# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1fobA 334 4.13e-02 c.1.8.3 83255 1xx4A 261 2.65e-01 1z47A 355 3.66e-01 1sg4A 260 8.25e-01 1e7rA 321 9.69e-01 1bsvA c.2.1.2 29808 1vyrA 364 9.97e-01 c.1.4.1 108906 1gvoA 364 1.01e+00 c.1.4.1 76357 1vypX 364 1.02e+00 c.1.4.1 108905 1h61A 364 1.05e+00 1oyc c.1.4.1 60657 1l2tA 235 1.05e+00 c.37.1.12 73514 2abbA 364 1.14e+00 1e6uA 321 1.18e+00 1bsvA c.2.1.2 29805 1bsvA 321 1.20e+00 1bsvA c.2.1.2 29809 2ct8A 497 1.31e+00 1gfsA 321 1.33e+00 c.2.1.2 29811 1bwsA 321 1.40e+00 1bsvA c.2.1.2 29812 2b99A 156 1.62e+00 1t6kA 278 2.13e+00 1yvkA 163 2.21e+00 1f28A 297 2.53e+00 1bkpA d.117.1.1 59608 1c9kA 180 2.58e+00 1c9kB c.37.1.11 32363 1u1wA 298 2.78e+00 1vjoA 393 2.89e+00 c.67.1.3 100827 2fukA 220 3.10e+00 2b61A 377 3.10e+00 2f9zC 159 3.37e+00 1zhvA 134 3.37e+00 1xubA 298 3.66e+00 1h49A 512 4.38e+00 c.1.8.4 83477 1e55A 512 4.47e+00 1e70M c.1.8.4 28934 1p5jA 372 5.00e+00 c.79.1.1 104067 1ivyA 452 5.06e+00 1ivyA c.69.1.5 34654 1jf8A 131 5.20e+00 c.44.1.1 66621 1mtzA 293 5.79e+00 c.69.1.7 79467 1cbuA 180 5.99e+00 1c9kB c.37.1.11 32360 1z2lA 423 6.09e+00 1vp8A 201 6.16e+00 1m5tA 124 6.25e+00 c.23.1.1 78660 2gtrA 261 6.27e+00 1wb4A 297 6.32e+00 1xqwA 293 6.44e+00 1k77A 260 6.88e+00 c.1.15.5 72096 1gkkA 297 7.05e+00 c.69.1.2 65248 2cqnA 77 7.33e+00 1mb3A 124 7.40e+00 c.23.1.1 78907 1z41A 338 7.74e+00 1y9kA 157 7.85e+00 1c9kB 180 7.87e+00 1c9kB c.37.1.11 32364 1gklA 297 8.38e+00 c.69.1.2 65250 1jfvA 131 8.44e+00 c.44.1.1 66654 1gheA 177 8.74e+00 d.108.1.1 76222 1w44A 331 8.95e+00 1srrA 124 9.03e+00 1dz3A c.23.1.1 31110 1u9jA 358 9.64e+00 1pm3A 78 9.99e+00 b.41.1.2 94889 1v60A 123 1.02e+01 1w5fA 353 1.04e+01 1hp1A 516 1.04e+01 d.114.1.1,d.159.1.2 70976,70977 2b5dX 528 1.04e+01 2fsp 124 1.05e+01 1dz3A c.23.1.1 31119 1h5vA 304 1.05e+01 c.1.8.3 70898 1b0uA 262 1.11e+01 1b0uA c.37.1.12 32370 1ydwA 362 1.13e+01 1phk 298 1.16e+01 1cdkA d.144.1.7 41635 1e4eA 343 1.19e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1yuwA 554 1.23e+01 1ebuA 358 1.23e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1hjsA 332 1.24e+01 c.1.8.3 83492 2anuA 255 1.27e+01 1ush 550 1.29e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1nekA 588 1.37e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1vf8A 377 1.38e+01 1s95A 333 1.38e+01 d.159.1.3 105375 1idm 343 1.45e+01 1cnzA c.77.1.1 35035 1z7bA 358 1.47e+01 1e9lA 377 1.47e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1ipd 345 1.47e+01 1cnzA c.77.1.1 35038 1xaa 345 1.49e+01 1cnzA c.77.1.1 35033 1vl8A 267 1.49e+01 c.2.1.2 108733 1lci 550 1.57e+01 1lci e.23.1.1 43349 2gqrA 237 1.68e+01 1v33A 366 1.72e+01 d.264.1.1 100278 1pwhA 327 1.73e+01 c.79.1.1 95224 1hkkA 364 1.77e+01 c.1.8.5,d.26.3.1 90634,90635 1jmvA 141 1.78e+01 c.26.2.4 66897 1w2xA 758 1.79e+01 c.14.1.4,c.14.1.4 109134,109135 1h3fA 432 1.80e+01 c.26.1.1,d.66.1.4 76631,76632 1ac5 483 1.84e+01 1ac5 c.69.1.5 34653 1u0sY 118 1.85e+01 c.23.1.1 107566 1tmy 120 1.90e+01 1dbwA c.23.1.1 31083 1ewqA 765 1.98e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1lt8A 406 2.04e+01 c.1.26.1 78186 1a04A 215 2.05e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1dr8B 344 2.08e+01 1cnzA c.77.1.1 35052 1v02A 565 2.09e+01 c.1.8.4 108194 2c31A 568 2.09e+01 1s9jA 341 2.10e+01 1f2vA 219 2.10e+01 1f2vA c.23.17.1 59627 1hka 158 2.11e+01 1hka d.58.30.1 39433 1i39A 225 2.12e+01 1ekeA c.55.3.1 61585 1lg2A 365 2.14e+01 c.1.8.5,d.26.3.1 77950,77951 1qvbA 481 2.20e+01 1qvbA c.1.8.4 28983 2ey4C 82 2.26e+01 1wb0A 445 2.26e+01 1uyrA 737 2.28e+01 c.14.1.4,c.14.1.4 100188,100189 1ezm 301 2.29e+01 1hyt d.92.1.2 58980 1ek0A 170 2.29e+01 1ctqA c.37.1.8 32076 1ctn 540 2.41e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1wy5A 317 2.42e+01 1ofuA 320 2.43e+01 c.32.1.1,d.79.2.1 86972,86973 1dkiA 371 2.46e+01 1dkiA d.3.1.1 37090 1szoA 257 2.48e+01 c.14.1.3 106164 1q1lA 401 2.48e+01 d.258.1.1 95591 1y10A 407 2.49e+01 1ps9A 671 2.50e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1zclA 180 2.59e+01 1bqcA 302 2.62e+01 1bqcA c.1.8.3 28831 1a3h 300 2.63e+01 7a3hA c.1.8.3 28819 1o8uA 257 2.64e+01 c.14.1.3 81194 7a3hA 303 2.64e+01 7a3hA c.1.8.3 28817 1b31A 302 2.71e+01 1taxA c.1.8.3 28892 1bg4 302 2.71e+01 1taxA c.1.8.3 28806 1ciy 590 2.77e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1edqA 540 2.80e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1bupA 386 2.85e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1svfB 38 2.85e+01 1svfB h.3.2.1 45764 1g7eA 122 2.88e+01 1g7eA c.47.1.7 33055 1ne9A 335 2.96e+01 d.108.1.4,d.108.1.4 91839,91840 1x24A 180 2.96e+01 1ayoA 130 3.04e+01 1ayoA b.2.4.1 22431 1yavA 159 3.07e+01 1k9tA 540 3.12e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1kv8A 216 3.24e+01 c.1.2.3 73054 1q6oA 216 3.24e+01 c.1.2.3 95986 1w78A 422 3.28e+01 1zuhA 168 3.29e+01 1zjjA 263 3.33e+01 1g291 372 3.37e+01 1g291 1i60A 278 3.38e+01 c.1.15.4 71118 1m0wA 491 3.40e+01 c.30.1.4,d.142.1.6 78363,78364 1i1hA 219 3.41e+01 1f2vA c.23.17.1 61530 1avt 274 3.47e+01 1gci c.41.1.1 32488 1cnzA 363 3.51e+01 1cnzA c.77.1.1 35061 1orrA 347 3.54e+01 c.2.1.2 93460 2f5gA 133 3.67e+01 1qv9A 283 3.74e+01 c.127.1.1 96356 1jwyB 315 3.75e+01 c.37.1.8 67401 1s7jA 262 3.79e+01 d.21.1.2 98647 2axyA 73 3.79e+01 1j8yF 297 3.82e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1zckA 154 3.90e+01 1byuA 216 3.93e+01 1byuA c.37.1.8 32032 1e19A 314 3.94e+01 1b7bA c.73.1.1 34967 1ltzA 297 3.95e+01 d.178.1.1 74254 1kay 381 3.96e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1g71A 347 3.97e+01 1g71A d.264.1.1 43268 1hpm 386 3.98e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1atr 386 4.00e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 1oxsC 353 4.16e+01 b.40.6.3,c.37.1.12 87519,87520 1fzqA 181 4.19e+01 1hurA c.37.1.8 32060 2ffcA 353 4.24e+01 1bh6A 274 4.28e+01 1gci c.41.1.1 32487 1oxxK 353 4.29e+01 b.40.6.3,c.37.1.12 93715,93716 1ba1 386 4.33e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1lv7A 257 4.35e+01 c.37.1.20 78232 1pwxA 254 4.38e+01 c.2.1.2 95262 1z4eA 153 4.51e+01 1n82A 331 4.52e+01 c.1.8.3 91703 1ufwA 95 4.52e+01 d.58.7.1 99358 1zmtA 254 4.54e+01 2az4A 429 4.57e+01 1jx2B 315 4.61e+01 c.37.1.8 67404 1b73A 254 4.61e+01 1b74A c.78.2.1,c.78.2.1 35266,35267 1o5iA 249 4.63e+01 c.2.1.2 92499 1n2sA 299 4.65e+01 c.2.1.2 79857 2reb 352 4.73e+01 2reb c.37.1.11,d.48.1.1 32282,38767 2fo1D 85 4.74e+01 1zy9A 564 4.75e+01 1eiwA 111 4.79e+01 1eiwA c.23.3.1 31130 1yu6A 275 4.83e+01 1xwiA 322 4.87e+01 1m3uA 264 4.87e+01 c.1.12.8 84784 7odcA 424 4.87e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1bv8A 138 4.95e+01 1ayoA b.2.4.1 22430 1kcxA 518 5.05e+01 b.92.1.3,c.1.9.6 90953,90954 1eq0A 158 5.06e+01 d.58.30.1 64909 1n57A 291 5.12e+01 c.23.16.2 85328 2azpA 318 5.17e+01 1ebfA 358 5.20e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1y7lA 316 5.24e+01 2bllA 345 5.30e+01 1qc7A 101 5.32e+01 1qc7A a.118.14.1 18456 2d69A 430 5.33e+01 1c7jA 489 5.33e+01 2bce c.69.1.1 34631 1xmiA 291 5.36e+01 2ethA 154 5.39e+01 1bbn 133 5.43e+01 1rcb a.26.1.2 16861 1k8bA 52 5.50e+01 d.241.1.1 72171 1od2A 805 5.51e+01 c.14.1.4,c.14.1.4 86821,86822 1dysA 348 5.57e+01 1bvwA c.6.1.1 30669 1eqoA 158 5.59e+01 1hka 1f9yA 158 5.59e+01 d.58.30.1 83249 1fmcA 255 5.59e+01 1cydA c.2.1.2 29856 1rxdA 159 5.59e+01 1r8gA 372 5.69e+01 d.128.1.3 104845 2frnA 278 5.74e+01 1vc1A 110 5.77e+01 c.13.2.1 108493 1vk9A 151 5.80e+01 c.139.1.1 108640 1z7yA 322 5.88e+01 1thm 279 5.96e+01 1gci c.41.1.1 32544 1a2oA 349 6.02e+01 1chd c.23.1.1,c.40.1.1 31120,32479 1e5dA 402 6.06e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1ats 386 6.08e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 2c07A 285 6.12e+01 1vpqA 273 6.15e+01 2feaA 236 6.22e+01 2fyxA 143 6.22e+01 1gv4A 528 6.24e+01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1t8tA 271 6.31e+01 c.37.1.5 106685 1r0rE 274 6.32e+01 c.41.1.1 96735 1zoyA 622 6.33e+01 2ac4A 309 6.40e+01 1i2mA 216 6.41e+01 1byuA c.37.1.8 61568 1ff9A 450 6.45e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1qb7A 236 6.50e+01 1qb7A c.61.1.1 34087 2bbsA 290 6.58e+01 1dozA 309 6.58e+01 1ak1 c.92.1.1 35592 1qe3A 489 6.60e+01 2bce c.69.1.1 34630 1wohA 305 6.64e+01 c.42.1.1 109446 1y1oA 203 6.65e+01 1qumA 285 6.71e+01 1qumA c.1.15.1 29393 1u4gA 301 6.75e+01 d.92.1.2 107670 1z3eA 132 6.78e+01 1d7kA 421 6.83e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1ua4A 455 6.84e+01 c.72.1.3 99128 2ac2A 309 6.91e+01 1cseE 274 6.93e+01 1gci c.41.1.1 32481 1ak1 310 6.96e+01 1ak1 c.92.1.1 35594 1x1mA 107 7.18e+01 2h1nA 567 7.19e+01 2fexA 188 7.26e+01 1ekeA 230 7.29e+01 1ekeA c.55.3.1 33572 1i6iA 366 7.34e+01 1bg2 c.37.1.9 61844 1io2A 213 7.35e+01 1ekeA c.55.3.1 62612 1kagA 173 7.39e+01 c.37.1.2 72249 1lnsA 763 7.41e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1b4kA 337 7.47e+01 1b4kA c.1.10.3 29184 1rl2A 137 7.48e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 2f4nA 273 7.49e+01 1zp4A 304 7.49e+01 2cw5A 255 7.54e+01 1bqv 110 7.55e+01 1bqv a.60.1.1 17932 1pkoA 139 7.58e+01 b.1.1.1 88147 1f3mC 297 7.60e+01 1hcl d.144.1.7 41677 1rvgA 305 7.64e+01 c.1.10.2 97920 1vfvA 366 7.66e+01 c.37.1.9 108592 1th0A 226 7.78e+01 d.3.1.7 106903 1nu7D 282 7.79e+01 a.8.6.1,a.8.6.1 92191,92192 1z7wA 322 7.85e+01 1gqnA 252 7.86e+01 c.1.10.1 90514 1v71A 323 7.90e+01 2cwxA 430 7.91e+01 1pg4A 652 7.92e+01 e.23.1.1 88067 1a6dB 543 8.01e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19489,30820,38937 1uh5A 329 8.06e+01 c.2.1.2 107840 2gkeA 274 8.16e+01 2bo4A 397 8.17e+01 1nar 290 8.17e+01 1nar c.1.8.5 28988 2aa4A 289 8.17e+01 1l9wA 252 8.23e+01 c.1.10.1 84570 2a1xA 308 8.27e+01 2int 129 8.27e+01 1rcb a.26.1.2 16855 1qpbA 563 8.37e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1m7xA 617 8.41e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1c7iA 489 8.47e+01 1thg c.69.1.1 34632 2ai4A 119 8.49e+01 1ta3B 303 8.57e+01 c.1.8.3 106732 1w5qA 337 8.59e+01 1hybA 181 8.59e+01 1f9aA c.26.1.3 61399 1n13B 113 8.65e+01 1vjpA 394 8.68e+01 c.2.1.3,d.81.1.3 100828,100829 1jpaA 312 8.81e+01 d.144.1.7 67011 1wkaA 147 8.89e+01