# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 5.23e-01 1amuA e.23.1.1 43351 1mmvB 419 5.84e-01 d.174.1.1 91318 1om4A 422 5.90e-01 d.174.1.1 87067 1m7vA 363 7.45e-01 d.174.1.1 78748 1r13A 148 1.07e+00 d.169.1.1,h.1.1.1 96782,96783 1ykiA 217 1.63e+00 1icrA 217 1.81e+00 1vfrA d.90.1.1 62274 1tv8A 340 1.82e+00 c.1.28.3 107352 1np7A 489 2.02e+00 a.99.1.1,c.28.1.1 80677,80678 1x38A 602 2.97e+00 1ex1A 605 3.01e+00 1ex1A c.1.8.7,c.23.11.1 29013,31347 1jtvA 327 3.21e+00 c.2.1.2 84230 1fds 327 3.23e+00 1fds c.2.1.2 29838 1o50A 157 3.67e+00 d.37.1.1,d.37.1.1 92478,92479 1w0mA 226 3.88e+00 c.1.1.1 109027 2msbA 115 4.23e+00 1rtm1 d.169.1.1 42355 1t9xA 1049 4.38e+00 1n9lA 109 4.74e+00 d.110.3.6 85468 1xseA 295 4.90e+00 1rtm1 149 5.42e+00 1rtm1 1gpmA 525 5.49e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2a6hD 1524 5.80e+00 1rypK 198 5.86e+00 d.153.1.4 41879 1xu9A 286 7.01e+00 1g6aA 271 7.22e+00 1btl e.3.1.1 42704 2b06A 155 7.42e+00 1ofdA 1520 8.85e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2b0lA 102 9.30e+00 1pfkA 320 9.70e+00 3pfk c.89.1.1 35575 1itwA 741 1.02e+01 c.77.1.2 76793 1xhcA 367 1.03e+01 1lrzA 426 1.05e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2pfkA 320 1.06e+01 3pfk c.89.1.1 35577 2bjvA 265 1.11e+01 1brwA 433 1.12e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1w2yA 229 1.17e+01 a.204.1.1 109140 1iae 200 1.25e+01 1iae d.92.1.8 40311 1iab 200 1.26e+01 1iae d.92.1.8 40312 1sfjA 238 1.26e+01 1ed5A 444 1.29e+01 1nseA d.174.1.1 42530 2gq1A 332 1.31e+01 1xg5A 279 1.31e+01 1y5mA 276 1.35e+01 1ireB 228 1.40e+01 b.34.4.4 76770 1ugpB 226 1.40e+01 b.34.4.4 107832 1qkrA 188 1.44e+01 1qkrA a.24.9.1 16628 1bn7A 294 1.49e+01 1bn6A c.69.1.8 34677 1tfjA 219 1.50e+01 1zxxA 319 1.52e+01 1afb1 154 1.54e+01 1rtm1 1sflA 238 1.55e+01 1vqvA 306 1.56e+01 1hqz1 141 1.56e+01 1d0cA 444 1.61e+01 d.174.1.1 64769 1ps9A 671 1.63e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xneA 113 1.63e+01 1oe8A 211 1.64e+01 a.45.1.1,c.47.1.5 86905,86906 1xr4A 509 1.65e+01 1z94A 147 1.65e+01 2afwA 329 1.67e+01 1i76A 163 1.69e+01 1hfc d.92.1.11 61877 1ma3A 253 1.70e+01 c.31.1.5 78883 1d1vA 444 1.71e+01 1nseA d.174.1.1 59101 1zemA 262 1.71e+01 1yarH 217 1.75e+01 1rypF 233 1.85e+01 1rypF d.153.1.4 41937 2gsq 202 1.89e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1kveB 77 1.90e+01 1kveB 1nksA 194 1.93e+01 1nksA c.37.1.1 31886 1s72E 178 1.96e+01 d.141.1.1,d.141.1.1 105323,105324 1rypC 244 2.01e+01 1rypC d.153.1.4 41934 1khtA 192 2.02e+01 c.37.1.1 84401 1xuvA 178 2.09e+01 1s2xA 206 2.09e+01 a.47.3.1 105229 1m5yA 408 2.09e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 4pfk 319 2.17e+01 3pfk c.89.1.1 35582 1olmA 403 2.33e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1j8uA 325 2.38e+01 d.178.1.1 71611 1n3kA 130 2.38e+01 a.77.1.4 79965 1dvpA 220 2.47e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2g03A 194 2.57e+01 2aucA 126 2.60e+01 1iow 306 2.61e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1jnuA 104 2.63e+01 d.110.3.6 71762 1fm0D 81 2.69e+01 1fmaD d.15.3.1 37642 1iqrA 420 2.70e+01 a.99.1.1,c.28.1.1 66275,66276 1rypH 205 2.71e+01 d.153.1.4 41876 1furA 467 2.77e+01 1furA a.127.1.1 19403 1oyeA 1049 2.78e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 4pah 308 2.79e+01 4pah d.178.1.1 42576 1fkmA 396 2.82e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1ht6A 405 2.88e+01 b.71.1.1,c.1.8.1 83629,83630 1rkbA 173 2.96e+01 1qtwA 285 2.97e+01 1qumA c.1.15.1 29392 1hg4A 279 3.01e+01 1lbd a.123.1.1 19333 1rypI 222 3.01e+01 d.153.1.4 41877 1ub3A 220 3.01e+01 c.1.10.1 88395 2fq3A 104 3.03e+01 1o6uA 403 3.06e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1pg4A 652 3.12e+01 e.23.1.1 88067 1b67A 68 3.20e+01 1a7w a.22.1.2 16474 1vquA 374 3.21e+01 1k6wA 426 3.31e+01 b.92.1.2,c.1.9.5 68236,68237 1j27A 102 3.37e+01 d.58.50.1 90778 1ooeA 236 3.49e+01 c.2.1.2 87196 1lucA 355 3.50e+01 1lucA c.1.16.1 29547 1jj2E 177 3.56e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1jmxB 349 3.57e+01 b.69.2.2 66906 1ylnA 252 3.62e+01 1gntA 553 3.77e+01 e.26.1.1 70290 1evsA 187 3.79e+01 1evsA a.26.1.1 16845 1e2uA 553 3.83e+01 1e1dA e.26.1.1 43362 1mwwA 128 3.83e+01 d.80.1.4 91483 1ayl 541 3.84e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2cu3A 64 3.85e+01 1q7zA 566 4.02e+01 c.1.21.2,c.1.26.1 96090,96091 1r9dA 787 4.08e+01 c.7.1.1 104865 1sg6A 393 4.09e+01 e.22.1.1 105522 1vjzA 341 4.11e+01 c.1.8.3 100838 1vizA 240 4.17e+01 c.1.4.1 100784 1p6oA 161 4.25e+01 c.97.1.2 94185 2a9gA 418 4.31e+01 1uwfA 158 4.41e+01 1ev7A 317 4.41e+01 1ev7B c.52.1.9 33315 1whtB 153 4.43e+01 1whtB 1whsB 153 4.46e+01 1whtB 1zu4A 320 4.52e+01 1vqoE 178 4.52e+01 1tr0A 108 4.56e+01 d.58.4.4 107261 2gokA 429 4.58e+01 1v8gA 329 4.61e+01 a.46.2.1,c.27.1.1 100505,100506 1ykdA 398 4.71e+01 1yqgA 263 4.78e+01 1m22A 503 4.81e+01 c.117.1.1 78464 1dt9A 437 4.83e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1xuuA 349 4.83e+01 1gdoA 240 4.84e+01 1gdoA 1v9tA 166 4.84e+01 b.62.1.1 108451 1xffA 240 4.95e+01 d.153.1.1 109580 1pbyB 337 4.97e+01 b.69.2.2 94422 1xvsA 126 4.99e+01 1mrg 263 5.00e+01 1mrj d.165.1.1 42183 2b18A 164 5.01e+01 1v5iB 76 5.03e+01 1tr7A 164 5.12e+01 1mlwA 301 5.14e+01 d.178.1.1 79289 2fckA 181 5.15e+01 1ltzA 297 5.19e+01 d.178.1.1 74254 1iirA 415 5.23e+01 1iirA c.87.1.5 62453 1klfB 279 5.24e+01 b.2.3.2,b.2.3.2 72684,72685 1qpcA 279 5.31e+01 1fgkA d.144.1.7 41685 1wu7A 434 5.31e+01 1djqA 729 5.32e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1k2xB 143 5.32e+01 2f6rA 281 5.34e+01 1djnA 729 5.35e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1msk 331 5.35e+01 1msk d.173.1.1 42495 2tmdA 729 5.36e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1z8sA 146 5.42e+01 1qwgA 251 5.44e+01 c.1.27.1 96473 1sl4A 155 5.45e+01 d.169.1.1 105710 1x92A 199 5.46e+01 1n57A 291 5.48e+01 c.23.16.2 85328 830cA 168 5.49e+01 1ck7A d.92.1.11 40400 1dqsA 393 5.50e+01 1dqsA e.22.1.1 43347 1zhxA 438 5.55e+01 1upsA 420 5.57e+01 1dd9A 338 5.73e+01 1dd9A e.13.1.1 43254 1jqlB 140 5.74e+01 c.37.1.20 63234 1li5A 461 5.90e+01 a.27.1.1,c.26.1.1 73912,73913 2aelA 374 5.93e+01 1yspA 181 5.95e+01 1kgsA 225 5.97e+01 a.4.6.1,c.23.1.1 68596,68597 1tzvA 142 5.99e+01 a.79.1.1 107526 1ra0A 430 6.05e+01 1kwiA 101 6.06e+01 d.17.1.3 77564 1o94A 729 6.08e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1yv5A 374 6.09e+01 1oz9A 150 6.09e+01 d.92.1.15 93808 1vjpA 394 6.10e+01 c.2.1.3,d.81.1.3 100828,100829 1frpA 335 6.11e+01 1frpA e.7.1.1 42875 2ceyA 306 6.16e+01 1uu1A 335 6.18e+01 c.67.1.1 99993 1p4wA 99 6.23e+01 a.4.6.2 87783 2prd 174 6.23e+01 2prd b.40.5.1 25435 1swxA 209 6.26e+01 a.224.1.1 106075 1g63A 181 6.31e+01 1g5qA c.34.1.1 60299 1f6fB 210 6.32e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1k77A 260 6.39e+01 c.1.15.5 72096 1tdpA 111 6.40e+01 a.29.8.1 106781 1mxgA 435 6.48e+01 b.71.1.1,c.1.8.1 85193,85194 1z90A 469 6.48e+01 1wlyA 333 6.56e+01 1hdcA 253 6.59e+01 1e6wA c.2.1.2 29862 1yarA 233 6.63e+01 1ekeA 230 6.64e+01 1ekeA c.55.3.1 33572 1top 162 6.70e+01 1ncx a.39.1.5 17223 1d3vA 323 6.70e+01 1d3vA c.42.1.1 32559 1qunB 279 6.73e+01 b.2.3.2,b.2.3.2 22411,22412 2fu4A 83 6.74e+01 1hstA 90 6.76e+01 1hstA a.4.5.13 16140 1dv1A 449 6.78e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 2awpA 198 6.81e+01 1vknA 351 6.83e+01 c.2.1.3,d.81.1.1 108676,108677 2gaiA 633 6.84e+01 1q1fA 151 6.91e+01 a.1.1.2 104476 1gpc 218 7.05e+01 1gpc b.40.4.7 25393 1v25A 541 7.06e+01 e.23.1.1 108275 1f8yA 157 7.12e+01 1f8xA c.23.14.1 31395 1jmsA 381 7.13e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1vgmA 378 7.22e+01 1qqfA 277 7.26e+01 1c3d a.102.4.4 18875 2amxA 376 7.30e+01 2gfhA 260 7.31e+01 4uagA 437 7.32e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1pzgA 331 7.33e+01 c.2.1.5,d.162.1.1 95425,95426 1vls 146 7.35e+01 1vls a.24.2.1 16532 2f6uA 234 7.49e+01 1j6oA 268 7.55e+01 c.1.9.12 77088 2bvyA 475 7.65e+01 1jnyA 435 7.77e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1go4A 205 7.80e+01 d.135.1.1 70292 1ha1 184 7.85e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1o6zA 303 7.86e+01 c.2.1.5,d.162.1.1 81107,81108 1oe1A 336 7.87e+01 b.6.1.3,b.6.1.3 86891,86892 2a4aA 281 7.89e+01 1bcpA 235 7.93e+01 1bcpA d.166.1.1 42255 1eqcA 394 7.97e+01 1cz1A c.1.8.3 28811 1y74A 57 7.97e+01 1vib 55 8.00e+01 1vib g.2.2.1 43999 1yovA 537 8.01e+01 2a3qA 170 8.04e+01 1cbf 285 8.05e+01 1cbf c.90.1.1 35587 1b5tA 275 8.07e+01 1b5tA c.1.23.1 29676 1a7w 69 8.09e+01 1a7w a.22.1.2 16477 1wbeA 209 8.17e+01 2c2xA 281 8.18e+01 1dcfA 136 8.18e+01 1dcfA c.23.1.2 31124 1ujpA 271 8.19e+01 c.1.2.4 99462 1nq6A 302 8.20e+01 c.1.8.3 92046 1fs1A 53 8.21e+01 1fqvA a.158.1.1 19250 1u3dA 509 8.26e+01 a.99.1.1,c.28.1.1 107638,107639 1l7mA 211 8.35e+01 c.108.1.4 73664 1yizA 429 8.37e+01 1upaA 573 8.38e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1io2A 213 8.39e+01 1ekeA c.55.3.1 62612 2aeuA 374 8.42e+01 1o5hA 214 8.44e+01 a.191.1.1 92497 1sdoA 203 8.57e+01 c.52.1.21 98809 1aboA 62 8.59e+01 1bbzA b.34.2.1 24474 1w9pA 433 8.62e+01 1a6s 87 8.65e+01 1a6s a.61.1.4 18134 2gw6A 123 8.67e+01 1vj5A 555 8.69e+01 c.108.1.2,c.69.1.11 100799,100800 1bbzA 58 8.72e+01 1bbzA b.34.2.1 24477 1j5sA 463 8.74e+01 c.1.9.8 71580 1a34A 159 8.74e+01 1a34A b.121.7.1 23286 1v1aA 309 8.76e+01 c.72.1.1 100249 1u7pA 164 8.78e+01 1wguA 136 8.81e+01 1wr2A 238 8.86e+01 1a4iA 301 8.88e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1i0dA 332 8.95e+01 1pscA c.1.9.3 61487 1tzzA 392 8.95e+01 1nmeA 146 8.95e+01 c.17.1.1 85874 1fsgA 233 8.97e+01 1qk3A c.61.1.1 34029