# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 1jk0B 345 1.94e-01 a.25.1.2 63143 1j54A 186 2.43e-01 c.55.3.5 77077 1guxA 218 2.83e-01 1guxA a.74.1.3 18388 1spgB 147 6.77e-01 1cg5B a.1.1.2 15588 1r8sE 203 7.26e-01 a.118.3.1 -1579 1ad6 185 8.03e-01 1guxA a.74.1.3 18390 1sur 215 9.27e-01 1sur c.26.2.2 31620 1iwhB 146 1.12e+00 a.1.1.2 76883 1dxtB 147 1.14e+00 1abwA a.1.1.2 15450 1ku2A 241 1.27e+00 a.4.13.1 83096 a.177.1.1 83097 1l6nA 289 1.29e+00 a.61.1.1 73624 a.73.1.1 73625 1jksA 294 1.29e+00 d.144.1.7 71710 1babB 146 1.33e+00 1abwA a.1.1.2 15414 1rcwA 231 1.51e+00 unknown_sccs -1921 1lbd 282 1.56e+00 1lbd a.123.1.1 19279 1bg1A 722 1.67e+00 1bg1A a.47.1.1 17767 b.2.5.5 22461 d.93.1.1 40527 1ixmA 192 1.72e+00 1ixmA d.123.1.1 41114 1lvaA 258 1.78e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1j7yB 146 1.85e+00 a.1.1.2 66427 1pbv 195 1.93e+00 1pbv a.118.3.1 19179 1pvaA 110 2.06e+00 1a75A a.39.1.4 17207 1fhjB 146 2.61e+00 1abwA a.1.1.2 59838 1tgoA 773 2.67e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1abwA 283 2.76e+00 1abwA a.1.1.2 15288 a.1.1.2 15289 1i3dA 146 3.11e+00 a.1.1.2 61587 1m6nA 802 3.54e+00 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1fkmA 396 3.74e+00 1fkmA a.69.2.1 18315 a.69.2.1 18316 1dc1A 323 3.93e+00 1dc1A c.52.1.11 33321 1qjbA 245 3.97e+00 1qjaA a.118.7.1 19202 1ixmB 192 4.14e+00 1ixmA d.123.1.1 41115 1otvA 259 4.53e+00 unknown_sccs -1915 1n83A 270 4.56e+00 a.123.1.1 80276 1d1dA 262 4.61e+00 1d1dA a.28.3.1 16958 a.73.1.1 18335 2ezk 99 4.75e+00 2ezk a.4.1.2 16027 1dceA 567 5.34e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1jm6A 407 5.57e+00 a.29.5.1 66876 d.122.1.4 66877 1g0uI 205 5.73e+00 d.153.1.4 41891 1mvcA 240 5.88e+00 a.123.1.1 79499 1oo0A 147 5.93e+00 d.232.1.1 87182 1r5iD 216 6.11e+00 unknown_sccs -1272 1sig 339 6.29e+00 1sig a.177.1.1 19068 1lkvX 232 6.65e+00 a.118.14.1 73980 1fnnA 389 7.17e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1nu7D 282 7.24e+00 unknown_sccs -433 unknown_sccs -434 1ouvA 273 7.40e+00 a.118.18.1 -1586 1nktA 922 7.46e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1n0uA 842 7.53e+00 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1cx8B 639 7.58e+00 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852 1s35A 214 7.69e+00 a.7.1.1 -391 a.7.1.1 -392 1s9pA 227 7.94e+00 1od2A 805 7.98e+00 c.14.1.4 86821 c.14.1.4 86822 1in4A 334 8.06e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1cx8A 639 8.09e+00 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 16vpA 366 8.19e+00 16vpA d.180.1.1 42601 4cpv 109 8.26e+00 1a75A a.39.1.4 17198 1rwyA 109 8.29e+00 a.39.1.4 -825 1irdB 146 8.67e+00 a.1.1.2 66287 1qcrC 378 9.22e+00 1be3C f.32.1.1 75931 f.21.1.2 75932 1rypJ 204 9.29e+00 d.153.1.4 41878 1n3gA 113 9.59e+00 d.204.1.1 79962 1j77A 209 9.79e+00 1j77A a.132.1.2 62674 1hkvA 453 9.82e+00 b.49.2.3 83559 c.1.6.1 83560 1h6oA 204 9.89e+00 a.146.1.1 60689 1ezvA 430 1.08e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1dvkA 173 1.13e+01 1dvkA a.72.1.1 18319 1kb9A 431 1.15e+01 d.185.1.1 77311 d.185.1.1 77312 3tmkA 216 1.17e+01 3tmkA c.37.1.1 31920 1k87A 669 1.21e+01 a.176.1.1 77286 c.1.23.2 77287 1rec 201 1.21e+01 1rec a.39.1.5 17326 1gpmA 525 1.25e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1fg7A 356 1.25e+01 1gewA c.67.1.1 59819 1cby 259 1.26e+01 1cby d.103.1.1 40705 1de4C 640 1.26e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1in6A 334 1.27e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1s6tA 285 1.29e+01 c.37.1.5 -7040 1vkjA 285 1.29e+01 1jrrA 382 1.29e+01 e.1.1.1 63256 1cdp 109 1.30e+01 1a75A a.39.1.4 17197 1gcvB 136 1.33e+01 1cg5B a.1.1.2 15589 1c4qA 69 1.35e+01 2bosA b.40.2.1 25010 1ka2A 499 1.37e+01 d.92.1.5 77305 1iuhA 198 1.39e+01 d.61.1.2 83711 1bf5A 545 1.40e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1cpcA 162 1.45e+01 1cpcA a.1.1.3 15643 1jiwP 470 1.46e+01 1sat unknown_sccs 63079 d.92.1.6 63080 1kyoA 430 1.46e+01 d.185.1.1 73249 d.185.1.1 73250 1vduA 172 1.48e+01 unknown_sccs -1651 1h38D 883 1.53e+01 e.8.1.3 76628 1qkkA 155 1.57e+01 1dbwA c.23.1.1 31104 2tmkA 216 1.58e+01 3tmkA c.37.1.1 31928 1fyhA 258 1.60e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1mznA 240 1.60e+01 a.123.1.1 79704 1t0iA 191 1.62e+01 1p4xA 250 1.63e+01 a.4.5.28 87784 a.4.5.28 87785 1sk7A 198 1.64e+01 1sek 378 1.65e+01 1sek e.1.1.1 42675 1m98A 317 1.67e+01 a.175.1.1 78866 d.17.4.6 78867 1r5zA 323 1.67e+01 unknown_sccs -12289 2pvbA 107 1.68e+01 1a75A a.39.1.4 17205 1qspA 165 1.73e+01 1qspA a.24.10.2 16639 1h6kA 757 1.77e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1e96B 203 1.78e+01 1e96B a.118.8.1 19211 1ncx 162 1.78e+01 1ncx a.39.1.5 17222 1top 162 1.87e+01 1ncx a.39.1.5 17223 1c02A 166 1.89e+01 1qspA a.24.10.2 16633 1hnoA 280 1.91e+01 1hnoA c.14.1.3 61095 1knvA 293 1.96e+01 c.52.1.7 68707 1ad3A 452 1.99e+01 1ad3A c.82.1.1 35335 1do0A 442 2.00e+01 1do0A c.37.1.20 32432 1r71A 178 2.01e+01 1ltqA 301 2.02e+01 c.108.1.9 78208 c.37.1.1 78209 1e0hA 86 2.03e+01 1cei a.28.2.1 16947 1pbwA 216 2.08e+01 1pbwA a.116.1.1 19103 1h38B 883 2.12e+01 e.8.1.3 76626 1sfe 180 2.15e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 1phk 298 2.15e+01 1cdkA d.144.1.7 41635 1sly 618 2.17e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1ho8A 480 2.18e+01 1ho8A a.118.1.9 61107 1pi1A 185 2.18e+01 unknown_sccs -762 1jw2A 72 2.19e+01 a.23.5.1 67372 1k28A 584 2.20e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1k4wA 252 2.28e+01 a.123.1.1 72068 1r9dA 787 2.33e+01 1zac 90 2.37e+01 1ncx a.39.1.5 17236 1myf 153 2.38e+01 1a6m a.1.1.2 15147 1pujA 282 2.39e+01 c.37.1.8 88294 1gd8A 118 2.41e+01 d.188.1.1 60445 1qsaA 618 2.43e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 2ercA 244 2.47e+01 2ercA c.66.1.24 34224 1qr0A 228 2.51e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1qk3A 233 2.59e+01 1qk3A c.61.1.1 34031 1jj2S 119 2.60e+01 1ffkQ b.34.5.1 63104 2btvA 901 2.63e+01 2btvA e.28.1.1 43376 1s72T 120 2.66e+01 1nw1A 429 2.68e+01 d.144.1.8 86286 1ofcX 304 2.68e+01 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1ki1B 352 2.71e+01 a.87.1.1 72497 b.55.1.1 72498 1jpnA 296 2.74e+01 a.24.13.1 67039 c.37.1.10 67040 1qjaA 245 2.77e+01 1qjaA a.118.7.1 19204 1gyzA 60 2.84e+01 a.144.2.1 70793 1pz4A 116 2.88e+01 d.106.1.1 -10780 1brmA 367 2.88e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1ssqA 267 2.88e+01 1k66A 149 2.89e+01 c.23.1.1 -6406 5tmpA 213 2.93e+01 5tmpA c.37.1.1 31931 1bovA 69 2.94e+01 2bosA b.40.2.1 25070 1pq9A 253 2.95e+01 a.123.1.1 -1687 7aatA 401 2.98e+01 1ajsA c.67.1.1 34250 1pal 108 2.98e+01 1a75A a.39.1.4 17209 1lvhA 221 2.99e+01 c.108.1.6 74282 1q9uA 130 2.99e+01 unknown_sccs -11025 1hnuA 280 3.02e+01 1hnoA c.14.1.3 61096 1f7tA 122 3.04e+01 1f7lA d.150.1.2 59667 2ng1 293 3.05e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1hm6A 346 3.07e+01 1avc a.65.1.1 18147 2hrvA 142 3.07e+01 2hrvA b.47.1.4 26429 1j1uA 306 3.08e+01 c.26.1.1 83980 1q5qA 259 3.14e+01 d.153.1.4 -11433 1mkmA 249 3.15e+01 a.4.5.33 79242 d.110.2.2 79243 1spgA 144 3.26e+01 1abwA a.1.1.2 15409 1dhn 121 3.26e+01 1dhn d.96.1.3 40663 1uhnA 189 3.28e+01 a.39.1.5 -853 1pmaP 211 3.29e+01 1pmaP d.153.1.4 41863 1pjhA 280 3.32e+01 c.14.1.3 -6229 1oxjA 173 3.41e+01 a.60.1.2 87517 a.118.1.13 87518 1h38C 883 3.42e+01 e.8.1.3 76627 1v61A 132 3.51e+01 1beg 98 3.56e+01 1bxm a.134.1.1 19620 1ngvA 534 3.56e+01 c.111.1.2 85698 1f8rA 498 3.61e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1j8iA 93 3.73e+01 d.9.1.1 66438 1jboA 162 3.75e+01 a.1.1.3 84150 1jli 112 3.79e+01 1jli a.26.1.2 16884 1ktpA 162 3.81e+01 a.1.1.3 72990 1l5zA 155 3.85e+01 c.23.1.1 77722 1gthB 1025 3.87e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1nq7A 244 3.89e+01 a.123.1.1 -1682 1delA 241 3.92e+01 1dekA c.37.1.1 31844 1fztA 211 3.94e+01 1qhfA c.60.1.1 60158 1jk0A 419 3.94e+01 a.25.1.2 63142 1k68A 140 3.96e+01 c.23.1.1 -6403 1hh8A 213 3.99e+01 1e96B a.118.8.1 61042