# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1mjc 69 1.46e-11 1mjc b.40.4.5 25319 1sro 76 2.44e-11 1sro b.40.4.5 25327 3mefA 69 9.49e-11 1mjc b.40.4.5 25320 1go3E 187 1.92e-09 b.40.4.5 65406 1c9oA 66 1.11e-08 1mjc b.40.4.5 25325 1kl9A 182 4.92e-05 1e3pA 757 1.12e-03 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1a62 130 2.72e-02 1a62 a.140.3.1 64708 b.40.4.5 64709 1a8vA 121 9.38e-02 1a62 a.140.3.1 64712 b.40.4.5 64713 2cgpA 210 1.64e-01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1bkf 107 2.73e-01 1fkj d.26.1.1 38382 1b8aA 438 2.77e-01 1b8aA b.40.4.1 25244 d.104.1.1 40765 3cms 323 2.82e-01 1smrA b.50.1.2 26865 1bfeA 119 3.20e-01 1pdr b.36.1.1 24775 1fkf 107 3.22e-01 1fkj d.26.1.1 38386 1fkj 107 3.22e-01 1fkj d.26.1.1 38384 1fkd 107 3.87e-01 1fkj d.26.1.1 38383 4cms 323 3.98e-01 1smrA b.50.1.2 26866 1hw5A 210 4.80e-01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1be9A 119 6.02e-01 1pdr b.36.1.1 24774 1k6wA 426 7.51e-01 b.92.1.2 68236 c.1.9.5 68237 1ihrA 76 8.12e-01 1ihrA d.191.1.1 62392 1ndh 272 1.05e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1glaF 168 1.15e+00 1gpr b.84.3.1 28274 1tul 108 1.15e+00 1tul b.85.5.1 28373 1f3z 161 1.16e+00 1gpr b.84.3.1 28273 1pdr 99 1.19e+00 1pdr b.36.1.1 24771 1k3rA 268 1.23e+00 1i7pA 274 1.25e+00 b.43.4.2 66048 c.25.1.1 66049 1euoA 180 1.27e+00 1np1A b.60.1.1 27163 1jj2A 239 1.32e+00 1rl2A b.34.5.3 63084 b.40.4.5 63085 1nif 340 1.38e+00 1nif b.6.1.3 23048 b.6.1.3 23049 1whi 122 1.56e+00 1whi b.39.1.1 24810 1lxtA 561 1.68e+00 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1ospO 257 1.74e+00 1ospO b.76.1.1 27971 1np1A 184 1.75e+00 1np1A b.60.1.1 27155 1k0rA 366 1.91e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 4kbpA 432 1.97e+00 4kbpA b.1.12.1 22345 d.159.1.1 42064 1ihjA 98 2.22e+00 1pdr b.36.1.1 62382 1kbpA 432 2.33e+00 4kbpA b.1.12.1 22349 d.159.1.1 42068 2ltnA 181 2.48e+00 1led b.29.1.1 24024 1lkzA 219 2.72e+00 1at0 145 3.00e+00 1at0 b.86.1.1 28374 1iakB 185 3.01e+00 1iakB b.1.1.2 21626 d.19.1.1 38200 1jjgA 102 3.05e+00 1jvwA 167 3.25e+00 1as8A 343 3.35e+00 1nif b.6.1.3 23074 b.6.1.3 23075 1paz 123 3.52e+00 1bqk b.6.1.1 22878 1j9qA 341 3.87e+00 1nif b.6.1.3 62765 b.6.1.3 62766 1obpA 159 3.88e+00 1obpA b.60.1.1 27092 1f3vA 179 4.05e+00 1f3vA d.58.22.1 39382 1dykA 394 4.24e+00 1dykA b.29.1.4 24223 b.29.1.4 24224 1qniA 581 4.27e+00 1qniA b.6.1.4 23042 b.69.3.1 27642 1i7dA 659 4.27e+00 1d6mA e.10.1.1 61886 1fr3A 67 4.33e+00 1fr3A b.40.6.1 25436 1ah9 71 4.75e+00 1ah9 b.40.4.5 25330 1fl2A 310 4.77e+00 1hyuA c.3.1.5 59869 c.3.1.5 59870 1fwxA 595 4.81e+00 b.6.1.4 60069 b.69.3.1 60070 1lcyA 325 4.85e+00 1grj 158 4.96e+00 1grj a.2.1.1 15691 d.26.1.2 38433 1jt7A 146 5.60e+00 b.42.1.1 67255 1gpr 162 5.65e+00 1gpr b.84.3.1 28267 1bpv 112 6.16e+00 1bpv b.1.2.1 22071 1l0wA 580 6.72e+00 1yagG 125 7.11e+00 1d0nA d.109.1.1 40846 2sli 679 7.14e+00 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 7.14e+00 2sli b.29.1.9 24275 b.68.1.1 27612 1et7A 341 7.56e+00 1nif b.6.1.3 23070 b.6.1.3 23071 1ygs 234 7.64e+00 1ygs b.26.1.1 23907 1d4xG 126 7.79e+00 1d0nA d.109.1.1 59109 1i18A 97 7.84e+00 b.43.4.3 61520 3pmgA 561 8.29e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1k8wA 327 8.49e+00 d.58.35.2 68317 d.58.35.2 68318 1i6cA 39 8.50e+00 1i6cA b.72.1.1 61828 1fxjA 331 8.84e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1d6mA 653 9.22e+00 1d6mA e.10.1.1 43248 1iqaA 160 9.32e+00 1erxA 184 9.49e+00 1np1A b.60.1.1 27164 1koiA 184 9.49e+00 b.60.1.1 68725 1thw 207 9.59e+00 1thv b.25.1.1 23903 1f6aB 222 1.01e+01 1f6aB b.1.1.2 21532 b.1.1.2 21533 1d7qA 143 1.04e+01 1d7qA b.40.4.5 25331 3rabA 169 1.08e+01 1ctqA c.37.1.8 32018 1pinA 163 1.09e+01 1pinA b.72.1.1 27802 d.26.1.1 38431 1b5qA 472 1.09e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1b37B 472 1.10e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 2afgA 140 1.20e+01 1bfg b.42.1.1 25514 1pkn 530 1.21e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1np4A 184 1.21e+01 1np1A b.60.1.1 27166 1qg3A 195 1.26e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1lk5A 229 1.26e+01 1f20A 435 1.28e+01 b.43.4.1 64932 c.25.1.4 64933 1hyuA 521 1.32e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1hfh 120 1.34e+01 1hfh g.18.1.1 44821 g.18.1.1 44822 1krhA 338 1.35e+01 1elvA 333 1.36e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1ris 101 1.49e+01 1ris d.58.14.1 39314 830cA 168 1.49e+01 1ck7A d.92.1.11 40400 1i8dA 213 1.54e+01 b.43.4.3 61953 b.43.4.3 61954 1sfp 114 1.56e+01 1sfp b.23.1.1 23895 1hcxA 127 1.57e+01 b.109.1.1 65800 1bn7A 294 1.59e+01 1bn6A c.69.1.8 34677 1ebfA 358 1.60e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1bp3B 211 1.60e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1bn6A 294 1.60e+01 1bn6A c.69.1.8 34678 1b66A 140 1.63e+01 1b66A d.96.1.2 40657 1qhdA 398 1.64e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1a8p 258 1.67e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1thv 207 1.68e+01 1thv b.25.1.1 23904 1qhtA 775 1.69e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1cqwA 295 1.71e+01 1b6g c.69.1.8 34679 1ebuA 358 1.75e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1poiB 260 1.80e+01 1poiB c.63.1.1 34155 1ju3A 583 1.84e+01 b.18.1.13 67300 c.69.1.21 67301 1kkhA 317 1.84e+01 1gm5A 780 1.88e+01 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1cb8A 678 1.97e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.3.1 24422 1ueaB 184 2.11e+01 1br9 b.40.3.1 25232 1hpgA 187 2.14e+01 1qq4A b.47.1.1 25813 1cbs 137 2.14e+01 1hmt b.60.1.2 27201 3mddA 385 2.30e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 1whsA 255 2.44e+01 1ivyA c.69.1.5 34649 1b9yC 246 2.44e+01 1b9yC c.47.1.6 33052 1jdiA 231 2.44e+01 c.74.1.1 66551 1fwyA 331 2.47e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 3mdeA 385 2.49e+01 3mdeA a.29.3.1 16594 e.6.1.1 42855 1d5tA 433 2.50e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1k8rB 110 2.53e+01 1d2sA 170 2.54e+01 1d2sA b.29.1.4 24221 1f5fA 205 2.55e+01 1d2sA b.29.1.4 24222 1jjtA 228 2.57e+01 1a7tA d.157.1.1 63139 1gl4A 285 2.61e+01 d.22.1.2 65286 g.3.11.5 65287 1eu3A 210 2.61e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1ilr1 152 2.63e+01 1irp 1kv9A 668 2.66e+01 2bopA 85 2.68e+01 2bopA d.58.8.1 39217 1kyqA 274 2.71e+01 1blxA 326 2.79e+01 1hcl d.144.1.1 41596 1rypE 242 2.82e+01 1rypE d.153.1.4 41936 1b3qA 379 2.84e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1fd9A 213 2.86e+01 1fd9A d.26.1.1 59771 1dx5I 118 2.87e+01 1dx5I g.3.11.1 44302 g.3.11.1 44303 g.3.11.1 44304 1e25A 282 2.87e+01 1e25A e.3.1.1 42731 1vie 62 2.88e+01 1vie b.34.4.1 24592 1vif 62 2.88e+01 1vie b.34.4.1 24593 1lnrI 134 2.94e+01 1a49A 530 2.97e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1hn2A 159 3.05e+01 b.60.1.1 65890 1frb 315 3.05e+01 1frb c.1.7.1 28665 1whtA 256 3.07e+01 1ivyA c.69.1.5 34646 1louA 101 3.11e+01 1ris d.58.14.1 39323 1egdA 396 3.12e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1rypI 222 3.14e+01 d.153.1.4 41877 1dd6A 228 3.25e+01 1a7tA d.157.1.1 42054 1h80A 464 3.27e+01 b.80.1.8 65714 1qh4A 380 3.33e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 4fgf 146 3.40e+01 1bfg b.42.1.1 25486 4ubpB 126 3.41e+01 1ubpB b.85.3.1 28345 1ubpB 122 3.42e+01 1ubpB b.85.3.1 28346 1k8kB 394 3.47e+01 c.55.1.1 68307 4tsvA 150 3.49e+01 2tnfA b.22.1.1 23860 1h8eA 510 3.51e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1kxqE 120 3.56e+01 2trcP 217 3.60e+01 1b9yC c.47.1.6 33051 2fgf 146 3.66e+01 1bfg b.42.1.1 25487 1jl2A 156 3.67e+01 c.55.3.1 66822 1h9jA 145 3.73e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1jtaA 361 3.74e+01 1fdi 715 3.80e+01 2napA b.52.2.2 26918 c.81.1.1 35326 2matA 264 3.80e+01 1c24A d.127.1.1 41146 1cby 259 3.80e+01 1cby d.103.1.1 40705 1kwaA 88 3.82e+01 1kwaA b.36.1.1 24772 1bpoA 494 3.82e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1d8iA 311 3.82e+01 1d8iA d.63.1.1 39541 1cv8 174 3.88e+01 1cv8 d.3.1.1 37089 1g2rA 100 3.90e+01 1g2rA d.192.1.1 60231 1f3mC 297 3.91e+01 1hcl d.144.1.1 41677 1h9mA 145 3.92e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1bfg 146 3.95e+01 1bfg b.42.1.1 25485 1bgj 394 3.97e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 1fmtA 314 4.00e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174