43.4.3 77635,77636 2cx6A 90 9.55e+00 c.9.1.1 130981 1iybA 208 9.84e+00 d.124.1.1 90720 2amwA 83 1.01e+01 2b49A 287 1.04e+01 2fztA 79 1.05e+01 a.46.3.1 134476 1xcbA 211 1.05e+01 a.4.5.38,c.2.1.12 109552,109553 2vg9A 217 1.06e+01 2c1fA 234 1.10e+01 1lv7A 257 1.10e+01 c.37.1.20 78232 1ve1A 304 1.10e+01 c.79.1.1 120007 1eyqA 222 1.10e+01 1eypA d.36.1.1 38534 2ehjA 208 1.12e+01 2q4uA 272 1.17e+01 1m2oA 768 1.18e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1zcbA 362 1.23e+01 a.66.1.1,c.37.1.8 124901,124902 1b8aA 438 1.32e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1w4tA 299 1.36e+01 d.3.1.5 120639 2g23A 612 1.37e+01 2aorA 223 1.44e+01 1gycA 499 1.47e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1nh8A 304 1.50e+01 c.94.1.1,d.58.5.3 80507,80508 1svsA 353 1.52e+01 c.37.1.8 106051 2uuuA 584 1.53e+01 1aisA 182 1.55e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jqgA 433 1.57e+01 c.56.5.1,d.58.3.1 71791,71792 1m2dA 110 1.58e+01 c.47.1.11 78476 2v40A 459 1.61e+01 2p6hA 134 1.67e+01 1tw4A 125 1.69e+01 b.60.1.2 112690 1hurA 180 1.69e+01 1hurA c.37.1.8 32052 2bbhA 269 1.72e+01 d.328.1.1 128266 1f37A 110 1.72e+01 1f37A c.47.1.11 33088 2g7bA 137 1.73e+01 2p18A 311 1.74e+01 1c8uA 285 1.75e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1h4wA 224 1.76e+01 b.47.1.2 65622 2yxbA 161 1.86e+01 2qcoA 210 1.87e+01 2ag4A 164 1.98e+01 b.95.1.1 126717 2q9oA 559 1.99e+01 2ih8A 559 2.00e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 2bv5A 282 2.01e+01 1wv2A 265 2.04e+01 c.1.31.1 114910 1pyaB 228 2.06e+01 1pyaB 1iweA 457 2.09e+01 c.37.1.10 71486 1owfB 94 2.15e+01 a.55.1.1 87488 1udxA 416 2.16e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1nofA 383 2.24e+01 b.71.1.2,c.1.8.3 92020,92021 1kqwA 134 2.25e+01 b.60.1.2 72887 1sjiA 350 2.25e+01 2zbwA 335 2.28e+01 1vqzA 341 2.32e+01 d.224.1.3,d.104.1.3 120426,120427 2qt6A 498 2.34e+01 1ckiA 317 2.36e+01 1csn d.144.1.7 41660 1rfmA 344 2.38e+01 c.122.1.1 97385 2gj8A 172 2.41e+01 c.37.1.8 135270 1offA 97 2.41e+01 d.15.4.1 86947 2dt5A 211 2.47e+01 a.4.5.38,c.2.1.12 131708,131709 1tufA 434 2.52e+01 b.49.2.3,c.1.6.1 107335,107336 2b6hA 192 2.52e+01 c.37.1.8 127994 2uv4A 152 2.53e+01 1d3yA 301 2.57e+01 1d3yA e.12.1.1 43252 2ag9A 164 2.59e+01 1gw5A 621 2.63e+01 a.118.1.10 70629 1hskA 326 2.65e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1twiA 434 2.66e+01 b.49.2.3,c.1.6.1 107399,107400 1i4wA 353 2.67e+01 c.66.1.24 66028 2c1cA 312 2.71e+01 c.56.5.1 129630 2hzmA 212 2.73e+01 3cu0A 281 2.76e+01 1s1eA 224 2.78e+01 a.39.1.5 112007 1kshA 186 2.86e+01 c.37.1.8 72914 2c6qA 351 2.93e+01 2k0mA 104 2.97e+01 1f6bA 198 2.98e+01 c.37.1.8 64986 1mj4A 82 3.00e+01 d.120.1.1 79189 2h57A 190 3.01e+01 1ywsA 82 3.05e+01 g.41.17.1 124163 2fgtA 417 3.09e+01 2vfrA 422 3.10e+01 1i19A 561 3.11e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2fmlA 273 3.13e+01 a.4.5.68,d.113.1.6 133778,133779 1xaoA 121 3.14e+01 2pqvA 154 3.17e+01 2yvsA 219 3.21e+01 1lpjA 133 3.24e+01 b.60.1.2 78123 1rewC 135 3.32e+01 g.7.1.3 97336 2o3aA 178 3.32e+01 1tocR 120 3.34e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1tp6A 128 3.34e+01 d.17.4.12 107184 1xruA 282 3.49e+01 b.82.1.13 122262 1a65A 504 3.59e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2ra3A 224 3.59e+01 1p4kA 295 3.60e+01 d.153.1.5 87772 1mr3F 181 3.63e+01 c.37.1.8 79422 1gu7A 364 3.66e+01 b.35.1.2,c.2.1.1 83321,83322 1w5dA 462 3.67e+01 e.3.1.3 120642 2f7vA 369 3.69e+01 1pbwA 216 3.69e+01 1pbwA a.116.1.1 19103 9gafA 295 3.71e+01 1apyA d.153.1.5 42008 1hfuA 503 3.72e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2h7mA 269 3.74e+01 c.2.1.2 136219 2hrgA 496 3.74e+01 1s6cA 183 3.78e+01 a.39.1.5 98594 2ouxA 286 3.82e+01 2a61A 145 3.84e+01 a.4.5.28 126187 2e1vA 454 3.84e+01 2h62C 129 3.87e+01 g.7.1.3 136179 2r9pA 224 3.88e+01 1ycdA 243 3.90e+01 1rypJ 204 3.92e+01 d.153.1.4 41878 1es7B 89 4.00e+01 1es7B g.7.1.3 44465 2i0kA 561 4.01e+01 2hsiA 282 4.05e+01 1eny 268 4.06e+01 1eny 2i3oA 516 4.10e+01 d.153.1.6 137027 2bijA 305 4.16e+01 1qw2A 102 4.19e+01 d.249.1.1 96456 1a19A 90 4.20e+01 1ay7B c.9.1.1 30831 2j0fA 482 4.24e+01 1lktA 104 4.30e+01 1lktA b.90.1.1 28398 2g95A 491 4.31e+01 2agaA 190 4.32e+01 1ucdA 190 4.35e+01 d.124.1.1 107767 1ihoA 283 4.39e+01 1ihoA c.26.1.4 62390 2qyxA 238 4.44e+01 1n83A 270 4.46e+01 a.123.1.1 80276 1ve0A 134 4.47e+01 2zctA 249 4.48e+01 2f9hA 129 4.50e+01 b.161.1.1 133162 2ywrA 216 4.57e+01 2hdiB 113 4.65e+01 2ghcX 261 4.68e+01 1uouA 474 4.69e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2dp9A 124 4.70e+01 b.122.1.5 131609 2ftbA 125 4.76e+01 b.60.1.2 134057 2fk9A 157 4.79e+01 2h3bA 494 4.79e+01 1q3iA 214 4.82e+01 d.220.1.1 104524 2e6mA 208 4.83e+01 2ew0A 192 4.92e+01 d.310.1.1 132445 1uyrA 737 4.97e+01 c.14.1.4,c.14.1.4 100188,100189 3cfuA 159 4.99e+01 1iz0A 302 5.08e+01 b.35.1.2,c.2.1.1 83821,83822 2uytA 489 5.13e+01 1kpeA 126 5.21e+01 1kpf d.13.1.1 37508 1lucB 324 5.24e+01 1lucA c.1.16.1 29548 2dxqA 150 5.24e+01 2gwdA 449 5.26e+01 1regX 122 5.30e+01 1regX d.58.27.1 39406 1kpf 126 5.33e+01 1kpf 1t8kA 77 5.44e+01 a.28.1.1 106666 1topA 162 5.51e+01 a.39.1.5 17223 2if5A 120 5.54e+01 3bgvA 313 5.54e+01 1kpfA 125 5.55e+01 d.13.1.1 37507 1hk8A 605 5.56e+01 c.7.1.3 83540 1gypA 358 5.57e+01 1dssG c.2.1.3,d.81.1.1 30004,39919 2essA 248 5.57e+01 d.38.1.8,d.38.1.8 132346,132347 1p9bA 442 5.60e+01 c.37.1.10 94385 1zghA 260 5.64e+01 b.46.1.1,c.65.1.1 125028,125029 1qhlA 227 5.68e+01 1qhlA c.37.1.12 32382 1p5dX 463 5.68e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1sdjA 310 5.70e+01 d.21.1.2,d.21.1.2 98807,98808 1be9A 119 5.76e+01 1pdr b.36.1.1 24774 3c5xC 130 5.77e+01 3choA 610 5.86e+01 2z0dB 125 5.87e+01 d.15.1.3 140096 2vj8A 611 5.87e+01 1b56A 135 5.87e+01 b.60.1.2 27183 1ujkA 147 5.92e+01 a.118.9.2 99457 2dxeA 160 5.94e+01 d.58.6.1 131870 2cwkA 160 5.94e+01 d.58.6.1 130925 2hjjA 87 5.95e+01 1ff9A 450 5.96e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1lfoA 127 5.96e+01 b.60.1.2 27223 1yycA 174 5.98e+01 2f9sA 151 5.99e+01 c.47.1.10 133168 2pia 321 6.02e+01 2pia 2piaA 321 6.02e+01 b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1jztA 246 6.03e+01 c.104.1.1 63319 1vqqA 646 6.06e+01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1w99A 558 6.24e+01 1st9A 143 6.29e+01 c.47.1.10 98987 2oauA 306 6.33e+01 b.38.1.3,d.58.43.1,f.34.1.1 138978,138979,138980 1v8cA 168 6.39e+01 d.15.3.1,d.129.5.1 100495,100496 1ay7B 89 6.39e+01 1ay7B c.9.1.1 30836 2btiA 63 6.40e+01 1b3bA 415 6.40e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1v5iB 76 6.42e+01 1u6rA 380 6.49e+01 a.83.1.1,d.128.1.2 119600,119601 1trkA 680 6.50e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1fonA 240 6.50e+01 5ptp b.47.1.2 26231 1zg2A 107 6.52e+01 1l0iA 78 6.59e+01 a.28.1.1 77643 1tk1A 260 6.59e+01 d.248.1.1 107066 1xrkA 124 6.68e+01 d.32.1.2 115881 2dg5B 190 6.76e+01 1f80D 81 6.81e+01 1acp a.28.1.1 59686 2g6bA 180 6.88e+01 c.37.1.8 134701 1zc0A 309 6.95e+01 2i6cA 160 6.95e+01 d.108.1.1 137095 2q62A 247 6.95e+01 1p71A 94 6.95e+01 a.55.1.1 87840 2ct9A 208 6.97e+01 1vpzA 73 6.98e+01 b.151.1.1 113998 1v8dA 235 7.00e+01 c.140.1.1 108425 1zzoA 136 7.00e+01 c.47.1.10 125913 1g13A 162 7.02e+01 1g13A b.95.1.1 60194 1dixA 208 7.05e+01 1bk7A d.124.1.1 41122 1kmqA 184 7.08e+01 c.37.1.8 84412 2ivnA 330 7.08e+01 1hs6A 611 7.14e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1y8oA 419 7.16e+01 2vcnA 261 7.16e+01 2c1wA 292 7.17e+01 d.294.1.1 129644 1r4wA 226 7.17e+01 c.47.1.13 97050 2h1nA 567 7.18e+01 3d33A 108 7.30e+01 1cipA 353 7.35e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1a2xA 159 7.35e+01 1ncx a.39.1.5 17251 2oa8A 233 7.37e+01 2z14A 133 7.39e+01 1n57A 291 7.55e+01 c.23.16.2 85328 1xtoA 311 7.59e+01 d.157.1.6 116030 1efvB 255 7.61e+01 1efvB c.26.2.3 31634 2rhsB 800 7.63e+01 2yy8A 201 7.70e+01 2btzA 394 7.71e+01 1p2hA 571 7.80e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1frrA 95 7.86e+01 1awd d.15.4.1 37674 1hruA 188 7.89e+01 1hruA d.115.1.1 40926 1oafA 261 7.92e+01 a.93.1.1 86734 2cu6A 103 7.98e+01 d.52.8.2 130803 1xjvA 294 8.00e+01 b.40.4.3,b.40.4.3 115396,115397