# List of top-scoring protein chains for t04-100-30-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.soe.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 1hw5A 210 8.19e-30 2cgpA a.4.5.4,b.82.3.2 16098,28137 1i6xA 209 1.86e-29 a.4.5.4,b.82.3.2 83673,83674 2pqqA 149 7.76e-26 2gauA 232 4.14e-25 a.4.5.4,b.82.3.2 134894,134895 2fmyA 220 7.27e-23 2z69A 154 7.02e-20 1vp6A 138 4.59e-19 b.82.3.2 113939 2h6bA 250 4.75e-19 1zybA 232 6.77e-19 a.4.5.4,b.82.3.2 125815,125816 1o5lA 213 4.31e-18 b.82.3.2 92506 2cohA 202 8.91e-18 a.4.5.4,b.82.3.2 130677,130678 2zcwA 202 8.91e-18 3bpzA 202 4.13e-17 1q3eA 207 6.87e-17 b.82.3.2 95669 1ne6A 283 3.22e-16 b.82.3.2,b.82.3.2 91831,91832 1u7eB 154 3.82e-16 1rl3A 288 4.36e-16 b.82.3.2,b.82.3.2 104975,104976 1cx4A 305 2.51e-15 b.82.3.2,b.82.3.2 59099,59100 2ptmA 198 1.33e-14 1o7fA 469 8.85e-14 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1omiA 248 5.40e-10 b.82.3.3,a.4.5.4 87079,87080 2bgcA 238 1.04e-08 a.4.5.4,b.82.3.3 128458,128459 2d93A 134 2.50e-07 1j58A 385 9.61e-03 b.82.1.2 71531 2phlA 397 2.57e-02 1dgwA b.82.1.2,b.82.1.2 28082,28083 1cjgA 62 4.39e-02 1pru a.35.1.5 17112 2h09A 155 6.23e-02 1mgtA 174 6.65e-02 1mgtA a.4.2.1,c.55.7.1 16078,33753 2dg7A 195 6.74e-02 1ku3A 73 1.07e-01 a.4.13.2 73000 1s4bP 674 1.37e-01 d.92.1.5 105252 2o36A 674 1.37e-01 2bjcA 62 1.38e-01 a.35.1.5 128620 1yhfA 115 1.72e-01 b.82.1.9 123176 2g7uA 257 3.42e-01 2ao9A 155 4.94e-01 a.4.1.17 127069 1qbjA 81 5.32e-01 1qbjA a.4.5.19 16155 1vj2A 126 5.60e-01 b.82.1.10 100796 1wpkA 146 6.33e-01 2dbbA 151 6.70e-01 2rn7A 108 7.24e-01 3ctaA 230 7.42e-01 2pnwA 380 8.90e-01 1u8bA 133 1.04e+00 3c0dA 119 1.08e+00 2d1hA 109 1.12e+00 a.4.5.50 131125 2opkA 112 1.18e+00 1h6zA 913 1.28e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 2qjvA 270 1.31e+00 1nykA 165 1.42e+00 b.33.1.1 86408 1yioA 208 1.55e+00 a.4.6.2,c.23.1.1 123326,123327 1zgwA 139 1.64e+00 1rp3A 239 1.88e+00 a.4.13.1,a.4.13.2,a.177.1.1 97678,97679,97680 1wloA 136 1.99e+00 2g7gA 213 2.06e+00 a.4.1.9,a.121.1.1 134732,134733 1hlvA 131 2.85e+00 a.4.1.7,a.4.1.7 65854,65855 1s7oA 113 2.97e+00 a.4.13.3 105354 1dd9A 338 3.13e+00 1dd9A e.13.1.1 43254 2dznB 82 3.17e+00 2o57A 297 3.22e+00 2o3fA 111 3.37e+00 3bboO 135 3.41e+00 1utxA 66 3.84e+00 a.35.1.3 108034 2fbhA 146 4.49e+00 a.4.5.28 133245 3bruA 222 4.50e+00 1sfxA 109 4.96e+00 a.4.5.50 105505 1aisA 182 5.36e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1h8eH 146 5.58e+00 1e79H b.93.1.1 60757 2b5aA 77 5.78e+00 a.35.1.3 127882 1q2hA 69 6.30e+00 a.34.4.1 104498 1eijA 80 6.39e+00 1eijA a.5.6.1 16298 2fupA 168 6.52e+00 a.47.5.1 134184 1wlpB 138 6.65e+00 b.34.2.1 121010 1fipA 98 7.06e+00 1fipA a.4.1.12 18980 1lvaA 258 7.19e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1b72B 87 7.20e+00 1akhA a.4.1.1 16001 2q30A 110 7.30e+00 1pufB 73 7.47e+00 a.4.1.1 95132 2bnmA 198 7.63e+00 a.35.1.3,b.82.1.10 128835,128836 1s2dA 167 7.70e+00 c.23.14.1 98377 2aalA 131 8.28e+00 d.80.1.6 126483 1tuwA 109 8.47e+00 d.58.4.8 107346 2jt1A 77 8.65e+00 1l5jA 865 9.47e+00 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1yb2A 275 9.47e+00 c.66.1.13 122868 1px5A 349 9.69e+00 a.160.1.2,d.218.1.6 95277,95278 1jnmA 62 1.12e+01 h.1.3.1 84181 2ddhA 661 1.15e+01 a.29.3.2,a.29.3.2,e.6.1.2 131394,131395,131396 2j59M 168 1.17e+01 1qc7A 101 1.19e+01 1qc7A a.118.14.1 18456 1hq1A 105 1.19e+01 1dulA a.36.1.1 17120 1r77A 103 1.25e+01 2px6A 316 1.26e+01 2ozjA 114 1.32e+01 2jn6A 97 1.35e+01 1j5yA 187 1.36e+01 a.4.5.1,d.94.2.1 71592,71593 1ic8A 194 1.38e+01 a.4.1.1,a.35.1.1 76740,76741 1yqyA 523 1.39e+01 d.92.1.14,d.166.1.1 123903,123904 1q1hA 110 1.40e+01 a.4.5.41 95580 1b8iB 63 1.42e+01 1akhA a.4.1.1 16011 2egvA 229 1.43e+01 1s6lA 212 1.52e+01 1od5A 492 1.55e+01 b.82.1.2,b.82.1.2 86832,86833 1o5uA 101 1.59e+01 b.82.1.8 92518 1umqA 81 1.62e+01 a.4.1.12 99625 2of7A 260 1.64e+01 1smtA 122 1.65e+01 1smtA a.4.5.5 16109 2i7pA 362 1.71e+01 1r1tA 122 1.73e+01 a.4.5.5 104769 3deuA 166 1.77e+01 1ew0A 130 1.79e+01 1drmA d.110.3.2 40905 1lrzA 426 1.84e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1mun 225 1.85e+01 1mun 1munA 225 1.85e+01 a.96.1.2 18744 1a02J 56 1.88e+01 1a02J h.1.3.1 45537 1wmiB 67 1.90e+01 a.137.13.1 121046 2r2iA 198 1.90e+01 2qibA 231 1.94e+01 1jkoC 52 1.95e+01 a.4.1.2 66809 1x52A 124 2.03e+01 1ybeA 449 2.13e+01 c.1.17.2,d.41.2.2 116605,116606 1m0dA 138 2.14e+01 c.52.1.17 74354 1ornA 226 2.19e+01 a.96.1.1 87342 3cewA 125 2.19e+01 1ckaA 57 2.24e+01 1ckaA b.34.2.1 24459 1fmjA 351 2.25e+01 c.37.1.5 59879 1qf5A 431 2.25e+01 1adeA c.37.1.10 32212 2auwA 170 2.26e+01 a.35.1.10,d.331.1.1 127339,127340 2v95A 371 2.26e+01 1topA 162 2.35e+01 a.39.1.5 17223 1hg7A 66 2.39e+01 1msi b.85.1.1 28280 1ujnA 348 2.43e+01 e.22.1.1 99460 1vj0A 380 2.44e+01 b.35.1.2,c.2.1.1 100786,100787 2inpL 89 2.44e+01 3bpoA 127 2.47e+01 3czxA 182 2.47e+01 2d5fA 493 2.48e+01 1hcrA 52 2.49e+01 1hcrA a.4.1.2 16020 1uhnA 189 2.50e+01 a.39.1.5 99399 1b3tA 147 2.59e+01 1b3tA d.58.8.1 39228 2rl8A 154 2.64e+01 2opiA 212 2.65e+01 2a6aA 218 2.65e+01 c.55.1.9,c.55.1.9 126231,126232 2bl5A 140 2.67e+01 d.51.1.1 128728 1ema 236 2.67e+01 1ema 3c3yA 237 2.70e+01 2gqqA 163 2.73e+01 3crjA 199 2.77e+01 2kinA 238 2.79e+01 1bg2 c.37.1.9 32190 1yhlA 362 2.81e+01 2opoA 86 2.83e+01 a.39.1.10 139209 1iktA 120 2.89e+01 d.106.1.1 66188 1cy5A 97 2.90e+01 1cy5A a.77.1.3 18430 2ia2A 265 2.93e+01 2v0oA 276 3.07e+01 2nnwA 376 3.13e+01 2ojqA 348 3.20e+01 1l7dA 384 3.21e+01 c.2.1.4,c.23.12.2 77774,77775 2ct9A 208 3.22e+01 1kypA 237 3.26e+01 d.22.1.1 73280 1pp7U 131 3.27e+01 a.4.5.44 94973 2qg1A 92 3.27e+01 2d4gA 171 3.31e+01 2h2wA 312 3.31e+01 1y71A 130 3.32e+01 b.34.16.1 122677 2couA 109 3.36e+01 2e8oA 103 3.37e+01 2amyA 246 3.40e+01 c.108.1.10 127026 2hi4A 495 3.40e+01 1xexB 172 3.41e+01 3nul 130 3.41e+01 3nul 3nulA 130 3.41e+01 d.110.1.1 40891 1l1eA 287 3.44e+01 c.66.1.18 73454 2v7pA 310 3.53e+01 1u2wA 122 3.55e+01 a.4.5.5 119487 3bgvA 313 3.60e+01 1ucsA 64 3.65e+01 b.85.1.1 88466 1ov3A 138 3.74e+01 b.34.2.1,b.34.2.1 87451,87452 2ve7C 250 3.74e+01 1vqzA 341 3.74e+01 d.224.1.3,d.104.1.3 120426,120427 1e79H 146 3.80e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1dgwA 178 3.81e+01 1dgwA b.82.1.2 28090 2rasA 212 3.82e+01 2v5iA 559 3.83e+01 2pijA 67 3.84e+01 2f8lA 344 3.84e+01 c.66.1.45 133132 1w9sA 142 3.91e+01 b.18.1.10 114416 1v88A 130 3.93e+01 b.55.1.1 108423 1eu3A 210 3.96e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1t56A 216 3.98e+01 a.4.1.9,a.121.1.1 106428,106429 2v9vA 135 4.02e+01 2d4pA 141 4.04e+01 2b0lA 102 4.05e+01 a.4.5.66 127641 2vi7A 177 4.05e+01 2nyxA 168 4.08e+01 2raeA 207 4.10e+01 1kpgA 287 4.13e+01 c.66.1.18 68735 1xe7A 203 4.20e+01 b.82.1.16 115213 1resA 43 4.27e+01 a.4.1.2 16023 1z3eA 132 4.30e+01 c.47.1.12 124400 2p11A 231 4.30e+01 3bcgA 215 4.33e+01 2fueA 262 4.37e+01 c.108.1.10 134119 1m6pA 152 4.40e+01 1m6pA b.64.1.1 27519 1wy2A 351 4.45e+01 1qo7A 394 4.46e+01 1qo7A c.69.1.11 34697 2o3oA 254 4.48e+01 3biqA 467 4.51e+01 2vh1A 220 4.51e+01 2ov8A 288 4.51e+01 2bl8A 103 4.59e+01 1guxB 152 4.59e+01 1guxB a.74.1.3 18389 2ew0A 192 4.60e+01 d.310.1.1 132445 1j7xA 302 4.64e+01 c.14.1.2 66425 1e0tA 470 4.70e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1a49A 530 4.74e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1junA 44 4.81e+01 1junA h.1.3.1 45540 2d8rA 99 4.85e+01 2rekA 199 4.96e+01 1zzpA 130 4.96e+01 1jalA 363 4.98e+01 c.37.1.8,d.15.10.2 84138,84139 2o7tA 199 4.98e+01 2qj8A 332 4.99e+01 1nls 237 5.00e+01 1nls 1oflA 481 5.11e+01 b.80.1.4 103934 2au7A 175 5.14e+01 2oexA 351 5.16e+01 3d2fA 675 5.17e+01 2p0pA 126 5.19e+01 2uu8A 237 5.24e+01 2qmcA 377 5.28e+01 3dfuA 232 5.28e+01 1yudA 170 5.30e+01 b.82.1.16 124046 2oerA 214 5.31e+01 1ledA 243 5.33e+01 b.29.1.1 24039 2f4iA 197 5.33e+01 b.40.11.1 132923 1aqb 183 5.38e+01 1aqb 1vz0A 230 5.41e+01 a.4.14.1,d.268.1.1 108929,108930 2o8xA 70 5.42e+01 1f3aA 222 5.44e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1ig0A 319 5.46e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 2ptrA 462 5.54e+01 1z23A 163 5.54e+01 1g8iA 190 5.54e+01 1rec a.39.1.5 60363 2pblA 262 5.60e+01 2nqoA 376 5.69e+01 d.153.1.6 138473 2oyzA 94 5.79e+01 1apyA 162 5.81e+01 1apyA d.153.1.5 42004 2cr4A 126 5.86e+01 3bqwA 351 5.90e+01 2gh1A 301 5.90e+01 c.66.1.49 135170 3b98A 475 5.93e+01 1lis 136 5.97e+01 1lis 2di4A 238 5.99e+01 a.269.1.1 131522 1ng2A 193 6.02e+01 b.34.2.1,b.34.2.1 85660,85661 2ja9A 175 6.05e+01 2vsmA 416 6.11e+01 1znpA 154 6.13e+01 b.82.1.16 125394 1gxrA 337 6.13e+01 b.69.4.1 70722 1ka1A 357 6.14e+01 e.7.1.1 68369 2db2A 119 6.15e+01 3cloA 258 6.17e+01 3ckdA 312 6.18e+01 2giaB 187 6.19e+01 d.18.1.4 135222 2a6cA 83 6.20e+01 a.35.1.13 126236 1lci 550 6.25e+01 1lci 1xsvA 113 6.28e+01 a.4.13.3 116003 1jy2P 48 6.32e+01 h.1.8.1 67442 1ppjD 241 6.32e+01 a.3.1.3,f.23.11.1 104258,104259 2hlrA 100 6.33e+01 1eupA 403 6.35e+01 1rom a.104.1.1 18967 2dpoA 319 6.40e+01 2hu5A 582 6.41e+01 b.69.7.2,c.69.1.33 136763,136764 1j7jA 178 6.50e+01 c.61.1.1 84131 2np5A 203 6.54e+01 a.4.1.9,a.121.1.1 138424,138425 1led 243 6.57e+01 1led 2qxlA 658 6.60e+01 1s9aA 257 6.65e+01 b.3.6.1 105379 1w2xA 758 6.69e+01 c.14.1.4,c.14.1.4 109134,109135 1tp5A 119 6.73e+01 b.36.1.1 119305 1dboA 506 6.97e+01 1dbgA b.80.1.4 28034 2r9zA 463 6.98e+01 2cjaA 522 7.04e+01 1viuA 203 7.09e+01 d.113.1.1 100771 1bzkA 43 7.11e+01 1bzkA j.35.1.1 46250 1vhiA 142 7.11e+01 1b3tA d.58.8.1 39230 2e7xA 150 7.14e+01 1dbgA 506 7.14e+01 1dbgA b.80.1.4 28033 2bgsA 344 7.20e+01 2i7nA 360 7.21e+01 2r1iA 172 7.24e+01 1t92A 116 7.26e+01 d.24.1.3 112326 2hcrA 326 7.29e+01 1nktA 922 7.34e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 2in3A 216 7.45e+01 1fehA 574 7.47e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1u7zA 226 7.49e+01 c.72.3.1 113107 1wab 232 7.51e+01 1wab 2grjA 192 7.61e+01 2ojwA 384 7.61e+01 1akhA 61 7.65e+01 1akhA a.4.1.1 15980 2jv2A 83 7.74e+01 2ct8A 497 7.82e+01 2fk8A 318 7.83e+01 c.66.1.18 133648 2lisA 136 7.97e+01 1lis a.19.1.1 16405 1d2mA 665 7.98e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1i2aA 219 7.99e+01 e.24.1.1 90660