# List of top-scoring protein chains for t2k-100-30-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 1y4jA 284 4.88e-01 1qapA 296 9.72e-01 1qpoA c.1.17.1,d.41.2.1 29559,38595 1z5nA 242 1.16e+00 2g8lA 299 1.39e+00 1z5oA 242 1.48e+00 1jysA 242 2.39e+00 c.56.2.1 77216 1fyvA 161 2.50e+00 1fyvA c.23.2.1 31127 1oz9A 150 3.08e+00 d.92.1.15 93808 1whuA 104 3.58e+00 2bfxA 284 5.23e+00 1prxA 224 5.37e+00 1prxA c.47.1.10 33076 1rj9A 304 6.16e+00 a.24.13.1,c.37.1.10 97553,97554 1i21A 159 6.75e+00 1i21A d.108.1.1 61549 1atg 231 6.95e+00 1atg c.94.1.1 35834 1yw3A 208 8.14e+00 1s0uA 408 8.73e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1xccA 220 9.00e+00 1bed 181 9.21e+00 1fvkA c.47.1.13 90330 1wkcA 184 9.26e+00 1xg9A 260 9.50e+00 1prxB 224 9.64e+00 1prxA c.47.1.10 33077 2a4nA 182 9.74e+00 1mb3A 124 9.77e+00 c.23.1.1 78907 1m5tA 124 9.79e+00 c.23.1.1 78660 2ran 316 9.80e+00 1avc a.65.1.1 18170 1zghA 260 1.00e+01 1bc1 319 1.01e+01 1avc a.65.1.1 18173 1sheA 103 1.07e+01 d.274.1.1 105551 1a8b 318 1.09e+01 1avc a.65.1.1 18171 1iwmA 186 1.10e+01 b.125.1.2 83758 1bc3 319 1.10e+01 1avc a.65.1.1 18175 1b87A 181 1.18e+01 1b87A d.108.1.1 40797 1bc0 319 1.20e+01 1avc a.65.1.1 18174 1i12A 160 1.22e+01 1i21A d.108.1.1 61515 1cb1 78 1.24e+01 4icb a.39.1.1 17156 1ctf 74 1.32e+01 1ctf d.45.1.1 38759 1kcfA 258 1.34e+01 a.140.2.1,c.55.3.7 68434,68435 1gz2A 142 1.44e+01 d.169.1.1 83392 1n71A 180 1.45e+01 d.108.1.1 85370 1zn6A 227 1.54e+01 1a8a 318 1.56e+01 1avc a.65.1.1 18169 2audA 257 1.59e+01 1vyiA 112 1.62e+01 1i1sA 96 1.63e+01 1bjaA a.4.5.9 16124 1dusA 194 1.75e+01 1dusA c.66.1.4 34182 1cojA 212 1.76e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1nx8A 273 1.82e+01 b.82.2.8 86374 1l6rA 227 1.84e+01 c.108.1.10 77768 1vcbC 160 1.88e+01 1vcbC b.3.3.1 22535 1v72A 356 1.90e+01 1qpoA 284 1.95e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1eqkA 102 1.99e+01 1eqkA d.17.1.2 37998 1d2eA 397 2.01e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1xhfA 123 2.07e+01 1b7yB 785 2.09e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1bjaA 95 2.15e+01 1bjaA a.4.5.9 16122 1ab6A 125 2.25e+01 3chy c.23.1.1 31054 1s96A 219 2.32e+01 c.37.1.1 98740 1fokA 568 2.36e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 1uj6A 227 2.40e+01 c.124.1.4,d.58.40.1 107898,107899 1o0yA 260 2.40e+01 c.1.10.1 80756 1lqbC 162 2.46e+01 b.3.3.1 74186 1i1dA 161 2.57e+01 1i21A d.108.1.1 61526 1sdoA 203 2.70e+01 c.52.1.21 98809 1i7fA 292 2.71e+01 1i7fA d.193.1.1 61888 2fokA 579 2.71e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1vjrA 271 2.71e+01 c.108.1.14 100832 1mx3A 347 2.74e+01 c.2.1.4,c.23.12.1 79638,79639 1jfkA 134 2.80e+01 a.39.1.5 66639 1z1zA 131 2.83e+01 1ub3A 220 2.87e+01 c.1.10.1 88395 1xzoA 174 3.00e+01 1kypA 237 3.03e+01 d.22.1.1 73280 1e5kA 201 3.05e+01 1fr9A c.68.1.8 34578 1nijA 318 3.05e+01 c.37.1.10,d.237.1.1 85741,85742 1g5cA 170 3.26e+01 1g5cA c.53.2.1 60264 1w36B 1180 3.30e+01 1cfpA 92 3.31e+01 1b4cA a.39.1.2 17172 1f35A 162 3.38e+01 1f35A b.94.1.1 59628 1d3hA 367 3.38e+01 1d3gA c.1.4.1 28601 1uwoA 92 3.41e+01 4icb a.39.1.2 17174 2d13A 227 3.44e+01 1m46A 148 3.45e+01 a.39.1.5 78599 1avhA 320 3.47e+01 1avc a.65.1.1 18159 1vmbA 140 3.48e+01 1fr9A 194 3.50e+01 1fr9A c.68.1.8 34579 1aw0 72 3.54e+01 1aw0 d.58.17.1 39342 1jobA 162 3.55e+01 1f35A b.94.1.1 63207 1lm8V 160 3.61e+01 b.3.3.1 74035 1aoeA 192 3.61e+01 1aoeA c.71.1.1 34923 1toaA 313 3.64e+01 1toaA c.92.2.2 35598 1cqxA 403 3.65e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1i0hA 205 3.70e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1n5nA 180 3.74e+01 d.167.1.1 85336 1tzvA 142 3.75e+01 a.79.1.1 107526 1nz0A 118 3.77e+01 d.14.1.2 86433 1hw7A 255 3.81e+01 1i7fA d.193.1.1 61297 1wb9A 800 3.87e+01 1hh1A 143 3.89e+01 1gefA c.52.1.18 61036 2an9A 207 3.90e+01 1mkkA 96 3.91e+01 g.17.1.1 79240 1k68A 140 3.93e+01 c.23.1.1 90943 1zzmA 259 4.00e+01 1pd21 199 4.06e+01 1pd21 1d6tA 117 4.07e+01 1a6f d.14.1.2 37565 1vr4A 103 4.07e+01 1a05A 358 4.18e+01 1cnzA c.77.1.1 35059 1gh8A 89 4.18e+01 1gh8A d.58.12.1 39309 1kanA 253 4.25e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 1exnB 290 4.26e+01 1exnA a.60.7.1,c.120.1.2 18089,33359 1hvd 319 4.28e+01 1avc a.65.1.1 18154 1wj9A 211 4.34e+01 1e6mA 128 4.35e+01 3chy c.23.1.1 31039 2abk 211 4.36e+01 2abk a.96.1.1 18743 1d3gA 367 4.36e+01 1d3gA c.1.4.1 28600 1b1a 137 4.40e+01 1be1 c.23.6.1 31242 1delA 241 4.43e+01 1dekA c.37.1.1 31844 1im4A 221 4.44e+01 e.8.1.7 62581 2freA 200 4.48e+01 1dqzA 280 4.51e+01 1dqyA c.69.1.3 34638 2b0mA 393 4.56e+01 1aipA 405 4.62e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 3chy 128 4.63e+01 3chy c.23.1.1 31038 1anxA 319 4.69e+01 1avc a.65.1.1 18161 1e3mA 800 4.75e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1ix9A 205 4.88e+01 a.2.11.1,d.44.1.1 76899,76900 1pysB 785 4.99e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16299,16300,25311,39310,40779,41455 1qpaA 345 5.00e+01 1arv a.93.1.1 18585 1aipE 405 5.06e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1zk7A 467 5.11e+01 1dqyA 283 5.16e+01 1dqyA c.69.1.3 34640 1bio 228 5.24e+01 5ptp b.47.1.2 26314 1gxjA 186 5.30e+01 d.215.1.1 70707 1ut8A 291 5.30e+01 a.60.7.1,c.120.1.2 99908,99909 1fb6A 105 5.35e+01 1thx c.47.1.1 32739 1khyA 148 5.61e+01 a.174.1.1 77410 1z92B 219 5.61e+01 2aalA 131 5.63e+01 5nul 138 5.67e+01 5nul c.23.5.1 31191 1ob8A 135 5.74e+01 1v7zA 260 5.75e+01 c.125.1.1 100488 1vppV 102 5.76e+01 1vpfA g.17.1.1 44753 1x6mA 196 5.78e+01 1eiyB 785 5.80e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16305,16306,25314,39313,40782,41458 1vlmA 219 5.87e+01 c.66.1.41 108836 1v4pA 157 5.96e+01 1k6zA 141 6.04e+01 d.198.1.1 68247 1vpfA 102 6.11e+01 1vpfA g.17.1.1 44767 2f3yA 148 6.15e+01 1cqwA 295 6.16e+01 1b6g c.69.1.8 34679 1ccwA 137 6.28e+01 1be1 c.23.6.1 31238 1dekA 241 6.32e+01 1dekA c.37.1.1 31842 1ywfA 296 6.34e+01 1jbeA 128 6.36e+01 3chy c.23.1.1 62845 2fvx 138 6.37e+01 5nul c.23.5.1 31200 1mek 120 6.39e+01 1erv c.47.1.2 32775 1n3kA 130 6.46e+01 a.77.1.4 79965 2cw6A 298 6.77e+01 1je5A 206 6.80e+01 1je5A b.40.4.7 62909 2aqlA 173 6.86e+01 1i2aA 219 6.87e+01 e.24.1.1 90660 1fdr 248 6.96e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1s6lA 212 6.98e+01 1v7oA 165 6.98e+01 d.67.1.2 100480 1ru8A 232 7.01e+01 c.26.2.1 97849 1wiwA 290 7.09e+01 1z8fA 228 7.16e+01 1j9aA 184 7.18e+01 c.55.3.5 84135 1s4qA 228 7.32e+01 c.37.1.1 98507 3nll 138 7.40e+01 5nul c.23.5.1 31206 2fox 138 7.46e+01 5nul c.23.5.1 31197 1b7eA 420 7.64e+01 1b7eA c.55.3.4 33680 1ea3A 164 7.69e+01 1aa7A a.95.1.1 59398 1g3p 217 7.78e+01 1g3p b.37.1.1,b.37.1.1 24788,24789 1kc6A 257 7.79e+01 c.52.1.19 68419 1qv9A 283 7.85e+01 c.127.1.1 96356 1x8mA 288 7.89e+01 b.82.1.13 109516 1puiA 210 8.04e+01 c.37.1.8 88292 1jy5A 212 8.10e+01 d.124.1.1 71940 1t56A 216 8.12e+01 a.4.1.9,a.121.1.1 106428,106429 1oghA 204 8.13e+01 b.85.4.1 86994 1jsrA 327 8.20e+01 c.88.1.1 67237 1jslA 327 8.23e+01 c.88.1.1 67233 1v60A 123 8.36e+01 1nm2A 317 8.40e+01 c.19.1.1,d.58.23.1 80654,80655 1wzaA 488 8.54e+01 1exnA 290 8.59e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1u9iA 519 8.65e+01 1pkhA 204 8.80e+01 b.85.4.1 94832 1jyaA 130 8.87e+01 d.198.1.1 67453 1aa7A 158 8.92e+01 1aa7A a.95.1.1 18741 1o7jA 327 8.95e+01 c.88.1.1 81140 1lk3A 160 8.99e+01 a.26.1.3 73950