# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1b9zA 516 1.26e-01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1itcA 516 1.40e-01 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 1.42e-01 5bcaA 516 2.06e-01 1b9zA b.3.1.1,c.1.8.1 22529,28799 2cb2A 318 9.54e-01 1xcbA 211 1.51e+00 a.4.5.38,c.2.1.12 109552,109553 1htjF 210 1.99e+00 1htjF a.91.1.1 61254 1t2bA 397 2.48e+00 1vkuA 100 2.54e+00 a.28.1.1 108690 1kshA 186 3.55e+00 c.37.1.8 72914 1b1gA 75 3.64e+00 1psrA a.39.1.1 17151 1g5bA 221 3.82e+00 1g5bA d.159.1.3 60261 1din 236 3.95e+00 1din c.69.1.9 34682 2aclB 244 4.02e+00 1ggvA 232 5.00e+00 1din c.69.1.9 34683 1zbpA 273 5.41e+00 1b89A 449 7.31e+00 1b89A a.118.1.3 19138 1zi8A 236 7.38e+00 1oyjA 231 7.93e+00 a.45.1.1,c.47.1.5 87597,87598 1ig5A 75 8.15e+00 4icb a.39.1.1 62363 4icb 76 8.47e+00 4icb a.39.1.1 17145 1q15A 503 8.96e+00 c.26.2.1,d.153.1.1 95538,95539 1upvA 257 9.20e+00 1a4pA 96 1.16e+01 1b4cA a.39.1.2 17176 1j09A 468 1.21e+01 a.97.1.1,c.26.1.1 77025,77026 3icb 75 1.24e+01 4icb a.39.1.1 17147 1g59A 468 1.25e+01 a.97.1.1,c.26.1.1 60257,60258 1yyaA 250 1.39e+01 1nmoA 247 1.40e+01 c.135.1.1 91980 1z57A 339 1.52e+01 1e5pA 151 1.61e+01 1bj7 b.60.1.1 59272 1i5nA 146 1.66e+01 1i5nA a.24.10.3 61805 2gtrA 261 1.71e+01 1pq9A 253 1.81e+01 a.123.1.1 95004 2bkdN 134 1.85e+01 1tfzA 424 1.86e+01 d.32.1.3,d.32.1.3 106886,106887 1gln 468 1.92e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1dlc 584 2.39e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 1r29A 127 2.66e+01 d.42.1.1 96856 2fw2A 260 2.67e+01 1j55A 95 2.75e+01 a.39.1.2 77078 2gfaA 119 2.83e+01 1cpzA 68 2.85e+01 1aw0 d.58.17.1 39351 1xo1A 291 2.87e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1smbA 154 2.94e+01 d.111.1.1 105756 1h1yA 228 2.94e+01 c.1.2.2 76506 2fbmA 291 3.01e+01 1w34A 304 3.01e+01 2f1kA 279 3.06e+01 1b35B 255 3.10e+01 1b35B b.121.4.1 23334 1v4pA 157 3.33e+01 1go2A 304 3.45e+01 b.43.4.2,c.25.1.1 76243,76244 2agaA 190 3.73e+01 1gtmA 419 3.75e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2ew0A 192 3.97e+01 1jlyA 304 4.00e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 2b7oA 464 4.01e+01 1t5bA 201 4.01e+01 c.23.5.3 106433 2c1gA 431 4.04e+01 1jlxA 304 4.05e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 1am1 213 4.11e+01 1yer d.122.1.1 41095 1a4h 230 4.13e+01 1yer d.122.1.1 41099 1qh0A 295 4.17e+01 b.43.4.2,c.25.1.1 68891,68892 1zy4A 303 4.22e+01 1aerB 195 4.27e+01 1aerA d.166.1.1 42250 2breA 219 4.31e+01 2a19B 284 4.33e+01 1e6yB 433 4.48e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1amw 214 4.49e+01 1yer d.122.1.1 41093 1ut8A 291 4.52e+01 a.60.7.1,c.120.1.2 99908,99909 1q5dA 419 4.62e+01 a.104.1.1 95891 1qhhA 167 4.68e+01 1pjr c.37.1.19 32393 2ncm 99 4.79e+01 2ncm b.1.1.4 21703 1b2rA 304 4.82e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1b43A 340 4.84e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1yzbA 182 4.88e+01 1c0aA 585 4.91e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1exnA 290 5.08e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1rcqA 357 5.17e+01 b.49.2.2,c.1.6.1 104882,104883 1yc9A 442 5.20e+01 2bsaA 303 5.24e+01 1ogiA 303 5.32e+01 b.43.4.2,c.25.1.1 92914,92915 2brcA 214 5.37e+01 1exnB 290 5.42e+01 1exnA a.60.7.1,c.120.1.2 18089,33359 2bgkA 278 5.44e+01 1vaxA 287 5.46e+01 2basA 431 5.50e+01 1b64 91 5.52e+01 1b64 d.58.12.1 39306 1fj2A 232 5.54e+01 1auoA c.69.1.14 34720 1que 303 5.58e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1t06A 235 5.63e+01 a.118.1.17 106194 1dmaA 214 5.64e+01 1aerA d.166.1.1 42251 1fxiA 96 5.74e+01 1awd d.15.4.1 37664 1n1mA 728 5.94e+01 b.70.3.1,c.69.1.24 79815,79816 1dhy 292 5.95e+01 1han d.32.1.3,d.32.1.3 38504,38505 1avgL 41 6.22e+01 1ppbL b.47.1.2 26216 1qqyA 130 6.36e+01 3lzt d.2.1.2 36586 1k8tA 510 6.56e+01 e.41.1.1 68316 1uv4A 293 6.59e+01 1sr2A 116 6.85e+01 1bj7 156 6.91e+01 1bj7 b.60.1.1 27113 1yfsA 465 6.97e+01 1kw3B 292 6.99e+01 d.32.1.3,d.32.1.3 77549,77550 1bam 213 7.01e+01 1bam c.52.1.3 33285 1weoA 93 7.14e+01 1ve6A 582 7.19e+01 1o70A 324 7.26e+01 b.118.1.1,b.118.1.1 81115,81116 1to4A 156 7.27e+01 b.1.8.1 107162 1zejA 293 7.28e+01 1pw4A 451 7.33e+01 f.38.1.1 95198 1e9pA 151 7.46e+01 1mfmA b.1.8.1 22215 1vjrA 271 7.53e+01 c.108.1.14 100832 1e55A 512 7.54e+01 1e70M c.1.8.4 28934 1zd9A 188 7.59e+01 2sodB 152 7.64e+01 1mfmA b.1.8.1 22242 1cor 82 7.79e+01 451c a.3.1.1 15903 1g13A 162 7.82e+01 1g13A b.95.1.1 60194 1cbjA 151 7.84e+01 1mfmA b.1.8.1 22213 1v02A 565 7.85e+01 c.1.8.4 108194 1dd9A 338 7.97e+01 1dd9A e.13.1.1 43254 1x6iA 91 8.01e+01 1xfuA 747 8.02e+01 2agcA 162 8.04e+01 1q0eA 152 8.06e+01 b.1.8.1 95504 1h49A 512 8.15e+01 c.1.8.4 83477 1r9fA 136 8.29e+01 d.255.1.1 97257 2f4mA 295 8.41e+01 1h65A 270 8.53e+01 c.37.1.8 65640 1k20A 310 8.55e+01 c.107.1.1 68027 1riqA 465 8.58e+01 a.203.1.1,d.104.1.1 97516,97517 2fmlA 273 8.63e+01 2agyA 361 8.71e+01 1cczA 171 8.73e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 1s5pA 235 8.73e+01 c.31.1.5 98569 1aerA 205 8.80e+01 1aerA d.166.1.1 42249 1irsA 112 8.87e+01 1qqgA b.55.1.2 26991 1uurA 473 8.92e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018