# List of top-scoring protein chains for t04-100-30-o_sep-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 2c46A 241 1.01e-01 2a5vA 213 1.12e-01 1ym3A 215 1.15e-01 1i9sA 210 1.44e-01 1i9sA c.45.1.1 62099 1eexA 554 5.84e-01 1dioA c.1.19.3 29650 1ylmA 144 6.38e-01 2d0sA 79 6.70e-01 1s1eA 224 7.57e-01 2clbA 188 9.03e-01 1sumB 235 1.17e+00 a.7.12.1 106025 1dmhA 311 1.23e+00 1dmhA b.3.6.1 22633 1zbsA 291 1.49e+00 1g8fA 511 1.50e+00 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1sfkA 76 1.83e+00 a.190.1.1 105488 1zcjA 463 2.00e+00 2azqA 311 2.08e+00 1i7hA 111 2.60e+00 d.15.4.1 71122 1r6xA 395 2.79e+00 b.122.1.3,c.26.1.5 97167,97168 1mun 225 4.41e+00 1mun a.96.1.2 18744 1ysrA 150 4.52e+00 2fha 183 4.77e+00 2fha a.25.1.1 16674 1fxxA 482 5.01e+00 1fxxA c.55.3.5 33726 1xzoA 174 5.19e+00 1u5uA 374 5.46e+00 2fi1A 190 5.63e+00 2fbqA 235 5.94e+00 1s6cA 183 5.97e+00 a.39.1.5 98594 2akaB 299 6.32e+00 1eueA 86 7.30e+00 1cyo d.120.1.1 59504 1kk8B 139 7.38e+00 a.39.1.5 77430 1vj0A 380 7.40e+00 b.35.1.2,c.2.1.1 100786,100787 1ldg 316 7.52e+00 1ceqA c.2.1.5,d.162.1.1 30165,42132 2b0mA 393 7.66e+00 1x84A 189 7.92e+00 1zejA 293 8.32e+00 1m2dA 110 8.45e+00 c.47.1.11 78476 1h3gA 601 8.69e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1ow4A 129 8.71e+00 a.39.2.1 93628 1db1A 259 9.29e+00 1db1A a.123.1.1 19329 1wdcB 156 9.31e+00 1wdcB a.39.1.5 17302 1hztA 190 9.33e+00 1i9aA d.113.1.2 61459 1d3gA 367 9.52e+00 1d3gA c.1.4.1 28600 2d9bA 109 1.02e+01 1ojrA 274 1.06e+01 c.74.1.1 93147 1ejbA 168 1.06e+01 1rvv1 c.16.1.1 59417 1t1vA 93 1.09e+01 c.47.1.14 106278 1jlwA 219 1.10e+01 a.45.1.1,c.47.1.5 71741,71742 1e0eA 55 1.11e+01 1wjcA a.4.10.1 59147 1l5oA 356 1.13e+01 c.39.1.1 77711 1vp7A 100 1.17e+01 1i9bA 217 1.19e+01 1i9bA b.96.1.1 62084 1gmuA 143 1.21e+01 b.107.1.1,d.58.38.1 65335,65336 1dcqA 278 1.24e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 2d2yA 145 1.26e+01 1hm6A 346 1.28e+01 1avc a.65.1.1 18147 1dqzA 280 1.29e+01 1dqyA c.69.1.3 34638 1puc 105 1.32e+01 1puc d.97.1.1 40675 1zd7A 159 1.34e+01 1s8nA 205 1.35e+01 c.23.1.1 105374 2a1xA 308 1.35e+01 1cpq 129 1.42e+01 1cpq a.24.3.2 16556 1oohA 126 1.43e+01 a.39.2.1 93383 2sqcA 631 1.46e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1cy5A 97 1.50e+01 1cy5A a.77.1.3 18430 2c5uA 375 1.54e+01 1r3dA 264 1.57e+01 1orvA 728 1.57e+01 b.70.3.1,c.69.1.24 87354,87355 1xw5A 217 1.59e+01 1vs0A 310 1.59e+01 1q4uA 151 1.60e+01 d.38.1.5 95828 1uohA 226 1.61e+01 d.211.1.1 99690 1j0fA 100 1.63e+01 c.47.1.14 90739 1zowA 313 1.65e+01 2cohA 202 1.68e+01 1ux2A 212 1.72e+01 b.96.1.1 100132 1r5iD 216 1.72e+01 a.202.1.1 97091 2aa4A 289 1.73e+01 2g7oA 70 1.75e+01 1a8h 500 1.76e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1or7A 194 1.78e+01 a.4.13.2,a.177.1.1 87332,87333 1u2eA 289 1.79e+01 1yyqA 374 1.81e+01 2h88C 140 1.83e+01 2c4jA 218 1.84e+01 1jmvA 141 1.85e+01 c.26.2.4 66897 1ypqA 135 1.85e+01 1sqhA 312 1.86e+01 d.108.1.5 98966 2f94F 350 1.88e+01 1t0qA 498 1.89e+01 a.25.1.2 106220 1woyA 500 1.91e+01 1d0vA 356 1.91e+01 1d0vA c.39.1.1 32476 1qsgA 265 1.92e+01 1eny c.2.1.2 29935 1wozA 177 1.93e+01 2g8lA 299 1.96e+01 1r6fA 310 1.98e+01 e.46.1.1 97149 2atzA 180 1.98e+01 1cmbA 104 2.04e+01 1cmbA a.43.1.5 17460 1v58A 241 2.06e+01 c.47.1.9,d.17.3.1 108371,108372 1knyA 253 2.12e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1ifqA 138 2.12e+01 1ifqA d.110.4.1 62350 1khbA 625 2.13e+01 c.91.1.1,c.109.1.1 68606,68607 2bl2A 156 2.13e+01 1pyoB 105 2.14e+01 1uw6A 211 2.15e+01 b.96.1.1 100079 2gk9A 426 2.21e+01 1ie9A 259 2.21e+01 1db1A a.123.1.1 62318 1qw9A 502 2.24e+01 b.71.1.2,c.1.8.3 96466,96467 1q35A 320 2.27e+01 c.94.1.1 95661 2aelA 374 2.30e+01 1n0qA 93 2.36e+01 k.37.1.1 79754 1ek9A 428 2.39e+01 1ek9A f.5.1.1 43809 1zxoA 291 2.40e+01 2fb1A 226 2.43e+01 1j75A 67 2.47e+01 a.4.5.19 62673 1tkkA 366 2.52e+01 c.1.11.2,d.54.1.1 107089,107090 1x42A 232 2.57e+01 1d4aA 273 2.59e+01 1d4aA c.23.5.3 31219 1ofzA 312 2.63e+01 b.68.8.1 86978 1u7gA 385 2.63e+01 f.44.1.1 107723 1zkiA 133 2.65e+01 1f0nA 285 2.68e+01 1dqyA c.69.1.3 34636 1t2dA 322 2.72e+01 c.2.1.5,d.162.1.1 99084,99085 1djtA 64 2.77e+01 1aho g.3.7.1 44132 2f4qA 346 2.77e+01 1nt2A 210 2.78e+01 c.66.1.3 86149 1dfoA 417 2.82e+01 1bj4A c.67.1.4 34480 1w4vA 119 2.82e+01 2ex3B 264 2.86e+01 1yq7A 374 2.88e+01 1gmlA 178 2.90e+01 c.8.5.2 70273 1dgnA 89 2.94e+01 1dgnA a.77.1.3 18436 1yd9A 193 2.94e+01 1hz4A 373 2.96e+01 a.118.8.2 65960 1jvr 137 2.98e+01 1jvr a.61.1.2 18132 1zin 217 3.00e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1gjsA 65 3.16e+01 1gab a.8.1.2 60578 1kiyA 374 3.21e+01 a.128.1.5 72555 1aboA 62 3.25e+01 1bbzA b.34.2.1 24474 1uvzA 119 3.31e+01 1y791 680 3.41e+01 2fbwC 141 3.43e+01 1yiiA 320 3.43e+01 1cmcA 104 3.44e+01 1cmbA a.43.1.5 17462 1t0qC 86 3.61e+01 d.15.12.1 106222 1tuoA 464 3.61e+01 1h7cA 108 3.64e+01 a.7.5.1 70914 1szwA 379 3.64e+01 d.265.1.4 99047 2c4wA 176 3.65e+01 1qwgA 251 3.67e+01 c.1.27.1 96473 1oxjA 173 3.68e+01 a.60.1.2,a.118.1.13 87517,87518 1zr6A 503 3.69e+01 1n46A 258 3.72e+01 a.123.1.1 85315 1bbzA 58 3.79e+01 1bbzA b.34.2.1 24477 2hekA 371 3.80e+01 2bfxA 284 3.83e+01 1m9xC 146 3.88e+01 a.73.1.1 84907 1x8hA 228 3.89e+01 1hx1B 114 3.90e+01 1hx1B a.7.7.1 61350 1ix9A 205 3.94e+01 a.2.11.1,d.44.1.1 76899,76900 1rtwA 220 3.94e+01 a.132.1.3 97823 1lp8A 254 3.97e+01 d.165.1.1 91082 1g99A 408 4.00e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1wmbA 260 4.01e+01 1uayA 242 4.02e+01 c.2.1.2 88390 1a7w 69 4.03e+01 1a7w a.22.1.2 16477 1x8gA 227 4.07e+01 2bshA 125 4.10e+01 1k82A 268 4.11e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 2a19B 284 4.12e+01 1yv5A 374 4.13e+01 1ir6A 424 4.14e+01 c.107.1.2 71342 1h5zA 455 4.15e+01 a.104.1.1 90622 1iwhB 146 4.18e+01 a.1.1.2 76883 1x91A 153 4.20e+01 1t9xA 1049 4.29e+01 1ng6A 148 4.30e+01 a.182.1.1 85670 1xm8A 254 4.33e+01 1y60A 169 4.36e+01 1i0hA 205 4.37e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1n00A 321 4.42e+01 a.65.1.1 85241 1uv6A 210 4.51e+01 b.96.1.1 100030 1sw5B 275 4.51e+01 c.94.1.1 106070 1o5zA 442 4.57e+01 c.59.1.2,c.72.2.2 92530,92531 1gox 370 4.57e+01 1gox c.1.4.1 28607 2f66C 82 4.67e+01 1jykA 254 4.68e+01 c.68.1.13 67458 2dhqA 146 4.84e+01 2dhqA c.23.13.1 31382 1l6rA 227 4.86e+01 c.108.1.10 77768 1ayfA 105 4.86e+01 1ayfA d.15.4.1 37684 1b65A 375 4.88e+01 1b65A d.154.1.1 42020 1q60A 99 4.89e+01 1t00A 112 4.94e+01 1t6aA 126 4.97e+01 d.129.8.1 106555 1nmoA 247 4.97e+01 c.135.1.1 91980 1mtyG 162 4.97e+01 1mtyG a.23.3.1 16498 1je0A 236 4.98e+01 c.56.2.1 66581 1uok 558 4.99e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1ojhA 65 4.99e+01 a.214.1.1 103976 1kqfC 217 4.99e+01 f.21.1.1 72874 2cj4A 150 5.01e+01 1vhvA 268 5.02e+01 c.90.1.1 100704 2ganA 190 5.05e+01 1aqcA 172 5.07e+01 1x11A b.55.1.2 26983 2cw9A 194 5.09e+01 1mc2A 122 5.09e+01 a.133.1.2 74622 1eswA 500 5.19e+01 1cwyA c.1.8.1 59500 1fzrA 138 5.19e+01 1fzrA c.52.1.17 33336 1sw5A 275 5.22e+01 c.94.1.1 106069 1xmpA 170 5.27e+01 1xszA 356 5.33e+01 1r0pA 312 5.33e+01 d.144.1.7 96734 2fztA 79 5.35e+01 1gw5S 142 5.36e+01 d.110.4.2 70633 2gncA 60 5.38e+01 2gptA 523 5.39e+01 1pveA 72 5.42e+01 a.189.1.1 104322 2ghfA 102 5.43e+01 1lylA 504 5.45e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1g24A 211 5.47e+01 1g24A d.166.1.1 42270 1k0mA 241 5.50e+01 a.45.1.1,c.47.1.5 67949,67950 1whnA 128 5.50e+01 1gnwA 211 5.52e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1bdb 277 5.52e+01 1bdb c.2.1.2 29874 2d5xB 146 5.58e+01 1olmA 403 5.62e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1e1oA 504 5.65e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1i3zA 103 5.67e+01 d.93.1.1 83667 1axn 323 5.67e+01 1avc a.65.1.1 18149 1i36A 264 5.67e+01 a.100.1.8,c.2.1.6 71108,71109 1lam 484 5.67e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2b99A 156 5.71e+01 1vplA 256 5.74e+01 1mroA 548 5.74e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 2a7kA 250 5.75e+01 1jkoC 52 5.75e+01 a.4.1.2 66809 1nd4A 264 5.77e+01 d.144.1.6 91815 1uumA 372 5.77e+01 c.1.4.1 100010 1o6uA 403 5.79e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 2a9kB 223 5.79e+01 1hbnA 549 5.81e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1dm5A 315 5.82e+01 1avc a.65.1.1 18186 2bt6A 108 5.92e+01 7taa 478 5.94e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1yodA 30 5.94e+01 1n2sA 299 5.98e+01 c.2.1.2 79857 1ypvA 313 5.99e+01 1pda 315 6.05e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1s3zA 165 6.11e+01 d.108.1.1 105250 1reqA 727 6.14e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1yc9A 442 6.16e+01 1ua4A 455 6.21e+01 c.72.1.3 99128 1zip 217 6.21e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1b5qA 472 6.21e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1xouB 95 6.22e+01 2au3A 407 6.31e+01 1b04A 318 6.36e+01 1b04A d.142.2.2 41579 1tr9A 341 6.36e+01 1amuA 563 6.38e+01 1amuA e.23.1.1 43351 1gvdA 52 6.40e+01 a.4.1.3 83338 1dik 874 6.45e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1e55A 512 6.45e+01 1e70M c.1.8.4 28934 1v9sA 208 6.46e+01 1zz1A 369 6.48e+01 2bsjA 133 6.52e+01 1y9bA 90 6.52e+01 2a3qA 170 6.52e+01 1zr5A 214 6.53e+01 1qbgA 272 6.55e+01 1d4aA c.23.5.3 31227 2csbA 519 6.57e+01 1v4vA 376 6.72e+01 c.87.1.3 100313 2d0iA 333 6.73e+01 1r62A 160 6.75e+01 d.122.1.3 104816 2ac4A 309 6.77e+01 1im8A 244 6.78e+01 c.66.1.14 66212 5reqA 727 6.79e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1rj1A 151 6.81e+01 a.29.6.1 97526 1mdwA 328 6.84e+01 d.3.1.3 84934 1a59 378 6.93e+01 1aj8A a.103.1.1 18902 1ve3A 227 6.95e+01 1w7bA 339 7.06e+01 2trxA 108 7.07e+01 1thx c.47.1.1 32719 1yhtA 367 7.09e+01 2aq2B 237 7.13e+01 1babA 143 7.14e+01 1abwA a.1.1.2 15235 1ge7A 167 7.15e+01 1ge5A d.92.1.12 60461 1irdA 141 7.21e+01 a.1.1.2 66286 1tk1A 260 7.25e+01 d.248.1.1 107066 1ztsA 139 7.26e+01 1aszB 490 7.27e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1xxsA 122 7.30e+01 1vhoA 346 7.31e+01 b.49.3.1,c.56.5.4 100694,100695 1lldA 319 7.33e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1oj5A 132 7.40e+01 d.110.3.8 93087 1sd4A 126 7.47e+01 a.4.5.39 105428 1p5zB 263 7.48e+01 c.37.1.1 87815 1wveC 80 7.49e+01 1e6eB 128 7.51e+01 1ayfA d.15.4.1 59300 2gz4A 207 7.57e+01 1dozA 309 7.57e+01 1ak1 c.92.1.1 35592 1hyp 80 7.60e+01 1hyp a.52.1.1 17806 2b69A 343 7.61e+01 1tl9A 339 7.77e+01 1qsaA 618 7.78e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1ew4A 106 7.78e+01 1ew4A d.82.2.1 40023 1z2nX 324 7.80e+01 1g8kB 133 7.82e+01 1g8jB b.33.1.1 24435 1am2 199 7.84e+01 1am2 b.86.1.2 28381 2erbA 125 7.92e+01 1rl0A 255 7.96e+01 1e9mA 106 7.96e+01 1ayfA d.15.4.1 59397 1rwzA 245 7.98e+01 d.131.1.2,d.131.1.2 98005,98006 1rwhA 757 8.01e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 2fug7 129 8.03e+01 2g8jA 339 8.05e+01 1sjwA 144 8.12e+01 d.17.4.9 98899 1bm8 99 8.13e+01 1bm8 d.34.1.1 38528 1keaA 221 8.19e+01 a.96.1.2 68491 1oeyA 83 8.24e+01 d.15.2.2 92800 1ijtA 128 8.28e+01 1bfg b.42.1.1 62510 1y4lA 121 8.28e+01 1mml 265 8.32e+01 1mml e.8.1.2 43015 1yqbA 100 8.34e+01 1m4vA 204 8.36e+01 b.40.2.2,d.15.6.1 74459,74460 1rybA 212 8.39e+01 c.56.3.1 98098 1x79A 98 8.51e+01 1qx2A 76 8.51e+01 a.39.1.1 104622 1sly 618 8.53e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1mup 166 8.56e+01 1mup b.60.1.1 27133 1ugpB 226 8.57e+01 b.34.4.4 107832 1i06A 180 8.59e+01 1mup b.60.1.1 27131 2f4mB 61 8.66e+01 1pd21 199 8.69e+01 1pd21 1lshA 1056 8.74e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1m2xA 223 8.77e+01 d.157.1.1 84764 2f69A 261 8.78e+01 1n6aA 259 8.79e+01 b.76.2.1,b.85.7.1 80121,80122 2b4gA 317 8.82e+01 1x3xA 82 8.83e+01 1jjvA 206 8.84e+01 c.37.1.1 71698 2bbrA 195 8.89e+01 1zt2B 212 8.89e+01 2a1dD 329 8.92e+01 2arzA 247 8.92e+01 1a7tA 232 8.93e+01 1a7tA d.157.1.1 42041 1jwgA 147 8.93e+01 a.118.9.2 71911 1p3qQ 54 8.94e+01 a.5.2.4 87748 1in4A 334 8.95e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 2g03A 194 8.96e+01 2iu5A 195 8.96e+01 1gtkA 313 8.97e+01 c.94.1.1,d.50.2.1 76346,76347