# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1nv8A 284 1.65e-23 c.66.1.30 86224 1dusA 194 8.21e-15 1dusA c.66.1.4 34182 2as0A 396 5.20e-13 1ufkA 254 1.49e-12 c.66.1.39 99340 1l3iA 192 4.47e-11 c.66.1.22 77676 1wxxA 382 1.48e-10 1ne2A 200 1.94e-10 c.66.1.32 85586 1wy7A 207 2.24e-10 1wznA 252 2.64e-10 1ve3A 227 4.14e-10 1g6q2 328 8.03e-10 1g6q2 1xxlA 239 8.84e-10 1jsxA 207 1.32e-09 c.66.1.20 71846 2fhpA 187 1.88e-09 1f3lA 321 2.10e-09 1g6q2 c.66.1.6 59630 1uwvA 433 2.84e-09 b.40.4.12,c.66.1.40 100128,100129 2fytA 340 2.93e-09 2esrA 177 4.70e-09 1o54A 277 9.21e-09 c.66.1.13 92482 2f8lA 344 1.01e-08 1g38A 393 1.41e-08 2admA c.66.1.27 60235 1vl5A 260 1.99e-08 c.66.1.41 108720 2gh1A 301 2.42e-08 2admA 421 2.73e-08 2admA c.66.1.27 34238 1sqgA 429 2.85e-08 a.79.1.3,c.66.1.38 105912,105913 1qzzA 374 3.20e-08 a.4.5.29,c.66.1.12 96719,96720 1aqjA 421 4.64e-08 2admA c.66.1.27 34242 1m6yA 301 5.58e-08 a.60.13.1,c.66.1.23 78716,78717 1jg1A 235 6.84e-08 c.66.1.7 66661 1y8cA 246 1.06e-07 1ws6A 171 1.20e-07 1dl5A 317 1.34e-07 1dl5A c.66.1.7,d.197.1.1 64720,64721 1yzhA 214 1.53e-07 1xvaA 292 1.70e-07 1xvaA c.66.1.5 34183 1i9gA 280 1.81e-07 c.66.1.13 62090 1d2gA 292 2.11e-07 1xvaA c.66.1.5 34187 2frnA 278 2.30e-07 1ri5A 298 2.42e-07 c.66.1.34 97502 1bhjA 292 2.46e-07 1xvaA c.66.1.5 34189 1i1nA 226 5.03e-07 c.66.1.7 71102 1kr5A 226 5.05e-07 c.66.1.7 68847 1yb2A 275 1.29e-06 2fpoA 202 1.30e-06 1zq9A 285 1.75e-06 2avdA 219 1.85e-06 1im8A 244 1.96e-06 c.66.1.14 66212 1xdzA 240 1.97e-06 1zdzA 302 3.04e-06 1ixkA 315 3.62e-06 c.66.1.38 90716 1jq3A 296 3.97e-06 c.66.1.17 67079 2fk8A 318 5.44e-06 1kpgA 287 5.65e-06 c.66.1.18 68735 1kp9B 287 6.50e-06 c.66.1.18 68734 2b25A 336 8.00e-06 2avnA 260 8.54e-06 1inlA 296 9.02e-06 c.66.1.17 66220 1l1eA 287 9.40e-06 c.66.1.18 73454 1mjfA 281 1.76e-05 c.66.1.17 79198 1vid 221 1.84e-05 1vid c.66.1.1 34178 1uirA 314 1.98e-05 c.66.1.17 99429 1h1dA 221 2.85e-05 c.66.1.1 83452 1qamA 244 3.45e-05 2ercA c.66.1.24 34220 1vlmA 219 3.77e-05 c.66.1.41 108836 1xtpA 254 4.41e-05 2ex4A 241 4.53e-05 1wg8A 285 5.06e-05 1o9gA 250 5.35e-05 c.66.1.29 86692 1nt2A 210 5.50e-05 c.66.1.3 86149 1jvbA 347 1.29e-04 b.35.1.2,c.2.1.1 77181,77182 1ej0A 180 1.73e-04 1ej0A c.66.1.2 34179 1fbnA 230 2.14e-04 1fbnA c.66.1.3 34181 1g8sA 230 2.23e-04 c.66.1.3 90507 2ercA 244 2.90e-04 2ercA c.66.1.24 34224 1xclA 235 3.71e-04 1nw3A 416 4.14e-04 c.66.1.31 86288 1eg2A 319 4.21e-04 1eg2A c.66.1.11 34249 1nw8A 319 4.61e-04 c.66.1.11 86292 1g60A 260 5.78e-04 c.66.1.11 70151 1zx0A 236 7.35e-04 1yub 245 1.13e-03 2ercA c.66.1.24 34219 1fp2A 352 1.61e-03 1fpxA a.4.5.29,c.66.1.12 59941,59942 1p1cA 199 1.69e-03 c.66.1.16 87669 1khhA 198 1.81e-03 c.66.1.16 68615 1fpxA 352 1.93e-03 1fpxA a.4.5.29,c.66.1.12 59950,59951 1g55A 343 2.42e-03 1g55A c.66.1.26 34247 1g8aA 227 2.77e-03 c.66.1.3 90506 2b9eA 303 3.06e-03 1fp1D 372 3.31e-03 1fpqA a.4.5.29,c.66.1.12 59939,59940 1u2zA 433 3.58e-03 c.66.1.31 107626 1fmcA 255 7.06e-03 1cydA c.2.1.2 29856 1nytA 271 8.86e-03 c.2.1.7,c.58.1.5 86417,86418 1fpqA 372 1.22e-02 1fpqA a.4.5.29,c.66.1.12 59947,59948 2ar0A 541 1.50e-02 1pvvA 315 1.68e-02 c.78.1.1,c.78.1.1 95190,95191 1l9kA 305 1.73e-02 c.66.1.25 84569 2dpmA 284 2.15e-02 2dpmA c.66.1.28 34246 1booA 323 3.46e-02 1booA c.66.1.11 34248 1a1s 314 3.47e-02 1othA c.78.1.1,c.78.1.1 35258,35259 1bc5A 269 3.65e-02 1af7 a.58.1.1,c.66.1.8 17929,34204 1jqbA 351 4.32e-02 b.35.1.2,c.2.1.1 77151,77152 1zcjA 463 4.35e-02 1kevA 351 4.45e-02 1pedA b.35.1.2,c.2.1.1 24749,29765 1af7 274 4.45e-02 1af7 a.58.1.1,c.66.1.8 17928,34203 6mhtA 327 4.53e-02 6mhtA c.66.1.26 34226 1zkdA 387 4.53e-02 2c7pA 327 4.80e-02 2aotA 292 5.11e-02 1qyrA 252 5.62e-02 c.66.1.24 104657 3mhtA 327 5.80e-02 6mhtA c.66.1.26 34234 2bgkA 278 5.91e-02 1fjxA 327 6.42e-02 6mhtA c.66.1.26 34228 1dctA 324 6.44e-02 6mhtA c.66.1.26 34244 1f8fA 371 6.80e-02 b.35.1.2,c.2.1.1 83246,83247 2a14A 263 7.54e-02 1zemA 262 8.48e-02 1hmy 327 9.64e-02 6mhtA c.66.1.26 34229 1b3rA 431 1.02e-01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1jqeA 292 1.15e-01 c.66.1.19 71789 1li4A 432 1.15e-01 c.2.1.4,c.23.12.3 84616,84617 1bg6 359 1.20e-01 1bg6 a.100.1.5,c.2.1.6 18810,30214 2gdzA 267 1.24e-01 1pedA 351 1.26e-01 1pedA b.35.1.2,c.2.1.1 24753,29769 1yf3A 259 1.49e-01 1a7aA 432 1.58e-01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1e3jA 352 1.68e-01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1xwfA 431 2.00e-01 1obbA 480 2.02e-01 c.2.1.5,d.162.1.2 86760,86761 1i4wA 353 2.21e-01 c.66.1.24 66028 1pl8A 356 2.42e-01 b.35.1.2,c.2.1.1 94878,94879 1rjdA 334 2.51e-01 c.66.1.37 97558 1vjtA 483 2.61e-01 c.2.1.5,d.162.1.2 100833,100834 1v8bA 479 2.74e-01 1ykfA 352 2.75e-01 1pedA b.35.1.2,c.2.1.1 24757,29773 1q0sA 259 3.14e-01 c.66.1.28 95509 1xv5A 401 3.50e-01 1g0oA 283 3.61e-01 1ybvA c.2.1.2 60181 1h2bA 359 3.91e-01 b.35.1.2,c.2.1.1 90543,90544 1fds 327 4.12e-01 1fds c.2.1.2 29838 1ja9A 274 4.28e-01 c.2.1.2 62817 1jtvA 327 4.41e-01 c.2.1.2 84230 1i5rA 327 4.64e-01 c.2.1.2 83668 1fdt 327 4.68e-01 1fds c.2.1.2 29841 1xkqA 280 4.96e-01 1p77A 272 5.17e-01 c.2.1.7,c.58.1.5 94214,94215 1a27 289 5.22e-01 1fds c.2.1.2 29839 2fz4A 237 5.33e-01 1uufA 369 5.34e-01 b.35.1.2,c.2.1.1 100006,100007 1a71A 374 5.84e-01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1axgA 374 5.85e-01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1d4fA 431 6.35e-01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1zmoA 244 6.35e-01 1x0oA 119 6.77e-01 2ew2A 316 7.07e-01 1yb5A 351 7.31e-01 1tqhA 247 7.81e-01 c.69.1.29 107225 1ihoA 283 8.36e-01 1ihoA c.26.1.4 62390 1t2dA 322 8.75e-01 c.2.1.5,d.162.1.1 99084,99085 1ldg 316 1.11e+00 1ceqA c.2.1.5,d.162.1.1 30165,42132 1t7vA 278 1.14e+00 1u3wA 374 1.15e+00 1r1dA 247 1.17e+00 c.69.1.29 96813 1tiqA 180 1.19e+00 d.108.1.1 107010 1ee2A 373 1.35e+00 2ohxA b.35.1.2,c.2.1.1 24663,29679 1ybvA 283 1.45e+00 1ybvA c.2.1.2 29948 2ag5A 246 1.52e+00 8adh 374 1.55e+00 2ohxA b.35.1.2,c.2.1.1 24690,29706 1n8kA 374 1.59e+00 b.35.1.2,c.2.1.1 80298,80299 1axeA 374 1.65e+00 2ohxA b.35.1.2,c.2.1.1 24681,29697 2ohxA 374 1.66e+00 2ohxA b.35.1.2,c.2.1.1 24669,29685 1bpe 335 1.68e+00 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1ej6A 1289 1.72e+00 i.7.1.1 45967 1ecfA 504 1.74e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1xhlA 297 1.78e+00 c.2.1.2 109591 1yqdA 366 1.83e+00 1heuA 374 1.87e+00 2ohxA b.35.1.2,c.2.1.1 60979,60980 1hetA 374 1.87e+00 2ohxA b.35.1.2,c.2.1.1 60975,60976 1h4pA 408 1.93e+00 c.1.8.3 90617 1gegA 256 1.94e+00 1ybvA c.2.1.2 29888 1iy8A 267 1.98e+00 c.2.1.2 83774 1zk4A 251 1.99e+00 1nxqA 251 2.10e+00 c.2.1.2 86388 1cydA 244 2.14e+00 1cydA c.2.1.2 29825 1bpb 248 2.22e+00 1bpyA a.60.12.1,d.218.1.2 75811,75812 1qkkA 155 2.33e+00 1dbwA c.23.1.1 31104 1s6yA 450 2.38e+00 c.2.1.5,d.162.1.2 105314,105315 1jdqA 98 2.54e+00 d.68.3.3 66559 2an3A 289 2.75e+00 2c07A 285 2.91e+00 1zesA 125 3.08e+00 1nmoA 247 3.30e+00 c.135.1.1 91980 1wdkC 390 3.42e+00 c.95.1.1,c.95.1.1 109258,109259 1w6uA 302 3.42e+00 2c4wA 176 3.55e+00 1ecfB 504 3.73e+00 1ecfB c.61.1.1,d.153.1.1 34054,41821 1m3kA 392 3.84e+00 c.95.1.1,c.95.1.1 78565,78566 1ptmA 329 3.87e+00 c.77.1.3 95104 1n9lA 109 3.92e+00 d.110.3.6 85468 1ceqA 316 4.04e+00 1ceqA c.2.1.5,d.162.1.1 30163,42130 1up6A 416 4.11e+00 c.2.1.5,d.162.1.2 107976,107977 1kzfA 230 4.11e+00 d.108.1.3 73354 1k4jA 230 4.26e+00 d.108.1.3 72057 1g3qA 237 4.27e+00 1hyqA c.37.1.10 60237 1l7dA 384 4.35e+00 c.2.1.4,c.23.12.2 77774,77775 1liiA 363 4.57e+00 c.72.1.1 73921 1nom 248 4.67e+00 1bpyA a.60.12.1,d.218.1.2 75929,75930 1poiB 260 4.73e+00 1poiB c.124.1.3 34155 1b00A 127 4.88e+00 3chy c.23.1.1 31122 1y9aA 360 4.92e+00 1m4tA 392 5.00e+00 c.95.1.1,c.95.1.1 78617,78618 1qflA 389 5.04e+00 1afwA c.95.1.1,c.95.1.1 35908,35909 1tqxA 227 5.09e+00 1cojA 212 5.10e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 1xqiA 195 5.19e+00 1z90A 469 5.37e+00 1rpl 251 5.52e+00 1bpyA a.60.12.1,d.218.1.2 75933,75934 1hxhA 253 5.54e+00 c.2.1.2 76725 1u08A 386 5.85e+00 c.67.1.1 107543 1agnA 373 6.11e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1jznA 135 6.11e+00 d.169.1.1 84262 1ldnA 316 6.32e+00 1hyhA c.2.1.5,d.162.1.1 30166,42133 1lssA 140 6.58e+00 c.2.1.9 74246 1a5z 319 6.66e+00 1ceqA c.2.1.5,d.162.1.1 30181,42148 1up7A 417 6.72e+00 1ha1 184 6.82e+00 1ha1 d.58.7.1,d.58.7.1 39147,39148 1l3kA 196 6.86e+00 d.58.7.1,d.58.7.1 73539,73540 1brt 277 6.88e+00 1brt c.69.1.12 34699 1gq6A 313 6.93e+00 c.42.1.1 70341 1tyyA 339 7.16e+00 1to6A 371 7.22e+00 c.141.1.1 107170 1mioA 534 7.30e+00 1qguA c.92.2.3 35601 1k1xA 659 7.31e+00 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1mvoA 136 7.32e+00 c.23.1.1 79513 1ug8A 87 7.38e+00 d.68.7.1 107825 1b9bA 255 7.51e+00 1amk c.1.1.1 28531 2a84A 300 7.82e+00 1n2eA 300 7.92e+00 c.26.1.4 85268 1mopA 300 7.92e+00 c.26.1.4 85035 1o97C 264 8.17e+00 c.26.2.3 81232 1npdA 288 8.25e+00 c.2.1.7,c.58.1.5 80681,80682 1l5zA 155 8.39e+00 c.23.1.1 77722 1tt7A 330 8.40e+00 1q7bA 244 9.37e+00 c.2.1.2 96026 1vkrA 125 9.51e+00 c.44.2.1 108689 2d1yA 256 9.80e+00 1zbqA 327 9.82e+00 1uj6A 227 9.90e+00 c.124.1.4,d.58.40.1 107898,107899 1v3vA 333 1.00e+01 b.35.1.2,c.2.1.1 108345,108346 1nwbA 124 1.03e+01 b.124.1.1 86296 2fug1 438 1.09e+01 1ksfX 758 1.14e+01 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 3adk 195 1.18e+01 1zin c.37.1.1 31885 1c44A 123 1.18e+01 1qndA d.106.1.1 40795 1fjgB 256 1.19e+01 1fjfB c.23.15.1 31400 1zynA 202 1.23e+01 1wlyA 333 1.25e+01 1hnnA 282 1.30e+01 c.66.1.15 65895 2absA 383 1.30e+01 2cmd 312 1.33e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 2cy2A 174 1.33e+01 1iugA 352 1.40e+01 c.67.1.3 90699 2bzgA 232 1.42e+01 1kolA 398 1.45e+01 b.35.1.2,c.2.1.1 77474,77475 1o6zA 303 1.47e+01 c.2.1.5,d.162.1.1 81107,81108 1tdj 514 1.49e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1ybhA 590 1.51e+01 2bm8A 236 1.53e+01 2f8mA 244 1.54e+01 1r13A 148 1.55e+01 d.169.1.1,h.1.1.1 96782,96783 1fr9A 194 1.55e+01 1fr9A c.68.1.8 34579 1mj5A 302 1.58e+01 c.69.1.8 91285 1ekeA 230 1.58e+01 1ekeA c.55.3.1 33572 35c8H 217 1.61e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1pdz 434 1.62e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1ab6A 125 1.62e+01 3chy c.23.1.1 31054 2g3aA 152 1.66e+01 2pia 321 1.68e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1lldA 319 1.76e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1reoA 486 1.81e+01 c.3.1.2,d.16.1.5 97325,97326 1f8gA 384 1.87e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1ionA 243 1.89e+01 c.37.1.10 62633 1bx4A 345 1.90e+01 1bx4A c.72.1.1 34935 1v71A 323 1.92e+01 1vj1A 363 1.92e+01 b.35.1.2,c.2.1.1 100794,100795 1f2dA 341 1.96e+01 1f2dA c.79.1.1 35298 1lk5A 229 1.99e+01 c.124.1.4,d.58.40.1 73960,73961 2aqwA 332 2.01e+01 1r6oC 106 2.01e+01 1seiA 130 2.08e+01 1seiA d.140.1.1 41463 2aw5A 541 2.10e+01 2g5cA 281 2.12e+01 1mx3A 347 2.12e+01 c.2.1.4,c.23.12.1 79638,79639 1j0dA 341 2.19e+01 c.79.1.1 83902 1dik 874 2.23e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2a4aA 281 2.23e+01 1dgmA 363 2.23e+01 1bx4A c.72.1.1 34936 1h5wA 309 2.24e+01 e.27.1.1 65635 1ks2A 219 2.28e+01 c.124.1.4,d.58.40.1 72908,72909 1lkzA 219 2.32e+01 c.124.1.4,d.58.40.1 73991,73992 1b24A 188 2.33e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1ede 310 2.33e+01 1b6g c.69.1.8 34662 1qklA 127 2.36e+01 1qklA a.143.1.2 39754 1x13A 401 2.42e+01 2bj7A 138 2.44e+01 1vjqA 79 2.48e+01 k.43.1.1 100830 2f9lA 199 2.49e+01 1jr2A 286 2.50e+01 c.113.1.1 67111 1kjvA 284 2.50e+01 b.1.1.2,d.19.1.1 77421,77422 1h2vZ 156 2.50e+01 d.58.7.1 76595 1v88A 130 2.52e+01 b.55.1.1 108423 1ek8A 185 2.55e+01 1ek8A d.67.3.1 59444 2ar1A 172 2.56e+01 1xseA 295 2.57e+01 1qidA 537 2.63e+01 2bce c.69.1.1 34593 2fb7A 95 2.66e+01 1dkmA 410 2.68e+01 1dklA c.60.1.2 34000 1bg4 302 2.72e+01 1taxA c.1.8.3 28806 1a88A 275 2.75e+01 1brt c.69.1.12 34707 1lfwA 470 2.80e+01 c.56.5.4,d.58.19.1 77942,77943 1b6g 310 2.83e+01 1b6g c.69.1.8 34661 1jmkC 230 2.83e+01 c.69.1.22 71747 1v84A 253 2.86e+01 c.68.1.7 108419 1ou0A 207 2.87e+01 c.23.17.1 93536 1j5yA 187 2.91e+01 a.4.5.1,d.94.2.1 71592,71593 1ylxA 103 2.92e+01 1b06A 210 2.93e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1kblA 873 2.94e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 9ldtA 332 2.96e+01 3ldh 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