# List of top-scoring protein chains for t06-100-30-o_notor2-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 1dyqA 234 9.69e-02 3seb b.40.2.2,d.15.6.1 59140,59141 1ma3A 253 3.38e-01 c.31.1.5 78883 1wspA 84 4.33e-01 1xwvA 129 4.37e-01 2fvtA 135 6.62e-01 1q59A 172 8.04e-01 f.1.4.1 95881 1rwiA 270 9.44e-01 b.68.9.1 97987 1d2oA 187 1.07e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1iz5A 249 1.19e+00 d.131.1.2,d.131.1.2 83834,83835 2b7eA 59 1.25e+00 1m93A 55 1.32e+00 e.1.1.1 91235 1g8lA 411 1.50e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1a53 247 1.53e+00 1a53 c.1.2.4 28564 1ri6A 343 1.66e+00 b.69.11.1 97503 2a2pA 129 1.78e+00 1fl2A 310 1.80e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1xedA 117 1.94e+00 2rslA 140 1.98e+00 2rslA c.53.1.1 33345 1b65A 375 2.07e+00 1b65A d.154.1.1 42020 2axwA 134 2.28e+00 1qhlA 227 2.31e+00 1qhlA c.37.1.12 32382 1my6A 199 2.32e+00 a.2.11.1,d.44.1.1 85232,85233 1n91A 108 2.32e+00 d.206.1.1 80326 1v30A 124 2.49e+00 2d1uA 104 2.50e+00 1wrjA 156 2.73e+00 1e9rA 437 2.81e+00 c.37.1.11 64827 2cxcA 144 2.87e+00 1k38A 254 3.00e+00 e.3.1.1 84303 2awpA 198 3.08e+00 1ydmA 187 3.14e+00 1jhfA 202 3.25e+00 a.4.5.2,b.87.1.1 63057,63058 2czrA 226 3.34e+00 1aisA 182 3.38e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 2fclA 169 3.48e+00 1thg 544 3.54e+00 1thg c.69.1.17 34763 1svpA 161 4.54e+00 1svpA b.47.1.3 26384 1ockA 412 4.73e+00 c.117.1.1 86802 1g6gA 127 5.31e+00 1g6gA b.26.1.2 23916 2gw6A 123 5.35e+00 1wmqA 147 5.48e+00 1vqoI 162 5.54e+00 1exg 110 5.79e+00 1exg b.2.2.1 22387 1sek 378 6.28e+00 1sek e.1.1.1 42675 1epwA 1290 6.32e+00 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1wmhA 89 6.49e+00 1mzgA 146 6.67e+00 d.224.1.1 79696 1m4jA 142 6.77e+00 d.109.1.2 78602 1t64A 377 6.86e+00 c.42.1.2 106543 1bby 69 6.99e+00 2bby a.4.5.15 16149 1wpuA 147 7.17e+00 1fp1D 372 7.30e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1fhgA 154 7.46e+00 1tlk b.1.1.4 21706 1ddf 127 7.62e+00 1ddf a.77.1.2 18423 1sr4B 261 7.87e+00 d.151.1.1 105949 1n8kA 374 7.97e+00 b.35.1.2,c.2.1.1 80298,80299 2cwsA 237 8.10e+00 1m07A 111 8.28e+00 d.5.1.1 78328 1t0hA 132 8.31e+00 b.34.2.1 106207 1u3wA 374 8.36e+00 1tiqA 180 8.73e+00 d.108.1.1 107010 2bbkL 125 8.80e+00 2bbkL g.21.1.1 44882 1repC 251 8.93e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1mixA 206 9.04e+00 a.11.2.1,b.55.1.5 79166,79167 1quqB 121 9.43e+00 1quqB b.40.4.3 25305 2g0uA 92 9.49e+00 1vfsA 386 9.49e+00 b.49.2.2,c.1.6.1 108584,108585 5nul 138 9.66e+00 5nul c.23.5.1 31191 2f4qA 346 9.67e+00 1y96A 86 9.67e+00 2bg5A 324 9.90e+00 2f4mA 295 9.93e+00 1sqsA 242 1.01e+01 c.23.5.5 98968 1rsy 152 1.02e+01 1rsy b.7.1.2 23192 1f0lA 535 1.03e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1xkiA 162 1.03e+01 1bia 321 1.03e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1zthA 258 1.04e+01 1qzgA 187 1.04e+01 b.40.4.3 96643 1ztsA 139 1.05e+01 1xyiA 66 1.10e+01 1g7nA 131 1.10e+01 b.60.1.2 83274 1pvtA 238 1.10e+01 c.74.1.1 95189 1qi9A 556 1.13e+01 1qhbA a.111.1.2 19053 2d4rA 147 1.13e+01 2fj6A 82 1.14e+01 1o58A 303 1.23e+01 c.79.1.1 92491 1yllA 200 1.24e+01 1b56 135 1.25e+01 1hmt b.60.1.2 27183 1fg7A 356 1.27e+01 1gewA c.67.1.1 59819 1i8fA 81 1.28e+01 1i8fA b.38.1.1 61959 2gh1A 301 1.36e+01 1xdnA 277 1.39e+01 1wwhA 119 1.41e+01 1h72C 296 1.42e+01 d.14.1.5,d.58.26.1 60712,60713 1kshA 186 1.46e+01 c.37.1.8 72914 2aioA 269 1.48e+01 1mkaA 171 1.55e+01 1mkaA d.38.1.2 38543 2g6tA 306 1.57e+01 1oj4A 283 1.64e+01 d.14.1.5,d.58.26.5 93083,93084 1tf1A 198 1.67e+01 d.110.2.2 106826 2b3wA 168 1.69e+01 2axpA 173 1.73e+01 1xewY 172 1.74e+01 1wqaA 455 1.74e+01 1ta8A 332 1.76e+01 1zhvA 134 1.81e+01 2bwqA 129 1.83e+01 1wb4A 297 1.86e+01 2aefA 234 1.87e+01 1pmi 440 1.87e+01 1pmi b.82.1.3 28114 1v7wA 807 1.90e+01 a.102.1.4,b.30.5.3 108411,108412 1hqz1 141 1.93e+01 2a15A 139 1.94e+01 1c52 131 1.97e+01 1c52 a.3.1.1 15810 1vhqA 232 1.98e+01 c.23.16.2 100696 2culA 232 2.01e+01 1njhA 119 2.01e+01 b.128.1.1 85787 1vetA 124 2.02e+01 d.110.7.1 108553 1ft5A 211 2.02e+01 1bvb a.138.1.3 19681 2gmqA 118 2.09e+01 1rh9A 373 2.10e+01 1bn8A 420 2.14e+01 1pcl b.80.1.1 28022 1wcdJ 441 2.15e+01 2c9qA 102 2.16e+01 1qavA 90 2.20e+01 1qauA b.36.1.1 24777 2bgiA 272 2.20e+01 1eceA 358 2.24e+01 1eceA c.1.8.3 28813 1nf3C 128 2.25e+01 b.36.1.1 85596 2amhA 207 2.25e+01 1ll2A 333 2.25e+01 c.68.1.14 74005 1vkuA 100 2.27e+01 a.28.1.1 108690 1p5vA 235 2.29e+01 b.1.11.1,b.7.2.1 87812,87813 1k0hA 117 2.31e+01 b.106.1.2 71975 1u6rA 380 2.31e+01 1yaxA 153 2.36e+01 2g9iA 249 2.38e+01 1o6dA 163 2.39e+01 c.116.1.3 92567 1rwzA 245 2.39e+01 d.131.1.2,d.131.1.2 98005,98006 1cby 259 2.46e+01 1cby d.103.1.1 40705 1nijA 318 2.46e+01 c.37.1.10,d.237.1.1 85741,85742 1ki1B 352 2.48e+01 a.87.1.1,b.55.1.1 72497,72498 1ex0A 731 2.51e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1jjzA 29 2.54e+01 g.3.3.1 71699 2gkeA 274 2.58e+01 2dfkA 402 2.58e+01 1j5xA 342 2.62e+01 c.80.1.1 71591 1regX 122 2.67e+01 1regX d.58.27.1 39406 1mdc 133 2.67e+01 1hmt b.60.1.2 27198 1s4iA 175 2.68e+01 2flsA 132 2.68e+01 1ri5A 298 2.71e+01 c.66.1.34 97502 1kqpA 271 2.71e+01 c.26.2.1 72883 1iwdA 215 2.76e+01 d.3.1.1 83756 2ftbA 125 2.83e+01 1fecA 490 2.86e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1iscA 192 2.86e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1tq5A 242 2.86e+01 2fh7A 595 2.87e+01 2cu3A 64 2.87e+01 2c0nA 203 2.87e+01 1rf6A 427 2.89e+01 d.68.2.2 97366 1xcbA 211 2.90e+01 a.4.5.38,c.2.1.12 109552,109553 1yiyA 429 2.91e+01 1gqzA 274 2.93e+01 d.21.1.1,d.21.1.1 83311,83312 1lj5A 379 2.96e+01 e.1.1.1 73928 1lqtA 456 2.98e+01 c.3.1.1,c.4.1.1 74198,74199 1z06A 189 3.00e+01 1th7A 81 3.01e+01 1b25A 619 3.02e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1g291 372 3.04e+01 1g291 1h2cA 140 3.10e+01 b.31.1.1 83462 1txlA 215 3.11e+01 b.60.1.4 107429 1r6jA 82 3.14e+01 b.36.1.1 97151 1gs5A 258 3.41e+01 c.73.1.2 70395 1ew4A 106 3.42e+01 1ew4A d.82.2.1 40023 2brcA 214 3.46e+01 1sheA 103 3.48e+01 d.274.1.1 105551 1uxzA 131 3.49e+01 b.18.1.10 100170 1wlzA 105 3.49e+01 1x74A 360 3.51e+01 1k9uA 78 3.51e+01 a.39.1.10 84348 1fr3A 67 3.52e+01 1fr3A b.40.6.1 25436 1un3A 123 3.53e+01 d.5.1.1 99646 1vl4A 447 3.60e+01 d.283.1.1 108718 1gxqA 106 3.63e+01 a.4.6.1 70721 1k7wA 468 3.66e+01 a.127.1.1 72130 1x8dA 104 3.68e+01 1q8fA 313 3.68e+01 c.70.1.1 96203 1i5pA 633 3.69e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1oygA 447 3.69e+01 b.67.2.2 93726 1o98A 511 3.80e+01 c.105.1.1,c.76.1.3 86684,86685 1v0lA 313 3.81e+01 c.1.8.3 108207 1mtzA 293 3.82e+01 c.69.1.7 79467 1hdoA 206 3.84e+01 1he2A c.2.1.2 60965 1o13A 136 3.86e+01 c.55.5.1 80762 1jlyA 304 3.88e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1ggzA 148 3.90e+01 a.39.1.5 70176 1oj8A 105 3.91e+01 d.5.1.1 103975 1ve6A 582 3.92e+01 1ois 223 3.94e+01 1a36A e.15.1.1 43267 1r6lA 239 3.94e+01 d.14.1.4,d.101.1.1 97153,97154 1qg8A 255 3.96e+01 1qg8A c.68.1.1 34505 1qveA 126 3.98e+01 d.24.1.1 104594 1a99A 344 4.00e+01 1pot c.94.1.1 35812 2fug1 438 4.01e+01 1j7xA 302 4.04e+01 c.14.1.2 66425 1vr0A 247 4.08e+01 1gwmA 153 4.10e+01 b.18.1.19 83348 1l9xA 315 4.11e+01 c.23.16.1 73762 2gfgA 193 4.15e+01 1tyjA 170 4.22e+01 1l6xA 207 4.23e+01 b.1.1.2,b.1.1.2 73642,73643 1guiA 155 4.24e+01 b.18.1.14 76351 1yn3A 98 4.29e+01 1h09A 338 4.36e+01 b.109.1.1,c.1.8.8 83420,83421 1o1zA 234 4.40e+01 c.1.18.3 86555 1wmiA 90 4.40e+01 1j31A 262 4.52e+01 d.160.1.2 90808 1bdfA 235 4.52e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1v04A 355 4.57e+01 b.68.6.2 100240 1tjvA 474 4.63e+01 a.127.1.1 107054 1tuaA 191 4.64e+01 d.51.1.1,d.51.1.1 107321,107322 1yloA 348 4.65e+01 1vbvA 105 4.66e+01 1vyfA 135 4.66e+01 b.60.1.2 108902 1wcuA 153 4.72e+01 1shyB 551 4.75e+01 b.69.12.1,g.16.2.1 105565,105566 1u6tA 121 4.76e+01 1xqwA 293 4.80e+01 1s29A 92 4.80e+01 a.4.5.46 98373 2arcA 164 4.84e+01 2arcA b.82.4.1 28148 1wl8A 189 4.86e+01 2fgtA 417 4.87e+01 1yoaA 159 4.90e+01 1dkuA 317 4.98e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2ez6A 221 4.98e+01 1zx5A 300 5.01e+01 1r64A 481 5.02e+01 b.18.1.20,c.41.1.1 97140,97141 2f86B 143 5.04e+01 1u09A 476 5.07e+01 e.8.1.4 107545 1rx0A 393 5.07e+01 a.29.3.1,e.6.1.1 98007,98008 1pp0A 199 5.08e+01 d.103.1.1 104211 1toaA 313 5.11e+01 1toaA c.92.2.2 35598 1q68A 38 5.14e+01 j.48.1.1 95962 1vqoL 165 5.18e+01 2acaA 189 5.24e+01 1vjpA 394 5.25e+01 c.2.1.3,d.81.1.3 100828,100829 1mo9A 523 5.26e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1twfI 122 5.26e+01 1w9zA 283 5.30e+01 1no5A 114 5.30e+01 d.218.1.5 92014 1tdzA 272 5.34e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1wlyA 333 5.36e+01 1woqA 267 5.44e+01 c.55.1.10,c.55.1.10 109462,109463 1wfxA 186 5.50e+01 1yu0A 381 5.53e+01 1uheA 97 5.55e+01 1gudA 288 5.57e+01 c.93.1.1 83326 1xreA 217 5.61e+01 1qvcA 145 5.61e+01 3ullA b.40.4.3 25284 1debA 54 5.65e+01 1debA h.1.18.1 45660 2a1fA 247 5.65e+01 1xdpA 687 5.66e+01 1ok7A 366 5.70e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2gnxA 365 5.70e+01 1ytvA 366 5.73e+01 1un7A 400 5.76e+01 b.92.1.5,c.1.9.10 99657,99658 2b2aA 199 5.77e+01 1i2sA 282 5.85e+01 e.3.1.1 71104 1c4rA 182 5.90e+01 1c4rA b.29.1.4 24229 1juvA 193 5.92e+01 c.71.1.1 90912 1tl9A 339 5.96e+01 1uc7A 125 5.99e+01 c.47.1.1 99163 2bcgY 206 6.11e+01 1vphA 149 6.12e+01 1mpp 361 6.16e+01 2rmpA b.50.1.2 26856 1vdwA 254 6.17e+01 e.7.1.1 100569 1v05A 96 6.18e+01 2as9A 210 6.21e+01 1dj7B 75 6.24e+01 1dj7B b.34.4.3 24598 1avsA 90 6.27e+01 1cll a.39.1.5 17226 1p4xA 250 6.32e+01 a.4.5.28,a.4.5.28 87784,87785 1ebfA 358 6.34e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1wouA 123 6.34e+01 c.47.1.16 109471 1ej0A 180 6.34e+01 1ej0A c.66.1.2 34179 1l1sA 113 6.35e+01 c.114.1.1 73484 1yizA 429 6.38e+01 1yv4A 104 6.40e+01 1wba 175 6.48e+01 1wba b.42.4.1 25591 1e1hB 174 6.53e+01 1ljoA 77 6.55e+01 b.38.1.1 73941 2etxA 209 6.58e+01 1qy6A 274 6.69e+01 b.47.1.1 96574 1tt8A 164 6.69e+01 1a8q 274 6.71e+01 1brt c.69.1.12 34702 1s9rA 410 6.71e+01 d.126.1.4 98758 1kqwA 134 6.77e+01 b.60.1.2 72887 1oa2A 218 6.82e+01 b.29.1.11 86721 1w2yA 229 6.84e+01 a.204.1.1 109140 1n67A 359 6.84e+01 b.2.3.4,b.2.3.4 85354,85355 1z2uA 150 6.88e+01 2avtA 378 6.88e+01 1eziA 228 6.95e+01 1eyrA c.68.1.13 34512 1mkmA 249 6.97e+01 a.4.5.33,d.110.2.2 79242,79243 1pwaA 162 7.03e+01 b.42.1.1 95211 1a8d 452 7.06e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1z47A 355 7.08e+01 1pyfA 312 7.08e+01 c.1.7.1 95334 2bv2A 83 7.08e+01 1dbhA 354 7.14e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1jfuA 186 7.14e+01 c.47.1.10 62940 1vloA 381 7.16e+01 b.44.2.1,d.250.1.1 108838,108839 1q3iA 214 7.19e+01 d.220.1.1 104524 8dfr 189 7.20e+01 1aoeA c.71.1.1 34895 1q87A 221 7.23e+01 e.47.1.1 96192 1rp4A 389 7.23e+01 a.227.1.1 105027 1vdc 333 7.24e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1id0A 152 7.26e+01 d.122.1.3 66111 1opd 85 7.27e+01 1ptf d.94.1.1 40560 1in0A 163 7.27e+01 d.58.49.1,d.58.49.1 83694,83695 2d1pA 140 7.29e+01 1ulyA 192 7.35e+01 1yg6A 193 7.43e+01 1y14B 171 7.44e+01 1yhpA 212 7.48e+01 1exrA 148 7.48e+01 1cll a.39.1.5 17299 1ukgA 252 7.51e+01 b.29.1.1 99489 1ksiA 642 7.51e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 2bneA 241 7.53e+01 2d9rA 104 7.54e+01 1ars 396 7.60e+01 1ajsA c.67.1.1 34287 1xttA 216 7.63e+01 1st9A 143 7.68e+01 c.47.1.10 98987 1idk 359 7.76e+01 1qcxA b.80.1.2 28025 1ngzA 213 7.79e+01 b.1.1.1,b.1.1.2 80500,80501 1je0A 236 7.80e+01 c.56.2.1 66581 1c7qA 445 7.84e+01 2pgi c.80.1.2 35307 2cx5A 158 7.85e+01 1oruA 195 7.87e+01 b.58.1.2 93464 1z5sD 83 7.87e+01 1h9mA 145 7.91e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1uldA 150 7.94e+01 b.29.1.3 99545 1b43A 340 7.97e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1vcvA 226 8.01e+01 1zpsA 138 8.04e+01 1rfs 139 8.08e+01 1rfs b.33.1.1 24434 1vr8A 142 8.11e+01 1nhcA 336 8.18e+01 b.80.1.3 91879 2bwfA 77 8.23e+01 2gzqA 200 8.23e+01 2bwkA 121 8.26e+01 1j5wA 298 8.34e+01 d.104.1.1 71589 1pbjA 125 8.35e+01 d.37.1.1,d.37.1.1 94414,94415 1wdnA 226 8.35e+01 1lst c.94.1.1 35816 1xuqA 212 8.37e+01 1t62A 166 8.46e+01 b.122.1.4 106541 1r5tA 142 8.47e+01 c.97.1.1 104812 1pguA 615 8.48e+01 b.69.4.1,b.69.4.1 88069,88070 2ajuL 216 8.48e+01 1ou8A 111 8.49e+01 b.136.1.1 93543 1uesA 191 8.50e+01 a.2.11.1,d.44.1.1 107798,107799 1vrmA 325 8.53e+01 1g0cA 364 8.54e+01 7a3hA c.1.8.3 60165 1wr8A 231 8.62e+01 1e4mM 501 8.66e+01 1e70M c.1.8.4 59226 1q3lA 69 8.68e+01 1p3cA 215 8.69e+01 b.47.1.1 93996 2fv7A 331 8.70e+01 1js1X 324 8.70e+01 c.78.1.1,c.78.1.1 71834,71835 2bpa1 426 8.72e+01 2bpa1 1nkr 201 8.73e+01 1nkr b.1.1.4,b.1.1.4 21799,21800 1pn2A 280 8.75e+01 d.38.1.4,d.38.1.4 94930,94931 1mnaA 298 8.77e+01 c.69.1.22 79322 2f9sA 151 8.78e+01 1x38A 602 8.81e+01 1z9tA 255 8.84e+01 1nq6A 302 8.85e+01 c.1.8.3 92046 1vp2A 208 8.88e+01 1qqp1 213 8.92e+01 1qqp1 1t0bA 252 8.93e+01 c.23.16.6 106199 1ys1X 320 8.95e+01