# List of top-scoring protein chains for t06-100-30-n_notor2-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 1sffA 426 1.24e-01 c.67.1.4 105482 1ne7A 289 5.42e-01 c.124.1.1 91833 1mrg 263 7.00e-01 1mrj d.165.1.1 42183 1r1hA 696 9.59e-01 d.92.1.4 104756 1ceo 343 1.48e+00 1ceo c.1.8.3 28808 1d7uA 433 1.94e+00 2dkb c.67.1.4 34439 1h1nA 305 2.49e+00 c.1.8.3 70855 1eu8A 409 2.68e+00 1eu8A c.94.1.1 59502 1wiwA 290 2.87e+00 1q59A 172 2.94e+00 f.1.4.1 95881 1bf2 750 3.20e+00 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1mqeA 207 3.52e+00 d.113.1.1 91394 1v58A 241 3.91e+00 c.47.1.9,d.17.3.1 108371,108372 2cw6A 298 4.14e+00 2c1vA 338 4.37e+00 1t94A 459 4.66e+00 d.240.1.1,e.8.1.7 106701,106702 1e7wA 291 4.82e+00 c.2.1.2 59373 1ct9A 553 4.97e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 2bjfA 329 5.11e+00 1yy7A 213 5.27e+00 1vheA 373 5.40e+00 b.49.3.1,c.56.5.4 100669,100670 1hbnB 442 5.58e+00 1mroB a.89.1.1,d.58.31.2 60900,60901 1dnlA 199 5.62e+00 1ci0A b.45.1.1 25753 1t1gA 364 5.73e+00 c.41.1.2 106246 1eexB 224 5.74e+00 1dioB c.51.3.1 33213 1n8kA 374 6.08e+00 b.35.1.2,c.2.1.1 80298,80299 1tp9A 162 6.24e+00 1wd7A 261 6.59e+00 1ea7A 310 6.75e+00 c.41.1.1 70086 1a8d 452 6.84e+00 1a8d b.29.1.6,b.42.4.2 24262,25607 2b6nA 278 6.89e+00 1yc5A 246 7.28e+00 1st9A 143 7.31e+00 c.47.1.10 98987 2acvA 463 7.43e+00 1l5oA 356 7.48e+00 c.39.1.1 77711 1j4aA 333 7.83e+00 c.2.1.4,c.23.12.1 71502,71503 1gk9B 557 7.97e+00 1eejA 216 8.05e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1w98B 283 8.39e+00 1kqfB 294 8.43e+00 d.58.1.5,f.23.22.1 75900,75901 2a74A 643 8.59e+00 1ju2A 536 8.61e+00 c.3.1.2,d.16.1.1 77169,77170 1u8xX 472 9.28e+00 c.2.1.5,d.162.1.2 107741,107742 1ak0 270 9.56e+00 1ak0 a.124.1.2 19345 1musA 477 9.67e+00 c.55.3.4 79494 1f0kA 364 9.86e+00 1f0kA c.87.1.2 35465 1xx1A 285 1.01e+01 1p80A 753 1.01e+01 c.23.16.3,e.5.1.1 94337,94338 1k3bB 164 1.05e+01 d.3.1.1 72015 2gnpA 266 1.06e+01 1zk7A 467 1.07e+01 1wl4A 397 1.09e+01 1wlgA 299 1.12e+01 1xhcA 367 1.19e+01 1evyA 366 1.21e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1aisA 182 1.22e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1rz2A 254 1.25e+01 b.100.1.1 105130 1ht6A 405 1.27e+01 b.71.1.1,c.1.8.1 83629,83630 2gnoA 305 1.28e+01 1jq5A 370 1.28e+01 e.22.1.2 67084 2ff4A 388 1.29e+01 1p4kA 295 1.30e+01 d.153.1.5 87772 1jnrA 643 1.32e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1jmuB 666 1.37e+01 2fbqA 235 1.37e+01 1atg 231 1.37e+01 1atg c.94.1.1 35834 2fymA 431 1.39e+01 2az4A 429 1.40e+01 2ck3A 510 1.47e+01 2gupA 292 1.52e+01 1twuA 139 1.53e+01 d.32.1.8 107413 1k2xB 143 1.54e+01 2aamA 309 1.55e+01 1o7jA 327 1.58e+01 c.88.1.1 81140 1iejA 332 1.59e+01 1nnt c.94.1.2 62328 1pg4A 652 1.61e+01 e.23.1.1 88067 1g3kA 174 1.62e+01 1nedA d.153.1.4 41989 1fobA 334 1.62e+01 c.1.8.3 83255 1vjfA 180 1.63e+01 d.116.1.1 100809 1dqzA 280 1.63e+01 1dqyA c.69.1.3 34638 1whsA 255 1.63e+01 1ivyA c.69.1.5 34649 1gpeA 587 1.63e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1kqfA 1015 1.72e+01 b.52.2.2,c.81.1.1 72871,72872 1ozhA 566 1.73e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 2ftwA 521 1.74e+01 1x0rA 249 1.80e+01 2fjbA 643 1.83e+01 2c07A 285 1.87e+01 1ignA 246 1.90e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1cjaA 342 1.93e+01 1cjaA d.144.1.3 41708 1w79A 489 1.97e+01 1jkmB 361 2.03e+01 1jkmA c.69.1.2 34634 2aukA 190 2.07e+01 2bg9A 370 2.10e+01 2btvA 901 2.16e+01 2btvA e.28.1.1 43376 2ffeA 311 2.20e+01 1bvoA 175 2.21e+01 1a3qA b.2.5.3 22457 1orvA 728 2.24e+01 b.70.3.1,c.69.1.24 87354,87355 1e9rA 437 2.24e+01 c.37.1.11 64827 1lopA 164 2.29e+01 2cpl b.62.1.1 27510 1ixh 321 2.29e+01 1ixh c.94.1.1 35761 2fwhA 134 2.32e+01 1hqsA 423 2.32e+01 1iso c.77.1.1 61154 1vixA 420 2.36e+01 c.56.5.4,d.58.19.1 100777,100778 1r6uA 437 2.37e+01 c.26.1.1 97163 1e4cP 215 2.41e+01 2fua c.74.1.1 34969 2bvfA 459 2.43e+01 1nowA 507 2.44e+01 c.1.8.6,d.92.2.1 85936,85937 1vyoA 128 2.45e+01 1jmcA 246 2.50e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1wb0A 445 2.53e+01 1t3tA 1303 2.53e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1a8s 273 2.54e+01 1brt c.69.1.12 34710 1kblA 873 2.58e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1x1tA 260 2.59e+01 1jr7A 311 2.61e+01 b.82.2.3 63255 1jdw 423 2.67e+01 1jdw d.126.1.2 41129 1ogiA 303 2.68e+01 b.43.4.2,c.25.1.1 92914,92915 1oe4A 247 2.68e+01 c.18.1.3 86895 1wljA 189 2.69e+01 1p30A 952 2.72e+01 b.121.2.2,b.121.2.2 93964,93965 1zrn 232 2.74e+01 1qq5A c.108.1.1 43323 1ejxC 567 2.77e+01 b.92.1.1,c.1.9.2 83184,83185 1vjpA 394 2.79e+01 c.2.1.3,d.81.1.3 100828,100829 1nbwA 607 2.79e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1ur4A 399 2.82e+01 1nrjA 158 2.86e+01 d.110.4.4 86124 1dk8A 147 2.87e+01 1agrE a.91.1.1 18548 1auiB 169 2.91e+01 1auiB a.39.1.5 17325 1exrA 148 2.93e+01 1cll a.39.1.5 17299 2d5cA 263 2.93e+01 1h6fA 193 2.93e+01 b.2.5.4 70901 1gr0A 367 2.93e+01 c.2.1.3,d.81.1.3 70379,70380 1n9pA 207 2.94e+01 b.1.18.16 80343 1k3yA 221 3.00e+01 a.45.1.1,c.47.1.5 77245,77246 1q25A 432 3.01e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1eg3A 261 3.01e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1f0nA 285 3.07e+01 1dqyA c.69.1.3 34636 1tf5A 844 3.07e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1eceA 358 3.10e+01 1eceA c.1.8.3 28813 1b7yB 785 3.11e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1hl9A 449 3.18e+01 b.71.1.3,c.1.8.11 90650,90651 1exqA 154 3.18e+01 1b9dA c.55.3.2 33646 1kqfC 217 3.21e+01 f.21.1.1 72874 1a9xB 379 3.21e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1vkhA 273 3.21e+01 c.69.1.32 108662 1sznA 417 3.29e+01 b.71.1.1,c.1.8.1 106162,106163 2boqA 331 3.30e+01 1kw3B 292 3.31e+01 d.32.1.3,d.32.1.3 77549,77550 2arzA 247 3.32e+01 7aatA 401 3.33e+01 1ajsA c.67.1.1 34250 1to6A 371 3.35e+01 c.141.1.1 107170 2b0tA 738 3.36e+01 2azeA 155 3.37e+01 1zpdA 568 3.48e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1pot 325 3.50e+01 1pot c.94.1.1 35807 1o0yA 260 3.50e+01 c.1.10.1 80756 1lehA 364 3.52e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2af6A 258 3.53e+01 1l5aA 436 3.53e+01 c.43.1.2,c.43.1.2 75923,75924 1dmgA 225 3.61e+01 1dmgA c.22.1.1 31036 1nvvS 481 3.63e+01 a.117.1.1 86279 2bneA 241 3.63e+01 1hyoA 421 3.63e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1zvkA 358 3.63e+01 1vkmA 297 3.63e+01 c.138.1.1 108670 2bjbA 462 3.66e+01 2gz4A 207 3.72e+01 1mdbA 539 3.72e+01 e.23.1.1 79008 1ek9A 428 3.79e+01 1ek9A f.5.1.1 43809 1rqwA 207 3.82e+01 b.25.1.1 97781 1xdwA 331 3.83e+01 1xo0A 324 3.84e+01 1hx0A 496 3.87e+01 b.71.1.1,c.1.8.1 61346,61347 1sgvA 316 3.87e+01 b.122.1.1,d.265.1.2 98858,98859 1q7eA 428 3.89e+01 c.123.1.1 96035 1gxjA 186 3.91e+01 d.215.1.1 70707 2cmwA 310 3.92e+01 1xesA 413 3.94e+01 2bdeA 470 3.94e+01 1gjnA 153 3.96e+01 a.1.1.2 70191 1wdcC 156 3.98e+01 1wdcC a.39.1.5 17317 2fh5A 185 3.99e+01 1oz2A 331 4.01e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 2frfA 153 4.01e+01 2gwdA 449 4.11e+01 1zp4A 304 4.12e+01 1ve4A 206 4.13e+01 1rypL 212 4.16e+01 d.153.1.4 41880 1ta8A 332 4.18e+01 1juhA 350 4.19e+01 b.82.1.5 71884 1tmxA 293 4.24e+01 1gzcA 239 4.28e+01 b.29.1.1 70803 2gjlA 328 4.29e+01 1n4wA 504 4.31e+01 c.3.1.2,d.16.1.1 91676,91677 1ohvA 472 4.32e+01 c.67.1.4 93031 2absA 383 4.33e+01 1e4mM 501 4.34e+01 1e70M c.1.8.4 59226 1vf8A 377 4.36e+01 1zy9A 564 4.40e+01 2f9sA 151 4.40e+01 1xvwA 160 4.41e+01 1ja9A 274 4.42e+01 c.2.1.2 62817 2pvbA 107 4.46e+01 1a75A a.39.1.4 17205 1iwmA 186 4.47e+01 b.125.1.2 83758 1vr0A 247 4.48e+01 1l1lA 739 4.49e+01 c.7.1.4 73470 1bx4A 345 4.54e+01 1bx4A c.72.1.1 34935 1oneA 436 4.60e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1auoA 218 4.61e+01 1auoA c.69.1.14 34716 2d1yA 256 4.70e+01 1j09A 468 4.71e+01 a.97.1.1,c.26.1.1 77025,77026 1lf6A 684 4.73e+01 a.102.1.5,b.30.5.5 77918,77919 1r6xA 395 4.74e+01 b.122.1.3,c.26.1.5 97167,97168 1wucA 250 4.75e+01 1jetA 517 4.81e+01 1jevA c.94.1.1 35718 1vkpA 383 4.89e+01 d.126.1.6 108686 2fbaA 492 4.90e+01 1nf2A 268 4.95e+01 c.108.1.10 91849 1fr2B 134 4.95e+01 d.4.1.1 83257 1fmcA 255 4.98e+01 1cydA c.2.1.2 29856 1reqB 637 4.99e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2ak3A 226 5.01e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1uhgA 385 5.02e+01 e.1.1.1 88491 2es7A 142 5.03e+01 1pn0A 665 5.08e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1uc7A 125 5.12e+01 c.47.1.1 99163 1k1aA 241 5.19e+01 d.211.1.1 67992 1n8fA 350 5.20e+01 c.1.10.4 85397 1o7fA 469 5.24e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1xd8A 289 5.27e+01 2fcwA 109 5.29e+01 2d0oA 610 5.32e+01 1gegA 256 5.33e+01 1ybvA c.2.1.2 29888 1l9kA 305 5.35e+01 c.66.1.25 84569 2a9gA 418 5.35e+01 2gk9A 426 5.36e+01 1ug7A 128 5.37e+01 a.24.24.1 107824 1vioA 243 5.39e+01 d.265.1.3,d.66.1.5 100762,100763 1k4iA 233 5.50e+01 d.115.1.2 72056 2h1tA 188 5.51e+01 1wdcB 156 5.52e+01 1wdcB a.39.1.5 17302 1pvaA 110 5.54e+01 1a75A a.39.1.4 17207 1p0zA 131 5.57e+01 d.110.6.1 93882 1mqoA 227 5.58e+01 d.157.1.1 103846 1v93A 296 5.59e+01 c.1.23.1 100532 1ppo 216 5.62e+01 1cs8A d.3.1.1 37020 1n4kA 381 5.66e+01 a.118.22.1,b.42.6.1 79992,79993 1vetA 124 5.67e+01 d.110.7.1 108553 1odzA 386 5.71e+01 c.1.8.3 86889 1a6m 151 5.75e+01 1a6m a.1.1.2 15018 1apyB 141 5.75e+01 1apyB 1wkcA 184 5.79e+01 1n93X 375 5.79e+01 a.206.1.1 91707 3pcgM 238 5.85e+01 3pchM b.3.6.1 22742 1ri6A 343 5.89e+01 b.69.11.1 97503 1p1xA 260 5.93e+01 c.1.10.1 104060 1d4xG 126 5.94e+01 1d0nA d.109.1.1 59109 1l7aA 318 5.96e+01 c.69.1.25 77772 1e7uA 961 6.13e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1zmdA 474 6.21e+01 2b59B 172 6.24e+01 1mixA 206 6.31e+01 a.11.2.1,b.55.1.5 79166,79167 1pzxA 289 6.34e+01 c.119.1.1 95484 1wp5A 323 6.35e+01 1q6zA 528 6.36e+01 2b18A 164 6.37e+01 1lv7A 257 6.38e+01 c.37.1.20 78232 1z1lA 345 6.38e+01 1eexA 554 6.40e+01 1dioA c.1.19.3 29650 1eokA 290 6.44e+01 1eokA c.1.8.5 28991 1j6wA 175 6.47e+01 1j98A d.185.1.2 62663 1pieA 419 6.47e+01 d.14.1.5,d.58.26.7 94706,94707 2ag5A 246 6.50e+01 1qmvA 197 6.53e+01 1qq2A c.47.1.10 33066 2bg5A 324 6.59e+01 1ed8A 449 6.61e+01 1b8jA c.76.1.1 34988 1psrA 100 6.62e+01 1psrA a.39.1.2 17180 2a6hE 99 6.76e+01 1ryoA 327 6.77e+01 c.94.1.2 98108 1zcdA 388 6.81e+01 1ujnA 348 6.86e+01 e.22.1.1 99460 1geeA 261 6.91e+01 c.2.1.2 90509 1uv7A 110 6.93e+01 d.67.4.1 100040 1vlmA 219 6.96e+01 c.66.1.41 108836 1j1lA 290 6.96e+01 b.82.1.12 90766 1zs9A 261 7.01e+01 2fv7A 331 7.09e+01 1x7yA 400 7.14e+01 1sat 471 7.25e+01 1sat b.80.7.1,d.92.1.6 28014,40300 1usyA 275 7.27e+01 1ta9A 450 7.34e+01 1yfqA 342 7.47e+01 1xhnA 184 7.51e+01 1e1oA 504 7.51e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1k8qA 377 7.51e+01 c.69.1.6 72177 1li5A 461 7.58e+01 a.27.1.1,c.26.1.1 73912,73913 1sb8A 352 7.58e+01 c.2.1.2 105410 1o1yA 239 7.61e+01 c.23.16.1 86554 1gppA 237 7.65e+01 b.86.1.2 76262 1lrzA 426 7.69e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1itvA 195 7.70e+01 b.66.1.1 76791 1g5aA 628 7.74e+01 b.71.1.1,c.1.8.1 65152,65153 1sazA 381 7.74e+01 1vloA 381 7.74e+01 b.44.2.1,d.250.1.1 108838,108839 1vr7A 142 7.75e+01 2ab0A 205 7.75e+01 1d2tA 231 7.90e+01 1d2tA a.111.1.1 19052 1c93A 265 7.95e+01 2ebn c.1.8.5 28998 1fcdA 401 7.96e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1zj8A 566 7.97e+01 1zu0A 529 8.03e+01 1n62C 288 8.03e+01 d.87.2.1,d.145.1.3 80094,80095 1s9pA 227 8.04e+01 a.123.1.1 105384 1rk6A 496 8.05e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 2a67A 167 8.06e+01 1cb0A 283 8.07e+01 1cb0A c.56.2.1 33790 1vbiA 344 8.09e+01 1vyrA 364 8.17e+01 c.1.4.1 108906 1k3iA 656 8.20e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1arb 268 8.22e+01 1arb b.47.1.1 25766 1h3qA 140 8.25e+01 d.110.4.3 76652 2gm6A 208 8.28e+01 1uh4A 637 8.36e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1ayx 492 8.42e+01 1ayx a.102.1.1 18825 3pcgA 200 8.53e+01 3pchA b.3.6.1 22647 1wdpA 495 8.62e+01 2ew0A 192 8.64e+01 2d1sA 548 8.87e+01 1wy5A 317 8.92e+01 2ex0A 399 8.94e+01