# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1dvoA 152 2.80e-16 1dvoA a.136.1.1 19623 1a26 361 9.02e-01 1a26 a.41.1.1,d.166.1.2 17412,42274 1efyA 350 1.07e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 1iz7A 295 1.50e+00 c.69.1.8 76982 1cv2A 296 1.50e+00 1bn6A c.69.1.8 34680 2gyqA 175 1.73e+00 1x8bA 289 1.91e+00 1mj5A 302 2.72e+00 c.69.1.8 91285 1kk8B 139 3.36e+00 a.39.1.5 77430 1scmB 145 3.74e+00 1wdcB a.39.1.5 17304 1v4xB 146 4.07e+00 a.1.1.2 108364 1zvdA 380 4.37e+00 1wdcB 156 4.79e+00 1wdcB a.39.1.5 17302 1isaA 192 5.12e+00 1avmA a.2.11.1,d.44.1.1 15731,38724 1iscA 192 5.18e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1o9gA 250 5.85e+00 c.66.1.29 86692 1dpuA 99 5.96e+00 1dpuA a.4.5.16 16150 1jksA 294 6.05e+00 d.144.1.7 71710 2be4A 272 6.68e+00 1z1dA 103 6.70e+00 2awpA 198 6.94e+00 2ffsA 157 7.04e+00 1ve3A 227 7.30e+00 2a6sA 84 7.45e+00 1mzbA 136 9.09e+00 a.4.5.42 91497 1ej6A 1289 9.68e+00 i.7.1.1 45967 1uujA 88 9.89e+00 a.221.1.1 108046 1hw1A 239 1.04e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1wyuB 474 1.04e+01 1my6A 199 1.10e+01 a.2.11.1,d.44.1.1 85232,85233 1u35C 120 1.18e+01 1tzzA 392 1.18e+01 1e2xA 243 1.21e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1yumA 242 1.21e+01 1o4sA 389 1.25e+01 c.67.1.1 86620 1v7cA 351 1.27e+01 c.79.1.1 100446 1btu 240 1.37e+01 5ptp b.47.1.2 26241 1qnjA 240 1.39e+01 5ptp b.47.1.2 26238 1ln4A 104 1.40e+01 d.68.4.1 74043 1ufbA 127 1.41e+01 a.24.16.3 99331 2ae2A 260 1.43e+01 1bdb c.2.1.2 29945 1gvkB 240 1.45e+01 b.47.1.2 70610 2ga1A 106 1.46e+01 1baq 139 1.47e+01 1baq 1k3rA 268 1.51e+01 b.40.4.10,c.116.1.2 72018,72019 1ux5A 411 1.53e+01 a.207.1.1 100144 1r3eA 309 1.56e+01 b.122.1.1,d.265.1.2 96907,96908 1svfB 38 1.59e+01 1svfB h.3.2.1 45764 1u2zA 433 1.62e+01 c.66.1.31 107626 1etu 394 1.62e+01 1efcA c.37.1.8 64737 1i0dA 332 1.65e+01 1pscA c.1.9.3 61487 1eywA 331 1.67e+01 1pscA c.1.9.3 29057 1ge9A 184 1.67e+01 1dd5A d.67.3.1 60463 2aa1B 146 1.73e+01 1qklA 127 1.84e+01 1qklA a.143.1.2 39754 1t9kA 347 1.93e+01 c.124.1.5 106721 1gw5B 591 1.97e+01 a.118.1.10 70630 1ht9A 76 2.02e+01 4icb a.39.1.1 61252 2db9A 149 2.13e+01 1wosA 364 2.18e+01 b.44.2.1,d.250.1.1 109468,109469 1howA 373 2.18e+01 1hcl d.144.1.7 41679 1r6vA 671 2.20e+01 1usyA 275 2.23e+01 1xuqA 212 2.26e+01 1hyt 316 2.27e+01 1hyt d.92.1.2 59005 6tmnE 316 2.27e+01 1hyt d.92.1.2 59071 8tlnE 316 2.27e+01 1hyt d.92.1.2 59075 1qkrA 188 2.29e+01 1qkrA a.24.9.1 16628 2tmnE 316 2.33e+01 1hyt d.92.1.2 59055 1keiA 316 2.33e+01 d.92.1.2 77349 1f53A 84 2.34e+01 1f53A b.11.1.4 23632 1t1uA 639 2.38e+01 1idsA 207 2.39e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1jqjC 343 2.52e+01 a.80.1.1,c.37.1.20 67097,67098 1vl6A 388 2.54e+01 c.2.1.7,c.58.1.3 108724,108725 1txdA 385 2.74e+01 a.87.1.1,b.55.1.1 107422,107423 1b1bA 140 2.78e+01 1bi0 a.4.5.24,a.76.1.1 16215,18421 1an7A 136 2.82e+01 1seiA d.140.1.1 41465 1ae1A 273 2.83e+01 1bdb c.2.1.2 29943 1hqvA 191 2.83e+01 1hqvA a.39.1.8 61160 1z7dA 433 2.91e+01 2fswA 107 2.92e+01 1wmuA 141 2.97e+01 a.1.1.2 109416 1v6sA 390 3.02e+01 c.86.1.1 100424 1i7qB 193 3.06e+01 1qdlB c.23.16.1 61902 1itf 165 3.07e+01 1b5l a.26.1.3 16899 1efuA 385 3.11e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1ydiA 263 3.12e+01 1woqA 267 3.15e+01 c.55.1.10,c.55.1.10 109462,109463 1vrmA 325 3.18e+01 1mkaA 171 3.19e+01 1mkaA d.38.1.2 38543 1kgnA 329 3.19e+01 a.25.1.2 68584 1lc5A 364 3.24e+01 c.67.1.1 73827 1erd 40 3.24e+01 1erd a.10.1.1 16362 1b43A 340 3.26e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2ff4A 388 3.27e+01 1tdpA 111 3.27e+01 a.29.8.1 106781 2d2jA 329 3.28e+01 1nm8A 616 3.31e+01 c.43.1.3,c.43.1.3 85872,85873 1qydA 313 3.32e+01 c.2.1.2 96583 1r2fA 319 3.34e+01 1r2fA a.25.1.2 16800 4icb 76 3.39e+01 4icb a.39.1.1 17145 2ahxA 617 3.39e+01 2c8mA 262 3.49e+01 1hzyA 332 3.54e+01 1pscA c.1.9.3 61468 1wwiA 148 3.55e+01 1lkxA 697 3.58e+01 c.37.1.9 73981 1tueA 212 3.59e+01 c.37.1.20 107323 1ffkC 246 3.59e+01 1ffkC c.22.1.1 31037 1pscA 365 3.60e+01 1pscA c.1.9.3 29058 2arsA 262 3.61e+01 2ci9A 102 3.72e+01 2fneA 117 3.79e+01 1lk3A 160 3.81e+01 a.26.1.3 73950 1vqoC 246 3.82e+01 1glv 303 3.85e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 1dk5A 322 3.90e+01 1dk5A a.65.1.1 18192 1i50F 155 4.02e+01 a.143.1.2 61760 1twfF 155 4.02e+01 1is1A 185 4.03e+01 d.67.3.1 83704 1qhsA 178 4.08e+01 1qhsA c.37.1.3 31938 1k9uA 78 4.12e+01 a.39.1.10 84348 1vgjA 184 4.14e+01 1ki1B 352 4.15e+01 a.87.1.1,b.55.1.1 72497,72498 1iakB 185 4.15e+01 1iakB b.1.1.2,d.19.1.1 21626,38200 1vhmA 195 4.17e+01 d.110.2.1 100691 1qhxA 178 4.17e+01 1qhsA c.37.1.3 31936 1pmzA 86 4.18e+01 a.39.1.10 104195 1fbaA 361 4.19e+01 1fbaA c.1.10.1 29120 1vdxA 184 4.20e+01 1gbs 185 4.33e+01 153l d.2.1.5 36986 1c8pA 102 4.33e+01 1c8pA b.1.2.1 22040 1zvzA 279 4.38e+01 1td6A 306 4.40e+01 1jj2C 246 4.48e+01 1ffkC c.22.1.1 63087 1rkeA 262 4.49e+01 a.24.9.1,a.24.9.1 97608,97609 2es4D 332 4.49e+01 1qapA 296 4.54e+01 1qpoA c.1.17.1,d.41.2.1 29559,38595 3icb 75 4.54e+01 4icb a.39.1.1 17147 1ea7A 310 4.61e+01 c.41.1.1 70086 1a78A 134 4.63e+01 1c1lA b.29.1.3 24212 2bo4A 397 4.64e+01 1lkcA 364 4.69e+01 c.67.1.1 73978 1riiA 265 4.72e+01 1s72C 246 4.75e+01 c.22.1.1 105321 1t01A 255 4.89e+01 a.24.9.1,a.24.9.1 106188,106189 1v3wA 173 4.93e+01 b.81.1.5 100291 1ig5A 75 5.01e+01 4icb a.39.1.1 62363 1jkiA 533 5.09e+01 c.2.1.3,d.81.1.3 71704,71705 2bh7A 261 5.18e+01 1bcfA 158 5.20e+01 1bcfA a.25.1.1 16648 1n5nA 180 5.25e+01 d.167.1.1 85336 1d2eA 397 5.27e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1wmgA 103 5.44e+01 1b1gA 75 5.44e+01 1psrA a.39.1.1 17151 1ps1A 337 5.48e+01 1ps1A a.128.1.4 19450 1wa5C 960 5.49e+01 2iadB 205 5.50e+01 1iakB b.1.1.2,d.19.1.1 21640,38214 1ej9A 563 5.50e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1gvnA 90 5.51e+01 a.8.2.1 76353 2bvaA 292 5.52e+01 1p1jA 533 5.53e+01 c.2.1.3,d.81.1.3 87687,87688 2gsfA 373 5.58e+01 1gv3A 248 5.59e+01 a.2.11.1,d.44.1.1 70585,70586 1rwhA 757 5.60e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1y6nL 145 5.62e+01 1qwoA 442 5.68e+01 c.60.1.2 104620 12asA 330 5.69e+01 12asA d.104.1.1 40783 1q8yA 373 5.77e+01 d.144.1.7 96234 2crbA 97 5.78e+01 1i7gA 287 5.80e+01 a.123.1.1 71121 1f1sA 814 5.90e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1a31A 538 5.98e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1fx7A 230 6.01e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1usmA 80 6.04e+01 d.74.1.1 99876 3lynA 136 6.05e+01 1lis a.19.1.1 16413 1yyvA 131 6.08e+01 2bnxA 386 6.16e+01 1n00A 321 6.19e+01 a.65.1.1 85241 1php 394 6.22e+01 16pk c.86.1.1 35452 1zwwA 256 6.29e+01 1a35A 538 6.40e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1dkgA 197 6.43e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 2comA 124 6.52e+01 1n2zA 245 6.61e+01 c.92.2.2 79865 1jo0A 98 6.62e+01 d.68.4.1 77140 2d1pC 95 6.62e+01 2bycA 137 6.65e+01 1ryp1 222 6.67e+01 1ryp1 1t0qA 498 6.69e+01 a.25.1.2 106220 1z5hA 780 6.77e+01 2anuA 255 6.78e+01 1tm9A 137 6.92e+01 a.225.1.1 107150 2flsA 132 6.98e+01 1ov9A 50 7.00e+01 a.155.1.1 93591 1y9zA 441 7.01e+01 2atfA 200 7.09e+01 1v6cA 441 7.10e+01 2b5hA 200 7.15e+01 1swxA 209 7.16e+01 a.224.1.1 106075 1jq4A 98 7.24e+01 d.15.4.2 67083 1xahA 354 7.30e+01 1p4fA 293 7.32e+01 d.144.1.7 104063 1kwjA 68 7.37e+01 a.138.1.1 68877 1g4yR 148 7.38e+01 1cll a.39.1.5 60252 1rh2F 165 7.39e+01 1rh2F a.26.1.3 16898 1fgkA 310 7.40e+01 1fgkA d.144.1.7 41693 1jkfA 533 7.41e+01 c.2.1.3,d.81.1.3 71700,71701 1g0uL 241 7.47e+01 d.153.1.4 41894 1i0hA 205 7.56e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1fgjA 546 7.59e+01 1fgjA a.138.1.3 19679 1pbjA 125 7.64e+01 d.37.1.1,d.37.1.1 94414,94415 1z9bA 135 7.71e+01 1lshA 1056 7.75e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1qjbA 245 7.76e+01 1qjaA a.118.7.1 19202 1i1qB 192 7.79e+01 1qdlB c.23.16.1 61544 1yruB 74 7.98e+01 1h3nA 878 8.10e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2ajrA 331 8.20e+01 1imbA 277 8.25e+01 1imbA e.7.1.1 42957 2hhmA 276 8.31e+01 1imbA e.7.1.1 42955 1d9cA 121 8.37e+01 1d9cA a.26.1.3 16901 2go7A 207 8.43e+01 1duxC 94 8.49e+01 1awcA a.4.5.21 16170 1jajA 174 8.51e+01 d.218.1.2 66471 2bg5A 324 8.56e+01 1y8cA 246 8.64e+01 5pal 109 8.64e+01 1a75A a.39.1.4 17215 1yf3A 259 8.65e+01 1wuiL 534 8.67e+01 1ubkL 534 8.67e+01 e.18.1.1 88422 1tca 317 8.70e+01 1tca c.69.1.17 34726 1ialA 453 8.71e+01 1bk5A a.118.1.1 19116 1fftB 315 8.72e+01 1cyx b.6.1.2,f.17.2.1 23025,43628 1fps 348 8.77e+01 1uby a.128.1.1 19436 1kqfC 217 8.79e+01 f.21.1.1 72874 1ljoA 77 8.86e+01 b.38.1.1 73941 1rq6A 62 8.91e+01 1wu9A 80 8.92e+01 1xkqA 280 8.93e+01 1lm8C 96 8.97e+01 d.42.1.1 74034