# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1n99A 166 1.20e-02 b.36.1.1 85459 b.36.1.1 85460 1e19A 314 3.97e-01 1b7bA c.73.1.1 34967 1v5sA 126 4.71e-01 1pcfA 66 6.15e-01 1pcfA d.18.1.1 38142 1delA 241 9.82e-01 1dekA c.37.1.1 31844 1ffkN 95 9.87e-01 1ffkN b.34.5.1 24606 1dekA 241 1.17e+00 1dekA c.37.1.1 31842 1j1nA 492 1.18e+00 c.94.1.1 83978 1csbB 205 1.25e+00 1theB 1jj2P 95 1.51e+00 1ffkN b.34.5.1 63101 1s72Q 96 1.52e+00 1ot5A 477 1.52e+00 b.18.1.20 87409 c.41.1.1 87410 1umhA 184 1.59e+00 unknown_sccs -3127 1kwhA 492 1.62e+00 c.94.1.1 68876 1gmyA 261 1.65e+00 d.3.1.1 76236 1umgA 362 1.80e+00 1bdo 80 2.06e+00 1bdo b.84.1.1 28214 1r64A 481 2.20e+00 b.18.1.20 -3151 c.41.1.1 -7297 1theB 260 2.25e+00 1theB d.3.1.1 37057 1g7cB 94 2.53e+00 1b64 d.58.12.1 39308 1f60B 94 2.76e+00 1b64 d.58.12.1 39307 1ehiA 377 2.99e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1h0fA 123 3.16e+00 1qd6C 240 3.22e+00 1qd5A 1qd5A 275 3.30e+00 1qd5A f.4.2.1 43748 1jj2H 167 3.43e+00 1ffkF d.41.4.1 63093 1theA 260 3.71e+00 1theB d.3.1.1 37056 1un3A 123 3.73e+00 d.5.1.1 -8933 1g9oA 91 3.85e+00 1pdr b.36.1.1 60400 1cz3A 168 4.35e+00 1d1gA c.71.1.1 34891 1fy2A 229 4.55e+00 1fyeA c.23.16.4 31478 1i92A 91 4.68e+00 1pdr b.36.1.1 61990 1bzyA 217 4.74e+00 1qk3A c.61.1.1 34071 1dpo 223 5.07e+00 5ptp b.47.1.2 25975 1hbyA 123 5.28e+00 7rsa d.5.1.1 60936 1d8iA 311 5.54e+00 1d8iA d.63.1.1 39541 1a4yB 123 5.54e+00 7rsa d.5.1.1 37296 1fehA 574 5.55e+00 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1l7mA 211 5.81e+00 c.108.1.4 73664 2trxA 108 5.87e+00 1thx c.47.1.1 32719 830cA 168 6.00e+00 1ck7A d.92.1.11 40400 1dypA 271 6.28e+00 1dypA b.29.1.2 24185 1dr9A 201 6.60e+00 1dr9A b.1.1.1 19762 b.1.1.3 21684 1kxrA 339 6.72e+00 d.3.1.3 73175 1o12A 376 6.91e+00 b.92.1.5 80758 c.1.9.10 80759 1d1gA 168 7.84e+00 1d1gA c.71.1.1 34889 1fyeA 229 7.90e+00 1fyeA c.23.16.4 31477 1k59A 123 8.10e+00 d.5.1.1 72073 1cjbA 231 8.76e+00 1qk3A c.61.1.1 34079 1lrzA 426 8.92e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1q7zA 566 9.11e+00 c.1.21.2 -5638 c.1.26.1 -5666 1d8hA 311 9.13e+00 1d8iA d.63.1.1 39544 1f35A 162 9.57e+00 1f35A b.94.1.1 59628 1vjzA 341 9.93e+00 c.1.8.3 -5318 1on3A 523 1.01e+01 c.14.1.4 87107 c.14.1.4 87108 1h9oA 112 1.02e+01 1qadA d.93.1.1 60837 1jdiA 231 1.03e+01 c.74.1.1 66551 1nteA 82 1.05e+01 b.36.1.1 86163 1r6jA 82 1.05e+01 b.36.1.1 -3732 1ub1A 133 1.11e+01 d.10.1.3 -8969 1cv8 174 1.11e+01 1cv8 d.3.1.1 37089 1f5sA 211 1.14e+01 1f5sA c.108.1.4 59656 1j97A 211 1.14e+01 1f5sA c.108.1.4 62753 1euwA 152 1.17e+01 1dupA b.85.4.1 28349 1k0wA 231 1.17e+01 c.74.1.1 77220 1nm1G 125 1.22e+01 d.109.1.1 80653 1d4xG 126 1.22e+01 1d0nA d.109.1.1 59109 1yagG 125 1.30e+01 1d0nA d.109.1.1 40846 1sv6A 269 1.34e+01 1dupA 152 1.35e+01 1dupA b.85.4.1 28351 1jobA 162 1.37e+01 1f35A b.94.1.1 63207 1e8pA 46 1.42e+01 g.55.1.1 59385 1go2A 304 1.42e+01 b.43.4.2 76243 c.25.1.1 76244 1rhfA 182 1.42e+01 b.1.1.1 -2335 b.1.1.4 -2684 1psdA 409 1.44e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1inp 400 1.53e+01 1inp e.7.1.1 42972 1ifqA 138 1.55e+01 1ifqA d.110.4.1 62350 1qadA 111 1.60e+01 1qadA d.93.1.1 40498 1hmpA 217 1.60e+01 1qk3A c.61.1.1 34075 1qq2A 199 1.67e+01 1qq2A c.47.1.10 33064 1onxA 390 1.70e+01 b.92.1.7 87176 c.1.9.13 87177 1k6wA 426 1.71e+01 b.92.1.2 68236 c.1.9.5 68237 1egr 85 1.75e+01 1kte c.47.1.1 32765 1ile 821 1.76e+01 1ile a.27.1.1 16924 b.51.1.1 26889 c.26.1.1 31591 1gv3A 248 1.76e+01 a.2.11.1 70585 d.44.1.1 70586 1f3z 161 1.78e+01 1gpr b.84.3.1 28273 1t82A 155 1.79e+01 1j6pA 418 1.80e+01 b.92.1.4 77089 c.1.9.9 77090 1s72H 171 1.81e+01 1hfuA 503 1.84e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1fct 32 1.84e+01 1fct j.36.1.1 46283 1eqnA 321 1.85e+01 1dd9A e.13.1.1 43256 1kebA 108 1.86e+01 c.47.1.1 77341 1pzxA 289 1.93e+01 c.119.1.1 -8623 1bfi 112 1.97e+01 1qadA d.93.1.1 40499 1h2aL 567 1.97e+01 1h2rL e.18.1.1 43299 1lcjA 109 1.98e+01 1qadA d.93.1.1 40414 1ego 85 2.02e+01 1kte c.47.1.1 32767 1grx 85 2.04e+01 1kte c.47.1.1 32766 1mctA 223 2.09e+01 5ptp b.47.1.2 25961 1fniA 223 2.16e+01 5ptp b.47.1.2 25962 1fkd 107 2.18e+01 1fkj d.26.1.1 38383 1fkf 107 2.18e+01 1fkj d.26.1.1 38386 1fkj 107 2.18e+01 1fkj d.26.1.1 38384 1a65A 504 2.21e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1eo9B 241 2.21e+01 3pchM b.3.6.1 22826 1i81A 83 2.24e+01 1d3bB b.38.1.1 61930 1mgqA 83 2.24e+01 b.38.1.1 79099 1qflA 389 2.25e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1lkkA 105 2.32e+01 1lckA d.93.1.1 40412 1lktA 104 2.32e+01 1lktA b.90.1.1 28398 1skoA 143 2.32e+01 1qpbA 563 2.38e+01 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1nrzA 164 2.41e+01 c.38.1.1 86131 1p49A 562 2.47e+01 c.76.1.2 -8432 1k3fA 253 2.51e+01 c.56.2.1 68105 1tib 269 2.56e+01 3tgl c.69.1.17 34738 1bkf 107 2.60e+01 1fkj d.26.1.1 38382 1r9hA 135 2.61e+01 d.26.1.1 -9482 1pvdA 537 2.64e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1vgyA 393 2.64e+01 c.56.5.4 -7882 d.58.19.1 -10106 1s83A 223 2.67e+01 b.47.1.2 -4178 1g1cA 99 2.75e+01 b.1.1.4 65078 1mdwA 328 2.77e+01 d.3.1.3 84934 1qfnA 85 2.83e+01 1qfnA c.47.1.1 32768 1ubkL 534 2.83e+01 e.18.1.1 88422 1dxrH 258 2.84e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1b65A 375 2.84e+01 1b65A d.154.1.1 42020 1ggrA 168 2.85e+01 1gpr b.84.3.1 28279 1vk6A 269 2.95e+01 unknown_sccs -10923 unknown_sccs -10924 1ib8A 164 2.97e+01 b.38.2.1 71168 d.52.4.1 71169 1h2rL 534 3.00e+01 1h2rL e.18.1.1 43298 1tyv 542 3.00e+01 1tyv b.80.1.6 28038 1ny72 369 3.02e+01 1buuA 168 3.15e+01 1rtm1 d.169.1.1 42366 h.1.1.1 45388 1qa1A 554 3.17e+01 1tyv b.80.1.6 28047 1jssA 224 3.18e+01 d.129.3.2 71844 1ry6A 360 3.21e+01 c.37.1.9 -7111 1qftA 175 3.26e+01 1qftA b.60.1.1 27151 6prcH 258 3.30e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 3gcb 470 3.37e+01 3gcb d.3.1.1 37032 1fr2B 134 3.37e+01 d.4.1.1 83257 1hrnA 337 3.38e+01 1smrA b.50.1.2 26869 1jytA 163 3.39e+01 b.94.1.1 67489 1a6r 471 3.42e+01 3gcb d.3.1.1 37033 1fw1A 216 3.42e+01 a.45.1.1 60051 c.47.1.5 60052 1utcA 363 3.43e+01 a.118.1.4 -1568 b.69.6.1 -4612 1vhiA 142 3.45e+01 1b3tA d.58.8.1 39230 1k28A 584 3.46e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1gcb 454 3.48e+01 3gcb d.3.1.1 37034 1hkxA 147 3.48e+01 d.17.4.7 83567 1df9A 191 3.49e+01 1befA b.47.1.3 26420 1bag 425 3.51e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1preA 470 3.52e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1lkzA 219 3.58e+01 unknown_sccs 73991 d.58.40.1 73992 3ncmA 92 3.59e+01 3ncmA b.1.1.4 21702 3pgk 416 3.60e+01 16pk c.86.1.1 35451 1k9dA 679 3.60e+01 c.1.8.10 77292 d.92.2.2 77293 1lqtA 456 3.63e+01 c.3.1.1 74198 c.4.1.1 74199 1gy7A 125 3.64e+01 d.17.4.2 70738 1jqhA 308 3.65e+01 d.144.1.7 71793 1d7yA 408 3.67e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1l0oA 150 3.67e+01 d.122.1.3 73403 1k0gA 453 3.69e+01 d.161.1.1 67940 1deuA 277 3.70e+01 1theB d.3.1.1 37085 1v6fA 151 3.72e+01 1l6oA 95 3.76e+01 b.36.1.1 84534 1sjwA 144 3.83e+01 unknown_sccs -9296 1uag 437 3.86e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1o8bA 219 3.89e+01 unknown_sccs 81180 d.58.40.1 81181 1gio 125 3.97e+01 7rsa d.5.1.1 37304