# List of top-scoring protein chains for t04-100-30-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 1b3uA 588 5.80e-01 1b3uA a.118.1.2 19135 1omwA 689 7.51e-01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1de4C 640 8.49e-01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1f45B 197 9.73e-01 1f45B a.26.1.1 59642 1gcb 454 1.25e+00 3gcb d.3.1.1 37034 3gcb 470 1.30e+00 3gcb d.3.1.1 37032 2fbnA 198 1.53e+00 1v4eA 299 1.63e+00 a.128.1.1 100296 1ecmA 109 2.00e+00 1ecmA a.130.1.1 19492 1oxjA 173 2.10e+00 a.60.1.2,a.118.1.13 87517,87518 1huxA 270 2.35e+00 1huxA c.55.1.5 61278 2aelA 374 2.87e+00 1y1xA 191 3.18e+00 1rtwA 220 3.24e+00 a.132.1.3 97823 1ciy 590 3.35e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1ewqA 765 3.72e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1m32A 366 3.81e+00 c.67.1.3 78508 2grrB 170 4.96e+00 1eg3A 261 5.26e+00 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1yyqA 374 5.53e+00 1w33A 181 5.79e+00 1kiyA 374 5.97e+00 a.128.1.5 72555 2akaB 299 6.36e+00 1zgyA 272 6.40e+00 1l5jA 865 6.40e+00 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 2azjA 289 6.68e+00 1wn0A 145 6.78e+00 1rcwA 231 6.88e+00 a.132.1.4 97299 1vkeA 133 6.90e+00 a.152.1.2 108650 1oglA 283 7.12e+00 a.204.1.1 92922 1t3wA 148 8.25e+00 2ap3A 199 8.92e+00 1ybdA 239 8.99e+00 2db0A 253 9.30e+00 2gyqA 175 1.03e+01 1gntA 553 1.12e+01 e.26.1.1 70290 1e2uA 553 1.12e+01 1e1dA e.26.1.1 43362 1ow4A 129 1.14e+01 a.39.2.1 93628 1em9A 154 1.19e+01 1d1dA a.73.1.1 18333 1z5hA 780 1.20e+01 1f60A 458 1.22e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1uw4B 248 1.23e+01 a.118.1.14 100072 1rw6A 210 1.25e+01 a.47.4.1 105113 1q8fA 313 1.27e+01 c.70.1.1 96203 1rvgA 305 1.33e+01 c.1.10.2 97920 1sumB 235 1.35e+01 a.7.12.1 106025 2etdA 171 1.36e+01 2ahqA 76 1.45e+01 1q5nA 454 1.49e+01 a.127.1.1 95901 1lqtA 456 1.56e+01 c.3.1.1,c.4.1.1 74198,74199 2a72A 146 1.58e+01 1s9pA 227 1.61e+01 a.123.1.1 105384 1keyA 235 1.63e+01 a.118.16.1 72389 1b9uA 34 1.64e+01 1b9uA j.35.1.1 46260 2ge3A 170 1.71e+01 2c6cA 707 1.71e+01 1yovA 537 1.75e+01 1rtxA 123 1.75e+01 a.1.1.1 97827 2gdqA 382 1.82e+01 1e3pA 757 1.87e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1hu3A 260 1.88e+01 1hu3A a.118.1.14 19137 1x1nA 524 1.91e+01 1paqA 189 1.93e+01 a.118.1.14 94413 1hx1B 114 1.95e+01 1hx1B a.7.7.1 61350 1m70A 190 1.96e+01 a.3.1.4,a.3.1.4 91200,91201 1hyp 80 2.03e+01 1hyp a.52.1.1 17806 1kn1B 161 2.07e+01 a.1.1.3 77456 1g60A 260 2.08e+01 c.66.1.11 70151 2a6lA 292 2.11e+01 2a6nA 292 2.12e+01 1b5pA 385 2.14e+01 c.67.1.1 90403 1rxqA 178 2.17e+01 a.213.1.1 105118 1yxcA 292 2.18e+01 1dmtA 696 2.18e+01 1dmtA d.92.1.4 40296 1pv9A 348 2.20e+01 c.55.2.1,d.127.1.1 95157,95158 2beqA 38 2.28e+01 1dhpA 292 2.31e+01 1dhpA c.1.10.1 29097 1jfbA 404 2.34e+01 a.104.1.1 66624 2fs3A 282 2.35e+01 1ofcX 304 2.38e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1rqjA 299 2.40e+01 a.128.1.1 97744 1zbqA 327 2.41e+01 2b67A 204 2.45e+01 1fm9D 272 2.45e+01 2prgA a.123.1.1 19313 1bjwA 382 2.45e+01 1bjwA c.67.1.1 34349 1wmwA 330 2.49e+01 1t06A 235 2.49e+01 a.118.1.17 106194 1ywmA 200 2.53e+01 2dfkA 402 2.56e+01 1f24A 402 2.59e+01 1rom a.104.1.1 18953 1zs3A 182 2.60e+01 1oe4A 247 2.63e+01 c.18.1.3 86895 1nu7D 282 2.69e+01 a.8.6.1,a.8.6.1 92191,92192 2au3A 407 2.70e+01 1au1A 166 2.72e+01 1ifa a.26.1.3 16889 1ry6A 360 2.77e+01 c.37.1.9 98090 1aisB 200 2.77e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1vf1A 229 2.80e+01 1ehkA 562 2.82e+01 1ehkA f.24.1.1 43624 2f2gA 221 2.87e+01 1wtyA 119 2.90e+01 1i5nA 146 2.90e+01 1i5nA a.24.10.3 61805 1ej2A 181 2.99e+01 1f9aA c.26.1.3 59414 1wy1A 172 3.02e+01 1top 162 3.06e+01 1ncx a.39.1.5 17223 2chnA 716 3.07e+01 1e7lA 157 3.09e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1rxwA 336 3.17e+01 a.60.7.1,c.120.1.2 98059,98060 2absA 383 3.20e+01 1dik 874 3.20e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1q4mA 221 3.36e+01 a.132.1.3 95805 2choA 716 3.38e+01 1jnyA 435 3.39e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1wdgA 94 3.42e+01 h.3.3.1 109248 1ass 159 3.44e+01 1a6dA c.8.5.2 30818 1u00A 227 3.54e+01 1kblA 873 3.63e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ka2A 499 3.64e+01 d.92.1.5 77305 1po5A 476 3.65e+01 a.104.1.1 94963 1sur 215 3.69e+01 1sur c.26.2.2 31620 1t56A 216 3.73e+01 a.4.1.9,a.121.1.1 106428,106429 1m8jA 181 3.80e+01 c.26.1.3 84875 1ohgA 282 3.84e+01 d.183.1.1 93018 1r1hA 696 3.88e+01 d.92.1.4 104756 1wleA 501 3.92e+01 1j1iA 296 3.93e+01 c.69.1.10 83977 1u7lA 392 4.01e+01 1gkpA 458 4.03e+01 b.92.1.3,c.1.9.6 70231,70232 1wudA 89 4.03e+01 1efnB 152 4.04e+01 1efnB d.102.1.1 40699 1nx8A 273 4.06e+01 b.82.2.8 86374 1e85A 127 4.07e+01 1bbhA a.24.3.2 16549 1x46A 150 4.15e+01 1v7bA 185 4.19e+01 1uekA 275 4.22e+01 d.14.1.5,d.58.26.5 88483,88484 1uroA 367 4.26e+01 1uroA c.1.22.1 29675 1h3nA 878 4.27e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1k8kA 418 4.29e+01 c.55.1.1,c.55.1.1 68305,68306 1r3sA 367 4.30e+01 c.1.22.1 96963 2fx0A 201 4.32e+01 1ll2A 333 4.37e+01 c.68.1.14 74005 1y7yA 74 4.38e+01 1h3qA 140 4.40e+01 d.110.4.3 76652 1xmeA 568 4.41e+01 1ej5A 107 4.43e+01 1ej5A a.68.1.1 18268 3ertA 261 4.52e+01 3erdA a.123.1.1 19292 1b8dA 164 4.56e+01 1cpcA a.1.1.3 15665 1jr5A 90 4.60e+01 a.150.1.1 67113 1x79B 112 4.60e+01 1dp4A 435 4.66e+01 1dp4A c.93.1.1 35710 1dowA 205 4.72e+01 1dovA a.24.9.1 16626 1j9bA 141 4.78e+01 c.47.1.12 66459 1s3cA 141 4.80e+01 1xx6A 191 4.83e+01 1kpsB 171 4.85e+01 a.118.12.1 68787 2f4qA 346 4.86e+01 1a9xA 1058 4.87e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1bu7A 455 4.87e+01 1bu7A a.104.1.1 18937 1yi8A 351 4.89e+01 2b2hA 399 4.89e+01 1mo9A 523 4.92e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1h6zA 913 4.93e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1r5jA 337 4.93e+01 c.77.1.5 97097 1tafA 68 4.95e+01 1tafA a.22.1.3 16481 1wkqA 164 5.07e+01 c.97.1.2 109393 1ash 150 5.09e+01 1ash a.1.1.2 15622 1fkmA 396 5.09e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1jpzA 473 5.10e+01 a.104.1.1 67069 1re9A 414 5.11e+01 1j1jA 240 5.14e+01 a.118.16.1 90762 1kqfC 217 5.15e+01 f.21.1.1 72874 1hz4A 373 5.15e+01 a.118.8.2 65960 1w5fA 353 5.16e+01 1cs0A 1073 5.16e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1liiA 363 5.17e+01 c.72.1.1 73921 1t94A 459 5.19e+01 d.240.1.1,e.8.1.7 106701,106702 3grs 478 5.23e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 2al6A 375 5.29e+01 1vgoA 253 5.33e+01 1sflA 238 5.41e+01 1ylmA 144 5.41e+01 1qhiA 366 5.45e+01 1qhiA c.37.1.1 31860 2polA 366 5.48e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1wdcC 156 5.64e+01 1wdcC a.39.1.5 17317 1k1xA 659 5.64e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1dvkA 173 5.66e+01 1dvkA a.72.1.1 18319 1qmqA 414 5.70e+01 1phd a.104.1.1 18907 1wy2A 351 5.88e+01 1y74A 57 5.91e+01 1ji6A 589 5.92e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1u7gA 385 5.95e+01 f.44.1.1 107723 1a32 88 5.96e+01 1a32 a.16.1.2 16384 1b79A 119 6.01e+01 1b79A a.81.1.1 18451 1v9nA 360 6.02e+01 1zl8A 53 6.15e+01 1vkmA 297 6.16e+01 c.138.1.1 108670 2a84A 300 6.20e+01 1fh6A 282 6.24e+01 1fh6A 1ixmA 192 6.25e+01 1ixmA d.123.1.1 41114 1e2kA 331 6.29e+01 1qhiA c.37.1.1 31854 2azqA 311 6.32e+01 2astA 159 6.35e+01 1dz4A 414 6.53e+01 1phd a.104.1.1 18903 1n46A 258 6.58e+01 a.123.1.1 85315 1twdA 256 6.63e+01 c.1.30.1 107397 1fw1A 216 6.65e+01 a.45.1.1,c.47.1.5 60051,60052 1wrvA 308 6.72e+01 1ovlA 271 6.74e+01 a.123.1.1 87455 1je8A 82 6.74e+01 a.4.6.2 77108 2auwA 170 6.80e+01 1foeA 377 6.83e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1mg7A 417 6.83e+01 d.14.1.6,d.58.26.6 84954,84955 2bb6A 414 6.89e+01 1nc5A 373 6.98e+01 a.102.1.6 85548 1vqoB 338 7.02e+01 1g7oA 215 7.03e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1sfjA 238 7.04e+01 1ef1A 294 7.07e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1vf6C 72 7.07e+01 a.194.1.1 100602 1x9mA 698 7.13e+01 1w8iA 156 7.14e+01 1jyeA 349 7.17e+01 c.93.1.1 67455 2cw9A 194 7.18e+01 1ec7A 446 7.23e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1uok 558 7.26e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1rm6C 161 7.29e+01 1oo4A 111 7.36e+01 d.93.1.1 87185 1r0vA 305 7.36e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 2anxA 146 7.40e+01 1gowA 489 7.40e+01 1qvbA c.1.8.4 28981 2fnaA 357 7.50e+01 1xpcA 248 7.53e+01 1t7pA 698 7.54e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1ykuA 136 7.57e+01 1mkiA 330 7.57e+01 e.3.1.2 84994 1oyzA 280 7.61e+01 a.118.1.16 93775 1xg7A 250 7.65e+01 2akzA 439 7.70e+01 1ctqA 166 7.72e+01 1ctqA c.37.1.8 31965 1te6A 439 7.75e+01 c.1.11.1,d.54.1.1 106797,106798 2b1eA 564 7.75e+01 1gtmA 419 7.91e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1v93A 296 7.98e+01 c.1.23.1 100532 1a8i 842 8.04e+01 1a8i c.87.1.4 35490 1yzxA 226 8.11e+01 1qhlA 227 8.13e+01 1qhlA c.37.1.12 32382 1wusA 180 8.13e+01 1mvwB 145 8.15e+01 i.15.1.1 79524 2b5dX 528 8.16e+01 1siqA 392 8.24e+01 a.29.3.1,e.6.1.1 105585,105586 1gg1A 350 8.26e+01 1qr7A c.1.10.4 29187 1ez3A 127 8.28e+01 1dn1B a.47.2.1 17768 1c7qA 445 8.40e+01 2pgi c.80.1.2 35307 1gdoA 240 8.42e+01 1gdoA 1xffA 240 8.46e+01 d.153.1.1 109580 1tlfA 301 8.49e+01 1tlfA c.93.1.1 35687 1ug3A 339 8.53e+01 1zp4A 304 8.64e+01 1cktA 71 8.70e+01 1cktA a.21.1.1 16417 2cz2A 223 8.71e+01 1khyA 148 8.80e+01 a.174.1.1 77410 1vg5A 73 8.82e+01 1t5eA 360 8.90e+01 f.46.1.1 106436 1uurA 473 8.93e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1zu4A 320 8.94e+01 1vf7A 369 8.96e+01 f.46.1.1 108557