# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1lap 488 1.43e-51 1lam c.50.1.1,c.56.5.3 33171,33834 1lam 484 1.53e-51 1lam c.50.1.1,c.56.5.3 33166,33829 1bllE 488 1.55e-51 1lam c.50.1.1,c.56.5.3 33170,33833 1dpe 507 1.84e+00 1dpe c.94.1.1 35799 1uz5A 402 2.32e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1gc0A 398 3.45e+00 c.67.1.3 70168 1ile 821 4.97e+00 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1vkhA 273 5.36e+00 c.69.1.32 108662 1o4tA 133 5.39e+00 b.82.1.9 86622 1hjrA 158 5.79e+00 1hjrA c.55.3.6 33727 1yz4A 160 5.80e+00 1dppA 507 5.92e+00 1dpe c.94.1.1 35800 1smbA 154 6.34e+00 d.111.1.1 105756 1iw7C 1119 6.36e+00 e.29.1.1 71474 1iloA 77 6.55e+00 c.47.1.1 66205 1nm2A 317 7.39e+00 c.19.1.1,d.58.23.1 80654,80655 1r5iD 216 8.18e+00 a.202.1.1 97091 1zr5A 214 9.09e+00 1f7wA 144 9.82e+00 1f46A d.129.4.1 59679 1ua4A 455 1.02e+01 c.72.1.3 99128 1x13A 401 1.03e+01 1spvA 184 1.04e+01 c.50.1.2 98957 2fh5A 185 1.13e+01 1l5aA 436 1.15e+01 c.43.1.2,c.43.1.2 75923,75924 1yd9A 193 1.16e+01 1jse 129 1.16e+01 3lzt d.2.1.2 36387 1wcgA 464 1.22e+01 1lrzA 426 1.25e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1cjcA 460 1.26e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1y60A 169 1.30e+01 1dpgA 485 1.48e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1xg2B 153 1.53e+01 1a2yC 129 1.54e+01 3lzt d.2.1.2 36305 1qq9A 284 1.55e+01 1xjo c.56.5.4 33841 1i1rB 181 1.59e+01 1i1rB a.26.1.1 61548 1dtdA 303 1.64e+01 1aye c.56.5.1 33823 1z0sA 278 1.64e+01 5lyz 129 1.69e+01 3lzt d.2.1.2 36289 1ve1A 304 1.71e+01 193l 129 1.82e+01 3lzt d.2.1.2 36247 1at6 129 1.82e+01 3lzt d.2.1.2 36333 1tf9A 284 1.93e+01 8prn 289 1.94e+01 3prn f.4.3.1 43767 1h1wA 289 1.94e+01 d.144.1.7 83460 1prn 289 1.97e+01 3prn f.4.3.1 43762 1xjo 284 1.99e+01 1xjo c.56.5.4 33843 3prn 289 2.02e+01 3prn f.4.3.1 43761 1tkjA 284 2.06e+01 2hnp 321 2.08e+01 1pty c.45.1.2 32678 1t1uA 639 2.08e+01 1x6mA 196 2.15e+01 2fd5A 180 2.15e+01 1uu3A 310 2.15e+01 d.144.1.7 99999 1amp 291 2.17e+01 1amp c.56.5.4 33837 1lokA 291 2.17e+01 c.56.5.4 78122 2dpg 485 2.21e+01 1dpgA c.2.1.3,d.81.1.5 30076,39991 1eeoA 321 2.28e+01 1pty c.45.1.2 32655 2aelA 374 2.28e+01 1j1uA 306 2.35e+01 c.26.1.1 83980 1l2lA 457 2.36e+01 c.72.1.3 77656 3lzt 129 2.38e+01 3lzt d.2.1.2 36245 1bh3 289 2.38e+01 3prn f.4.3.1 43766 1tm9A 137 2.39e+01 a.225.1.1 107150 1nfvA 179 2.40e+01 a.25.1.1 85642 2fflA 756 2.40e+01 2bfxA 284 2.46e+01 2b0jA 358 2.50e+01 1efvB 255 2.55e+01 1efvB c.26.2.3 31634 1vlgA 176 2.58e+01 a.25.1.1 108816 2anpA 291 2.60e+01 1cnv 299 2.61e+01 1cnv c.1.8.5 28989 1p0yA 444 2.72e+01 a.166.1.1,b.85.7.3 87654,87655 1ortA 335 2.80e+01 1othA c.78.1.1,c.78.1.1 35204,35205 2f71A 298 2.81e+01 1bh9B 89 2.83e+01 1bh9B a.22.1.3 16485 1nf3A 195 2.84e+01 c.37.1.8 85594 2a6hC 1119 2.93e+01 1q74A 303 3.10e+01 c.134.1.1 96019 1ai7A 209 3.15e+01 1ajqA d.153.1.2 41845 1ulyA 192 3.17e+01 1a5y 330 3.17e+01 1pty c.45.1.2 32673 1bob 320 3.19e+01 1bob d.108.1.1 40816 1aax 321 3.22e+01 1pty c.45.1.2 32657 1mlvA 444 3.22e+01 a.166.1.1,b.85.7.3 79283,79284 1xklA 273 3.23e+01 1cuk 203 3.23e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1j78A 458 3.36e+01 a.126.1.1,a.126.1.1,a.126.1.1 66397,66398,66399 2cybA 323 3.39e+01 2fgeA 995 3.42e+01 1l2uA 245 3.63e+01 c.1.2.3 73516 1im2A 444 3.70e+01 1do0A c.37.1.20 62564 1pty 321 3.76e+01 1pty c.45.1.2 32656 1ptvA 321 3.83e+01 1pty c.45.1.2 32665 1pyfA 312 3.95e+01 c.1.7.1 95334 1yh1A 359 4.02e+01 1cd31 152 4.03e+01 1cd31 1bavA 309 4.04e+01 1aye c.56.5.1 33806 2ihl 129 4.12e+01 3lzt d.2.1.2 36408 1g7fA 298 4.13e+01 1pty c.45.1.2 60330 1p99A 295 4.19e+01 c.94.1.1 94384 1etu 394 4.23e+01 1efcA c.37.1.8 64737 1pa1A 310 4.26e+01 c.45.1.2 94404 1lufA 343 4.29e+01 d.144.1.7 78223 1r94A 118 4.29e+01 b.124.1.1 97251 1mat 264 4.34e+01 1c24A d.127.1.1 41152 1mp8A 281 4.35e+01 d.144.1.7 91384 2h21A 440 4.37e+01 1pnkA 209 4.38e+01 1ajqA d.153.1.2 41839 1uwzA 136 4.48e+01 c.97.1.1 108081 1qaxA 428 4.49e+01 1qaxA d.58.20.1,d.179.1.1 39376,42597 1w1oA 534 4.49e+01 d.58.32.4,d.145.1.1 109071,109072 1rtqA 299 4.51e+01 c.56.5.4 97819 1xnzA 264 4.52e+01 1c24A 263 4.57e+01 1c24A d.127.1.1 41148 1kq3A 376 4.58e+01 e.22.1.2 68790 4matA 278 4.61e+01 1c24A d.127.1.1 41150 1pv9A 348 4.66e+01 c.55.2.1,d.127.1.1 95157,95158 1gaxA 862 4.67e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1vk3A 615 4.68e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1qayA 428 4.69e+01 1qaxA d.58.20.1,d.179.1.1 39378,42599 1krhA 338 4.73e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1zq6A 359 4.73e+01 1g41A 444 4.79e+01 1do0A c.37.1.20 32450 1n7kA 234 4.80e+01 c.1.10.1 85374 1r31A 428 4.88e+01 d.58.20.1,d.179.1.1 96897,96898 1qnxA 209 4.93e+01 1qnxA d.111.1.1 40914 1a4rA 191 4.96e+01 1ctqA c.37.1.8 32063 1j1bA 420 4.97e+01 d.144.1.7 90758 1iygA 133 4.98e+01 a.118.8.1 76947 1aye 401 5.04e+01 1aye c.56.5.1,d.58.3.1 33824,39065 1qgoA 264 5.04e+01 1qgoA c.92.1.2 35596 1an0A 190 5.11e+01 1ctqA c.37.1.8 32066 1od2A 805 5.12e+01 c.14.1.4,c.14.1.4 86821,86822 2fsqA 243 5.13e+01 1pzxA 289 5.22e+01 c.119.1.1 95484 1gm7A 209 5.26e+01 d.153.1.2 65302 1zlqA 502 5.27e+01 1riqA 465 5.27e+01 a.203.1.1,d.104.1.1 97516,97517 1k42A 168 5.34e+01 b.18.1.14 72032 1suwA 249 5.48e+01 e.52.1.1 106027 1gw5S 142 5.51e+01 d.110.4.2 70633 1usyA 275 5.73e+01 1e3aA 260 5.73e+01 1ajqA d.153.1.2 41838 1bkb 136 5.81e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1ovlA 271 5.85e+01 a.123.1.1 87455 1wmsA 177 5.86e+01 c.37.1.8 109414 1el5A 389 5.89e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1yirA 408 5.90e+01 1ajqA 209 6.12e+01 1ajqA d.153.1.2 41840 2ajrA 331 6.12e+01 1yfsA 465 6.14e+01 1awcA 110 6.14e+01 1awcA a.4.5.21 16167 1efuB 282 6.14e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1wmjA 130 6.15e+01 1aonO 97 6.20e+01 b.35.1.1 24642 1j03A 102 6.21e+01 d.120.1.2 90733 1ivnA 190 6.23e+01 c.23.10.5 83719 1v1dA 31 6.25e+01 2as0A 396 6.31e+01 1kz7A 353 6.33e+01 a.87.1.1,b.55.1.1 73333,73334 1vkkA 154 6.33e+01 d.109.1.2 108669 1uiuA 502 6.34e+01 c.94.1.1 99434 1o0xA 262 6.37e+01 d.127.1.1 80755 1x9zA 188 6.43e+01 1qxyA 252 6.46e+01 d.127.1.1 96565 1wrmA 165 6.48e+01 1umgA 362 6.50e+01 d.280.1.1 107956 1h1yA 228 6.53e+01 c.1.2.2 76506 1rdqE 350 6.55e+01 d.144.1.7 97314 1pieA 419 6.56e+01 d.14.1.5,d.58.26.7 94706,94707 2dcnA 311 6.61e+01 1k3kA 158 6.65e+01 f.1.4.1 72017 1s98A 107 6.70e+01 b.124.1.1 105377 1kxpD 458 6.74e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1ky3A 182 6.80e+01 c.37.1.8 73193 2a8eA 220 6.80e+01 1x9iA 302 6.82e+01 1oltA 457 6.87e+01 c.1.28.2 93334 1jgcA 161 6.96e+01 a.25.1.1 66673 1xh9A 350 7.00e+01 2ac5A 316 7.02e+01 6cpa 307 7.12e+01 1aye c.56.5.1 33816 1qs0B 338 7.15e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 1vjuA 309 7.19e+01 d.248.1.1 100835 2bi0A 337 7.25e+01 1l9fA 389 7.30e+01 c.3.1.2,d.16.1.3 73716,73717 1woyA 500 7.35e+01 1tmcA 175 7.41e+01 1agdA d.19.1.1 38258 1vclA 432 7.43e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1jfgA 374 7.48e+01 a.128.1.5 66636 1q41A 424 7.49e+01 d.144.1.7 95774 2f5gA 133 7.55e+01 1yqeA 282 7.63e+01 1khdA 345 7.66e+01 a.46.2.1,c.27.1.1 77400,77401 1aisB 200 7.66e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1vcoA 550 7.82e+01 c.23.16.1,c.37.1.10 108508,108509 1jdfA 447 7.84e+01 c.1.11.2,d.54.1.1 62897,62898 1d3uB 201 7.86e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1pvtA 238 7.94e+01 c.74.1.1 95189 2g5cA 281 8.00e+01 1j9eA 147 8.01e+01 c.23.5.1 62756 1rec 201 8.02e+01 1rec a.39.1.5 17326 1b3mA 389 8.07e+01 1b3mA 1f3vA 179 8.07e+01 1f3vA d.58.22.1 39382 2a19A 175 8.10e+01 1vmiA 355 8.12e+01 1f47B 144 8.13e+01 1f46A d.129.4.1 59645 1gk9A 260 8.22e+01 d.153.1.2 65246 1oz9A 150 8.24e+01 d.92.1.15 93808 1knwA 425 8.45e+01 b.49.2.3,c.1.6.1 90969,90970 1jfaA 374 8.51e+01 a.128.1.5 66622 1hmcB 148 8.52e+01 1hmcB a.26.1.2 16868 1tzbA 302 8.60e+01 c.80.1.1 107470 1fgkA 310 8.70e+01 1fgkA d.144.1.7 41693 1f46A 140 8.74e+01 1f46A d.129.4.1 59643 1i4nA 251 8.84e+01 c.1.2.4 71114 1gw1A 376 8.85e+01 c.1.8.3 76361 1v7wA 807 8.86e+01 a.102.1.4,b.30.5.3 108411,108412 1rqbA 539 8.87e+01 a.5.7.2,c.1.10.5 105057,105058 1h4rA 314 8.93e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618