# 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 1gp1A 198 1.37e-40 1gp1A c.47.1.10 33059 2f8aA 208 3.10e-40 1st9A 143 3.56e-19 c.47.1.10 98987 2f9sA 151 8.60e-19 1jfuA 186 4.38e-15 c.47.1.10 62940 1kngA 156 4.51e-12 c.47.1.10 72777 1z5yE 149 1.82e-11 1xzoA 174 8.80e-10 1lu4A 136 9.00e-09 c.47.1.10 91124 2cvbA 188 1.23e-08 2fy6A 143 1.54e-08 1zzoA 136 2.73e-08 1o6jA 150 3.08e-08 c.47.1.10 81089 1qk8A 146 5.05e-08 1ewxA c.47.1.10 33061 1ewxA 146 5.26e-08 1ewxA c.47.1.10 33062 1o8xA 146 1.09e-07 c.47.1.10 86681 1i5gA 144 1.60e-07 1ewxA c.47.1.10 61784 1xvwA 160 2.81e-07 1wmjA 130 9.33e-07 1t00A 112 1.06e-06 1fb6A 105 3.13e-06 1thx c.47.1.1 32739 1qmvA 197 3.24e-06 1qq2A c.47.1.10 33066 1dbyA 107 3.45e-06 1thx c.47.1.1 32734 2trxA 108 5.78e-06 1thx c.47.1.1 32719 1thx 115 1.64e-05 1thx c.47.1.1 32732 1kebA 108 1.90e-05 c.47.1.1 77341 2f51A 118 2.17e-05 1w4vA 119 2.29e-05 1nw2A 105 2.96e-05 c.47.1.1 92215 1erv 105 3.04e-05 1erv c.47.1.1 32743 1uvzA 119 3.14e-05 1tof 112 3.18e-05 1erv c.47.1.1 32733 1zyeA 220 3.55e-05 2b7kA 200 3.79e-05 1aiu 105 4.56e-05 1erv c.47.1.1 32746 1mdiA 105 6.67e-05 1erv c.47.1.1 32755 1nswA 105 1.35e-04 c.47.1.1 92097 1r26A 125 1.49e-04 c.47.1.1 96847 1v98A 140 3.18e-04 1faaA 124 5.18e-04 1erv c.47.1.1 32738 1qq2A 199 6.43e-04 1qq2A c.47.1.10 33064 1f9mA 112 2.38e-03 1erv c.47.1.1 32736 2a4vA 159 4.73e-03 1xvqA 175 5.03e-03 1erw 105 5.50e-03 1erv c.47.1.1 32745 1x0rA 249 3.65e-02 2b5eA 504 4.63e-02 1mek 120 6.39e-02 1erv c.47.1.2 32775 1jmeA 455 9.28e-02 a.104.1.1 66885 1psqA 163 9.53e-02 c.47.1.10 88283 1xccA 220 1.08e-01 1jbaA 204 1.36e-01 1rec a.39.1.5 17330 1hmpA 217 1.62e-01 1qk3A c.61.1.1 34075 2bmhA 455 1.65e-01 1bu7A a.104.1.1 18941 1bu7A 455 1.91e-01 1bu7A a.104.1.1 18937 1uc7A 125 2.49e-01 c.47.1.1 99163 1qxhA 167 2.74e-01 c.47.1.10 96528 1rz3A 201 2.85e-01 c.37.1.6 98132 1n8jA 186 4.55e-01 c.47.1.10 85401 1bzyA 217 4.86e-01 1qk3A c.61.1.1 34071 1gh2A 107 5.78e-01 1erv c.47.1.1 60515 1vs0A 310 6.28e-01 1z7gA 217 6.30e-01 1zhhB 242 7.12e-01 1eejA 216 7.65e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1tc5A 194 8.46e-01 c.110.1.1 106752 1y9zA 441 9.57e-01 1senA 164 1.03e+00 c.47.1.1 105465 1nfkA 325 1.17e+00 1a3qA b.1.18.1,b.2.5.3 21929,22444 1r4aA 165 1.23e+00 c.37.1.8 96986 1lh0A 213 1.40e+00 c.61.1.1 73896 1erzA 303 1.65e+00 1erzA d.160.1.2 59498 1uptA 171 1.67e+00 c.37.1.8 99767 1g3qA 237 1.74e+00 1hyqA c.37.1.10 60237 1ovqA 138 1.78e+00 c.55.3.8 93607 1v6cA 441 1.91e+00 2akrA 285 1.96e+00 1cd1A 315 2.01e+00 1cd1A b.1.1.2,d.19.1.1 21579,38155 1oroA 213 2.22e+00 1opr c.61.1.1 34093 1s0uA 408 2.28e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1e8nA 710 2.50e+00 1qfmA b.69.7.1,c.69.1.4 27675,34643 1ionA 243 2.62e+00 c.37.1.10 62633 1lj9A 144 2.84e+00 a.4.5.28 78035 1xhfA 123 2.88e+00 1gu2A 124 3.06e+00 a.3.1.1 76348 1ufoA 238 3.20e+00 c.69.1.27 99344 1qfmA 710 3.32e+00 1qfmA b.69.7.1,c.69.1.4 27673,34641 1uptC 170 3.63e+00 c.37.1.8 99769 1h2wA 710 4.04e+00 b.69.7.1,c.69.1.4 76596,76597 1rlmA 271 4.25e+00 1qf9A 194 4.38e+00 1zin c.37.1.1 31848 1dvh 79 4.45e+00 1c53 a.3.1.1 15802 1wzcA 249 4.52e+00 1h2xA 710 4.63e+00 b.69.7.1,c.69.1.4 76598,76599 1uf5A 303 4.65e+00 d.160.1.2 107808 1t5bA 201 4.81e+00 c.23.5.3 106433 1rlmB 271 5.23e+00 5ukdA 194 5.35e+00 1zin c.37.1.1 31851 1c53 79 5.43e+00 1c53 a.3.1.1 15801 1kxoA 184 5.44e+00 b.60.1.1 84475 1si7A 369 5.50e+00 d.265.1.4 98883 1xsjA 778 5.68e+00 1aod 289 5.78e+00 2plc c.1.18.2 29615 2f2hA 773 5.85e+00 1sflA 238 5.91e+00 1yzfA 195 5.95e+00 2his 312 5.98e+00 1taxA c.1.8.3 28918 2plc 274 6.22e+00 2plc c.1.18.2 29614 2ptd 298 6.30e+00 2plc c.1.18.2 29605 1szwA 379 6.32e+00 d.265.1.4 99047 1yxyA 234 6.38e+00 1kshA 186 6.45e+00 c.37.1.8 72914 1qo2A 241 6.47e+00 1qo2A c.1.2.1 28533 1opr 213 6.91e+00 1opr c.61.1.1 34091 1sfjA 238 7.22e+00 1bfs 106 7.32e+00 1a3qA b.1.18.1 21927 1ois 223 7.56e+00 1a36A e.15.1.1 43267 1l7mA 211 7.95e+00 c.108.1.4 73664 1gm6A 175 8.08e+00 b.60.1.1 70272 2eryA 172 8.25e+00 1p5fA 189 8.60e+00 c.23.16.2 94142 1xdnA 277 8.63e+00 1uacH 114 8.73e+00 b.1.1.1 99132 1nu0A 138 8.80e+00 c.55.3.8 92165 1ic7H 114 9.42e+00 1f3rB b.1.1.1 62258 1vhxA 150 9.67e+00 c.55.3.8 100712 1svcP 365 9.95e+00 1a3qA b.1.18.1,b.2.5.3 21924,22443 3ygsP 97 1.01e+01 3ygsP a.77.1.3 18435 1bvoA 175 1.10e+01 1a3qA b.2.5.3 22457 1jpzA 473 1.10e+01 a.104.1.1 67069 1im8A 244 1.12e+01 c.66.1.14 66212 1cjbA 231 1.14e+01 1qk3A c.61.1.1 34079 1ag9A 175 1.16e+01 1rcf c.23.5.1 31178 2dvh 79 1.18e+01 1c53 a.3.1.1 15803 1j97A 211 1.18e+01 1f5sA c.108.1.4 62753 1ewjA 126 1.19e+01 1ecsA d.32.1.2 59526 1ecsA 126 1.20e+01 1ecsA d.32.1.2 59407 1ss4A 153 1.22e+01 d.32.1.6 105976 1oj5A 132 1.32e+01 d.110.3.8 93087 1cw0A 155 1.34e+01 1vsrA c.52.1.15 33333 1zj6A 187 1.35e+01 1tz9A 367 1.35e+01 c.1.15.6 107466 2fcjA 119 1.39e+01 1sv0C 82 1.40e+01 a.60.1.1 106037 1w4rA 195 1.40e+01 1qwgA 251 1.48e+01 c.1.27.1 96473 1xmpA 170 1.48e+01 1dk8A 147 1.57e+01 1agrE a.91.1.1 18548 1sxrA 183 1.58e+01 d.118.1.1 106101 1k1gA 131 1.61e+01 d.51.1.1 68015 1m32A 366 1.63e+01 c.67.1.3 78508 1w0mA 226 1.63e+01 c.1.1.1 109027 1l9wA 252 1.64e+01 c.1.10.1 84570 1a8y 367 1.67e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1x71A 178 1.67e+01 1e8eA 124 1.69e+01 a.3.1.1 64795 1vlmA 219 1.70e+01 c.66.1.41 108836 1gym 298 1.73e+01 2plc c.1.18.2 29606 1o22A 170 1.76e+01 d.238.1.1 86557 1z7dA 433 1.77e+01 1q98A 165 1.78e+01 c.47.1.10 96253 2aclB 244 1.79e+01 1u7pA 164 1.83e+01 1vsrA 136 1.85e+01 1vsrA c.52.1.15 33332 1lwjA 441 1.86e+01 b.71.1.1,c.1.8.1 74303,74304 1pe0A 197 1.86e+01 c.23.16.2 88045 1eokA 290 1.87e+01 1eokA c.1.8.5 28991 1kk1A 410 1.90e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1qbgA 272 1.96e+01 1d4aA c.23.5.3 31227 1qfeA 252 1.97e+01 1qfeA c.1.10.1 29167 1wh5A 80 2.11e+01 487dL 133 2.16e+01 1mmsA i.1.1.2 45839 1z3eA 132 2.17e+01 1vjhA 122 2.20e+01 d.129.3.1 100811 2a4hA 126 2.22e+01 1j1xH 114 2.25e+01 b.1.1.1 77063 1f5sA 211 2.25e+01 1f5sA c.108.1.4 59656 1d4aA 273 2.34e+01 1d4aA c.23.5.3 31219 1gpjA 404 2.41e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1yobA 179 2.48e+01 1uwdA 103 2.49e+01 1xk4C 113 2.59e+01 1qsgA 265 2.63e+01 1eny c.2.1.2 29935 2f6uA 234 2.63e+01 1wzaA 488 2.71e+01 1zx5A 300 2.72e+01 1gqnA 252 2.73e+01 c.1.10.1 90514 1b9bA 255 2.73e+01 1amk c.1.1.1 28531 1a79A 171 2.78e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1vpdA 299 2.86e+01 1qrdA 273 2.88e+01 1d4aA c.23.5.3 31217 1egaA 301 2.88e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1ve3A 227 2.90e+01 1yal 218 2.91e+01 1cs8A d.3.1.1 37025 1x89A 178 2.98e+01 1vj0A 380 2.98e+01 b.35.1.2,c.2.1.1 100786,100787 2fpnA 216 3.03e+01 1e3sA 261 3.07e+01 1e6wA c.2.1.2 59201 1a8l 226 3.08e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1spxA 278 3.10e+01 c.2.1.2 98958 1edg 380 3.17e+01 1edg c.1.8.3 28807 1e4fT 419 3.17e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1c14A 262 3.22e+01 1eny c.2.1.2 29927 1qysA 106 3.23e+01 k.41.1.1 96603 1t6cA 315 3.27e+01 c.55.1.8,c.55.1.8 106558,106559 1bjx 110 3.27e+01 1bjx c.47.1.2 32774 2bjxA 110 3.27e+01 1bjx c.47.1.2 32776 1txdA 385 3.27e+01 a.87.1.1,b.55.1.1 107422,107423 1zcoA 262 3.27e+01 1u11A 182 3.33e+01 c.23.8.1 107576 1z5lA 285 3.35e+01 1y0zA 330 3.42e+01 1hj9A 226 3.46e+01 b.47.1.2 65845 1j08A 226 3.52e+01 c.47.1.2,c.47.1.2 83855,83856 2fox 138 3.52e+01 5nul c.23.5.1 31197 1dmaA 214 3.59e+01 1aerA d.166.1.1 42251 1rj9A 304 3.59e+01 a.24.13.1,c.37.1.10 97553,97554 1yx1A 264 3.64e+01 1wdjA 187 3.75e+01 1qk3A 233 3.81e+01 1qk3A c.61.1.1 34031 1iq3A 110 3.81e+01 1iq3A a.39.1.6 62640 1h4lD 147 3.83e+01 a.74.1.1 70873 1hzmA 154 3.84e+01 c.46.1.1 65975 1ltqA 301 3.86e+01 c.108.1.9,c.37.1.1 78208,78209 1wcqA 601 3.87e+01 1txuA 273 3.90e+01 a.222.1.1 107439 2fqxA 318 3.94e+01 1vq0A 302 3.98e+01 1y60A 169 3.99e+01 1qg6A 261 4.05e+01 1eny c.2.1.2 29919 1tikA 213 4.11e+01 c.23.5.3 107003 1n9lA 109 4.11e+01 d.110.3.6 85468 1eqkA 102 4.15e+01 1eqkA d.17.1.2 37998 1mmsA 140 4.16e+01 1mmsA a.4.7.1,d.47.1.1 16247,38766 1euu 605 4.18e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1zhvA 134 4.27e+01 1vjgA 218 4.30e+01 c.23.10.6 100810 1cvsC 225 4.34e+01 1cvsC b.1.1.4,b.1.1.4 21726,21727 1w8oA 601 4.35e+01 2gnpA 266 4.36e+01 1a76 326 4.37e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1b37A 472 4.39e+01 1b37B c.3.1.2,d.16.1.5 30389,37953 1aba 87 4.39e+01 1aba c.47.1.1 32760 1bu5A 147 4.47e+01 5nul c.23.5.1 31155 2fsp 124 4.49e+01 1dz3A c.23.1.1 31119 1jud 232 4.57e+01 1qq5A c.108.1.1 43325 1p9aG 290 4.58e+01 c.10.2.7 87990 1fkoB 440 4.61e+01 1rthA e.8.1.2 43095 1ek0A 170 4.62e+01 1ctqA c.37.1.8 32076 1f4pA 147 4.67e+01 5nul c.23.5.1 59651 1eur 365 4.69e+01 1eut b.68.1.1 27607 1dbrA 231 4.73e+01 1qk3A c.61.1.1 34041 1eut 605 4.76e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1vkwA 218 4.81e+01 d.90.1.2 108695 1o6zA 303 4.82e+01 c.2.1.5,d.162.1.1 81107,81108 2aa4A 289 4.84e+01 1vdmA 153 4.84e+01 1yc7A 124 4.86e+01 1f6bA 198 4.86e+01 c.37.1.8 64986 1i3zA 103 4.89e+01 d.93.1.1 83667 1ppo 216 4.93e+01 1cs8A d.3.1.1 37020 2fx2 147 5.06e+01 1rcf c.23.5.1 31158 1enfA 212 5.07e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1h80A 464 5.12e+01 b.80.1.8 65714 2cokA 113 5.15e+01 1bax 94 5.16e+01 1bax a.61.1.3 18133 1fzqA 181 5.18e+01 1hurA c.37.1.8 32060 1lba 146 5.20e+01 1lba d.118.1.1 41062 1wy7A 207 5.21e+01 2bmeA 186 5.21e+01 1aotF 106 5.23e+01 1lckA d.93.1.1 40458 2f7fA 494 5.30e+01 1tp9A 162 5.32e+01 1b5qA 472 5.33e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 8rucI 123 5.36e+01 1rboC d.73.1.1 39629 1vkdA 338 5.41e+01 b.67.2.4 108644 1wwtA 88 5.43e+01 1h6hA 143 5.47e+01 d.189.1.1 65681 1fh9A 312 5.48e+01 1taxA c.1.8.3 28913 2gd1O 334 5.49e+01 1dssG c.2.1.3,d.81.1.1 29978,39893 1tjyA 316 5.53e+01 c.93.1.1 107062 1srrA 124 5.56e+01 1dz3A c.23.1.1 31110 1c1bB 440 5.59e+01 1rthA e.8.1.2 43077 1zmtA 254 5.60e+01 1ltm 320 5.60e+01 1ltm d.2.1.6 36992 1rboC 123 5.61e+01 1rboC d.73.1.1 39634 1v7pC 200 5.67e+01 c.62.1.1 108408 1lnzA 342 5.69e+01 b.117.1.1,c.37.1.8 78112,78113 1kbqA 273 5.71e+01 c.23.5.3 68391 1dloB 427 5.81e+01 1rthA e.8.1.2 43041 1b0nA 111 5.83e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1b37B 472 5.99e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 2f2lX 167 6.01e+01 1ur1A 378 6.06e+01 c.1.8.3 99804 1akr 147 6.09e+01 1rcf c.23.5.1 31152 2cybA 323 6.12e+01 2b81A 323 6.17e+01 1xx6A 191 6.21e+01 1xbtA 193 6.25e+01 1xewX 182 6.26e+01 1jflA 228 6.31e+01 c.78.2.1,c.78.2.1 71656,71657 1lm8V 160 6.36e+01 b.3.3.1 74035 1nnlA 225 6.38e+01 c.108.1.4 85906 1srvA 145 6.38e+01 1derA c.8.5.1 30817 1aerA 205 6.43e+01 1aerA d.166.1.1 42249 1zrn 232 6.46e+01 1qq5A c.108.1.1 43323 2g6bA 180 6.48e+01 1x52A 124 6.54e+01 1bqnB 430 6.54e+01 1rthA e.8.1.2 43065 1qqsA 174 6.59e+01 1nglA b.60.1.1 27143 1qusA 322 6.66e+01 1ltm d.2.1.6 36991 1gp0A 143 6.67e+01 b.64.1.1 70300 1wcdJ 441 6.72e+01 1udxA 416 6.93e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1gd1O 334 7.06e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1eetB 427 7.07e+01 1rthA e.8.1.2 43079 2gjsA 176 7.08e+01 1tqmA 282 7.10e+01 a.4.5.56,d.144.1.9 107236,107237 1xwtA 405 7.12e+01 821p 166 7.13e+01 1ctqA c.37.1.8 31969 1nglA 179 7.17e+01 1nglA b.60.1.1 27146 1aerB 195 7.19e+01 1aerA d.166.1.1 42250 1vjrA 271 7.20e+01 c.108.1.14 100832 1vcdA 126 7.25e+01 1usuA 260 7.25e+01 d.14.1.8 99885 1b9mA 265 7.30e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1azl 147 7.41e+01 5nul c.23.5.1 31154 1aroL 151 7.55e+01 1lba d.118.1.1 41063 1jpnA 296 7.55e+01 a.24.13.1,c.37.1.10 67039,67040 1xf1A 926 7.58e+01 1a23 189 7.59e+01 1fvkA c.47.1.13 90319 1eqnA 321 7.60e+01 1dd9A e.13.1.1 43256 1oivA 191 7.65e+01 c.37.1.8 93076 1xw2A 405 7.66e+01 2aumA 317 7.68e+01 1mwpA 96 7.73e+01 1mwpA d.170.2.1 42453 2evwX 166 7.77e+01 1gh6A 114 7.78e+01 a.2.3.1 65191 1ghr 306 7.80e+01 1aq0A c.1.8.3 28844 1lqbC 162 7.84e+01 b.3.3.1 74186 1tbbA 332 7.88e+01 a.211.1.2 106741 1xc3A 302 7.94e+01 1v2xA 194 8.03e+01 c.116.1.1 100274 1zrsA 317 8.04e+01 1mwmA 320 8.04e+01 c.55.1.1,c.55.1.1 79580,79581 1m2xA 223 8.12e+01 d.157.1.1 84764 1jpmA 366 8.14e+01 c.1.11.2,d.54.1.1 67031,67032 1up7A 417 8.24e+01 1h4pA 408 8.26e+01 c.1.8.3 90617 1tx4A 198 8.37e+01 1tx4A a.116.1.1 19098 1ac1A 189 8.37e+01 1fvkA c.47.1.13 90326 1grvB 182 8.37e+01 c.61.1.1 76322 1bap 306 8.47e+01 8abp c.93.1.1 35654 1adr 76 8.48e+01 1r69 a.35.1.2 17042 1xszA 356 8.48e+01 1mb3A 124 8.50e+01 c.23.1.1 78907 2ci9A 102 8.55e+01 2ar9A 278 8.57e+01 1fhdA 312 8.59e+01 1taxA c.1.8.3 28915 1up6A 416 8.64e+01 c.2.1.5,d.162.1.2 107976,107977 1xorA 349 8.67e+01 1ffh 294 8.71e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1m5wA 243 8.74e+01 c.1.24.1 84836 1emy 153 8.76e+01 1a6m a.1.1.2 15204 2b9wA 424 8.77e+01 1oixA 191 8.85e+01 1d5mC 239 8.85e+01 3seb b.40.2.2,d.15.6.1 25185,37774 1wddS 128 8.89e+01 1akt 147 8.93e+01 5nul c.23.5.1 31157