# 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 2bcoA 350 4.36e-28 1yw4A 341 8.64e-27 1qmuA 380 5.86e-06 1qmuA b.3.2.1,c.56.5.1 22534,33827 1h8lA 380 6.49e-06 b.3.2.1,c.56.5.1 65737,65738 2bo9A 308 1.61e-03 1jqgA 433 7.43e-03 c.56.5.1,d.58.3.1 71791,71792 2c1cA 312 1.24e-02 1dtdA 303 2.84e-02 1aye c.56.5.1 33823 1aye 401 4.36e-02 1aye c.56.5.1,d.58.3.1 33824,39065 1yme 309 2.85e-01 1aye c.56.5.1 33804 1kwmA 402 3.46e-01 c.56.5.1,d.58.3.1 73079,73080 1m4lA 307 3.74e-01 c.56.5.1 78604 2ctb 307 3.98e-01 1aye c.56.5.1 33803 1bavA 309 4.14e-01 1aye c.56.5.1 33806 2ctc 307 4.47e-01 1aye c.56.5.1 33802 1z5rA 306 5.58e-01 6cpa 307 6.96e-01 1aye c.56.5.1 33816 1bl3A 160 9.88e-01 1b9dA c.55.3.2 33655 1cpy 421 1.14e+00 1ivyA c.69.1.5 34651 1jvbA 347 1.61e+00 b.35.1.2,c.2.1.1 77181,77182 1o0wA 252 1.65e+00 a.149.1.1,d.50.1.1 80751,80752 1fp3A 402 1.77e+00 1fp3A a.102.1.3 18842 1hyvA 166 1.89e+00 1b9dA c.55.3.2 61424 1b9dA 163 2.48e+00 1b9dA c.55.3.2 33649 1f7wA 144 3.18e+00 1f46A d.129.4.1 59679 1f47B 144 4.04e+00 1f46A d.129.4.1 59645 1ysc 421 5.90e+00 1ivyA c.69.1.5 34652 1ki9A 192 6.69e+00 c.37.1.1 84404 1eqcA 394 7.29e+00 1cz1A c.1.8.3 28811 1mk4A 157 7.48e+00 d.108.1.1 84979 2cvlA 124 7.71e+00 1f46A 140 8.67e+00 1f46A d.129.4.1 59643 1ne2A 200 8.72e+00 c.66.1.32 85586 2b81A 323 8.74e+00 1m2rA 327 9.52e+00 d.144.1.7 84760 1lpuA 332 9.52e+00 d.144.1.7 74177 1cz1A 394 9.78e+00 1cz1A c.1.8.3 28839 1gdhA 320 9.98e+00 1gdhA c.2.1.4,c.23.12.1 30095,31355 1vp4A 425 1.01e+01 1tlfA 301 1.04e+01 1tlfA c.93.1.1 35687 1qatB 622 1.05e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17355,23172,29600 3pgk 416 1.07e+01 16pk c.86.1.1 35451 1om1A 332 1.08e+01 d.144.1.7 93347 1lp4A 332 1.08e+01 d.144.1.7 74170 1f8xA 157 1.21e+01 1f8xA c.23.14.1 31397 1yloA 348 1.27e+01 1xovA 326 1.27e+01 2kfnA 605 1.29e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1a6o 332 1.30e+01 1a6o 1a2zA 220 1.32e+01 1a2zA c.56.4.1 33794 1d8yA 605 1.33e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1d4xG 126 1.36e+01 1d0nA d.109.1.1 59109 1obr 326 1.40e+01 1aye c.56.5.2 33828 1qasA 622 1.45e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1f1sA 814 1.47e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1lokA 291 1.51e+01 c.56.5.4 78122 1w61A 414 1.54e+01 1yj7A 171 1.59e+01 2aqjA 538 1.61e+01 1wzcA 249 1.64e+01 1itg 166 1.65e+01 1b9dA c.55.3.2 33661 1yagG 125 1.66e+01 1d0nA d.109.1.1 40846 1nm1G 125 1.67e+01 d.109.1.1 80653 1kfd 605 1.79e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1cy9A 264 1.81e+01 1ecl e.10.1.1 43236 1rtqA 299 1.89e+01 c.56.5.4 97819 1amp 291 1.94e+01 1amp c.56.5.4 33837 1vixA 420 1.95e+01 c.56.5.4,d.58.19.1 100777,100778 1iba 101 1.96e+01 1iba d.95.1.1 40567 2anpA 291 1.98e+01 1qd1A 325 2.05e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1mjc 69 2.09e+01 1mjc b.40.4.5 25319 1xwiA 322 2.17e+01 1e9iA 431 2.22e+01 c.1.11.1,d.54.1.1 64818,64819 1xfjA 261 2.35e+01 d.194.1.2 109585 16pk 415 2.41e+01 16pk c.86.1.1 35454 1vggA 161 2.43e+01 1h2vZ 156 2.43e+01 d.58.7.1 76595 2gl5A 410 2.45e+01 1djxB 624 2.51e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1ezoA 370 2.57e+01 4mbp c.94.1.1 59539 2as0A 396 2.58e+01 1gu7A 364 2.64e+01 b.35.1.2,c.2.1.1 83321,83322 1kyqA 274 2.68e+01 c.2.1.11,e.37.1.1 73281,73282 1b8pA 329 2.68e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1ydgA 211 2.70e+01 1gnxA 479 2.79e+01 c.1.8.4 76241 2freA 200 2.81e+01 1xwyA 264 2.85e+01 1a80 277 2.86e+01 1frb c.1.7.1 28700 1po5A 476 2.88e+01 a.104.1.1 94963 1f8yA 157 2.92e+01 1f8xA c.23.14.1 31395 1c0dA 358 2.94e+01 1eceA c.1.8.3 28815 1yt8A 539 2.95e+01 1z1zA 131 2.95e+01 1klnA 605 3.07e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1h6kZ 98 3.08e+01 d.58.7.1 60686 1qgdA 662 3.10e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 2itg 163 3.24e+01 1b9dA c.55.3.2 33669 1jbeA 128 3.25e+01 3chy c.23.1.1 62845 1eceA 358 3.26e+01 1eceA c.1.8.3 28813 1rz3A 201 3.38e+01 c.37.1.6 98132 2bfxA 284 3.43e+01 2fymA 431 3.48e+01 2hsdA 253 3.53e+01 1e6wA c.2.1.2 29866 1e6mA 128 3.56e+01 3chy c.23.1.1 31039 2axpA 173 3.62e+01 1eu3A 210 3.68e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1hw8A 467 3.71e+01 1dqaA d.58.20.1,d.179.1.1 61298,61299 1ab5A 125 3.75e+01 3chy c.23.1.1 31056 1kczA 413 3.80e+01 c.1.11.2,d.54.1.1 68451,68452 1hw6A 278 3.80e+01 1frb c.1.7.1 61296 1nt4A 391 3.82e+01 c.60.1.2 92102 1lap 488 3.82e+01 1lam c.50.1.1,c.56.5.3 33171,33834 1w9hA 427 3.90e+01 1ihnA 113 3.94e+01 1ihnA c.103.1.1 62388 1i24A 404 3.97e+01 c.2.1.2 83663 1dqaC 467 4.09e+01 1dqaA d.58.20.1,d.179.1.1 39366,42587 1jwqA 179 4.10e+01 c.56.5.6 90921 1g01A 364 4.14e+01 7a3hA c.1.8.3 60161 1g0cA 364 4.18e+01 7a3hA c.1.8.3 60165 1xx1A 285 4.20e+01 1f0nA 285 4.23e+01 1dqyA c.69.1.3 34636 1hdcA 253 4.27e+01 1e6wA c.2.1.2 29862 1dqaA 467 4.30e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1ydhA 216 4.39e+01 1d0nA 729 4.48e+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 1jbkA 195 4.52e+01 c.37.1.20 71631 1bjx 110 4.67e+01 1bjx c.47.1.2 32774 2bjxA 110 4.67e+01 1bjx c.47.1.2 32776 1bllE 488 4.80e+01 1lam c.50.1.1,c.56.5.3 33170,33833 1w6tA 444 4.88e+01 1lam 484 4.89e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1spvA 184 4.93e+01 c.50.1.2 98957 1s5lH 66 4.94e+01 1fnoA 417 4.99e+01 d.58.19.1,c.56.5.4 70145,75841 1yvoA 172 5.01e+01 1g8lA 411 5.05e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1mq4A 272 5.08e+01 d.144.1.7 91391 1iyxA 432 5.12e+01 c.1.11.1,d.54.1.1 83815,83816 2ashA 381 5.13e+01 2axtH 66 5.14e+01 2vil 126 5.16e+01 2vil d.109.1.1 40830 1lv3A 68 5.17e+01 g.39.1.9 78231 1ytvA 366 5.41e+01 1k66A 149 5.50e+01 c.23.1.1 90941 1lcyA 325 5.50e+01 b.36.1.4,b.47.1.1 73834,73835 1wyuB 474 5.57e+01 1rkiA 102 5.58e+01 1pa2A 306 5.58e+01 1bgp a.93.1.1 18693 1gqeA 365 5.61e+01 e.38.1.1 70351 2cy7A 396 5.63e+01 1awd 94 5.72e+01 1awd d.15.4.1 37673 1m0uA 249 5.77e+01 a.45.1.1,c.47.1.5 78359,78360 1laxA 370 5.78e+01 c.94.1.1 84576 1x1rA 178 5.81e+01 1vmfA 145 5.87e+01 1kbpA 432 5.94e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 1k3sA 113 5.95e+01 d.198.1.1 68120 4kbpA 432 5.99e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1vpbA 451 6.15e+01 1a0rP 245 6.16e+01 1b9yC c.47.1.6 33054 2arkA 188 6.28e+01 1vq2A 193 6.36e+01 1dusA 194 6.41e+01 1dusA c.66.1.4 34182 1u02A 239 6.48e+01 c.108.1.15 107538 1qazA 351 6.54e+01 1qazA a.102.3.1 18848 1su4A 994 6.56e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 2bklA 695 6.62e+01 1pv1A 299 6.64e+01 3chy 128 6.66e+01 3chy c.23.1.1 31038 2cmd 312 6.70e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1v8fA 276 6.70e+01 c.26.1.4 100503 1h1nA 305 6.74e+01 c.1.8.3 70855 3mefA 69 6.75e+01 1mjc b.40.4.5 25320 1xfsA 178 6.84e+01 d.129.3.5 109589 1lw6E 281 6.99e+01 c.41.1.1 74293 1rk8A 165 6.99e+01 d.58.7.1 97603 1q5yA 85 7.12e+01 d.58.18.4 95950 1zm7A 230 7.14e+01 1r62A 160 7.19e+01 d.122.1.3 104816 1anf 370 7.20e+01 4mbp c.94.1.1 35776 1vizA 240 7.20e+01 c.1.4.1 100784 1s6yA 450 7.24e+01 c.2.1.5,d.162.1.2 105314,105315 2a9fA 398 7.31e+01 2g3aA 152 7.33e+01 1iciA 256 7.34e+01 1iciA c.31.1.5 62266 1m4jA 142 7.36e+01 d.109.1.2 78602 1hjsA 332 7.39e+01 c.1.8.3 83492 2bl1A 172 7.41e+01 1uvzA 119 7.42e+01 1to2E 281 7.51e+01 1vq0A 302 7.61e+01 1ab6A 125 7.70e+01 3chy c.23.1.1 31054 1uozA 315 7.81e+01 1mmvB 419 7.83e+01 d.174.1.1 91318 1y80A 210 7.94e+01 1oe0A 230 7.96e+01 c.37.1.1 92788 1g2rA 100 8.04e+01 1g2rA d.192.1.1 60231 1vih 71 8.11e+01 1vih d.51.1.1 38807 1m2kA 249 8.19e+01 c.31.1.5 84754 1vig 71 8.37e+01 1vih d.51.1.1 38806 1zy7A 403 8.37e+01 1jhnA 424 8.39e+01 b.104.1.1,b.29.1.12 66722,70060 1gq6A 313 8.43e+01 c.42.1.1 70341 2fe7A 166 8.56e+01 1j8yF 297 8.56e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1ou0A 207 8.72e+01 c.23.17.1 93536 1bjt 793 8.77e+01 1bjt e.11.1.1 43249 1djxA 624 8.96e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587