# List of top-scoring protein chains for t04-100-30-str2 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 8.24e-04 unknown_sccs -11025 1j3mA 129 1.48e-01 1kdgA 546 1.77e-01 c.3.1.2 77337 d.16.1.1 77338 1sv6A 269 1.90e-01 1mo9A 523 3.24e-01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ecsA 126 4.12e-01 1ecsA d.32.1.2 59407 1qtoA 122 4.29e-01 1bylA d.32.1.2 38494 1m6iA 493 4.29e-01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1l6rA 227 6.39e-01 c.108.1.10 77768 1c7gA 456 7.22e-01 c.67.1.2 -8153 1jyoA 130 7.28e-01 d.198.1.1 67483 1vjqA 79 8.33e-01 unknown_sccs -13478 1uf6A 178 8.66e-01 unknown_sccs -4533 1qhlA 227 1.01e+00 1qhlA c.37.1.12 32382 1lfpA 249 1.38e+00 e.39.1.1 73885 1u2fA 90 1.63e+00 1u2fA d.58.7.1 39168 1ihoA 283 1.66e+00 1ihoA c.26.1.4 62390 1ci3M 249 1.77e+00 1hcz b.2.6.1 22480 b.84.2.2 28266 1fjgP 88 1.90e+00 1emwA d.27.1.1 38444 1v9yA 167 2.10e+00 1tu1A 148 2.29e+00 1v7oA 165 2.49e+00 unknown_sccs -10249 1jfyA 311 2.66e+00 1jr7A 311 2.66e+00 b.82.2.3 63255 1mvoA 136 2.90e+00 c.23.1.1 79513 1v8cA 168 3.03e+00 d.15.3.1 -9175 unknown_sccs -11012 1ds1A 324 3.12e+00 1drtA b.82.2.2 28127 1ax4A 467 3.19e+00 1ax4A c.67.1.2 34391 1a99A 344 3.93e+00 1pot c.94.1.1 35812 1m1zA 513 4.55e+00 c.26.2.1 78457 d.153.1.1 78458 1j6qA 136 5.01e+00 b.40.9.1 77091 1lfb 99 5.14e+00 1lfb a.4.1.1 15989 1o6aA 96 5.24e+00 unknown_sccs -4101 1g7sA 594 5.29e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1g1cA 99 5.30e+00 b.1.1.4 65078 1j5xA 342 5.74e+00 c.80.1.1 71591 1nxiA 132 5.79e+00 d.58.47.1 86381 1pp7U 131 5.99e+00 unknown_sccs -304 1l9vA 317 6.49e+00 d.13.2.1 73760 d.216.1.1 73761 1bazA 53 6.53e+00 1bazA a.43.1.1 17421 1aerA 205 6.91e+00 1aerA d.166.1.1 42249 1uv7A 110 7.01e+00 unknown_sccs -10256 1hh1A 143 7.26e+00 1gefA c.52.1.18 61036 1f1zA 273 7.30e+00 1f1zA a.4.5.27 16081 c.52.1.16 33334 1sgvA 316 7.46e+00 b.122.1.1 -5120 unknown_sccs -10148 1adjA 421 7.95e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1edzA 320 8.18e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1fxlA 167 8.52e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1qhtA 775 8.81e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1rg9A 383 9.02e+00 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1ufkA 254 9.04e+00 unknown_sccs -8103 1sh8A 154 9.13e+00 1vybA 238 9.29e+00 1u9aA 160 9.48e+00 1u9aA d.20.1.1 38333 1a7cA 379 1.03e+01 1sek e.1.1.1 42660 3nul 130 1.09e+01 3nul d.110.1.1 40891 1ah6 220 1.10e+01 1yer d.122.1.1 41094 1cx4A 305 1.14e+01 b.82.3.2 59099 b.82.3.2 59100 1s72T 120 1.17e+01 1jj2S 119 1.17e+01 1ffkQ b.34.5.1 63104 1q4rA 112 1.19e+01 d.58.4.4 -9943 1jflA 228 1.22e+01 c.78.2.1 71656 c.78.2.1 71657 1o0xA 262 1.22e+01 d.127.1.1 80755 1ve9A 347 1.28e+01 c.4.1.2 -6056 d.16.1.3 -9214 1c9oA 66 1.30e+01 1mjc b.40.4.5 25325 1ew0A 130 1.33e+01 1drmA d.110.3.2 40905 1lurA 339 1.33e+01 b.30.5.4 84717 1fm2B 520 1.37e+01 1fm2B 1gox 370 1.40e+01 1gox c.1.4.1 28607 1ajsA 412 1.40e+01 1ajsA c.67.1.1 34276 1lktA 104 1.45e+01 1lktA b.90.1.1 28398 1a8vA 121 1.50e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1qh8B 519 1.54e+01 1qguB c.92.2.3 35634 2hlcA 230 1.54e+01 5ptp b.47.1.2 26074 1kl1A 419 1.56e+01 c.67.1.4 72663 1itwA 741 1.56e+01 c.77.1.2 76793 1mjhA 162 1.57e+01 1mjhA c.26.2.4 31639 1ab4 477 1.63e+01 1ab4 e.11.1.1 43251 1tn3 137 1.63e+01 1htn d.169.1.1 42423 1qd1A 325 1.65e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1d8cA 723 1.65e+01 1d8cA c.1.13.1 29325 1kfwA 435 1.68e+01 c.1.8.5 77376 d.26.3.1 77377 1iukA 140 1.68e+01 c.2.1.8 83712 1p7tA 731 1.69e+01 c.1.13.1 -5600 1fecA 490 1.71e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 4fgf 146 1.72e+01 1bfg b.42.1.1 25486 1jpyA 137 1.76e+01 g.17.1.6 67065 1vpsA 289 1.77e+01 1vpsA b.121.6.1 23336 1i3zA 103 1.77e+01 d.93.1.1 83667 1cby 259 1.78e+01 1cby d.103.1.1 40705 1ugmA 125 1.79e+01 1nnhA 294 1.80e+01 d.104.1.1 -10772 1qipA 183 1.80e+01 1qipA d.32.1.1 38470 1tif 78 1.80e+01 1tif d.15.8.1 37836 1t82A 155 1.85e+01 1e0bA 68 1.93e+01 1e0bA b.34.13.2 37476 1e8cA 498 1.96e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1m6sA 347 1.97e+01 c.67.1.1 78701 1jg8A 347 2.00e+01 1jg8A c.67.1.1 62946 1sbxA 106 2.01e+01 1s72H 171 2.03e+01 1iugA 352 2.05e+01 c.67.1.3 -8176 1r44A 202 2.07e+01 1lcl 142 2.13e+01 1lcl b.29.1.3 24216 1jfrA 262 2.14e+01 1jfrA c.69.1.16 34724 1lj5A 379 2.25e+01 e.1.1.1 73928 1bw3 125 2.26e+01 1bw4 b.52.1.2 26899 1szwA 379 2.30e+01 unknown_sccs -10164 1rz2A 254 2.33e+01 1l5aA 436 2.38e+01 c.43.1.2 75923 c.43.1.2 75924 1lnsA 763 2.43e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1h4vB 421 2.46e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1hcnB 145 2.54e+01 1hcnB g.17.1.4 44810 1l2mA 118 2.54e+01 d.89.1.4 77657 1m32A 366 2.59e+01 c.67.1.3 78508 1kafA 108 2.59e+01 d.199.1.1 68372 1dxrH 258 2.61e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1ezwA 349 2.62e+01 1ezwA c.1.16.3 29558 1hdkA 141 2.72e+01 b.29.1.3 65807 1e19A 314 2.74e+01 1b7bA c.73.1.1 34967 1mszA 86 2.80e+01 d.68.7.1 79428 1p57B 255 2.85e+01 b.47.1.2 -4248 1k8wA 327 2.85e+01 b.122.1.1 83094 unknown_sccs -10143 1ygs 234 2.86e+01 1ygs b.26.1.1 23907 1an9A 340 2.88e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1k5nA 276 2.89e+01 b.1.1.2 77266 d.19.1.1 77267 1gefA 123 2.89e+01 1gefA c.52.1.18 60465 1qovH 260 2.89e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1i9bA 217 2.90e+01 1i9bA b.96.1.1 62084 1a3k 137 2.92e+01 1a3k b.29.1.3 24218 1k47A 337 3.02e+01 d.14.1.5 72040 d.58.26.4 72041 1qpoA 284 3.02e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 1hdr 244 3.04e+01 1dhr c.2.1.2 29837 1shfA 59 3.07e+01 1bbzA b.34.2.1 24462 1q15A 503 3.08e+01 c.26.2.1 -6625 d.153.1.1 -11400 2shpA 525 3.16e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1hm9A 468 3.18e+01 b.81.1.4 65866 c.68.1.5 65867 1pb1A 416 3.23e+01 c.77.1.1 88014 1mp9A 198 3.30e+01 a.74.1.2 -1127 a.74.1.2 -1128 1qc7A 101 3.31e+01 1qc7A a.118.14.1 18456 1lswA 131 3.37e+01 d.110.3.2 78181 1trb 320 3.40e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1jg5A 83 3.46e+01 d.205.1.1 66666 2acy 98 3.46e+01 2acy d.58.10.1 39298 1aa8A 347 3.49e+01 1an9A 1f08A 148 3.50e+01 1f08A d.89.1.2 59564 1iso 416 3.54e+01 1iso c.77.1.1 35065 1m1nB 522 3.55e+01 c.92.2.3 78418 1h05A 146 3.55e+01 c.23.13.1 76433 1npk 154 3.57e+01 1npk d.58.6.1 39099 1pz7A 204 3.59e+01 b.29.1.4 -3439 2dhqA 146 3.63e+01 2dhqA c.23.13.1 31382 1h54A 754 3.67e+01 a.102.1.4 60634 b.30.5.3 60635 1go3E 187 3.70e+01 b.40.4.5 83054 d.230.1.1 83055 1eiwA 111 3.73e+01 1eiwA c.23.3.1 31130 1poiB 260 3.76e+01 1poiB unknown_sccs 34155 1uw6A 211 3.84e+01 b.96.1.1 -3077 1quqB 121 3.87e+01 1quqB b.40.4.3 25305 1r75A 141 3.90e+01 unknown_sccs -3243 1td5A 202 3.91e+01 1f3uA 118 3.92e+01 1f3uA b.65.1.1 27521