# 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 1amuA 563 5.50e-01 1amuA e.23.1.1 43351 1g6aA 271 1.31e+00 1btl e.3.1.1 42704 1ex1A 605 1.33e+00 1ex1A c.1.8.7,c.23.11.1 29013,31347 1gpmA 525 1.96e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1x38A 602 2.20e+00 1xg5A 279 2.31e+00 1xu9A 286 3.10e+00 2cu3A 64 3.26e+00 1o50A 157 3.57e+00 d.37.1.1,d.37.1.1 92478,92479 1n9lA 109 3.61e+00 d.110.3.6 85468 1xseA 295 3.73e+00 2bjvA 265 3.88e+00 1qmvA 197 5.58e+00 1qq2A c.47.1.10 33066 1m7vA 363 6.28e+00 d.174.1.1 78748 2aaa 484 7.40e+00 7taa b.71.1.1,c.1.8.1 27777,28764 1y5mA 276 7.89e+00 2d00A 109 8.44e+00 1r13A 148 8.85e+00 d.169.1.1,h.1.1.1 96782,96783 1tn4 159 8.96e+00 1ncx a.39.1.5 17248 1tv8A 340 9.00e+00 c.1.28.3 107352 1lrzA 426 1.03e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1w0mA 226 1.03e+01 c.1.1.1 109027 1qyaA 307 1.06e+01 d.21.1.2,d.21.1.2 104653,104654 2evrA 246 1.08e+01 1nmeA 146 1.09e+01 c.17.1.1 85874 2b0lA 102 1.17e+01 1e8gA 560 1.21e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1gcoA 261 1.25e+01 1ybvA c.2.1.2 29884 1geeA 261 1.26e+01 c.2.1.2 90509 1ykiA 217 1.41e+01 2fq3A 104 1.42e+01 1odfA 290 1.43e+01 c.37.1.6 92782 2b06A 155 1.47e+01 1owxA 121 1.47e+01 d.58.7.1 87494 7taa 478 1.54e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1zemA 262 1.57e+01 1np7A 489 1.60e+01 a.99.1.1,c.28.1.1 80677,80678 1w4tA 299 1.65e+01 1icrA 217 1.68e+01 1vfrA d.90.1.1 62274 1ps9A 671 1.72e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1zp4A 304 1.75e+01 1om4A 422 1.80e+01 d.174.1.1 87067 1yspA 181 1.82e+01 1y75A 118 1.84e+01 1oaoC 729 1.85e+01 e.26.1.3 86746 1mmvB 419 1.86e+01 d.174.1.1 91318 1svvA 359 1.87e+01 c.67.1.1 106054 1top 162 1.90e+01 1ncx a.39.1.5 17223 1sdjA 310 1.90e+01 d.21.1.2,d.21.1.2 98807,98808 1z57A 339 2.00e+01 1s8nA 205 2.00e+01 c.23.1.1 105374 2pspA 106 2.03e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1zkdA 387 2.05e+01 1im5A 180 2.07e+01 c.33.1.3 66211 1b67A 68 2.11e+01 1a7w a.22.1.2 16474 1fds 327 2.13e+01 1fds c.2.1.2 29838 1sfjA 238 2.19e+01 1io2A 213 2.24e+01 1ekeA c.55.3.1 62612 1b5tA 275 2.28e+01 1b5tA c.1.23.1 29676 1zdnA 158 2.34e+01 1yixA 265 2.35e+01 1oz9A 150 2.39e+01 d.92.1.15 93808 2bkaA 242 2.44e+01 1go4A 205 2.48e+01 d.135.1.1 70292 1q35A 320 2.57e+01 c.94.1.1 95661 1xffA 240 2.78e+01 d.153.1.1 109580 1gdoA 240 2.80e+01 1gdoA 1qqfA 277 2.82e+01 1c3d a.102.4.4 18875 1i76A 163 2.89e+01 1hfc d.92.1.11 61877 1jmxB 349 2.90e+01 b.69.2.2 66906 1a8d 452 2.95e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 2an3A 289 2.97e+01 1bm8 99 2.99e+01 1bm8 d.34.1.1 38528 1qtnA 164 3.02e+01 1pauA c.17.1.1 30999 1fkmA 396 3.03e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1xr4A 509 3.03e+01 2afwA 329 3.05e+01 1furA 467 3.07e+01 1furA a.127.1.1 19403 1l3iA 192 3.14e+01 c.66.1.22 77676 1dqsA 393 3.15e+01 1dqsA e.22.1.1 43347 1kn6A 90 3.20e+01 d.58.3.3 72770 1fsgA 233 3.23e+01 1qk3A c.61.1.1 34029 1n3kA 130 3.24e+01 a.77.1.4 79965 4pfk 319 3.27e+01 3pfk c.89.1.1 35582 1vqvA 306 3.28e+01 1ugpB 226 3.37e+01 b.34.4.4 107832 2g8lA 299 3.38e+01 1ufkA 254 3.38e+01 c.66.1.39 99340 1pbyB 337 3.42e+01 b.69.2.2 94422 1sflA 238 3.52e+01 2a6hD 1524 3.55e+01 1u0jA 267 3.58e+01 c.37.1.20 107546 1hnnA 282 3.59e+01 c.66.1.15 65895 1xvsA 126 3.60e+01 1umdA 367 3.60e+01 c.36.1.11 99599 1sg6A 393 3.67e+01 e.22.1.1 105522 1jflA 228 3.70e+01 c.78.2.1,c.78.2.1 71656,71657 1npsA 88 3.73e+01 1prs b.11.1.1 23622 1nz0A 118 3.92e+01 d.14.1.2 86433 1ig3A 263 3.97e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1kevA 351 4.00e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1rypK 198 4.07e+01 d.153.1.4 41879 1mxmA 254 4.07e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1olmA 403 4.14e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1mup 166 4.20e+01 1mup b.60.1.1 27133 1sn4A 64 4.20e+01 1aho g.3.7.1 44136 1pg4A 652 4.30e+01 e.23.1.1 88067 1u6dX 308 4.30e+01 2f6hX 419 4.35e+01 1ireB 228 4.35e+01 b.34.4.4 76770 1v3vA 333 4.38e+01 b.35.1.2,c.2.1.1 108345,108346 2fokA 579 4.39e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1dv1A 449 4.43e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1z5bA 469 4.54e+01 1jqbA 351 4.56e+01 b.35.1.2,c.2.1.1 77151,77152 1o6uA 403 4.59e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1j6oA 268 4.61e+01 c.1.9.12 77088 1vknA 351 4.65e+01 c.2.1.3,d.81.1.1 108676,108677 1zd3A 555 4.69e+01 1g99A 408 4.69e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1jtvA 327 4.73e+01 c.2.1.2 84230 1go3F 107 4.78e+01 a.60.8.2 65407 1zcjA 463 4.79e+01 1ub3A 220 4.82e+01 c.1.10.1 88395 1v5iB 76 4.90e+01 1y2qA 143 4.92e+01 1kveB 77 4.99e+01 1kveB 1pfkA 320 5.00e+01 3pfk c.89.1.1 35575 1nksA 194 5.01e+01 1nksA c.37.1.1 31886 1s2xA 206 5.18e+01 a.47.3.1 105229 2f6rA 281 5.29e+01 1wi5A 119 5.38e+01 1bc5A 269 5.38e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1wlyA 333 5.41e+01 1ma3A 253 5.53e+01 c.31.1.5 78883 1mxtA 504 5.55e+01 c.3.1.2,d.16.1.1 79671,79672 1vj5A 555 5.56e+01 c.108.1.2,c.69.1.11 100799,100800 1o6yA 299 5.65e+01 d.144.1.7 81106 1sdoA 203 5.67e+01 c.52.1.21 98809 1nrjB 218 5.72e+01 c.37.1.8 86125 1rypC 244 5.74e+01 1rypC d.153.1.4 41934 1j09A 468 5.77e+01 a.97.1.1,c.26.1.1 77025,77026 1vjpA 394 5.78e+01 c.2.1.3,d.81.1.3 100828,100829 1ve6A 582 5.79e+01 1ltzA 297 5.89e+01 d.178.1.1 74254 1tfjA 219 5.94e+01 1gtvA 214 5.96e+01 c.37.1.1 70537 1nqkA 381 6.00e+01 c.1.16.4 92050 1vls 146 6.05e+01 1vls a.24.2.1 16532 1rypH 205 6.09e+01 d.153.1.4 41876 1n4wA 504 6.15e+01 c.3.1.2,d.16.1.1 91676,91677 2ex0A 399 6.26e+01 1dcfA 136 6.27e+01 1dcfA c.23.1.2 31124 1iruK 201 6.29e+01 d.153.1.4 71362 1czaN 917 6.33e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1uu1A 335 6.34e+01 c.67.1.1 99993 1dzkA 157 6.39e+01 1obpA b.60.1.1 27096 2eu9A 355 6.40e+01 1u0mA 382 6.44e+01 c.95.1.2,c.95.1.2 107557,107558 1ofdA 1520 6.55e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1jv4A 162 6.57e+01 b.60.1.1 67343 1zgkA 308 6.64e+01 1bn7A 294 6.65e+01 1bn6A c.69.1.8 34677 1ztdA 133 6.65e+01 1r3eA 309 6.66e+01 b.122.1.1,d.265.1.2 96907,96908 1jfuA 186 6.71e+01 c.47.1.10 62940 1hstA 90 6.71e+01 1hstA a.4.5.13 16140 2b18A 164 6.71e+01 1xc1A 309 6.72e+01 c.94.1.1 109543 1pztA 286 6.72e+01 c.68.1.2 95470 1mlwA 301 6.83e+01 d.178.1.1 79289 1wwiA 148 6.84e+01 1xuuA 349 6.86e+01 1m8jA 181 6.86e+01 c.26.1.3 84875 1kiyA 374 6.99e+01 a.128.1.5 72555 1ylnA 252 7.11e+01 2gaiA 633 7.12e+01 1vjzA 341 7.15e+01 c.1.8.3 100838 1dmlB 36 7.17e+01 1dmlB 1b4vA 504 7.17e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1ve1A 304 7.19e+01 1o6aA 96 7.25e+01 b.139.1.1 92562 1mu5A 471 7.27e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1tr7A 164 7.28e+01 1xqoA 256 7.29e+01 1z83A 196 7.30e+01 1j8uA 325 7.31e+01 d.178.1.1 71611 2aelA 374 7.33e+01 1af7 274 7.34e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1owfA 99 7.38e+01 a.55.1.1 87487 1itwA 741 7.44e+01 c.77.1.2 76793 2a1kA 233 7.45e+01 1yyqA 374 7.47e+01 1gpc 218 7.49e+01 1gpc b.40.4.7 25393 1i05A 180 7.52e+01 1mup b.60.1.1 27130 2bvyA 475 7.55e+01 1xc3A 302 7.60e+01 2cz2A 223 7.62e+01 1ej2A 181 7.64e+01 1f9aA c.26.1.3 59414 1qwgA 251 7.65e+01 c.1.27.1 96473 1obpA 159 7.66e+01 1obpA b.60.1.1 27092 1u7bA 261 7.67e+01 1xn5A 146 7.70e+01 1yocA 147 7.73e+01 1i7qB 193 7.75e+01 1qdlB c.23.16.1 61902 1wehA 171 7.90e+01 2cxcA 144 7.95e+01 1ev7A 317 7.95e+01 1ev7B c.52.1.9 33315 2c2xA 281 7.97e+01 3cox 507 8.03e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1guzA 310 8.04e+01 c.2.1.5,d.162.1.1 65586,65587 2aucA 126 8.06e+01 2gn4A 344 8.21e+01 1vqoW 154 8.21e+01 1eqcA 394 8.23e+01 1cz1A c.1.8.3 28811 1dhkB 223 8.26e+01 1led b.29.1.1 24157 2bjkA 516 8.28e+01 1w5nA 337 8.29e+01 1stzA 338 8.36e+01 a.4.5.51,d.110.2.3 106009,106010 1g5hA 454 8.37e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1qkrA 188 8.38e+01 1qkrA a.24.9.1 16628 1pyoA 167 8.40e+01 c.17.1.1 95370 1x1tA 260 8.47e+01 1ghj 79 8.48e+01 1ghj b.84.1.1 28232 1su8A 636 8.51e+01 e.26.1.2 98999 4pah 308 8.57e+01 4pah d.178.1.1 42576 1iq8A 582 8.60e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1f20A 435 8.60e+01 b.43.4.1,c.25.1.4 64932,64933 2c2aA 258 8.61e+01 1gzgA 337 8.62e+01 c.1.10.3 70805 1wuiS 267 8.69e+01 1w1kA 560 8.71e+01 d.58.32.1,d.145.1.1 109059,109060 1s9rA 410 8.74e+01 d.126.1.4 98758 1l6rA 227 8.75e+01 c.108.1.10 77768 1egwA 77 8.80e+01 1mnmA d.88.1.1 40234 1swxA 209 8.83e+01 a.224.1.1 106075 1iirA 415 8.92e+01 1iirA c.87.1.5 62453 1xrsA 516 8.95e+01 1dt9A 437 8.96e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257