# List of top-scoring protein chains for t2k.100-30-str 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 4.93e-53 a.118.8.6 156618 3gzsA 515 6.23e-51 3ejnA 474 1.09e-46 a.118.8.6 158180 3ehmA 532 1.90e-44 3fdhA 499 5.65e-39 3kezA 461 1.72e-33 3i4gA 528 4.18e-31 3jq0A 493 1.58e-30 3jq1A 481 2.05e-30 3ihvA 535 1.02e-28 3l22A 441 3.14e-28 3iv0A 481 7.52e-28 3lewA 495 2.06e-26 3jysA 499 3.31e-25 3ckcA 527 9.38e-25 a.118.8.6 156736 3hdxA 478 9.97e-25 2wqhA 125 2.15e-02 1na3A 91 8.47e-02 k.38.1.1 85481 1ayx 492 1.51e-01 1ayx 2f4qA 346 1.59e-01 2fbaA 492 1.86e-01 a.102.1.1 133239 2bpqA 373 2.72e-01 1gcb 454 4.51e-01 3gcb 1ng1 294 4.93e-01 1ng1 3gcb 470 5.74e-01 3gcb 3gcbA 470 5.74e-01 d.3.1.1 37032 1jpnA 296 6.19e-01 a.24.13.1 67039 c.37.1.10 67040 1ls1A 295 8.02e-01 a.24.13.1 78170 c.37.1.10 78171 2wiyA 394 8.64e-01 2axtB 510 9.24e-01 f.55.1.1 144927 2is6A 680 9.29e-01 2fuvA 549 1.03e+00 2e01A 457 1.08e+00 3kl4A 433 1.10e+00 1wdkC 390 1.23e+00 c.95.1.1 109258 c.95.1.1 109259 1a5cA 368 1.25e+00 1fbaA c.1.10.1 29148 2zy4A 546 1.42e+00 2zy5A 546 1.45e+00 3kq4A 393 1.58e+00 1hh8A 213 1.62e+00 1e96B a.118.8.1 61042 3c3yA 237 1.65e+00 1e96B 203 1.71e+00 1e96B a.118.8.1 19211 2x6hA 696 1.73e+00 1wm5A 208 1.80e+00 a.118.8.1 121028 1djuA 388 1.81e+00 1bjwA c.67.1.1 59116 1dysA 348 2.20e+00 1bvwA c.6.1.1 30669 2e0cA 409 2.29e+00 1duvG 333 2.54e+00 1othA c.78.1.1 35228 c.78.1.1 35229 2b5dX 528 2.67e+00 a.8.3.3 127886 c.6.2.4 127887 3bz1B 510 2.78e+00 1yqgA 263 2.80e+00 a.100.1.10 145920 c.2.1.6 145921 3khkA 544 2.84e+00 1pea 385 2.96e+00 1pea 1peaA 385 2.96e+00 c.93.1.1 35662 2avpA 70 3.05e+00 k.38.1.1 127382 1wteA 272 3.16e+00 c.52.1.29 114876 1hqsA 423 3.58e+00 1iso c.77.1.1 61154 3edtB 283 3.62e+00 3cf4A 807 3.97e+00 1pb1A 416 4.10e+00 c.77.1.1 88014 3dmsA 427 4.22e+00 2i3oA 516 4.25e+00 d.153.1.6 137027 1gzsB 165 4.38e+00 a.168.1.1 76425 2ar0A 541 4.41e+00 c.66.1.45 127185 1wfxA 186 4.67e+00 d.166.1.5 114596 2qmiA 447 4.68e+00 1eu1A 780 4.68e+00 1dmr b.52.2.2 26903 c.81.1.1 35311 2x41A 721 4.91e+00 2zbwA 335 5.43e+00 1q0rA 298 5.43e+00 c.69.1.28 95508 2qhfA 407 5.62e+00 2pmvA 399 5.81e+00 1dbfA 127 5.92e+00 2chsA d.79.1.2 39761 1gdeA 389 5.97e+00 c.67.1.1 60456 2x42A 721 6.05e+00 2pnkA 428 6.29e+00 c.1.9.8 149674 3hurA 395 6.37e+00 1bu5A 147 6.47e+00 5nul c.23.5.1 31155 1p0yA 444 6.61e+00 a.166.1.1 87654 b.85.7.3 87655 1j9eA 147 6.74e+00 c.23.5.1 62756 5csmA 256 6.76e+00 5csmA a.130.1.2 19494 1bw0A 416 7.14e+00 1bw0A c.67.1.1 34385 1q2lA 939 7.16e+00 d.185.1.1 118731 d.185.1.1 118732 d.185.1.1 118733 d.185.1.1 118734 1qjwA 365 7.55e+00 1bvwA c.6.1.1 30657 3b2yA 275 7.58e+00 2e9yA 316 7.59e+00 2dh2A 424 7.68e+00 1f4pA 147 8.02e+00 5nul c.23.5.1 59651 1jvsA 400 8.07e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 2i1yA 301 8.13e+00 1eluA 390 8.21e+00 1elqA c.67.1.3 34434 2pg0A 385 8.21e+00 1q0qA 406 8.26e+00 a.69.3.1 104464 c.2.1.3 104465 d.81.1.3 104466 1elqA 390 8.28e+00 1elqA c.67.1.3 34436 1jnyA 435 8.36e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1lfwA 470 8.61e+00 c.56.5.4 77942 d.58.19.1 77943 2o11A 407 8.86e+00 2qeeA 437 8.86e+00 3cp2A 649 8.86e+00 2dtxA 264 8.90e+00 3hfxA 504 9.15e+00 3a9sA 595 9.17e+00 1o94A 729 9.36e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2cbiA 594 9.48e+00 a.246.1.1 130179 c.1.8.10 130180 d.92.2.3 130181 3fddA 533 9.54e+00 2zxiA 637 9.56e+00 2zblA 421 1.01e+01 1xo1A 291 1.02e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 3k9vA 482 1.02e+01 1ezfA 340 1.04e+01 1ezfA a.128.1.2 19440 2pefA 373 1.05e+01 2v5cA 594 1.08e+01 2afaA 425 1.11e+01 a.102.1.3 126668 1wovA 250 1.12e+01 a.132.1.1 121124 3bcxA 437 1.12e+01 2hldG 278 1.14e+01 1wyuB 474 1.15e+01 c.67.1.7 121453 2j6vA 301 1.20e+01 2e87A 357 1.22e+01 2h21A 440 1.26e+01 a.166.1.1 135976 b.85.7.3 135977 1aru 344 1.27e+01 1arv 1djqA 729 1.27e+01 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1nxcA 478 1.27e+01 a.102.2.1 92293 2pi6A 361 1.28e+01 c.1.8.5 149501 d.26.3.1 149502 1lwjA 441 1.31e+01 b.71.1.1 74303 c.1.8.1 74304 1arv 344 1.32e+01 1arv 1jhfA 202 1.32e+01 a.4.5.2 63057 b.87.1.1 63058 1exnA 290 1.33e+01 1exnA a.60.7.1 18088 c.120.1.2 33358 2wbyA 990 1.35e+01 1cnzA 363 1.39e+01 1cnzA c.77.1.1 35061 1tw6A 133 1.40e+01 g.52.1.1 112694 2i3hA 133 1.40e+01 g.52.1.1 137023 1jqoA 970 1.40e+01 c.1.12.3 77160 1ut8A 291 1.41e+01 a.60.7.1 99908 c.120.1.2 99909 1rwhA 757 1.42e+01 a.102.3.2 97984 b.24.1.1 97985 b.30.5.2 97986 3kvoA 346 1.42e+01 1vrmA 325 1.43e+01 d.96.2.1 120472 1cb8A 678 1.43e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1nc5A 373 1.44e+01 a.102.1.6 85548 3ga4A 178 1.44e+01 1thtA 305 1.47e+01 1thtA c.69.1.13 34711 2tmdA 729 1.48e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1c4oA 664 1.49e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1csmA 256 1.49e+01 5csmA a.130.1.2 19495 1b5pA 385 1.50e+01 c.67.1.1 90403 2dg5A 366 1.51e+01 d.153.1.6 131500 2q16A 219 1.53e+01 1topA 162 1.53e+01 a.39.1.5 17223 3dmeA 369 1.55e+01 3hy0A 441 1.55e+01 2rbdA 171 1.55e+01 1ncx 162 1.55e+01 1ncx 1t5oA 351 1.56e+01 c.124.1.5 106459 1cm7A 363 1.56e+01 1cnzA c.77.1.1 35063 1wkuA 254 1.58e+01 1wzdA 215 1.60e+01 a.132.1.1 121493 3l6dA 306 1.60e+01 1qfcA 306 1.61e+01 1uteA d.159.1.1 42077 3c0qA 301 1.63e+01 1b78A 193 1.65e+01 1b78A c.51.4.1 33221 3e4zA 990 1.65e+01 2zb6A 481 1.67e+01 1jg1A 235 1.68e+01 c.66.1.7 66661 1vquA 374 1.70e+01 1rvgA 305 1.70e+01 c.1.10.2 97920 2ixsA 323 1.70e+01 2ez2A 456 1.71e+01 1htyA 1015 1.75e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 3c96A 415 1.76e+01 c.3.1.2 156122 d.16.1.2 156123 2vh4A 381 1.79e+01 3hl5A 95 1.84e+01 2r44A 331 1.88e+01 3cesA 651 1.88e+01 1k7kA 221 1.89e+01 c.51.4.1 72104 1g73C 121 1.93e+01 1g3fA g.52.1.1 45375 2kpqA 100 1.95e+01 3bmxA 642 1.98e+01 3ipkA 497 2.00e+01 1kf6D 119 2.00e+01 f.21.2.2 72400 3e1tA 512 2.00e+01 3kzfA 317 2.00e+01 1l1yA 678 2.04e+01 a.102.1.2 73486 1tqnA 486 2.08e+01 a.104.1.1 107238 3duwA 223 2.09e+01 2wesA 511 2.10e+01 2z3qA 119 2.10e+01 a.26.1.2 154002 1o17A 345 2.11e+01 a.46.2.1 80765 c.27.1.1 80766 1f9xA 120 2.19e+01 1g3fA g.52.1.1 59748 1qcwA 410 2.22e+01 1gox c.1.4.1 28622 3biqA 467 2.22e+01 1a8h 500 2.25e+01 1a8h 2g47A 990 2.26e+01 3liiA 540 2.27e+01 1zq9A 285 2.32e+01 c.66.1.24 125505 1bjwA 382 2.33e+01 1bjwA c.67.1.1 34349 1om2A 95 2.34e+01 1om2A a.23.4.1 16520 3gzdA 440 2.35e+01 1kbjA 412 2.37e+01 c.1.4.1 72280 3a9zA 432 2.37e+01 3c8tA 451 2.41e+01 2qbuA 232 2.41e+01 2d5bA 500 2.43e+01 a.27.1.1 131268 c.26.1.1 131269 2drvA 200 2.43e+01 2z5gA 387 2.44e+01 2vhhA 405 2.44e+01 1hx0A 496 2.44e+01 b.71.1.1 61346 c.1.8.1 61347 1auk 489 2.45e+01 1auk 1aukA 489 2.45e+01 c.76.1.2 35030 1a2xA 159 2.47e+01 1ncx a.39.1.5 17251 2ftxB 64 2.50e+01 d.300.1.2 134086 1c0pA 363 2.52e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1h0cA 392 2.52e+01 c.67.1.3 83424 3kasB 162 2.54e+01 2j5aA 110 2.54e+01 d.58.14.1 147886 1mkmA 249 2.54e+01 a.4.5.33 79242 d.110.2.2 79243 1obbA 480 2.54e+01 c.2.1.5 86760 d.162.1.2 86761 1avsA 90 2.56e+01 1cll a.39.1.5 17226 2dsjA 423 2.56e+01 1k92A 455 2.56e+01 c.26.2.1 68325 d.210.1.1 68326 3cgvA 397 2.60e+01 1r9jA 673 2.61e+01 c.36.1.6 111722 c.36.1.10 111723 c.48.1.1 111724 3e4aA 1019 2.61e+01 3m5wA 322 2.63e+01 1r85A 379 2.65e+01 c.1.8.3 104839 3cwwA 990 2.66e+01 2zygA 480 2.68e+01 1qazA 351 2.68e+01 1qazA a.102.3.1 18848 1izoA 417 2.70e+01 a.104.1.1 83851 2psoA 237 2.75e+01 d.129.3.2 149824 1g3fA 117 2.76e+01 1g3fA g.52.1.1 45378 1mw7A 240 2.77e+01 e.39.1.1 79557 2wwwA 349 2.80e+01 2dsnA 387 2.82e+01 2qizA 982 2.84e+01 2e3bA 344 2.84e+01 a.93.1.1 132024 2q00A 129 2.85e+01 2pidA 356 2.88e+01 1k7hA 476 2.95e+01 c.76.1.1 72101 1dt6A 473 3.02e+01 1dt6A a.104.1.1 18977 2rijA 387 3.03e+01 2z9wA 392 3.05e+01 1tmxA 293 3.10e+01 2k3nA 160 3.11e+01 1j3nA 408 3.18e+01 c.95.1.1 84074 c.95.1.1 84075 1b77A 228 3.19e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 2rg4A 216 3.22e+01 2whqA 548 3.26e+01 2r3aA 300 3.27e+01 2vq7A 461 3.31e+01 1uj2A 252 3.35e+01 c.37.1.6 99452 1rj9A 304 3.35e+01 a.24.13.1 97553 c.37.1.10 97554 2w9mA 578 3.38e+01 2oegA 505 3.40e+01 3k1qC 1196 3.41e+01 3a0oA 776 3.41e+01 2cqsA 842 3.43e+01 1inp 400 3.44e+01 1inp 1inpA 400 3.44e+01 e.7.1.1 42972 2it2A 200 3.46e+01 1pj5A 830 3.47e+01 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 3hmuA 472 3.49e+01 2wyeB 546 3.52e+01 3a5xA 494 3.52e+01 2p58A 65 3.60e+01 3h5mA 445 3.61e+01 1kb9C 385 3.63e+01 f.32.1.1 77315 f.21.1.2 77316 2wfoA 182 3.64e+01 2c0hA 353 3.66e+01 c.1.8.3 129594 3e18A 359 3.66e+01 3m6wA 464 3.68e+01 3a9bA 395 3.68e+01 1rrvA 416 3.72e+01 c.87.1.5 105083 2hq4A 161 3.74e+01 d.342.1.1 147327 1rztA 331 3.77e+01 a.60.6.1 98224 a.60.12.1 98225 d.218.1.2 98226 2k3oA 129 3.78e+01 2b7oA 464 3.79e+01 c.1.10.8 128047 1upkA 341 3.79e+01 a.118.1.15 99758 2h5gA 463 3.80e+01 2c7yA 404 3.82e+01 1j3eA 115 3.85e+01 d.228.1.1 103834 16vpA 366 3.88e+01 16vpA d.180.1.1 42601 3czhA 481 3.89e+01 a.104.1.1 157149 3b46A 447 3.90e+01 1htjF 210 3.93e+01 1htjF a.91.1.1 61254 3kz9A 206 3.93e+01 1ltdA 506 3.95e+01 1gox c.1.4.1 28618 d.120.1.1 41086 3a64A 395 3.95e+01