# 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 2cyeA 133 4.90e-17 1njkA 156 7.18e-17 d.38.1.1 85818 1z54A 132 3.69e-16 1s5uA 138 1.63e-15 d.38.1.1 98573 2av9A 147 1.19e-13 2gf6A 135 4.20e-12 2aliA 158 5.02e-12 2essA 248 2.57e-08 1lo7A 141 6.26e-08 d.38.1.1 74144 1bvqA 141 1.56e-07 1bvqA d.38.1.1 38542 2h4uA 145 2.51e-06 1yliA 153 1.06e-03 2b3nA 159 6.31e-03 1wluA 136 1.27e-02 1j1yA 136 1.37e-02 d.38.1.5 90776 2cwzA 141 1.88e-02 1ixlA 131 2.24e-02 d.38.1.5 90717 2fs2A 151 3.94e-02 1psuA 140 4.96e-02 d.38.1.5 88285 1c8uA 285 6.02e-02 1c8uA d.38.1.3,d.38.1.3 38547,38548 1u1zA 168 6.68e-02 d.38.1.6 107602 1vpmA 169 9.13e-02 1zkiA 133 1.30e-01 1q4uA 151 1.59e-01 d.38.1.5 95828 2gvhA 288 1.84e-01 1iq6A 134 3.39e-01 d.38.1.4 76755 1adqL 213 4.20e-01 8fabA b.1.1.1,b.1.1.2 20272,21272 1vh5A 148 7.34e-01 d.38.1.5 100642 2b6eA 146 7.36e-01 2bx2L 517 1.11e+00 1nlbH 218 1.15e+00 b.1.1.1,b.1.1.2 80621,80622 1o0iA 138 1.23e+00 d.38.1.5 86532 1t82A 155 1.51e+00 d.38.1.5 106639 2bsjA 133 1.77e+00 1aohA 147 2.80e+00 1aohA b.2.2.2 22401 1n4xH 120 2.83e+00 b.1.1.1 85324 1yq2A 1024 3.14e+00 1hg4A 279 3.18e+00 1lbd a.123.1.1 19333 1fib 269 3.31e+00 3fib d.171.1.1 42456 3fib 249 3.31e+00 3fib d.171.1.1 42455 2fibA 269 3.65e+00 3fib d.171.1.1 42457 1mup 166 4.33e+00 1mup b.60.1.1 27133 1i06A 180 4.52e+00 1mup b.60.1.1 27131 1zcjA 463 4.72e+00 1rcqA 357 4.81e+00 b.49.2.2,c.1.6.1 104882,104883 1epwA 1290 5.11e+00 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1i05A 180 5.24e+00 1mup b.60.1.1 27130 1jv4A 162 5.51e+00 b.60.1.1 67343 1aohB 147 5.73e+00 1aohA b.2.2.2 22402 1qy1A 174 5.86e+00 b.60.1.1 96568 1z6bA 154 6.15e+00 1df3A 162 6.75e+00 1mup b.60.1.1 27134 1z0pA 84 6.85e+00 1yh3A 256 7.48e+00 1glqA 209 7.61e+00 1pgtA a.45.1.1,c.47.1.5 17588,32882 1zndA 174 7.98e+00 1txqA 93 8.04e+00 2ct9A 208 8.11e+00 1hcqA 84 9.05e+00 2nllB g.39.1.2 45117 1atlA 202 9.09e+00 1atlA d.92.1.9 40322 1qv9A 283 9.09e+00 c.127.1.1 96356 2aw2A 120 1.01e+01 1hcp 76 1.12e+01 2nllB g.39.1.2 45121 1wdyA 285 1.13e+01 1pp7U 131 1.17e+01 a.4.5.44 94973 1a14L 104 1.23e+01 8fabA b.1.1.1 20060 1dzkA 157 1.27e+01 1obpA b.60.1.1 27096 1a3yA 149 1.31e+01 1obpA b.60.1.1 27110 1d5bB 221 1.42e+01 8fabA b.1.1.1,b.1.1.2 20205,21221 2aieP 203 1.43e+01 1lm6A 215 1.43e+01 d.167.1.1 84628 1ne8A 117 1.46e+01 b.34.6.2 80424 1c5cH 215 1.52e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 2bi0A 337 1.54e+01 2f8lA 344 1.64e+01 2f6eA 127 1.65e+01 1av6A 289 1.67e+01 3mag c.66.1.25 34218 6paxA 133 1.67e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 3mag 307 1.69e+01 3mag c.66.1.25 34205 1fnb 314 1.70e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1xxoA 147 1.73e+01 2aq6A 147 1.73e+01 1fnd 314 1.75e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1axsB 221 1.76e+01 1mfa b.1.1.1,b.1.1.2 20201,21217 1r7jA 95 1.78e+01 a.4.5.49 104836 1vp9 322 1.78e+01 3mag c.66.1.25 34210 1a6tB 217 1.80e+01 1igtB b.1.1.1,b.1.1.2 20249,21259 1fnc 314 1.82e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1v39 322 1.86e+01 3mag c.66.1.25 34206 1bihA 395 1.88e+01 1bihA b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21752,21753,21754,21755 1jmxG 79 1.89e+01 a.137.9.1 66907 2f1lA 187 2.12e+01 1dthA 203 2.13e+01 1atlA d.92.1.9 40324 1uxd 65 2.17e+01 1uxc a.35.1.5 17118 1a6zA 275 2.17e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1khbA 625 2.20e+01 c.91.1.1,c.109.1.1 68606,68607 1w9aA 147 2.22e+01 3pgk 416 2.33e+01 16pk c.86.1.1 35451 1vpt 348 2.34e+01 3mag c.66.1.25 34207 1js8A 394 2.40e+01 a.86.1.1,b.112.1.1 67219,67220 1yasA 257 2.44e+01 1qj4A c.69.1.20 34801 2eifA 136 2.44e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1q0xH 221 2.44e+01 b.1.1.1,b.1.1.2 95517,95518 1bx1A 314 2.46e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1qj4A 257 2.55e+01 1qj4A c.69.1.20 34796 1a6wH 120 2.63e+01 1mfa b.1.1.1 20253 1gv3A 248 2.65e+01 a.2.11.1,d.44.1.1 70585,70586 1a3rH 218 2.65e+01 1igtB b.1.1.1,b.1.1.2 19781,20891 1uiuA 502 2.75e+01 c.94.1.1 99434 2f4lA 297 2.90e+01 1ugiA 84 2.92e+01 1ugiA d.17.5.1 38125 1zowA 313 2.92e+01 1cd8 114 2.97e+01 1cd8 b.1.1.1 19714 1adl 131 3.06e+01 1hmt b.60.1.2 27186 1se8A 301 3.11e+01 b.40.4.3 105448 1qg6A 261 3.12e+01 1eny c.2.1.2 29919 1hlqA 75 3.15e+01 g.35.1.1 83613 1tuoA 464 3.32e+01 2ezvA 269 3.37e+01 1p0kA 349 3.40e+01 c.1.4.1 87648 1k78A 149 3.41e+01 a.4.1.5,a.4.1.5 68255,68256 2a72A 146 3.44e+01 1p3wA 404 3.44e+01 c.67.1.3 87752 1oaqH 121 3.49e+01 b.1.1.1 92707 1mu5A 471 3.50e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1e6oH 219 3.52e+01 1igtB b.1.1.1,b.1.1.2 20495,21453 1ughI 82 3.53e+01 1ugiA d.17.5.1 38133 1b0wA 108 3.54e+01 8fabA b.1.1.1 20532 2gatA 66 3.60e+01 1gatA g.39.1.1 45102 1ib8A 164 3.60e+01 b.38.2.1,d.52.4.1 71168,71169 1w66A 232 3.65e+01 1qsgA 265 3.66e+01 1eny c.2.1.2 29935 1l6sA 323 3.68e+01 c.1.10.3 73627 2ga9A 297 3.77e+01 1ospL 214 3.79e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1i4uA 181 3.83e+01 b.60.1.1 61732 1forH 219 3.84e+01 1igtB b.1.1.1,b.1.1.2 19989,21045 1h91A 180 3.90e+01 b.60.1.1 60805 1v2dA 381 3.93e+01 c.67.1.1 108281 1udiI 83 4.03e+01 1ugiA d.17.5.1 38124 1c0aA 585 4.20e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2fug5 207 4.20e+01 1z5bA 469 4.24e+01 1ub1A 133 4.26e+01 d.10.1.3 99140 1qq2A 199 4.30e+01 1qq2A c.47.1.10 33064 3gatA 66 4.36e+01 1gatA g.39.1.1 45103 1lmhA 184 4.37e+01 d.167.1.1 74036 1g79A 218 4.39e+01 1ci0A b.45.1.1 25752 1s4kA 120 4.41e+01 a.35.1.6 105254 1a6vH 120 4.41e+01 1mfa b.1.1.1 20257 1i8jA 323 4.44e+01 1b4kA c.1.10.3 61968 1g7nA 131 4.53e+01 b.60.1.2 83274 1gatA 60 4.58e+01 1gatA g.39.1.1 45106 1l0oC 243 4.59e+01 a.4.13.2 73405 1ojrA 274 4.60e+01 c.74.1.1 93147 1k0iA 394 4.61e+01 c.3.1.2,d.16.1.2 67942,67943 1h4rA 314 4.70e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1cby 259 4.73e+01 1cby d.103.1.1 40705 2thiA 379 4.77e+01 2thiA c.94.1.1 35794 2bshA 125 4.81e+01 1lid 131 4.90e+01 1hmt b.60.1.2 27184 1f5sA 211 5.09e+01 1f5sA c.108.1.4 59656 16pk 415 5.12e+01 16pk c.86.1.1 35454 3aig 202 5.13e+01 1atlA d.92.1.9 40321 1ahc 246 5.14e+01 1mrj d.165.1.1 42184 1f1sA 814 5.24e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1lqwA 183 5.27e+01 d.167.1.1 74210 1j97A 211 5.29e+01 1f5sA c.108.1.4 62753 1ab0 131 5.31e+01 1hmt b.60.1.2 27190 1spiA 358 5.32e+01 1frpA e.7.1.1 42939 1qtnB 95 5.33e+01 1pauB 1eyeA 280 5.54e+01 1aj2 c.1.21.1 29672 1b4eA 323 5.57e+01 1b4kA c.1.10.3 29186 1c14A 262 5.60e+01 1eny c.2.1.2 29927 1qftA 175 5.65e+01 1qftA b.60.1.1 27151 1bebA 162 5.77e+01 1bebA b.60.1.1 27115 2ffjA 300 5.77e+01 1iw0A 215 5.79e+01 a.132.1.1 83720 1akjD 120 5.83e+01 1cd8 b.1.1.1 19712 1ynlH 219 5.91e+01 1zwyA 185 5.96e+01 1n0xH 230 5.99e+01 b.1.1.1,b.1.1.2 91528,91529 1g5yA 238 6.05e+01 1lbd a.123.1.1 60294 1u2hA 99 6.05e+01 1i3zA 103 6.08e+01 d.93.1.1 83667 12e8H 221 6.08e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 1pkp 150 6.13e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1toh 343 6.18e+01 4pah d.178.1.1 42573 1go4A 205 6.22e+01 d.135.1.1 70292 1ka2A 499 6.29e+01 d.92.1.5 77305 1a66A 178 6.32e+01 1a02N b.2.5.3 22441 1ftt 68 6.36e+01 2hddA a.4.1.1 15997 1zxkA 98 6.36e+01 1a8i 842 6.57e+01 1a8i c.87.1.4 35490 3thiA 371 6.62e+01 2thiA c.94.1.1 35792 1wzdA 215 6.68e+01 2bc4A 211 6.72e+01 1z2iA 358 6.82e+01 8fabA 212 6.83e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 2booA 247 6.89e+01 1a0qH 217 6.90e+01 1mfa b.1.1.1,b.1.1.2 20287,21279 1l7mA 211 7.14e+01 c.108.1.4 73664 1tv8A 340 7.18e+01 c.1.28.3 107352 1klqA 197 7.19e+01 d.135.1.1 68689 1wurA 220 7.24e+01 1fvzA 271 7.29e+01 1fvzA 1ws0A 156 7.32e+01 1mrg 263 7.32e+01 1mrj d.165.1.1 42183 1xgyH 219 7.46e+01 2f42A 179 7.52e+01 1pmt 203 7.54e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 1lmeA 176 7.56e+01 d.167.1.1 84629 1iq8A 582 7.58e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1dujA 187 7.63e+01 1dujA d.135.1.1 41449 1lm4A 194 7.64e+01 d.167.1.1 84626 2aabL 218 7.64e+01 1l8qA 324 7.69e+01 a.4.12.2,c.37.1.20 77809,77810 1ai1L 215 7.75e+01 8fabA b.1.1.1,b.1.1.2 19882,20978 1l7aA 318 7.82e+01 c.69.1.25 77772 1ymmE 249 7.84e+01 1zmyA 142 7.89e+01 1w2fA 276 8.11e+01 d.143.1.3 109125 1w1nA 33 8.17e+01 1forL 210 8.22e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1tiiC 53 8.33e+01 1tiiC 1ok8A 394 8.53e+01 b.1.18.4,f.10.1.1 93236,93237 1ef1A 294 8.57e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1b2wL 214 8.72e+01 8fabA b.1.1.1,b.1.1.2 20306,21298 1h6qA 168 8.79e+01 1h6qA b.88.1.2 60692 1avmA 201 8.85e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1ef4A 55 8.87e+01 1ef4A a.4.11.1 16272 2cwaA 263 8.92e+01 1fkmA 396 8.93e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1a14H 120 8.95e+01 1mfa b.1.1.1 20061 1u7gA 385 8.95e+01 f.44.1.1 107723 2phh 394 8.95e+01 1pbe c.3.1.2,d.16.1.2 30353,37884