# 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.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 1kplA 473 6.99e-03 f.2.1.13 68782 1kpkA 473 4.43e-02 f.2.1.13 68776 1mznA 240 1.61e-01 1jb0A 755 3.42e-01 1jb0A f.2.1.12 62820 1qlaC 256 6.92e-01 1qlaC f.2.1.9 43722 2at9 247 7.37e-01 1c3wA f.2.1.1 43427 1i4dA 224 8.31e-01 h.4.7.1 61682 1hkbA 917 1.20e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1i4lA 224 1.39e+00 1i49A h.4.7.1 61718 1jpnA 296 1.44e+00 a.24.13.1 67039 c.37.1.10 67040 1ng1 294 1.47e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 2ng1 293 1.51e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1i4tB 224 1.53e+00 h.4.7.1 61730 1f88A 348 1.56e+00 1f88A f.2.1.1 43429 1g5yA 238 1.74e+00 1lbd a.123.1.1 60294 1c3wA 222 1.79e+00 1c3wA f.2.1.1 43405 1m0kA 262 1.82e+00 1h4lD 147 2.05e+00 1qkrA 188 2.15e+00 1qkrA a.24.9.1 16628 1hkcA 917 2.25e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1czaN 917 2.36e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1i3dA 146 2.62e+00 a.1.1.2 61587 1dgkN 917 2.67e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 3bct 457 3.37e+00 3bct a.118.1.1 19112 1dm5A 315 3.85e+00 1avc a.65.1.1 18186 1jdhA 529 4.02e+00 a.118.1.1 66549 1kgbA 231 4.06e+00 f.2.1.1 68581 1lbd 282 4.09e+00 1lbd a.123.1.1 19279 1qhaA 917 4.21e+00 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1adt 356 4.68e+00 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1l58 164 5.31e+00 1l92 d.2.1.3 36635 1eulA 994 5.89e+00 1eulA f.2.1.10 43726 1g3jA 532 5.94e+00 3bct a.118.1.1 19114 1bgc 174 6.15e+00 1bgc a.26.1.1 16822 1hzxA 349 6.68e+00 1f88A f.2.1.1 61466 1hx1B 114 6.69e+00 1hx1B a.7.7.1 61350 1eijA 80 7.06e+00 1eijA a.5.6.1 16298 1foeA 377 7.27e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1h67A 108 7.36e+00 a.40.1.1 65643 1i5pA 633 7.50e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1a59 378 7.67e+00 1aj8A a.103.1.1 18902 1glm 470 7.85e+00 1ayx a.102.1.1 18821 1ew6A 137 8.02e+00 1ewaA a.1.1.2 15637 1ewaA 137 8.02e+00 1ewaA a.1.1.2 15639 1bmfG 272 8.04e+00 1e1qG c.49.2.1 33160 1qq8A 214 8.27e+00 1qq8A a.132.1.1 19508 1tx4A 198 8.29e+00 1tx4A a.116.1.1 19098 1iwhB 146 8.53e+00 1iwgA 1053 8.67e+00 1nbmG 272 8.68e+00 1e1qG c.49.2.1 33161 1mx4A 168 8.72e+00 1gai 472 8.87e+00 1ayx a.102.1.1 18819 1l9hA 349 9.02e+00 1spgB 147 9.37e+00 1cg5B a.1.1.2 15588 1anv 356 9.44e+00 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 2tct 207 9.58e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1i7wA 538 9.69e+00 3bct a.118.1.1 61909 1is2A 661 9.94e+00 1xgsA 295 1.02e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1myo 118 1.04e+01 2myo a.118.2.1 19174 1kxpD 458 1.06e+01 1e1qG 272 1.08e+01 1e1qG c.49.2.1 33162 2at2A 300 1.09e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 3mag 307 1.10e+01 3mag c.66.1.9 34205 1l92 164 1.12e+01 1l92 d.2.1.3 36629 1jr3D 343 1.13e+01 a.80.1.1 63251 c.37.1.13 63252 1jb0L 154 1.14e+01 1jb0L f.2.1.12 62829 119l 164 1.21e+01 1l92 d.2.1.3 36622 1qmzB 259 1.24e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1ew6B 137 1.39e+01 1ewaA a.1.1.2 15638 1i49A 224 1.40e+01 1i49A h.4.7.1 61679 1a0p 290 1.41e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1ihbA 162 1.56e+01 1bd8 a.118.2.1 19161 1gakA 141 1.57e+01 1gakA a.19.1.1 16415 1eztA 166 1.61e+01 1agrE a.91.1.1 18541 1b5l 172 1.66e+01 1b5l a.26.1.3 16900 1go4E 100 1.68e+01 1mmoG 162 1.69e+01 1mtyG a.23.3.1 16512 1vns 609 1.75e+01 1vns a.111.1.3 19061 1bgeB 175 1.76e+01 1bgc a.26.1.1 16824 1phnA 162 1.76e+01 1cpcA a.1.1.3 15641 1jk0A 419 1.80e+01 a.25.1.2 63142 1myt 146 1.81e+01 1a6m a.1.1.2 15207 1keyA 235 1.81e+01 1kgnA 329 1.84e+01 a.25.1.2 68584 1axn 323 1.88e+01 1avc a.65.1.1 18149 1mtyG 162 1.96e+01 1mtyG a.23.3.1 16498 1k8eA 345 1.99e+01 1agrE 205 2.06e+01 1agrE a.91.1.1 18538 1ibrB 462 2.06e+01 1qgrA a.118.1.1 19120 2myo 118 2.07e+01 2myo a.118.2.1 19175 1lfpA 249 2.09e+01 1svq 114 2.11e+01 1svy d.109.1.1 40832 1k47A 337 2.18e+01 1g2nA 264 2.19e+01 1lbd a.123.1.1 60227 1cqxA 403 2.22e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1mucA 373 2.29e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 1bf5A 545 2.30e+01 1bg1A a.47.1.1 17766 b.2.5.1 22460 d.93.1.1 40526 1dlyA 164 2.34e+01 1dlyA a.1.1.1 14983 1l7mA 211 2.37e+01 1b8dA 164 2.41e+01 1cpcA a.1.1.3 15665 1h7cA 108 2.45e+01 1gm0A 142 2.49e+01 a.39.2.1 65297 1ithA 141 2.53e+01 1ithA a.1.1.2 15623 1f5sA 211 2.53e+01 1f5sA c.108.1.4 59656 1j97A 211 2.53e+01 1f5sA c.108.1.4 62753 1i6zA 135 2.55e+01 a.7.7.1 61861 1sesA 421 2.61e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1i1gA 141 2.69e+01 a.4.5.32 65982 d.58.37.1 65983 1h6kA 757 2.71e+01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1svr 114 2.78e+01 1svy d.109.1.1 40833 1awcB 153 2.80e+01 1bd8 a.118.2.1 19156 1jli 112 2.88e+01 1jli a.26.1.2 16884 1pii 452 2.91e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1aa7A 158 2.95e+01 1aa7A a.95.1.1 18741 1f16A 192 2.97e+01 1f16A f.1.4.1 43400 1i1rB 181 3.00e+01 1i1rB a.26.1.1 61548 1a8rA 221 3.05e+01 1a8rA d.96.1.1 40587 1ksoA 101 3.07e+01 1irdB 146 3.09e+01 a.1.1.2 66287 1dozA 309 3.17e+01 1ak1 c.92.1.1 35592 1gcvB 136 3.32e+01 1cg5B a.1.1.2 15589 1vnc 609 3.33e+01 1vns a.111.1.3 19065 1dvpA 220 3.40e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1ak1 310 3.46e+01 1ak1 c.92.1.1 35594 1ai7A 209 3.53e+01 1ajqA d.153.1.2 41845 1ddbA 195 3.53e+01 1ddbA f.1.4.1 43399 1bjz 207 3.55e+01 2tct a.4.1.9 16065 a.121.1.1 19242 1mla 309 3.64e+01 1mla c.19.1.1 31031 d.58.23.1 39383 1vpt 348 3.67e+01 3mag c.66.1.9 34207 1a7vA 125 3.74e+01 1cpq a.24.3.2 16562 1eca 136 3.77e+01 1flp a.1.1.2 15209 1ecd 136 3.77e+01 1flp a.1.1.2 15211 1kncA 177 3.81e+01 a.152.1.1 68703 1dquA 538 3.87e+01 1dquA c.1.12.6 29314 1gxyA 226 3.94e+01 1k3lA 221 3.94e+01 1dxtB 147 3.95e+01 1abwA a.1.1.2 15450 1h3oB 76 3.95e+01 1gu9A 177 3.96e+01 a.152.1.1 65540