# List of top-scoring protein chains for t04-100-30-bys 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 1q9uA 130 8.32e-02 unknown_sccs -11025 1lfpA 249 7.20e-01 e.39.1.1 73885 1pb1A 416 1.26e+00 c.77.1.1 88014 1iso 416 1.37e+00 1iso c.77.1.1 35065 1lfb 99 1.54e+00 1lfb a.4.1.1 15989 1mvoA 136 1.82e+00 c.23.1.1 79513 1c7gA 456 2.01e+00 c.67.1.2 -8153 1jfrA 262 2.64e+00 1jfrA c.69.1.16 34724 1uj2A 252 2.79e+00 c.37.1.6 -7061 1vjqA 79 3.34e+00 unknown_sccs -13478 1ukz 203 4.04e+00 1zin c.37.1.1 31840 1ogwA 76 4.14e+00 d.15.1.1 87001 2dhqA 146 4.17e+00 2dhqA c.23.13.1 31382 1qh8B 519 4.30e+00 1qguB c.92.2.3 35634 1bt0A 76 4.62e+00 1ubi d.15.1.1 37607 1sv6A 269 4.85e+00 1ax4A 467 5.01e+00 1ax4A c.67.1.2 34391 1l6rA 227 5.30e+00 c.108.1.10 77768 1j3mA 129 5.55e+00 1ireA 204 5.81e+00 d.149.1.1 76769 1ugpA 203 5.98e+00 1nbfD 76 6.21e+00 d.15.1.1 80390 1edzA 320 6.61e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ugmA 125 7.68e+00 1ppo 216 7.94e+00 1cs8A d.3.1.1 37020 1an9A 340 8.61e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1gs5A 258 8.76e+00 c.73.1.2 70395 1nddA 76 9.12e+00 1ubi d.15.1.1 37599 1sdsA 117 9.17e+00 1mjhA 162 9.27e+00 1mjhA c.26.2.4 31639 1aa8A 347 9.98e+00 1an9A 1ubi 76 1.06e+01 1ubi d.15.1.1 37584 1h05A 146 1.08e+01 c.23.13.1 76433 1nif 340 1.12e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1ve9A 347 1.16e+01 c.4.1.2 -6056 d.16.1.3 -9214 1ly1A 181 1.37e+01 c.37.1.1 74334 1gefA 123 1.48e+01 1gefA c.52.1.18 60465 1lst 239 1.52e+01 1lst c.94.1.1 35755 1e19A 314 1.57e+01 1b7bA c.73.1.1 34967 1c9oA 66 1.57e+01 1mjc b.40.4.5 25325 1t1vA 93 1.58e+01 1kcbA 340 1.58e+01 b.6.1.3 -2950 b.6.1.3 -2951 1tp6A 128 1.63e+01 1j09A 468 1.63e+01 a.97.1.1 77025 c.26.1.1 77026 1b7yB 785 1.67e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1mo9A 523 1.69e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1b8bA 605 1.71e+01 1b8bA 1ne7A 289 1.75e+01 unknown_sccs -6858 1qhlA 227 1.80e+01 1qhlA c.37.1.12 32382 1bazA 53 1.90e+01 1bazA a.43.1.1 17421 1j79A 347 1.98e+01 1j79A c.1.9.4 62675 1fjgP 88 2.00e+01 1emwA d.27.1.1 38444 1aerA 205 2.03e+01 1aerA d.166.1.1 42249 1qqgA 264 2.03e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1uv7A 110 2.03e+01 unknown_sccs -10256 2acy 98 2.08e+01 2acy d.58.10.1 39298 1kuuA 202 2.11e+01 d.153.2.1 73019 1vgyA 393 2.12e+01 c.56.5.4 -7882 d.58.19.1 -10106 1u4cA 349 2.16e+01 1qipA 183 2.16e+01 1qipA d.32.1.1 38470 1kafA 108 2.23e+01 d.199.1.1 68372 1uf6A 178 2.25e+01 unknown_sccs -4533 1iukA 140 2.34e+01 c.2.1.8 83712 1m1nB 522 2.37e+01 c.92.2.3 78418 1odkA 235 2.42e+01 c.56.2.1 86863 1jflA 228 2.45e+01 c.78.2.1 71656 c.78.2.1 71657 1qazA 351 2.45e+01 1qazA a.102.3.1 18848 1d9tA 289 2.49e+01 1deaA 1mmiA 366 2.57e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1pmi 440 2.59e+01 1pmi b.82.1.3 28114 1t7pA 698 2.64e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1lktA 104 2.66e+01 1lktA b.90.1.1 28398 1kdgA 546 2.71e+01 c.3.1.2 77337 d.16.1.1 77338 1quqB 121 2.72e+01 1quqB b.40.4.3 25305 1res 43 2.79e+01 1ret a.4.1.2 16023 1c44A 123 2.82e+01 1qndA d.106.1.1 40795 1lm5A 214 2.91e+01 d.211.2.1 74029 1p3wA 404 2.91e+01 c.67.1.3 87752 1qtoA 122 2.95e+01 1bylA d.32.1.2 38494 1ub3A 220 3.00e+01 c.1.10.1 88395 1gln 468 3.03e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1sbxA 106 3.04e+01 1qhtA 775 3.07e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1s723 92 3.12e+01 1jj22 92 3.12e+01 1ffkZ 1nqcA 217 3.19e+01 d.3.1.1 86024 1scuA 288 3.23e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1luzA 88 3.24e+01 b.40.4.5 74271 1bkb 136 3.27e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1ei6A 406 3.34e+01 unknown_sccs -8436 1pjcA 361 3.35e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1ois 223 3.42e+01 1a36A e.15.1.1 43267 1gox 370 3.43e+01 1gox c.1.4.1 28607 1nogA 177 3.46e+01 a.25.2.2 85923 1a99A 344 3.49e+01 1pot c.94.1.1 35812 1qsgA 265 3.56e+01 1eny c.2.1.2 29935 1k6dA 220 3.56e+01 unknown_sccs 72082 1ughI 82 3.56e+01 1ugiA d.17.5.1 38133 1ii7A 333 3.58e+01 1ii7A d.159.1.4 62415 1ezwA 349 3.69e+01 1ezwA c.1.16.3 29558 1hh1A 143 3.72e+01 1gefA c.52.1.18 61036 1m6sA 347 3.73e+01 c.67.1.1 78701 1jg8A 347 3.74e+01 1jg8A c.67.1.1 62946 1b8aA 438 3.77e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1o60A 292 3.78e+01 c.1.10.4 -5549 1n87A 56 3.78e+01 g.44.1.2 85390 1a5t 334 3.90e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1eo6A 117 3.93e+01 1eo6A d.15.1.3 37609