# 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 1utxA 66 2.06e-04 a.35.1.3 108034 1lliA 92 2.89e-04 1lmb3 a.35.1.2 17025 1lmb3 92 5.77e-04 1lmb3 1y9qA 192 8.24e-04 2b5aA 77 8.26e-04 1y7yA 74 9.18e-04 2a6cA 83 2.35e-03 1bw6A 56 3.70e-03 1bw6A a.4.1.7 16052 1hlvA 131 7.54e-03 a.4.1.7,a.4.1.7 65854,65855 2or1L 69 2.53e-02 1r69 a.35.1.2 17031 1r69 69 3.43e-02 1r69 a.35.1.2 17028 1adr 76 8.02e-02 1r69 a.35.1.2 17042 1dw9A 156 1.01e-01 1dw9A a.35.1.4,d.72.1.1 17065,39596 1dwkA 156 1.66e-01 1dw9A a.35.1.4,d.72.1.1 17075,39606 2bjcA 62 2.17e-01 1uxc 65 2.40e-01 1uxc a.35.1.5 17119 1zug 71 2.66e-01 1r69 a.35.1.2 17041 1b0nA 111 3.07e-01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1cjgA 62 3.12e-01 1pru a.35.1.5 17112 1efaA 333 3.31e-01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1uxd 65 3.33e-01 1uxc a.35.1.5 17118 1vaxA 287 4.43e-01 1lccA 51 4.72e-01 1pru a.35.1.5 17110 1lqc 56 5.11e-01 1pru a.35.1.5 17109 2bnmA 198 5.12e-01 1lcdA 51 5.17e-01 1pru a.35.1.5 17111 2orc 71 5.46e-01 1orc a.35.1.2 17060 1zzcA 198 5.74e-01 2cro 71 6.52e-01 1r69 a.35.1.2 17038 1rzrA 332 6.57e-01 1u8bA 133 6.72e-01 1orc 71 7.02e-01 1orc a.35.1.2 17054 1n8nA 212 7.95e-01 c.108.1.12 91706 1qgpA 77 8.83e-01 1qbjA a.4.5.19 16158 1e2xA 243 9.10e-01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1copD 66 9.14e-01 1orc a.35.1.2 17058 1rmwA 212 1.12e+00 5croA 66 1.13e+00 1orc a.35.1.2 17044 1hw1A 239 1.23e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1qbjA 81 1.33e+00 1qbjA a.4.5.19 16155 2b82A 211 1.35e+00 2cu3A 64 1.42e+00 1z0xA 220 1.44e+00 1khcA 147 1.45e+00 b.34.9.2 68608 1umqA 81 1.74e+00 a.4.1.12 99625 1zgwA 139 2.02e+00 1a6i 217 2.07e+00 2tct a.4.1.9,a.121.1.1 16066,19243 1wpkA 146 2.16e+00 2auwA 170 2.21e+00 1puzA 82 2.21e+00 a.218.1.1 104320 1xnpA 202 3.15e+00 1ft9A 222 3.19e+00 1ft9A a.4.5.4,b.82.3.1 16107,28131 1mixA 206 3.21e+00 a.11.2.1,b.55.1.5 79166,79167 2fbhA 146 3.63e+00 2tct 207 3.79e+00 2tct a.4.1.9,a.121.1.1 16063,19240 1b33A 160 3.94e+00 1qgwC a.1.1.3 15649 1du6A 64 4.33e+00 1akhA a.4.1.1 16002 1hsm 79 4.61e+00 1cktA a.21.1.1 16421 1bjz 207 4.80e+00 2tct a.4.1.9,a.121.1.1 16065,19242 1u3eM 174 4.82e+00 d.4.1.3,d.285.1.1 107640,107641 1t33A 224 5.40e+00 a.4.1.9,a.121.1.1 106295,106296 1yseA 141 5.53e+00 1hme 77 5.63e+00 1cktA a.21.1.1 16418 1b8iB 63 5.76e+00 1akhA a.4.1.1 16011 2fx0A 201 5.87e+00 1rvgA 305 6.11e+00 c.1.10.2 97920 1kn1A 160 6.29e+00 a.1.1.3 77455 1nr3A 122 6.30e+00 d.236.1.1 86092 1t56A 216 6.45e+00 a.4.1.9,a.121.1.1 106428,106429 1i6zA 135 6.53e+00 a.7.7.1 61861 1g55A 343 6.56e+00 1g55A c.66.1.26 34247 1j75A 67 7.36e+00 a.4.5.19 62673 1pru 56 7.55e+00 1pru a.35.1.5 17104 1ez3A 127 7.62e+00 1dn1B a.47.2.1 17768 2g8lA 299 8.22e+00 2a6hD 1524 8.67e+00 1qpzA 340 8.74e+00 1qpzA a.35.1.5,c.93.1.1 17097,35673 1jftA 340 8.92e+00 a.35.1.5,c.93.1.1 66652,66653 1br0A 120 9.28e+00 a.47.2.1 17772 1r1tA 122 9.38e+00 a.4.5.5 104769 1pufB 73 9.41e+00 a.4.1.1 95132 1vpwA 340 9.46e+00 1qpzA a.35.1.5,c.93.1.1 17087,35680 1l3sA 580 9.74e+00 c.55.3.5,e.8.1.1 84521,84522 1wetA 340 1.01e+01 1qpzA a.35.1.5,c.93.1.1 17093,35670 1uzpA 162 1.04e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 1sfxA 109 1.06e+01 a.4.5.50 105505 1e0eA 55 1.11e+01 1wjcA a.4.10.1 59147 1u4bA 580 1.16e+01 c.55.3.5,e.8.1.1 107664,107665 1fiqB 350 1.22e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1o6yA 299 1.24e+01 d.144.1.7 81106 1dlwA 116 1.24e+01 1dlyA a.1.1.1 14982 2g7uA 257 1.25e+01 2g3bA 208 1.38e+01 1xwl 580 1.40e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1vdyA 140 1.45e+01 1smtB 122 1.55e+01 1smtA a.4.5.5 16110 1bc5A 269 1.57e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1ku3A 73 1.62e+01 a.4.13.2 73000 1smtA 122 1.63e+01 1smtA a.4.5.5 16109 1gwyA 175 1.63e+01 b.97.1.1 83356 1j5yA 187 1.65e+01 a.4.5.1,d.94.2.1 71592,71593 1i2kA 269 1.65e+01 e.17.1.1 90661 3bdpA 580 1.70e+01 1xwl c.55.3.5,e.8.1.1 33711,43004 2bdpA 580 1.74e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 2bkaA 242 1.79e+01 1af7 274 1.84e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1ldg 316 1.88e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1yw3A 208 1.90e+01 1allA 160 1.91e+01 1qgwC a.1.1.3 15647 1nk4A 580 1.92e+01 c.55.3.5,e.8.1.1 91923,91924 1w7jA 795 1.96e+01 1g2hA 61 1.97e+01 1g2hA a.4.1.12 60224 1tc3C 51 2.00e+01 1tc3C a.4.1.2 16025 1jpaA 312 2.06e+01 d.144.1.7 67011 1wqaA 455 2.06e+01 1hcc 59 2.07e+01 1hfh g.18.1.1 44820 1b72B 87 2.07e+01 1akhA a.4.1.1 16001 2cgpA 210 2.11e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 2d13A 227 2.11e+01 1wy5A 317 2.13e+01 1s6lA 212 2.13e+01 1baj 101 2.17e+01 1a8o a.28.3.1 16954 1t2dA 322 2.21e+01 c.2.1.5,d.162.1.1 99084,99085 1z67A 135 2.24e+01 1in4A 334 2.40e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1f3iA 481 2.49e+01 1b7eA 2gkeA 274 2.51e+01 1r5rA 119 2.65e+01 a.39.2.1 97104 1ngr 85 2.67e+01 1ngr a.77.1.2 18422 1ulyA 192 2.73e+01 1j9iA 68 2.75e+01 a.6.1.5 71619 2bce 581 2.78e+01 2bce c.69.1.1 34625 1slvA 142 2.83e+01 1sluA b.16.1.1 23688 1gegA 256 2.87e+01 1ybvA c.2.1.2 29888 1qqsA 174 2.88e+01 1nglA b.60.1.1 27143 1gqzA 274 2.91e+01 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 2.93e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1a43 87 2.95e+01 1a8o a.28.3.1 16955 1in6A 334 3.03e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1neq 74 3.11e+01 1neq a.35.1.2 17063 1et0A 269 3.29e+01 1et0A e.17.1.1 43289 1uuhA 159 3.43e+01 d.169.1.4 100008 1musA 477 3.53e+01 c.55.3.4 79494 2pkaB 152 3.56e+01 5ptp 1v4eA 299 3.60e+01 a.128.1.1 100296 1muhA 481 3.64e+01 c.55.3.4 79485 2bzuA 181 3.70e+01 1i6xA 209 3.71e+01 a.4.5.4,b.82.3.2 83673,83674 1bq9A 54 3.74e+01 1rb9 g.41.5.1 45238 1r9wA 145 3.76e+01 d.89.1.2 97264 1icfI 65 3.77e+01 1icfI g.28.1.1 44958 1hfh 120 3.77e+01 1hfh g.18.1.1,g.18.1.1 44821,44822 1b7qA 130 3.79e+01 3lzt d.2.1.2 36549 1qqrA 138 3.96e+01 1bmlC d.15.5.1 37721 1u9yA 284 3.96e+01 1kutA 230 3.96e+01 d.143.1.1 73017 1yk4A 52 3.98e+01 1yr2A 741 3.98e+01 1y8aA 332 4.02e+01 1sluA 142 4.10e+01 1sluA b.16.1.1 23685 1ic8A 194 4.20e+01 a.4.1.1,a.35.1.1 76740,76741 1q77A 138 4.27e+01 c.26.2.4 96023 1uocA 289 4.29e+01 c.55.3.9 99686 2acjA 66 4.34e+01 2g7gA 213 4.36e+01 2ffeA 311 4.36e+01 1gd0A 122 4.38e+01 1dptA d.80.1.3 39834 1kx9A 112 4.40e+01 a.118.21.1 77602 1ecfB 504 4.53e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 2g9iA 249 4.54e+01 1x71A 178 4.56e+01 1ecfA 504 4.57e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1zk8A 183 4.58e+01 1bq8A 54 4.61e+01 1rb9 g.41.5.1 45237 1qr7A 350 4.61e+01 1qr7A c.1.10.4 29191 1x89A 178 4.71e+01 1rdg 53 4.75e+01 1rb9 g.41.5.1 45221 1w6uA 302 4.79e+01 1yw5A 177 4.89e+01 1brfA 53 4.93e+01 1rb9 g.41.5.1 45236 1ucsA 64 4.98e+01 b.85.1.1 88466 1xseA 295 5.03e+01 1pk6C 129 5.08e+01 b.22.1.1 94803 1rlyA 60 5.10e+01 g.41.3.1 104988 2gfnA 209 5.12e+01 2a5yB 549 5.17e+01 1gifA 115 5.18e+01 1dptA d.80.1.3 39837 1mylA 53 5.25e+01 1bazA a.43.1.1 17427 1gg1A 350 5.29e+01 1qr7A c.1.10.4 29187 2bopA 85 5.29e+01 2bopA d.58.8.1 39217 1vi9A 299 5.35e+01 c.72.1.5 100750 1td2A 287 5.49e+01 c.72.1.5 106765 2aalA 131 5.51e+01 1wjcA 47 5.57e+01 1wjcA a.4.10.1 16261 1dxjA 242 5.59e+01 1cnsA d.2.1.1 36244 1oe9A 795 5.60e+01 b.34.3.1,c.37.1.9 92792,92793 1zxkA 98 5.68e+01 1aisB 200 5.81e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 2avpA 70 5.88e+01 1vydA 116 5.89e+01 a.3.1.1 108900 1eg7A 557 5.94e+01 1eg7A c.37.1.10 32241 1qyiA 384 5.95e+01 c.108.1.13 96595 1io7A 368 5.99e+01 1f4tA a.104.1.1 18971 1glaG 501 6.23e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1jkoC 52 6.24e+01 a.4.1.2 66809 1mkmA 249 6.29e+01 a.4.5.33,d.110.2.2 79242,79243 1bl0A 129 6.33e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1ceqA 316 6.33e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1ufmA 84 6.34e+01 a.4.5.47 107816 1pdnC 128 6.45e+01 6paxA a.4.1.5 16047 1ihrA 76 6.45e+01 1ihrA d.212.1.2 62392 2agcA 162 6.46e+01 2fq4A 192 6.49e+01 1qzzA 374 6.52e+01 a.4.5.29,c.66.1.12 96719,96720 1wh8A 111 6.56e+01 2aorA 223 6.57e+01 1w2wB 191 6.62e+01 3pga1 337 6.69e+01 4pgaA 1zndA 174 6.75e+01 1zvnA 99 6.76e+01 1souA 194 6.76e+01 c.124.1.6 105858 1y6uA 70 6.79e+01 1pb6A 212 6.81e+01 a.4.1.9,a.121.1.1 88017,88018 1qsmA 152 6.89e+01 1qsmA d.108.1.1 40808 3nodB 423 6.92e+01 1nseA d.174.1.1 42513 2cfxA 144 7.07e+01 6paxA 133 7.11e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1m93B 245 7.19e+01 1bib 321 7.23e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1qy1A 174 7.31e+01 b.60.1.1 96568 1rzsA 61 7.31e+01 a.35.1.2 105139 1dl0A 37 7.34e+01 1dl0A g.3.6.2 44112 1wdvA 152 7.35e+01 1obdA 306 7.40e+01 d.143.1.1 86767 1a48 306 7.42e+01 1a48 d.143.1.1 41590 1e9kA 38 7.45e+01 j.87.1.1 64826 1am3 70 7.51e+01 1aum 70 7.52e+01 1a8o a.28.3.1 16957 1xewY 172 7.58e+01 1pa7A 130 7.60e+01 a.40.1.1 94410 1nglA 179 7.66e+01 1nglA b.60.1.1 27146 1jffA 451 7.68e+01 c.32.1.1,d.79.2.1 62932,62933 1t01A 255 7.79e+01 a.24.9.1,a.24.9.1 106188,106189 1agrH 205 7.82e+01 1agrE a.91.1.1 18539 2cavA 445 7.83e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 1z23A 163 7.85e+01 1wycA 392 7.86e+01 1n8fA 350 8.08e+01 c.1.10.4 85397 1q6zA 528 8.20e+01 1g6nA 210 8.24e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1d3uB 201 8.25e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1ixxB 123 8.25e+01 1ixxB d.169.1.1 42336 1wkuA 254 8.26e+01 1jscA 630 8.36e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 2csbA 519 8.37e+01 1z3eA 132 8.45e+01 2bby 69 8.50e+01 2bby a.4.5.15 16148 1fxjA 331 8.58e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1s0pA 176 8.60e+01 a.192.1.1 98300 1m0uA 249 8.71e+01 a.45.1.1,c.47.1.5 78359,78360 1z8sA 146 8.72e+01 1wovA 250 8.84e+01 1j34B 123 8.96e+01 d.169.1.1 84049 1rztA 331 8.97e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226