# List of top-scoring protein chains for t2k-100-30-str2-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.soe.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 3cghA 516 6.77e-53 a.118.8.6 156618 3gzsA 515 5.80e-51 3ejnA 474 8.77e-47 a.118.8.6 158180 3ehmA 532 2.58e-44 3fdhA 499 8.34e-39 3i4gA 528 3.24e-33 3kezA 461 8.18e-33 3jq0A 493 2.14e-31 3jq1A 481 2.79e-31 3ihvA 535 2.13e-29 3iv0A 481 3.70e-28 3l22A 441 4.37e-28 3lewA 495 3.64e-27 3hdxA 478 2.47e-25 3jysA 499 7.83e-25 3ckcA 527 1.40e-24 a.118.8.6 156736 2wqhA 125 4.17e-02 1na3A 91 1.59e-01 k.38.1.1 85481 3hurA 395 8.40e-01 2x6hA 696 1.96e+00 1ayx 492 2.14e+00 1ayx 2axtB 510 2.31e+00 f.55.1.1 144927 2fbaA 492 2.35e+00 a.102.1.1 133239 1duvG 333 2.54e+00 1othA c.78.1.1,c.78.1.1 35228,35229 1vrmA 325 3.09e+00 d.96.2.1 120472 2f4qA 346 3.18e+00 3cp2A 649 3.24e+00 1jpnA 296 3.73e+00 a.24.13.1,c.37.1.10 67039,67040 2i3oA 516 3.96e+00 d.153.1.6 137027 1pea 385 4.04e+00 1pea 1peaA 385 4.04e+00 c.93.1.1 35662 3czgA 644 4.09e+00 1p0yA 444 4.36e+00 a.166.1.1,b.85.7.3 87654,87655 2h21A 440 4.70e+00 a.166.1.1,b.85.7.3 135976,135977 1cb8A 678 4.95e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 3dmeA 369 4.97e+00 2avpA 70 5.07e+00 k.38.1.1 127382 1ng1 294 5.29e+00 1ng1 1gcb 454 5.44e+00 3gcb 2e0cA 409 5.56e+00 2fuvA 549 5.66e+00 1e96B 203 5.76e+00 1e96B a.118.8.1 19211 1wm5A 208 5.90e+00 a.118.8.1 121028 2wyhA 923 6.00e+00 3bz1B 510 6.02e+00 3gcb 470 6.23e+00 3gcb 3gcbA 470 6.23e+00 d.3.1.1 37032 1hh8A 213 6.27e+00 1e96B a.118.8.1 61042 1ls1A 295 6.31e+00 a.24.13.1,c.37.1.10 78170,78171 1izoA 417 6.39e+00 a.104.1.1 83851 2b7oA 464 7.12e+00 c.1.10.8 128047 2e4uA 555 7.33e+00 3ipkA 497 7.38e+00 1k7hA 476 8.12e+00 c.76.1.1 72101 3hfxA 504 8.25e+00 2j6vA 301 8.28e+00 1lfwA 470 8.40e+00 c.56.5.4,d.58.19.1 77942,77943 2e01A 457 8.50e+00 1tu5A 746 8.75e+00 1jhfA 202 8.88e+00 a.4.5.2,b.87.1.1 63057,63058 2b5dX 528 9.52e+00 a.8.3.3,c.6.2.4 127886,127887 1dysA 348 9.58e+00 1bvwA c.6.1.1 30669 1djuA 388 9.59e+00 1bjwA c.67.1.1 59116 3dmsA 427 9.68e+00 2bpqA 373 1.12e+01 1aru 344 1.24e+01 1arv 3c0qA 301 1.27e+01 3cesA 651 1.29e+01 1rwhA 757 1.29e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 3kl4A 433 1.29e+01 1arv 344 1.38e+01 1arv 2e3bA 344 1.41e+01 a.93.1.1 132024 2hgsA 474 1.43e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 3c96A 415 1.43e+01 c.3.1.2,d.16.1.2 156122,156123 3lvtA 899 1.44e+01 2zxiA 637 1.45e+01 2rbdA 171 1.46e+01 2h5gA 463 1.46e+01 1wteA 272 1.47e+01 c.52.1.29 114876 3l6dA 306 1.47e+01 2wiyA 394 1.48e+01 2afaA 425 1.52e+01 a.102.1.3 126668 1t5oA 351 1.57e+01 c.124.1.5 106459 1qjwA 365 1.63e+01 1bvwA c.6.1.1 30657 2b5iC 199 1.67e+01 b.1.2.1,b.1.2.1 127898,127899 1wgzA 510 1.68e+01 1topA 162 1.69e+01 a.39.1.5 17223 1ncx 162 1.72e+01 1ncx 2cfuA 658 1.75e+01 d.106.1.3,d.157.1.13 146386,146387 1lycA 343 1.78e+01 a.93.1.1 74344 2zxcA 646 1.79e+01 3khkA 544 1.81e+01 1pb1A 416 1.83e+01 c.77.1.1 88014 1gzsB 165 1.87e+01 a.168.1.1 76425 1gdeA 389 1.87e+01 c.67.1.1 60456 1dbfA 127 1.87e+01 2chsA d.79.1.2 39761 2zwsA 646 1.90e+01 1wovA 250 1.90e+01 a.132.1.1 121124 1wkuA 254 1.90e+01 1iab 200 1.92e+01 1iae 1iabA 200 1.92e+01 d.92.1.8 40312 2e9yA 316 1.99e+01 1rj9A 304 2.00e+01 a.24.13.1,c.37.1.10 97553,97554 1nxcA 478 2.01e+01 a.102.2.1 92293 2zblA 421 2.02e+01 1f8yA 157 2.03e+01 1f8xA c.23.14.1 31395 2x1yA 761 2.05e+01 1f8xA 157 2.06e+01 1f8xA c.23.14.1 31397 1eu1A 780 2.06e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1b78A 193 2.08e+01 1b78A c.51.4.1 33221 1r85A 379 2.08e+01 c.1.8.3 104839 2is6A 680 2.08e+01 2ixsA 323 2.10e+01 1jnyA 435 2.16e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 3edtB 283 2.16e+01 2j5aA 110 2.17e+01 d.58.14.1 147886 2x5bA 761 2.22e+01 1pj5A 830 2.26e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1rztA 331 2.30e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 3m6wA 464 2.31e+01 2pmvA 399 2.39e+01 3a9sA 595 2.42e+01 1o17A 345 2.47e+01 a.46.2.1,c.27.1.1 80765,80766 1j3nA 408 2.52e+01 c.95.1.1,c.95.1.1 84074,84075 1iae 200 2.52e+01 1iae 3b46A 447 2.58e+01 1k7yA 577 2.68e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 2kpqA 100 2.68e+01 3gzdA 440 2.76e+01 3hoaA 509 2.77e+01 1wyuB 474 2.78e+01 c.67.1.7 121453 1d0nA 729 2.86e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1kf6D 119 2.90e+01 f.21.2.2 72400 3bmxA 642 2.92e+01 2qmiA 447 2.95e+01 3c3yA 237 2.96e+01 3biqA 467 3.01e+01 3gwaA 365 3.06e+01 1b5pA 385 3.06e+01 c.67.1.1 90403 1byb 495 3.11e+01 1byb 2x59A 761 3.17e+01 2x41A 721 3.19e+01 2ftxB 64 3.20e+01 d.300.1.2 134086 1dl2A 511 3.21e+01 1dl2A a.102.2.1 18844 1h80A 464 3.24e+01 b.80.1.8 65714 2c7yA 404 3.34e+01 2ez2A 456 3.35e+01 3llqA 256 3.39e+01 1kqfA 1015 3.42e+01 b.52.2.2,c.81.1.1 72871,72872 1a5cA 368 3.45e+01 1fbaA c.1.10.1 29148 1wzdA 215 3.45e+01 a.132.1.1 121493 1ei1A 391 3.48e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 2dtxA 264 3.59e+01 2cqsA 842 3.60e+01 1g87A 614 3.63e+01 a.102.1.2,b.2.2.2 83275,83276 3ls8A 614 3.67e+01 2gupA 292 3.70e+01 c.55.1.10,c.55.1.10 135744,135745 1xo1A 291 3.70e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 3ihyA 600 3.72e+01 2x42A 721 3.81e+01 2i7cA 283 3.83e+01 1rlr 761 3.84e+01 1rlr 1rlrA 761 3.84e+01 a.98.1.1,c.7.1.2 18753,30679 2q16A 219 3.86e+01 1l1yA 678 3.88e+01 a.102.1.2 73486 1vluA 468 3.88e+01 c.82.1.1 108864 2bp1A 360 3.89e+01 3euhC 234 3.91e+01 2e7zA 727 3.99e+01 3gsiA 827 4.05e+01 3igxA 324 4.10e+01 2pidA 356 4.11e+01 1kijA 390 4.12e+01 d.14.1.3,d.122.1.2 72514,72515 3a0oA 776 4.18e+01 1i0lA 221 4.19e+01 c.61.1.1 71096 1ezfA 340 4.25e+01 1ezfA a.128.1.2 19440 1q41A 424 4.30e+01 d.144.1.7 95774 1ufaA 520 4.30e+01 a.8.3.3,c.6.2.4 99329,99330 3iam5 207 4.32e+01 2oaaA 249 4.37e+01 1h0hA 977 4.44e+01 b.52.2.2,c.81.1.1 76435,76436 2f2uA 402 4.47e+01 2e2eA 177 4.49e+01 1li5A 461 4.50e+01 a.27.1.1,c.26.1.1 73912,73913 3hx6A 570 4.53e+01 1om2A 95 4.54e+01 1om2A a.23.4.1 16520 1nu7D 282 4.55e+01 a.8.6.1,a.8.6.1 92191,92192 3bcxA 437 4.56e+01 1wdkC 390 4.61e+01 c.95.1.1,c.95.1.1 109258,109259 2iuwA 238 4.62e+01 b.82.2.10 137709 1yxaA 398 4.67e+01 2du3A 534 4.68e+01 1tkkA 366 4.71e+01 c.1.11.2,d.54.1.1 107089,107090 2ar0A 541 4.73e+01 c.66.1.45 127185 1flcB 175 4.74e+01 1flcB h.3.1.1 45716 1r45A 204 4.78e+01 d.166.1.1 111683 3fjzA 427 4.80e+01 1g6sA 427 4.85e+01 1eps d.68.2.2 39584 2r3aA 300 4.85e+01 1o94A 729 4.86e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1a4eA 488 4.87e+01 1cf9A e.5.1.1 42806 3kq4A 393 4.87e+01 1exnA 290 4.98e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 3bujA 397 4.98e+01 2dsjA 423 4.99e+01 2vh4A 381 5.00e+01 1ivnA 190 5.03e+01 c.23.10.5 83719 2bcqA 335 5.09e+01 a.60.6.1,a.60.12.1,d.218.1.2 128304,128305,128306 2tmdA 729 5.13e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1t9mA 214 5.14e+01 b.45.1.1 112364 1djqA 729 5.14e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1h0cA 392 5.15e+01 c.67.1.3 83424 2a9kB 223 5.17e+01 d.166.1.1 126443 1pmi 440 5.20e+01 1pmi 1pmiA 440 5.20e+01 b.82.1.3 28114 1ldjA 760 5.24e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 2q00A 129 5.39e+01 1ut8A 291 5.43e+01 a.60.7.1,c.120.1.2 99908,99909 1jg1A 235 5.49e+01 c.66.1.7 66661 1c0pA 363 5.50e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 3a11A 338 5.52e+01 1z45A 699 5.53e+01 b.30.5.4,c.2.1.2 124427,124428 3hx0A 335 5.55e+01 1f1uA 323 5.58e+01 d.32.1.3,d.32.1.3 83200,83201 3d8kA 377 5.66e+01 1hqsA 423 5.71e+01 1iso c.77.1.1 61154 2f20A 240 5.71e+01 d.303.1.1 132791 3a9zA 432 5.72e+01 1mpgA 282 5.74e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1qz9A 416 5.75e+01 c.67.1.3 96621 3c8tA 451 5.78e+01 3husC 311 5.84e+01 2oegA 505 5.86e+01 1mi4A 427 5.87e+01 d.68.2.2 79141 2ph5A 480 5.87e+01 3cgvA 397 5.89e+01 2rijA 387 5.95e+01 1tw6A 133 5.98e+01 g.52.1.1 112694 2i3hA 133 5.98e+01 g.52.1.1 137023 2c8eE 211 6.00e+01 3kydB 551 6.00e+01 2ph7A 246 6.02e+01 1nc5A 373 6.05e+01 a.102.1.6 85548 3hazA 1001 6.23e+01 2zygA 480 6.34e+01 1yydA 357 6.39e+01 a.93.1.1 124212 1gsoA 431 6.48e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 3g1wA 305 6.49e+01 1konA 249 6.52e+01 e.39.1.1 72823 2pefA 373 6.56e+01 2z3qA 119 6.56e+01 a.26.1.2 154002 1hk8A 605 6.59e+01 c.7.1.3 83540 1rrvA 416 6.63e+01 c.87.1.5 105083 1ta8A 332 6.63e+01 d.142.2.2 112375 1rvgA 305 6.67e+01 c.1.10.2 97920 3e1sA 574 6.74e+01 2pnkA 428 6.83e+01 c.1.9.8 149674 1gln 468 6.90e+01 1gln 1zthA 258 7.00e+01 1k7kA 221 7.02e+01 c.51.4.1 72104 2hldG 278 7.06e+01 2f7fA 494 7.06e+01 c.1.17.1,d.41.2.1 133088,133089 1jvsA 400 7.17e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1mzeA 351 7.21e+01 b.82.2.6 79694 1ujwB 135 7.28e+01 h.4.9.1 99472 3kycB 660 7.37e+01 2vx5A 396 7.40e+01 1qfcA 306 7.41e+01 1uteA d.159.1.1 42077 2gn4A 344 7.44e+01 1b77A 228 7.51e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1obbA 480 7.51e+01 c.2.1.5,d.162.1.2 86760,86761 2fymA 431 7.51e+01 c.1.11.1,d.54.1.1 134379,134380 2f82A 450 7.67e+01 1cnzA 363 7.70e+01 1cnzA c.77.1.1 35061 1b8xA 280 7.70e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1wq3A 322 7.77e+01 2o2kA 355 7.85e+01 1fwxA 595 7.86e+01 b.6.1.4,b.69.3.1 60069,60070 1j9lA 247 7.87e+01 c.106.1.1 62762 2psoA 237 7.90e+01 d.129.3.2 149824 3m9vA 439 7.93e+01 1h4lD 147 7.98e+01 a.74.1.1 70873