# List of top-scoring protein chains for t04-100-30-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 1de4C 640 1.30e-01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1v4eA 299 5.49e-01 a.128.1.1 100296 1wn0A 145 5.89e-01 1f45B 197 7.62e-01 1f45B a.26.1.1 59642 3gcb 470 8.60e-01 3gcb d.3.1.1 37032 1gcb 454 1.17e+00 3gcb d.3.1.1 37034 2aelA 374 1.19e+00 1io7A 368 1.23e+00 1f4tA a.104.1.1 18971 1yyqA 374 1.23e+00 1rcwA 231 1.64e+00 a.132.1.4 97299 1kiyA 374 1.91e+00 a.128.1.5 72555 1g60A 260 2.07e+00 c.66.1.11 70151 1w33A 181 2.23e+00 1ciy 590 2.87e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1zejA 293 3.14e+00 1q8fA 313 3.35e+00 c.70.1.1 96203 1pv9A 348 3.57e+00 c.55.2.1,d.127.1.1 95157,95158 1ow4A 129 3.77e+00 a.39.2.1 93628 1au1A 166 4.07e+00 1ifa a.26.1.3 16889 1jalA 363 4.30e+00 c.37.1.8,d.15.10.2 84138,84139 2bvfA 459 4.51e+00 2grrB 170 4.93e+00 1hu3A 260 5.31e+00 1hu3A a.118.1.14 19137 2beqA 38 5.63e+00 1x9gA 200 5.81e+00 c.33.1.3 109527 1ry6A 360 6.52e+00 c.37.1.9 98090 1bjwA 382 6.59e+00 1bjwA c.67.1.1 34349 1ecmA 109 6.61e+00 1ecmA a.130.1.1 19492 1wusA 180 6.72e+00 1qgrA 876 6.79e+00 1qgrA a.118.1.1 19119 1wy2A 351 6.91e+00 1ll2A 333 6.95e+00 c.68.1.14 74005 1z5hA 780 7.05e+00 1e5rA 290 7.23e+00 1e5rA b.82.2.4 59276 1oe4A 247 7.25e+00 c.18.1.3 86895 1b5pA 385 7.51e+00 c.67.1.1 90403 1b9uA 34 7.70e+00 1b9uA j.35.1.1 46260 1fs7A 485 8.48e+00 1qdbA a.138.1.3 19691 1g7oA 215 8.62e+00 1g7oA a.45.1.1,c.47.1.5 60332,60333 1e7lA 157 9.00e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1h5uA 842 9.10e+00 1a8i c.87.1.4 60655 1a8i 842 9.13e+00 1a8i c.87.1.4 35490 1rtwA 220 9.14e+00 a.132.1.3 97823 2fbnA 198 9.27e+00 1vkeA 133 9.64e+00 a.152.1.2 108650 1omwA 689 1.04e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 2gnoA 305 1.04e+01 1y1xA 191 1.06e+01 1x1nA 524 1.15e+01 1gntA 553 1.31e+01 e.26.1.1 70290 2azjA 289 1.34e+01 1huxA 270 1.34e+01 1huxA c.55.1.5 61278 1wdgA 94 1.37e+01 h.3.3.1 109248 2azqA 311 1.38e+01 1zs3A 182 1.40e+01 1cpcA 162 1.42e+01 1cpcA a.1.1.3 15643 1lqtA 456 1.44e+01 c.3.1.1,c.4.1.1 74198,74199 1e2uA 553 1.47e+01 1e1dA e.26.1.1 43362 1ass 159 1.49e+01 1a6dA c.8.5.2 30818 1po5A 476 1.52e+01 a.104.1.1 94963 1rp4A 389 1.53e+01 a.227.1.1 105027 1y7yA 74 1.58e+01 1dq3A 454 1.63e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1b8dA 164 1.73e+01 1cpcA a.1.1.3 15665 1tcvA 287 1.75e+01 1uhkA 191 1.79e+01 1v71A 323 1.80e+01 1wtyA 119 1.82e+01 1paqA 189 1.82e+01 a.118.1.14 94413 2b7aA 293 1.84e+01 1nx8A 273 1.93e+01 b.82.2.8 86374 1dxeA 256 1.97e+01 1dxeA c.1.12.5 29310 1pbgA 468 2.00e+01 1e70M c.1.8.4 28946 1dmtA 696 2.02e+01 1dmtA d.92.1.4 40296 1oglA 283 2.06e+01 a.204.1.1 92922 2fx0A 201 2.10e+01 2fnaA 357 2.16e+01 1sz9A 144 2.21e+01 a.118.9.4 106139 1j8yF 297 2.22e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1szqA 483 2.23e+01 e.44.1.1 99045 1hyp 80 2.25e+01 1hyp a.52.1.1 17806 1vf7A 369 2.29e+01 f.46.1.1 108557 2ap3A 199 2.33e+01 2ex0A 399 2.35e+01 1c3cA 429 2.39e+01 1c3cA a.127.1.1 19425 1ga8A 311 2.41e+01 1ga8A c.68.1.4 34516 1kblA 873 2.43e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1rxqA 178 2.44e+01 a.213.1.1 105118 2bkqA 212 2.46e+01 1u2pA 163 2.48e+01 1wmiA 90 2.48e+01 1riqA 465 2.49e+01 a.203.1.1,d.104.1.1 97516,97517 1uok 558 2.51e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1jnyA 435 2.58e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1x79B 112 2.60e+01 3thiA 371 2.63e+01 2thiA c.94.1.1 35792 1tn6A 382 2.63e+01 1yq7A 374 2.70e+01 1t56A 216 2.75e+01 a.4.1.9,a.121.1.1 106428,106429 1rw6A 210 2.78e+01 a.47.4.1 105113 1zk8A 183 2.84e+01 1winA 143 2.85e+01 2ez6A 221 2.86e+01 1ss9A 311 2.88e+01 c.68.1.4 105978 1yfsA 465 2.88e+01 2a11A 242 2.90e+01 1ej5A 107 2.93e+01 1ej5A a.68.1.1 18268 1j8mF 297 2.94e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1m32A 366 2.96e+01 c.67.1.3 78508 2etsA 128 2.98e+01 1kpsB 171 3.03e+01 a.118.12.1 68787 2bkrA 212 3.04e+01 2br9A 234 3.11e+01 1zl8A 53 3.12e+01 2d8dA 90 3.15e+01 1uc2A 481 3.16e+01 d.261.1.1 99161 1b3uA 588 3.16e+01 1b3uA a.118.1.2 19135 1zmbA 290 3.20e+01 2dfkA 402 3.29e+01 1t5eA 360 3.31e+01 f.46.1.1 106436 1l8rA 101 3.46e+01 a.6.1.4 73700 1nu7D 282 3.48e+01 a.8.6.1,a.8.6.1 92191,92192 1f24A 402 3.54e+01 1rom a.104.1.1 18953 1h3qA 140 3.61e+01 d.110.4.3 76652 2bvlA 543 3.68e+01 1x93A 55 3.78e+01 1u13A 455 3.79e+01 a.104.1.1 107578 1ohgA 282 3.81e+01 d.183.1.1 93018 2b1eA 564 3.81e+01 1y74A 57 3.82e+01 1px5A 349 3.84e+01 a.160.1.2,d.218.1.6 95277,95278 1b8oA 284 3.87e+01 1b8oA c.56.2.1 33762 1xkgA 312 3.92e+01 2ahqA 76 3.95e+01 2fs3A 282 4.04e+01 1h5zA 455 4.06e+01 a.104.1.1 90622 1ho1A 242 4.13e+01 1ho1A c.1.24.1 61097 2d2mD 145 4.19e+01 1j3mA 129 4.23e+01 d.129.7.1 103836 2rslA 140 4.23e+01 2rslA c.53.1.1 33345 1jfbA 404 4.32e+01 a.104.1.1 66624 1r1hA 696 4.36e+01 d.92.1.4 104756 1colA 204 4.38e+01 1a87 f.1.1.1 43378 1yv5A 374 4.41e+01 1keyA 235 4.43e+01 a.118.16.1 72389 1eq7A 56 4.48e+01 1eq7A h.1.16.1 45655 2prd 174 4.53e+01 2prd b.40.5.1 25435 2gyqA 175 4.54e+01 1ug3A 339 4.58e+01 1lmzA 187 4.74e+01 a.96.1.4 74037 1vm8A 534 4.75e+01 1gkpA 458 4.82e+01 b.92.1.3,c.1.9.6 70231,70232 1hw1A 239 4.83e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1otvA 259 4.88e+01 a.132.1.4 93526 1s9pA 227 4.88e+01 a.123.1.1 105384 1nthA 458 4.89e+01 c.1.25.1 80730 1jsxA 207 4.90e+01 c.66.1.20 71846 1rvgA 305 4.93e+01 c.1.10.2 97920 2polA 366 5.05e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1foeA 377 5.06e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1mp1A 111 5.15e+01 a.188.1.1 91382 119l 164 5.15e+01 1l92 d.2.1.3 36622 1lniA 96 5.15e+01 d.1.1.2 74046 1m70A 190 5.16e+01 a.3.1.4,a.3.1.4 91200,91201 2f6mB 109 5.20e+01 2cyeA 133 5.23e+01 1cktA 71 5.29e+01 1cktA a.21.1.1 16417 2f94F 350 5.34e+01 1fntc 245 5.48e+01 2db0A 253 5.58e+01 2basA 431 5.61e+01 2a1dD 329 5.62e+01 2bptA 861 5.65e+01 1fs1B 141 5.65e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1nc5A 373 5.66e+01 a.102.1.6 85548 2gmyA 153 5.67e+01 1bvoA 175 5.70e+01 1a3qA b.2.5.3 22457 1b66A 140 5.71e+01 1b66A d.96.1.2 40657 1v7bA 185 5.73e+01 1i1dA 161 5.74e+01 1i21A d.108.1.1 61526 1l1eA 287 5.76e+01 c.66.1.18 73454 1iomA 377 5.81e+01 a.103.1.1 83698 1zkdA 387 5.87e+01 1rgeA 96 6.01e+01 1rgeA d.1.1.2 36028 1k1xA 659 6.03e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1kn1B 161 6.03e+01 a.1.1.3 77456 1mmiA 366 6.04e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1iab 200 6.07e+01 1iae d.92.1.8 40312 1gq6A 313 6.15e+01 c.42.1.1 70341 1f60A 458 6.17e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1ewqA 765 6.40e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fh6A 282 6.44e+01 1fh6A 1dkzA 219 6.46e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1ctqA 166 6.48e+01 1ctqA c.37.1.8 31965 1umdA 367 6.48e+01 c.36.1.11 99599 1m8jA 181 6.59e+01 c.26.1.3 84875 1e85A 127 6.59e+01 1bbhA a.24.3.2 16549 1i12A 160 6.63e+01 1i21A d.108.1.1 61515 2a14A 263 6.73e+01 1rqjA 299 6.74e+01 a.128.1.1 97744 1hz4A 373 6.74e+01 a.118.8.2 65960 1lylA 504 6.83e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 2iugA 120 6.85e+01 1o08A 221 6.88e+01 c.108.1.6 86525 1x3kA 152 6.88e+01 1p36A 164 6.90e+01 d.2.1.3 93978 1vg5A 73 6.96e+01 1rxwA 336 7.03e+01 a.60.7.1,c.120.1.2 98059,98060 1axn 323 7.04e+01 1avc a.65.1.1 18149 1dowA 205 7.09e+01 1dovA a.24.9.1 16626 1jh6A 189 7.14e+01 d.61.1.1 66707 1xv5A 401 7.17e+01 1je8A 82 7.37e+01 a.4.6.2 77108 1ezvH 74 7.45e+01 1be3H f.28.1.1 59552 2b3wA 168 7.51e+01 1dzlA 505 7.51e+01 1dzlA b.121.6.1 23586 1nhyA 219 7.54e+01 a.45.1.1,c.47.1.5 80520,80521 1wkbA 810 7.56e+01 1t3wA 148 7.60e+01 2anuA 255 7.62e+01 1ef1A 294 7.64e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1g2oA 268 7.65e+01 1b8oA c.56.2.1 60228 1t94A 459 7.65e+01 d.240.1.1,e.8.1.7 106701,106702 1sheA 103 7.66e+01 d.274.1.1 105551 1e4iA 447 7.69e+01 1e70M c.1.8.4 59225 1x8vA 455 7.70e+01 1zu4A 320 7.70e+01 1yoyA 175 7.73e+01 1jysA 242 7.95e+01 c.56.2.1 77216 1w9cA 321 7.95e+01 1zw0A 66 8.06e+01 1e9xA 455 8.08e+01 1ea1A a.104.1.1 18969 2evwX 166 8.09e+01 2c12A 439 8.11e+01 1rwtA 232 8.13e+01 f.43.1.1 97992 1wdcC 156 8.15e+01 1wdcC a.39.1.5 17317 1o70A 324 8.20e+01 b.118.1.1,b.118.1.1 81115,81116 1kq3A 376 8.35e+01 e.22.1.2 68790 1oyzA 280 8.39e+01 a.118.1.16 93775 1w5fA 353 8.42e+01 2gsvA 80 8.58e+01 2bhwA 232 8.59e+01 1dvkA 173 8.59e+01 1dvkA a.72.1.1 18319 1m5wA 243 8.60e+01 c.1.24.1 84836 1ca1 370 8.74e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1r0vA 305 8.76e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1xt9A 212 8.77e+01 1jfzA 154 8.82e+01 a.149.1.1 66655 2b8iA 77 8.86e+01 2f6sA 201 8.87e+01 1vqrA 297 8.89e+01 1iae 200 8.92e+01 1iae d.92.1.8 40311 1a9xA 1058 8.94e+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 2a6hD 1524 9.00e+01