# List of top-scoring protein chains for t06-100-30-bys-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 2rslA 140 4.16e-01 2rslA c.53.1.1 33345 1dyqA 234 4.85e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2fclA 169 6.31e-01 1a53 247 7.24e-01 1a53 c.1.2.4 28564 1m93A 55 1.93e+00 e.1.1.1 91235 2fvtA 135 2.67e+00 2flsA 132 2.99e+00 2bg5A 324 3.19e+00 1zp4A 304 3.74e+00 1regX 122 3.84e+00 1regX d.58.27.1 39406 2aioA 269 4.25e+00 1qzgA 187 4.64e+00 b.40.4.3 96643 1xkiA 162 5.20e+00 2axwA 134 5.33e+00 2g9iA 249 5.41e+00 1qhlA 227 5.42e+00 1qhlA c.37.1.12 32382 1fl2A 310 6.14e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1xwvA 129 6.65e+00 1repC 251 6.72e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1iz5A 249 6.99e+00 d.131.1.2,d.131.1.2 83834,83835 1ma3A 253 7.96e+00 c.31.1.5 78883 1thg 544 8.10e+00 1thg c.69.1.17 34763 1kqpA 271 8.21e+00 c.26.2.1 72883 1c52 131 8.84e+00 1c52 a.3.1.1 15810 2d1uA 104 8.89e+00 1t64A 377 9.18e+00 c.42.1.2 106543 1s55A 156 9.54e+00 1tiqA 180 9.74e+00 d.108.1.1 107010 1d2oA 187 9.77e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1oa2A 218 9.97e+00 b.29.1.11 86721 2afbA 351 1.05e+01 1v30A 124 1.11e+01 1zpvA 91 1.12e+01 1gyxA 76 1.13e+01 d.80.1.1 76387 1h72C 296 1.17e+01 d.14.1.5,d.58.26.1 60712,60713 2gfgA 193 1.22e+01 1hdoA 206 1.27e+01 1he2A c.2.1.2 60965 1a99A 344 1.28e+01 1pot c.94.1.1 35812 2gw6A 123 1.35e+01 1k38A 254 1.37e+01 e.3.1.1 84303 2fh7A 595 1.37e+01 1xedA 117 1.38e+01 1o58A 303 1.38e+01 c.79.1.1 92491 1sqsA 242 1.39e+01 c.23.5.5 98968 1vr0A 247 1.49e+01 1sek 378 1.51e+01 1sek e.1.1.1 42675 2gmqA 118 1.57e+01 1b25A 619 1.58e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1yr2A 741 1.63e+01 1tf1A 198 1.67e+01 d.110.2.2 106826 1i8fA 81 1.69e+01 1i8fA b.38.1.1 61959 1vr7A 142 1.70e+01 1my6A 199 1.70e+01 a.2.11.1,d.44.1.1 85232,85233 2asbA 251 1.74e+01 2cxcA 144 1.79e+01 1m07A 111 1.83e+01 d.5.1.1 78328 1yb2A 275 1.90e+01 1juvA 193 1.99e+01 c.71.1.1 90912 1ej0A 180 2.00e+01 1ej0A c.66.1.2 34179 1wmqA 147 2.03e+01 1y96B 85 2.04e+01 1qlmA 316 2.06e+01 1qlmA d.147.1.1 41765 1g8lA 411 2.08e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1qavA 90 2.09e+01 1qauA b.36.1.1 24777 1o6dA 163 2.17e+01 c.116.1.3 92567 1u00A 227 2.20e+01 1ockA 412 2.22e+01 c.117.1.1 86802 2b7eA 59 2.26e+01 1tygB 87 2.29e+01 d.15.3.2 107455 1b56 135 2.32e+01 1hmt b.60.1.2 27183 1vddA 228 2.49e+01 e.49.1.1 108519 1qi9A 556 2.53e+01 1qhbA a.111.1.2 19053 4uagA 437 2.54e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1wpuA 147 2.55e+01 2gi3A 476 2.61e+01 1ft5A 211 2.69e+01 1bvb a.138.1.3 19681 1t0aA 159 2.72e+01 1rwiA 270 2.73e+01 b.68.9.1 97987 1x74A 360 2.77e+01 1epwA 1290 2.78e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2g0uA 92 2.80e+01 1p35A 299 2.81e+01 1p35A b.28.1.1 23925 1ll2A 333 2.97e+01 c.68.1.14 74005 1ydmA 187 2.99e+01 2aefA 234 3.02e+01 1ta8A 332 3.03e+01 1uc7A 125 3.09e+01 c.47.1.1 99163 1p5vA 235 3.10e+01 b.1.11.1,b.7.2.1 87812,87813 1xdpA 687 3.15e+01 1nijA 318 3.31e+01 c.37.1.10,d.237.1.1 85741,85742 1q59A 172 3.31e+01 f.1.4.1 95881 1ns5A 155 3.32e+01 c.116.1.3 80705 1g7nA 131 3.33e+01 b.60.1.2 83274 1duvG 333 3.37e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1bg6 359 3.48e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1zhvA 134 3.51e+01 1v0lA 313 3.54e+01 c.1.8.3 108207 1jhfA 202 3.61e+01 a.4.5.2,b.87.1.1 63057,63058 1v93A 296 3.69e+01 c.1.23.1 100532 1zthA 258 3.69e+01 1tueA 212 3.72e+01 c.37.1.20 107323 1exg 110 3.72e+01 1exg b.2.2.1 22387 2bo4A 397 3.72e+01 2bwfA 77 3.76e+01 1vicA 262 3.77e+01 c.68.1.13 100756 1njhA 119 3.89e+01 b.128.1.1 85787 3seb 238 3.90e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2a2pA 129 3.90e+01 1wmhA 89 3.92e+01 1vr4A 103 3.95e+01 1rypI 222 4.05e+01 d.153.1.4 41877 1t9bA 677 4.07e+01 1of8A 370 4.09e+01 c.1.10.4 92819 1ve6A 582 4.12e+01 5nul 138 4.17e+01 5nul c.23.5.1 31191 2f4mA 295 4.17e+01 1wlyA 333 4.18e+01 1bby 69 4.20e+01 2bby a.4.5.15 16149 1u6tA 121 4.23e+01 2cygA 312 4.26e+01 1vcvA 226 4.33e+01 1j1lA 290 4.36e+01 b.82.1.12 90766 1fg7A 356 4.36e+01 1gewA c.67.1.1 59819 1vfsA 386 4.47e+01 b.49.2.2,c.1.6.1 108584,108585 1wlzA 105 4.48e+01 2a3mA 130 4.51e+01 2trcP 217 4.55e+01 1b9yC c.47.1.6 33051 1quqB 121 4.58e+01 1quqB b.40.4.3 25305 1s9rA 410 4.61e+01 d.126.1.4 98758 1yqzA 438 4.69e+01 2axpA 173 4.73e+01 1fsgA 233 4.80e+01 1qk3A c.61.1.1 34029 2b3wA 168 4.80e+01 2bce 581 4.97e+01 2bce c.69.1.1 34625 1wu3I 161 4.98e+01 2a41C 32 5.02e+01 1ok7A 366 5.19e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2gnxA 365 5.21e+01 1v04A 355 5.25e+01 b.68.6.2 100240 1y96A 86 5.26e+01 1pyfA 312 5.27e+01 c.1.7.1 95334 1m4jA 142 5.30e+01 d.109.1.2 78602 2fcjA 119 5.32e+01 1gqzA 274 5.32e+01 d.21.1.1,d.21.1.1 83311,83312 1u3wA 374 5.33e+01 1i6lA 328 5.38e+01 c.26.1.1 66041 1kq1A 77 5.41e+01 b.38.1.2 72848 1o0yA 260 5.46e+01 c.1.10.1 80756 1oj4A 283 5.47e+01 d.14.1.5,d.58.26.5 93083,93084 1ur1A 378 5.47e+01 c.1.8.3 99804 1hqz1 141 5.51e+01 1n8kA 374 5.53e+01 b.35.1.2,c.2.1.1 80298,80299 1ti6B 274 5.56e+01 b.3.5.1,d.58.1.5 106976,106977 1ztsA 139 5.60e+01 1xyiA 66 5.65e+01 1kshA 186 5.65e+01 c.37.1.8 72914 1r5lA 262 5.66e+01 a.5.3.1,c.13.1.1 97099,97100 1vqzA 341 5.68e+01 1mkaA 171 5.79e+01 1mkaA d.38.1.2 38543 1m7vA 363 5.81e+01 d.174.1.1 78748 2a74A 643 5.86e+01 2fj6A 82 5.93e+01 2f42A 179 5.93e+01 1vl4A 447 5.96e+01 d.283.1.1 108718 1f9vA 347 5.99e+01 1bg2 c.37.1.9 59745 1p8xA 344 6.00e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1fhgA 154 6.01e+01 1tlk b.1.1.4 21706 1a8q 274 6.04e+01 1brt c.69.1.12 34702 1ydyA 356 6.18e+01 2as9A 210 6.20e+01 1h2cA 140 6.20e+01 b.31.1.1 83462 2f6hX 419 6.22e+01 2awpA 198 6.25e+01 1mdc 133 6.26e+01 1hmt b.60.1.2 27198 1t0hA 132 6.30e+01 b.34.2.1 106207 1zruA 264 6.30e+01 1r64A 481 6.32e+01 b.18.1.20,c.41.1.1 97140,97141 1c7sA 858 6.35e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ddf 127 6.43e+01 1ddf a.77.1.2 18423 2dfkA 402 6.44e+01 1jer 138 6.52e+01 2cbp b.6.1.1 23022 1mzgA 146 6.54e+01 d.224.1.1 79696 1wb4A 297 6.59e+01 1q3lA 69 6.75e+01 1b65A 375 6.90e+01 1b65A d.154.1.1 42020 1ex0A 731 6.96e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1ouwA 152 6.98e+01 b.77.3.1 93571 1xtoA 311 6.99e+01 1n8jA 186 7.07e+01 c.47.1.10 85401 1cfr 285 7.08e+01 1cfr c.52.1.7 33312 1yq5A 144 7.22e+01 1tt8A 164 7.24e+01 1c7qA 445 7.28e+01 2pgi c.80.1.2 35307 1fp1D 372 7.29e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1bn8A 420 7.38e+01 1pcl b.80.1.1 28022 1dkuA 317 7.42e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1no5A 114 7.42e+01 d.218.1.5 92014 1jy5A 212 7.49e+01 d.124.1.1 71940 1mixA 206 7.56e+01 a.11.2.1,b.55.1.5 79166,79167 2gh1A 301 7.56e+01 1xrjA 261 7.62e+01 1squA 155 7.69e+01 d.252.1.1 98971 1j1vA 94 7.81e+01 a.4.12.2 83981 1tyjA 170 7.83e+01 1zt3A 80 7.84e+01 1wckA 220 7.84e+01 1n91A 108 7.86e+01 d.206.1.1 80326 1h4gA 207 7.89e+01 b.29.1.11 70863 1xrtA 467 7.91e+01 1wcdJ 441 7.98e+01 1tr9A 341 7.98e+01 1em8B 112 8.02e+01 c.126.1.1 90458 1acf 125 8.30e+01 3nul d.110.1.1 40882 2bwbA 46 8.31e+01 1owfA 99 8.31e+01 a.55.1.1 87487 2b2aA 199 8.35e+01 1r1a1 287 8.64e+01 1aym1 1s0pA 176 8.65e+01 a.192.1.1 98300 1y2tA 142 8.75e+01 2ffeA 311 8.77e+01 1e0tA 470 8.84e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1u09A 476 8.84e+01 e.8.1.4 107545 1uheA 97 8.88e+01 1vdc 333 8.90e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1omzA 293 8.95e+01 c.68.1.15 87093