# List of top-scoring protein chains for t06-100-30-str2-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 1xubA 298 5.77e-03 2gkeA 274 9.45e-02 1oe4A 247 2.48e-01 c.18.1.3 86895 1hzdA 272 3.60e-01 c.14.1.3 65969 1gqzA 274 4.31e-01 d.21.1.1,d.21.1.1 83311,83312 1bupA 386 6.56e-01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1josA 128 2.49e+00 d.52.7.1 84191 1dkmA 410 2.74e+00 1dklA c.60.1.2 34000 1gtzA 156 2.93e+00 c.23.13.1 70539 1vdkA 466 2.94e+00 a.127.1.1 100561 1mqvA 125 3.34e+00 a.24.3.2 79415 1dkqA 410 3.44e+00 1dklA c.60.1.2 33998 1sk4A 163 3.80e+00 d.118.1.1 105664 1nnsA 326 4.06e+00 c.88.1.1 85910 1sr8A 298 4.06e+00 e.54.1.1 105959 1o97D 320 5.28e+00 c.26.2.3,c.31.1.2 81233,81234 1sdjA 310 5.56e+00 d.21.1.2,d.21.1.2 98807,98808 2blnA 305 5.85e+00 1ghpA 258 5.98e+00 1btl e.3.1.1 60520 1o17A 345 6.20e+00 a.46.2.1,c.27.1.1 80765,80766 1sg4A 260 6.34e+00 1tafB 70 7.74e+00 1tafB a.22.1.3 16482 1gmuA 143 7.96e+00 b.107.1.1,d.58.38.1 65335,65336 1o8bA 219 8.14e+00 c.124.1.4,d.58.40.1 81180,81181 1dp4A 435 8.26e+00 1dp4A c.93.1.1 35710 1pmmA 466 9.33e+00 c.67.1.6 94901 1pfsA 78 1.00e+01 1pfsA b.40.4.7 25391 1w6uA 302 1.01e+01 1ri5A 298 1.02e+01 c.66.1.34 97502 1nkqA 259 1.03e+01 d.177.1.1 103862 1qx4A 274 1.05e+01 b.43.4.2,c.25.1.1 104624,104625 1pzsA 208 1.05e+01 b.1.8.1 104397 1i1nA 226 1.07e+01 c.66.1.7 71102 1h65A 270 1.12e+01 c.37.1.8 65640 1jcfA 344 1.16e+01 c.55.1.1,c.55.1.1 62878,62879 1jg1A 235 1.18e+01 c.66.1.7 66661 1mxmA 254 1.21e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1m6sA 347 1.27e+01 c.67.1.1 78701 1rsy 152 1.28e+01 1rsy b.7.1.2 23192 1nt2A 210 1.30e+01 c.66.1.3 86149 1guzA 310 1.31e+01 c.2.1.5,d.162.1.1 65586,65587 1ubkL 534 1.35e+01 e.18.1.1 88422 1g5cA 170 1.37e+01 1g5cA c.53.2.1 60264 1nbwA 607 1.40e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1ekjA 221 1.44e+01 1ekjB c.53.2.1 33364 1es9A 232 1.44e+01 1wab c.23.10.3 31340 1kfwA 435 1.47e+01 c.1.8.5,d.26.3.1 77376,77377 1oa8A 133 1.47e+01 b.145.1.1 92698 1j5pA 253 1.48e+01 d.81.1.3,c.2.1.3 71577,83092 1lyqA 104 1.50e+01 b.1.18.17 78302 1cl8A 276 1.57e+01 1ckqA c.52.1.1 33230 1tueB 218 1.60e+01 b.91.1.1 107324 1r5eA 115 1.62e+01 1evhA 112 1.65e+01 1evhA b.55.1.4 26997 1rl0A 255 1.65e+01 1jc9A 269 1.69e+01 d.171.1.1 66490 1lkkA 105 1.72e+01 1lckA d.93.1.1 40412 1t6cA 315 1.75e+01 c.55.1.8,c.55.1.8 106558,106559 1fobA 334 1.77e+01 c.1.8.3 83255 1kr7A 110 1.85e+01 a.1.1.4 72890 1kmqA 184 1.86e+01 c.37.1.8 84412 1i2aA 219 1.88e+01 e.24.1.1 90660 1q79A 514 1.94e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1kid 203 2.05e+01 1derA c.8.5.1 30771 1pq4A 291 2.09e+01 c.92.2.2 94995 1npsA 88 2.11e+01 1prs b.11.1.1 23622 1olmA 403 2.12e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1rzuA 485 2.17e+01 c.87.1.8 105140 1ash 150 2.26e+01 1ash a.1.1.2 15622 1gy8A 397 2.27e+01 c.2.1.2 83376 1jbkA 195 2.30e+01 c.37.1.20 71631 1n0wA 243 2.32e+01 c.37.1.11 79772 1giqA 413 2.38e+01 d.166.1.1,d.166.1.1 76224,76225 1v58A 241 2.41e+01 c.47.1.9,d.17.3.1 108371,108372 1h8eD 482 2.42e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1b93A 152 2.45e+01 1b93A c.24.1.2 31507 1on3A 523 2.52e+01 c.14.1.4,c.14.1.4 87107,87108 1uteA 313 2.57e+01 1uteA d.159.1.1 42078 1dpgA 485 2.60e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1izmA 184 2.64e+01 a.199.1.1 90725 1us0A 316 2.68e+01 c.1.7.1 99850 1esc 306 2.69e+01 1esc c.23.10.1 31334 1vh5A 148 2.70e+01 d.38.1.5 100642 1iznB 277 2.77e+01 e.43.1.2 83848 1kpf 126 2.78e+01 1kpf d.13.1.1 37507 1pyoA 167 2.84e+01 c.17.1.1 95370 1n2eA 300 2.85e+01 c.26.1.4 85268 1ogsA 497 2.86e+01 b.71.1.2,c.1.8.3 86997,86998 1vpt 348 2.87e+01 3mag c.66.1.25 34207 1ru0A 105 2.87e+01 1nnxA 109 2.89e+01 b.40.10.1 92013 1r3eA 309 2.91e+01 b.122.1.1,d.265.1.2 96907,96908 1k77A 260 2.93e+01 c.1.15.5 72096 1snzA 344 2.99e+01 b.30.5.4 98930 1oo0A 147 3.02e+01 d.232.1.1 87182 1q7sA 117 3.02e+01 c.131.1.1 96055 1v8hA 107 3.20e+01 1fmtA 314 3.21e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1umkA 275 3.24e+01 1jf9A 408 3.26e+01 1c0nA c.67.1.3 62931 1svsA 353 3.30e+01 c.37.1.8 106051 1m4jA 142 3.36e+01 d.109.1.2 78602 1wz8A 264 3.51e+01 1qz9A 416 3.52e+01 c.67.1.3 96621 1bebA 162 3.53e+01 1bebA b.60.1.1 27115 1i9gA 280 3.55e+01 c.66.1.13 62090 2ck3D 482 3.60e+01 1szoA 257 3.66e+01 c.14.1.3 106164 1s12A 94 3.68e+01 1avyA 74 3.69e+01 1avyB h.1.17.1 45656 1h5uA 842 3.69e+01 1a8i c.87.1.4 60655 1je5A 206 3.73e+01 1je5A b.40.4.7 62909 1gt1A 159 4.00e+01 b.60.1.1 90515 1pwxA 254 4.04e+01 c.2.1.2 95262 1rypD 241 4.08e+01 1rypD d.153.1.4 41935 1s50A 259 4.11e+01 1syxB 86 4.12e+01 1nzyA 269 4.12e+01 1nzyA c.14.1.3 30903 1hyeA 313 4.14e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1ep3B 262 4.16e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1p5vA 235 4.19e+01 b.1.11.1,b.7.2.1 87812,87813 1xkrA 206 4.24e+01 1s4bP 674 4.28e+01 d.92.1.5 105252 2ga9A 297 4.35e+01 1h05A 146 4.35e+01 c.23.13.1 76433 1d8wA 426 4.38e+01 1de5A c.1.15.2 29394 1o2dA 371 4.42e+01 e.22.1.2 86591 1n4xH 120 4.57e+01 b.1.1.1 85324 1fuxA 166 4.62e+01 1fjjA b.17.1.2 60034 1srqA 341 4.63e+01 e.55.1.1 105967 1fnnA 389 4.69e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1ofuX 119 4.72e+01 c.37.1.22 86976 1o0iA 138 4.76e+01 d.38.1.5 86532 1eexA 554 4.95e+01 1dioA c.1.19.3 29650 1mi3A 322 4.96e+01 c.1.7.1 91274 1r3sA 367 5.09e+01 c.1.22.1 96963 1ecfA 504 5.11e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1awd 94 5.11e+01 1awd d.15.4.1 37673 1hxhA 253 5.15e+01 c.2.1.2 76725 1ab8A 220 5.21e+01 1azsA d.58.29.1 39414 1q87A 221 5.21e+01 e.47.1.1 96192 1cipA 353 5.24e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1mldA 314 5.29e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1q15A 503 5.33e+01 c.26.2.1,d.153.1.1 95538,95539 1rzhL 281 5.34e+01 f.26.1.1 98164 1ohtA 215 5.35e+01 d.118.1.1 87036 1e4mM 501 5.38e+01 1e70M c.1.8.4 59226 1cjcA 460 5.39e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1nziA 159 5.42e+01 b.23.1.1,g.3.11.1 86449,86450 1drw 273 5.53e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1kq3A 376 5.54e+01 e.22.1.2 68790 1ukkA 142 5.54e+01 d.227.1.1 99491 1hbnC 248 5.55e+01 1mroC d.58.31.1 60902 1ivnA 190 5.62e+01 c.23.10.5 83719 1alu 186 5.62e+01 1alu a.26.1.1 16826 1ryiA 382 5.64e+01 1ixlA 131 5.69e+01 d.38.1.5 90717 1js1X 324 5.76e+01 c.78.1.1,c.78.1.1 71834,71835 1pjcA 361 5.86e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1q1fA 151 5.87e+01 a.1.1.2 104476 1sz7A 200 5.89e+01 1t0fA 276 5.93e+01 1qwiA 143 5.93e+01 d.227.1.1 96474 1m55A 197 5.94e+01 d.89.1.3 74469 1dwkA 156 5.94e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1jogA 146 6.03e+01 a.24.16.2 77142 1f08A 148 6.03e+01 1f08A d.89.1.2 59564 1nepA 130 6.07e+01 b.1.18.7 80440 1hp1A 516 6.08e+01 d.114.1.1,d.159.1.2 70976,70977 3proC 166 6.08e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1lo7A 141 6.08e+01 d.38.1.1 74144 1h9oA 112 6.22e+01 1qadA d.93.1.1 60837 1k8kE 178 6.26e+01 a.148.1.1 68311 1i31A 314 6.37e+01 1bw8A b.2.7.1 22481 1yacA 208 6.37e+01 1yacA c.33.1.3 31757 1m0wA 491 6.39e+01 c.30.1.4,d.142.1.6 78363,78364 1o6sB 105 6.45e+01 b.1.6.1 81096 1qjtA 99 6.45e+01 1eh2 a.39.1.6 17335 1gteA 1025 6.47e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1a0cA 438 6.50e+01 1a0cA c.1.15.3 29529 1edqA 540 6.59e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1j3bA 529 6.62e+01 c.91.1.1,c.109.1.1 77071,77072 1swvA 267 6.67e+01 1pzgA 331 6.80e+01 c.2.1.5,d.162.1.1 95425,95426 1k8kB 394 6.92e+01 c.55.1.1 68307 1qwkA 317 6.93e+01 c.1.7.1 96482 1n3lA 372 6.95e+01 c.26.1.1 79966 1m0uA 249 6.95e+01 a.45.1.1,c.47.1.5 78359,78360 1qwdA 177 6.96e+01 b.60.1.1 96471 1oo2A 119 6.97e+01 b.3.4.1 93372 1tkeA 224 7.05e+01 1vljA 407 7.05e+01 e.22.1.2 108832 1odzA 386 7.16e+01 c.1.8.3 86889 1w0nA 131 7.33e+01 1e6uA 321 7.33e+01 1bsvA c.2.1.2 29805 1dy9A 187 7.42e+01 1jxpA b.47.1.3 26400 1ku0A 388 7.43e+01 c.69.1.18 72994 1t9bA 677 7.47e+01 1kv7A 488 7.49e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1kqpA 271 7.49e+01 c.26.2.1 72883 1t6lA 290 7.51e+01 d.131.1.2,d.131.1.2 106574,106575 1hqkA 154 7.69e+01 c.16.1.1 65902 1bhdA 118 7.76e+01 1bkrA a.40.1.1 17398 1bu6O 501 7.77e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1im8A 244 7.78e+01 c.66.1.14 66212 1iwmA 186 7.79e+01 b.125.1.2 83758 1h9dB 134 7.83e+01 2jhbA b.54.1.1 60822 1oi7A 288 7.89e+01 c.2.1.8,c.23.4.1 87049,87050 1whi 122 7.95e+01 1whi b.39.1.1 24810 1v7rA 186 8.04e+01 c.51.4.1 100482 1bdo 80 8.10e+01 1bdo b.84.1.1 28214 1r44A 202 8.12e+01 d.65.1.4 104787 1f0xA 571 8.23e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1e1oA 504 8.26e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1othA 321 8.29e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1q1rA 431 8.33e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1t13A 158 8.37e+01 1xjvA 294 8.39e+01 1iicA 422 8.46e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1p99A 295 8.50e+01 c.94.1.1 94384 1o7jA 327 8.52e+01 c.88.1.1 81140 1spvA 184 8.64e+01 c.50.1.2 98957 1evsA 187 8.67e+01 1evsA a.26.1.1 16845 1cd3B 120 8.72e+01 1cd3B 1k3xA 262 8.75e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1gtmA 419 8.76e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1hekA 131 8.77e+01 a.61.1.5 65818 1hjsA 332 8.79e+01 c.1.8.3 83492 1hf8A 289 8.89e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1suwA 249 8.91e+01 e.52.1.1 106027 1b8wA 42 8.92e+01 1b8wA g.9.1.1 44593 1aua 296 8.92e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1eemA 241 8.92e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1sg6A 393 8.95e+01 e.22.1.1 105522 1h4xA 117 8.97e+01 1auz c.13.2.1 60626 1ng2A 193 8.99e+01 b.34.2.1,b.34.2.1 85660,85661