# 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 1b3uA 588 1.87e-01 1b3uA a.118.1.2 19135 3gcb 470 5.87e-01 3gcb d.3.1.1 37032 1f45B 197 5.95e-01 1f45B a.26.1.1 59642 2fbnA 198 8.65e-01 1huxA 270 1.11e+00 1huxA c.55.1.5 61278 1oxjA 173 1.29e+00 a.60.1.2,a.118.1.13 87517,87518 1vkeA 133 1.40e+00 a.152.1.2 108650 1w33A 181 1.61e+00 2ap3A 199 2.12e+00 2grrB 170 2.12e+00 1rtwA 220 2.16e+00 a.132.1.3 97823 1eg3A 261 2.33e+00 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1yyqA 374 2.42e+00 1ecmA 109 2.45e+00 1ecmA a.130.1.1 19492 1t3wA 148 2.79e+00 1ow4A 129 2.81e+00 a.39.2.1 93628 1uw4B 248 2.94e+00 a.118.1.14 100072 2azjA 289 3.05e+00 1m32A 366 3.46e+00 c.67.1.3 78508 2ahqA 76 3.49e+00 2gyqA 175 4.01e+00 2db0A 253 4.07e+00 1rw6A 210 4.20e+00 a.47.4.1 105113 1zs3A 182 4.28e+00 1ry6A 360 4.32e+00 c.37.1.9 98090 1i5nA 146 5.30e+00 1i5nA a.24.10.3 61805 1h3nA 878 5.54e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1x1nA 524 5.64e+00 1z5hA 780 6.37e+00 1hu3A 260 6.43e+00 1hu3A a.118.1.14 19137 1hx1B 114 7.37e+00 1hx1B a.7.7.1 61350 1rcwA 231 7.70e+00 a.132.1.4 97299 1e7lA 157 7.71e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 2al6A 375 7.77e+00 1kn1B 161 8.46e+00 a.1.1.3 77456 1yxcA 292 8.72e+00 1h3qA 140 9.28e+00 d.110.4.3 76652 1gntA 553 9.31e+00 e.26.1.1 70290 1wmwA 330 9.34e+00 1paqA 189 9.37e+00 a.118.1.14 94413 1t56A 216 1.00e+01 a.4.1.9,a.121.1.1 106428,106429 1f60A 458 1.01e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2a72A 146 1.03e+01 2dfkA 402 1.13e+01 2b2hA 399 1.14e+01 1j1iA 296 1.21e+01 c.69.1.10 83977 1po5A 476 1.24e+01 a.104.1.1 94963 1zgyA 272 1.28e+01 1b9uA 34 1.29e+01 1b9uA j.35.1.1 46260 2absA 383 1.32e+01 1orsC 132 1.36e+01 f.14.1.1 87353 1m70A 190 1.47e+01 a.3.1.4,a.3.1.4 91200,91201 1aisB 200 1.48e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1yovA 537 1.51e+01 1rxqA 178 1.51e+01 a.213.1.1 105118 1vkmA 297 1.52e+01 c.138.1.1 108670 2etdA 171 1.58e+01 1ybdA 239 1.62e+01 1n46A 258 1.62e+01 a.123.1.1 85315 1dowA 205 1.65e+01 1dovA a.24.9.1 16626 1w5fA 353 1.67e+01 1e5rA 290 1.69e+01 1e5rA b.82.2.4 59276 1g60A 260 1.70e+01 c.66.1.11 70151 1rxwA 336 1.71e+01 a.60.7.1,c.120.1.2 98059,98060 1ll2A 333 1.77e+01 c.68.1.14 74005 2beqA 38 1.77e+01 2gdqA 382 1.78e+01 1q8fA 313 1.79e+01 c.70.1.1 96203 1b8dA 164 1.81e+01 1cpcA a.1.1.3 15665 1kblA 873 1.83e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ofcX 304 1.89e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1y7yA 74 1.89e+01 1u00A 227 1.90e+01 1mo9A 523 1.90e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1b5pA 385 1.91e+01 c.67.1.1 90403 2c6cA 707 1.91e+01 1tafA 68 1.92e+01 1tafA a.22.1.3 16481 1ej2A 181 1.96e+01 1f9aA c.26.1.3 59414 1unlD 208 1.96e+01 1r3sA 367 1.96e+01 c.1.22.1 96963 1hyp 80 1.97e+01 1hyp a.52.1.1 17806 2akaB 299 1.98e+01 1jfbA 404 2.00e+01 a.104.1.1 66624 2b67A 204 2.00e+01 2ge3A 170 2.11e+01 1sumB 235 2.12e+01 a.7.12.1 106025 1m8jA 181 2.12e+01 c.26.1.3 84875 1yrcA 414 2.14e+01 1ro7A 259 2.15e+01 c.130.1.1 97667 1rqjA 299 2.15e+01 a.128.1.1 97744 1em9A 154 2.20e+01 1d1dA a.73.1.1 18333 2bl0C 142 2.21e+01 1ka2A 499 2.24e+01 d.92.1.5 77305 1wy2A 351 2.24e+01 1s3cA 141 2.33e+01 1x46A 150 2.40e+01 1lqtA 456 2.42e+01 c.3.1.1,c.4.1.1 74198,74199 1nc5A 373 2.47e+01 a.102.1.6 85548 1ywmA 200 2.50e+01 1wlmA 151 2.53e+01 1hz4A 373 2.57e+01 a.118.8.2 65960 1dvkA 173 2.57e+01 1dvkA a.72.1.1 18319 2b1eA 564 2.58e+01 1oe4A 247 2.59e+01 c.18.1.3 86895 1t06A 235 2.65e+01 a.118.1.17 106194 1oyzA 280 2.67e+01 a.118.1.16 93775 1v93A 296 2.68e+01 c.1.23.1 100532 1ug3A 339 2.69e+01 2auwA 170 2.77e+01 1vf1A 229 2.80e+01 1sflA 238 2.84e+01 2chnA 716 2.85e+01 2fx0A 201 2.85e+01 2etsA 128 2.90e+01 1s9pA 227 3.03e+01 a.123.1.1 105384 1l3lA 234 3.05e+01 a.4.6.2,d.110.5.1 73541,73542 1mkiA 330 3.05e+01 e.3.1.2 84994 1xx6A 191 3.05e+01 1rvgA 305 3.09e+01 c.1.10.2 97920 1ylmA 144 3.10e+01 1bvoA 175 3.13e+01 1a3qA b.2.5.3 22457 2choA 716 3.14e+01 1z77A 200 3.15e+01 1je8A 82 3.16e+01 a.4.6.2 77108 1r1hA 696 3.20e+01 d.92.1.4 104756 2cw9A 194 3.21e+01 1t94A 459 3.32e+01 d.240.1.1,e.8.1.7 106701,106702 1x79B 112 3.36e+01 1u7gA 385 3.38e+01 f.44.1.1 107723 2fs3A 282 3.41e+01 1ji6A 589 3.41e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 2bb6A 414 3.54e+01 1wdcC 156 3.55e+01 1wdcC a.39.1.5 17317 3grs 478 3.56e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1m0kA 262 3.62e+01 f.13.1.1 78344 1lmzA 187 3.66e+01 a.96.1.4 74037 1y74A 57 3.69e+01 1oaoC 729 3.69e+01 e.26.1.3 86746 1nu7D 282 3.70e+01 a.8.6.1,a.8.6.1 92191,92192 1fs1B 141 3.71e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1kcfA 258 3.76e+01 a.140.2.1,c.55.3.7 68434,68435 1b79A 119 3.81e+01 1b79A a.81.1.1 18451 1oohA 126 3.84e+01 a.39.2.1 93383 1a9xA 1058 3.87e+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 1qhlA 227 3.89e+01 1qhlA c.37.1.12 32382 1wkqA 164 3.99e+01 c.97.1.2 109393 1v7bA 185 4.00e+01 1u5tB 169 4.01e+01 a.4.5.54,a.4.5.54 107686,107687 1u7lA 392 4.02e+01 1vf7A 369 4.11e+01 f.46.1.1 108557 1pz1A 333 4.23e+01 c.1.7.1 95390 1uq5A 263 4.24e+01 d.165.1.1 99778 1pwgA 349 4.25e+01 e.3.1.1 104340 1in6A 334 4.26e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1zzpA 130 4.27e+01 1in4A 334 4.27e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 6ldh 330 4.27e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1yqsA 349 4.30e+01 1z0xA 220 4.31e+01 1e85A 127 4.38e+01 1bbhA a.24.3.2 16549 1xg7A 250 4.39e+01 1bgp 309 4.39e+01 1bgp a.93.1.1 18690 1zbqA 327 4.42e+01 2h1rA 299 4.43e+01 1q5nA 454 4.44e+01 a.127.1.1 95901 2gnoA 305 4.60e+01 2au3A 407 4.60e+01 1s0pA 176 4.62e+01 a.192.1.1 98300 1i3dA 146 4.63e+01 a.1.1.2 61587 1cs0A 1073 4.66e+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 1aba 87 4.66e+01 1aba c.47.1.1 32760 1x9gA 200 4.67e+01 c.33.1.3 109527 2be4A 272 4.72e+01 1jpzA 473 4.76e+01 a.104.1.1 67069 1wy1A 172 4.82e+01 1hw1A 239 4.82e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1cpcA 162 4.83e+01 1cpcA a.1.1.3 15643 1dc1A 323 4.85e+01 1dc1A c.52.1.11 33321 1r0vA 305 4.85e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1jykA 254 4.90e+01 c.68.1.13 67458 1ss9A 311 4.94e+01 c.68.1.4 105978 1wmiA 90 4.96e+01 5eau 548 4.96e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1x9mA 698 4.96e+01 1f5nA 592 4.96e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1rp4A 389 4.97e+01 a.227.1.1 105027 1eemA 241 4.97e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1myt 146 4.97e+01 1a6m a.1.1.2 15207 1jnyA 435 5.00e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1f5qB 252 5.11e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 1kpsB 171 5.15e+01 a.118.12.1 68787 1fkmA 396 5.18e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1jysA 242 5.23e+01 c.56.2.1 77216 1a99A 344 5.26e+01 1pot c.94.1.1 35812 1xffA 240 5.26e+01 d.153.1.1 109580 1bg6 359 5.27e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1mg7A 417 5.28e+01 d.14.1.6,d.58.26.6 84954,84955 1gkpA 458 5.28e+01 b.92.1.3,c.1.9.6 70231,70232 2f4qA 346 5.31e+01 1q6hA 224 5.36e+01 d.26.1.1 95975 2ez6A 221 5.46e+01 1khyA 148 5.50e+01 a.174.1.1 77410 1vqoB 338 5.53e+01 1qd1A 325 5.54e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1pprM 312 5.54e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1ulyA 192 5.54e+01 1wrvA 308 5.58e+01 1twdA 256 5.63e+01 c.1.30.1 107397 1ocsA 162 5.64e+01 d.189.1.1 92776 1n40A 396 5.65e+01 a.104.1.1 79977 1k8kA 418 5.72e+01 c.55.1.1,c.55.1.1 68305,68306 1sz9A 144 5.74e+01 a.118.9.4 106139 1uok 558 5.75e+01 1uok b.71.1.1,c.1.8.1 27801,28788 2fnaA 357 5.76e+01 2bfxA 284 5.80e+01 1colA 204 5.82e+01 1a87 f.1.1.1 43378 1v9nA 360 5.82e+01 1y7lA 316 5.84e+01 1vf6C 72 5.86e+01 a.194.1.1 100602 1w9gA 104 5.93e+01 2cdnA 201 5.98e+01 1px5A 349 6.01e+01 a.160.1.2,d.218.1.6 95277,95278 1wusA 180 6.06e+01 1c3cA 429 6.06e+01 1c3cA a.127.1.1 19425 1dp4A 435 6.13e+01 1dp4A c.93.1.1 35710 2ftxA 90 6.13e+01 2h58A 330 6.18e+01 1uwsA 489 6.18e+01 c.1.8.4 108073 1sur 215 6.21e+01 1sur c.26.2.2 31620 2ew2A 316 6.22e+01 1p5zB 263 6.35e+01 c.37.1.1 87815 1ykuA 136 6.35e+01 1q6uA 245 6.38e+01 d.26.1.1 95998 1wudA 89 6.38e+01 2bkrA 212 6.45e+01 1nrlA 316 6.58e+01 a.123.1.1 92091 1e4iA 447 6.59e+01 1e70M c.1.8.4 59225 2a14A 263 6.61e+01 2tpt 440 6.63e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 2bbrA 195 6.64e+01 1ei7A 158 6.66e+01 1rmvA a.24.5.1 16584 1ihgA 370 6.71e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1iomA 377 6.74e+01 a.103.1.1 83698 1iw0A 215 6.74e+01 a.132.1.1 83720 1jboA 162 6.76e+01 a.1.1.3 84150 1v97A 1332 6.77e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1yuzA 202 6.79e+01 1z21A 112 6.80e+01 2b69A 343 6.83e+01 1c02A 166 6.83e+01 1qspA a.24.10.2 16633 1zb1A 392 6.84e+01 1irqA 71 6.87e+01 a.43.1.4 66297 1heiA 451 6.94e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1f1eA 154 6.96e+01 a.22.1.2 64927 1ctqA 166 7.00e+01 1ctqA c.37.1.8 31965 1yzxA 226 7.10e+01 1j77A 209 7.11e+01 1j77A a.132.1.2 62674 1zu4A 320 7.12e+01 1xkgA 312 7.17e+01 1t98A 287 7.22e+01 1y2kA 349 7.28e+01 1r6fA 310 7.31e+01 e.46.1.1 97149 1iqvA 218 7.31e+01 1rss a.75.1.1 62661 2c12A 439 7.32e+01 1vh6A 145 7.34e+01 a.24.19.1 100644 1jyeA 349 7.45e+01 c.93.1.1 67455 1yn9A 169 7.47e+01 1tx4A 198 7.50e+01 1tx4A a.116.1.1 19098 1winA 143 7.57e+01 1o08A 221 7.63e+01 c.108.1.6 86525 1qgtA 149 7.63e+01 1qgtA a.62.1.1 18135 1ec7A 446 7.64e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1zhcA 76 7.65e+01 2bnlA 136 7.66e+01 1efnB 152 7.82e+01 1efnB d.102.1.1 40699 1h5uA 842 7.84e+01 1a8i c.87.1.4 60655 1jalA 363 7.88e+01 c.37.1.8,d.15.10.2 84138,84139 2evwX 166 7.92e+01 1l8rA 101 7.92e+01 a.6.1.4 73700 1m4rA 151 7.94e+01 a.26.1.3 84799 1uekA 275 7.98e+01 d.14.1.5,d.58.26.5 88483,88484 1io7A 368 8.00e+01 1f4tA a.104.1.1 18971 1r1tA 122 8.01e+01 a.4.5.5 104769 2gmyA 153 8.05e+01 1xs0A 136 8.05e+01 1yi8A 351 8.11e+01 1zroA 602 8.12e+01 2a7mA 250 8.14e+01 1lehA 364 8.16e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2aplA 157 8.22e+01 2br9A 234 8.25e+01 1p4oA 322 8.30e+01 d.144.1.7 87775 2ghcX 261 8.30e+01 1ois 223 8.38e+01 1a36A e.15.1.1 43267 1j1jA 240 8.40e+01 a.118.16.1 90762 1l8nA 679 8.41e+01 c.1.8.10,d.92.2.2 84564,84565 1sheA 103 8.41e+01 d.274.1.1 105551 1xkpA 246 8.48e+01 1j8mF 297 8.48e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1x93A 55 8.49e+01 1j93A 353 8.50e+01 c.1.22.1 66454 2ffeA 311 8.54e+01 2h21A 440 8.59e+01 1yj7A 171 8.62e+01 1csh 435 8.63e+01 1csh a.103.1.1 18880 1vqoM 195 8.63e+01 1xv5A 401 8.66e+01 1sa3A 262 8.67e+01 c.52.1.23 105400 2f2gA 221 8.75e+01 1pmzA 86 8.90e+01 a.39.1.10 104195 1m5wA 243 8.94e+01 c.1.24.1 84836 1ufaA 520 8.99e+01 a.8.3.3,c.6.2.4 99329,99330 1va6A 518 9.00e+01