# List of top-scoring protein chains for t04-100-30-alpha 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 9.14e-02 unknown_sccs -11025 1l6rA 227 1.41e+00 c.108.1.10 77768 1j3mA 129 1.88e+00 1sv6A 269 2.03e+00 1vjqA 79 2.07e+00 unknown_sccs -13478 1edzA 320 2.29e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1lfb 99 2.59e+00 1lfb a.4.1.1 15989 1c7gA 456 4.11e+00 c.67.1.2 -8153 1uj2A 252 4.79e+00 c.37.1.6 -7061 1mvoA 136 5.15e+00 c.23.1.1 79513 1ugmA 125 5.24e+00 1lurA 339 5.36e+00 b.30.5.4 84717 1ax4A 467 5.74e+00 1ax4A c.67.1.2 34391 1ic8A 194 6.05e+00 a.4.1.1 76740 a.35.1.1 76741 1pp7U 131 6.61e+00 unknown_sccs -304 1fjgP 88 7.52e+00 1emwA d.27.1.1 38444 1sbxA 106 7.88e+00 1aerA 205 8.14e+00 1aerA d.166.1.1 42249 1a3k 137 8.47e+00 1a3k b.29.1.3 24218 1c44A 123 8.80e+00 1qndA d.106.1.1 40795 1qh8B 519 8.81e+00 1qguB c.92.2.3 35634 1ufkA 254 1.14e+01 unknown_sccs -8103 1ub3A 220 1.24e+01 c.1.10.1 88395 1ii7A 333 1.27e+01 1ii7A d.159.1.4 62415 1u2fA 90 1.28e+01 1u2fA d.58.7.1 39168 1bazA 53 1.30e+01 1bazA a.43.1.1 17421 1gefA 123 1.35e+01 1gefA c.52.1.18 60465 1llfA 534 1.39e+01 c.69.1.17 78094 1n87A 56 1.40e+01 g.44.1.2 85390 1o0xA 262 1.42e+01 d.127.1.1 80755 1v9yA 167 1.46e+01 1np7A 489 1.48e+01 a.99.1.1 80677 c.28.1.1 80678 1uf6A 178 1.49e+01 unknown_sccs -4533 1jflA 228 1.56e+01 c.78.2.1 71656 c.78.2.1 71657 1ve9A 347 1.60e+01 c.4.1.2 -6056 d.16.1.3 -9214 2acy 98 1.64e+01 2acy d.58.10.1 39298 1ppo 216 1.68e+01 1cs8A d.3.1.1 37020 1c9oA 66 1.70e+01 1mjc b.40.4.5 25325 1tiqA 180 1.71e+01 1uv7A 110 1.78e+01 unknown_sccs -10256 1s72T 120 1.79e+01 1jj2S 119 1.80e+01 1ffkQ b.34.5.1 63104 1cleA 534 1.86e+01 1thg c.69.1.17 34771 1ecsA 126 1.87e+01 1ecsA d.32.1.2 59407 1ocxA 182 1.88e+01 b.81.1.3 86814 1im8A 244 1.92e+01 c.66.1.14 66212 1bkb 136 1.92e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1a0p 290 1.92e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1an9A 340 2.06e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1m1nB 522 2.08e+01 c.92.2.3 78418 1jfrA 262 2.10e+01 1jfrA c.69.1.16 34724 1p1mA 406 2.10e+01 b.92.1.4 87696 c.1.9.9 87697 1jyoA 130 2.13e+01 d.198.1.1 67483 1tu1A 148 2.16e+01 1j6pA 418 2.17e+01 b.92.1.4 77089 c.1.9.9 77090 1eo6A 117 2.20e+01 1eo6A d.15.1.3 37609 1kz1A 159 2.21e+01 c.16.1.1 73318 1ci3M 249 2.22e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1e19A 314 2.23e+01 1b7bA c.73.1.1 34967 1m1zA 513 2.26e+01 c.26.2.1 78457 d.153.1.1 78458 1aa8A 347 2.30e+01 1an9A 1kcbA 340 2.32e+01 b.6.1.3 -2950 b.6.1.3 -2951 1lktA 104 2.34e+01 1lktA b.90.1.1 28398 1mo9A 523 2.35e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ikpA 613 2.40e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1ihoA 283 2.41e+01 1ihoA c.26.1.4 62390 1qtoA 122 2.51e+01 1bylA d.32.1.2 38494 1r53A 382 2.52e+01 unknown_sccs -11177 1mmiA 366 2.53e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1o4wA 147 2.54e+01 c.120.1.1 86629 1qmvA 197 2.55e+01 1qq2A c.47.1.10 33066 1j5xA 342 2.56e+01 c.80.1.1 71591 2polA 366 2.65e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1be9A 119 2.71e+01 1pdr b.36.1.1 24774 1qqgA 264 2.73e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1nif 340 2.81e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1qhtA 775 2.81e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1gox 370 2.88e+01 1gox c.1.4.1 28607 1iso 416 2.90e+01 1iso c.77.1.1 35065 1jg5A 83 2.93e+01 d.205.1.1 66666 1pjjA 271 2.94e+01 1kafA 108 2.94e+01 d.199.1.1 68372 1cz4A 185 2.95e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1d2fA 390 2.98e+01 1d2fA c.67.1.3 34411 1lfpA 249 2.99e+01 e.39.1.1 73885 1j09A 468 3.04e+01 a.97.1.1 77025 c.26.1.1 77026 1pb1A 416 3.12e+01 c.77.1.1 88014 1l2mA 118 3.16e+01 d.89.1.4 77657 1iukA 140 3.17e+01 c.2.1.8 83712 1quqB 121 3.18e+01 1quqB b.40.4.3 25305 1ub0A 258 3.23e+01 c.72.1.2 88394 1kfwA 435 3.27e+01 c.1.8.5 77376 d.26.3.1 77377 1czfA 362 3.27e+01 1czfA b.80.1.3 28031 1sefA 274 3.29e+01 2dhqA 146 3.32e+01 2dhqA c.23.13.1 31382 1rk8A 165 3.37e+01 d.58.7.1 -10018 1nqcA 217 3.40e+01 d.3.1.1 86024 1nnjA 271 3.44e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1qtwA 285 3.46e+01 1qumA c.1.15.1 29392 1oywA 523 3.47e+01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1t1vA 93 3.49e+01 1jo8A 58 3.50e+01 b.34.2.1 71774 1b74A 254 3.57e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1kzlA 208 3.62e+01 b.43.4.3 77635 b.43.4.3 77636 1mo7A 213 3.62e+01 d.220.1.1 85028 1l6oA 95 3.62e+01 b.36.1.1 84534 1v33A 366 3.63e+01 unknown_sccs -11384 1mjhA 162 3.71e+01 1mjhA c.26.2.4 31639 1ezwA 349 3.75e+01 1ezwA c.1.16.3 29558 1ly1A 181 3.80e+01 c.37.1.1 74334 1ab4 477 3.83e+01 1ab4 e.11.1.1 43251 1gs5A 258 3.88e+01 c.73.1.2 70395 1lcl 142 3.89e+01 1lcl b.29.1.3 24216 1qcsA 211 3.92e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461