# List of top-scoring protein chains for t2k-100-30-str2-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 1e3dB 542 1.78e-01 1h2rL e.18.1.1 59189 2i53A 258 2.63e-01 a.74.1.1,a.74.1.1 147505,147506 1jlvA 209 3.49e-01 a.45.1.1,c.47.1.5 71729,71730 1dzlA 505 7.67e-01 1dzlA b.121.6.1 23586 1h2aL 567 9.32e-01 1h2rL e.18.1.1 43299 2frvB 536 9.93e-01 1h2rL e.18.1.1 43291 1h2rL 534 1.05e+00 1h2rL e.18.1.1 43298 1txvA 452 1.09e+00 2vdrA 452 1.10e+00 2nqoA 376 1.30e+00 d.153.1.6 138473 2zuvA 759 1.37e+00 1ubkL 534 1.50e+00 e.18.1.1 88422 1wuiL 534 1.63e+00 e.18.1.1 121289 1frvB 536 2.58e+00 1h2rL e.18.1.1 43296 2qmcA 377 3.20e+00 3kucB 81 4.13e+00 3bxjA 507 5.01e+00 3h3xQ 549 5.44e+00 1guaB 81 5.47e+00 1c1yB d.15.1.5 37619 3bevA 274 6.49e+00 3do7A 296 6.96e+00 2fxqA 264 1.01e+01 3gy9A 150 1.02e+01 3kudB 81 1.03e+01 1u55A 188 1.08e+01 d.278.1.1 107677 3gtiA 337 1.11e+01 1yndA 165 1.12e+01 b.62.1.1 123721 2wlwA 165 1.13e+01 3k0mA 165 1.14e+01 3h1wA 393 1.15e+01 2vfjA 366 1.17e+01 1xiwB 79 1.18e+01 b.1.1.4 115368 1c1yB 77 1.19e+01 1c1yB d.15.1.5 37618 2db0A 253 1.21e+01 2p4dA 172 1.31e+01 3ck6A 252 1.35e+01 2pm7A 399 1.37e+01 3dnhA 258 1.38e+01 1awqA 164 1.39e+01 2cpl b.62.1.1 27461 1dcoA 104 1.44e+01 1dcpA d.74.1.1 39680 2fmyA 220 1.44e+01 3gtfA 337 1.45e+01 3gtxA 339 1.47e+01 3lahA 188 1.51e+01 3gthA 337 1.54e+01 2wfpA 394 1.56e+01 2x2dB 165 1.57e+01 3ir4A 218 1.62e+01 3dkbA 390 1.64e+01 1tw9A 206 1.64e+01 a.45.1.1,c.47.1.5 107381,107382 1sgoA 139 1.65e+01 d.82.3.1 98857 1nfiA 301 1.66e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 3m9vA 439 1.71e+01 3fdhA 499 1.71e+01 1qvtA 194 1.71e+01 a.4.1.9,a.121.1.1 104602,104603 2koeA 40 1.72e+01 2es4D 332 1.74e+01 a.137.15.1 145122 1awsA 164 1.77e+01 2cpl b.62.1.1 27431 1ru0A 105 1.83e+01 d.74.1.1 111937 1awe 130 1.86e+01 1awe 1jt6A 188 1.89e+01 a.4.1.9,a.121.1.1 67247,67248 3abaA 403 1.89e+01 1wozA 177 1.92e+01 1iknA 286 1.92e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 3gu1A 337 1.98e+01 2zc1A 333 1.99e+01 3htwA 328 2.03e+01 3gu9A 331 2.06e+01 3fdkA 323 2.07e+01 2kllA 161 2.12e+01 1vkxA 273 2.18e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 2igvA 173 2.27e+01 b.62.1.1 147667 3br2A 194 2.30e+01 1fmk 452 2.39e+01 1fmk 3e20B 441 2.40e+01 1p2xA 159 2.52e+01 a.40.1.1 104062 2x25B 169 2.53e+01 3ipqA 283 2.54e+01 2ajrA 331 2.59e+01 c.72.1.1 126892 1tit 98 2.62e+01 1tit 2cn3A 737 2.66e+01 3bqzA 194 2.67e+01 2ijmA 281 2.70e+01 d.144.1.7 147714 1jmeA 455 2.71e+01 a.104.1.1 66885 1i2kA 269 2.71e+01 e.17.1.1 90661 2xesA 248 2.74e+01 1ak0 270 2.74e+01 1ak0 1ak0A 270 2.74e+01 a.124.1.2 19345 3kdpA 998 2.83e+01 1p5sA 203 2.84e+01 a.40.1.1 94147 2ah6A 208 2.86e+01 1p1jA 533 2.89e+01 c.2.1.3,d.81.1.3 87687,87688 2wbfX 265 2.95e+01 5cytR 104 2.97e+01 1ycc a.3.1.1 15878 2aclB 244 2.99e+01 a.123.1.1 144801 1jr3A 373 3.01e+01 a.80.1.1,c.37.1.20 63245,63246 3k1qI 639 3.03e+01 2gwdA 449 3.03e+01 3b7fA 394 3.07e+01 2gwgA 350 3.08e+01 c.1.9.15 135805 2ob9A 130 3.20e+01 2x2aA 165 3.24e+01 3imhA 338 3.31e+01 3exaA 322 3.32e+01 2p5mA 83 3.34e+01 d.74.2.1 149254 3btiA 188 3.43e+01 a.4.1.9,a.121.1.1 155566,155567 2basA 431 3.45e+01 c.1.33.1,d.110.6.2 128244,128245 2g7bA 137 3.47e+01 2bemA 170 3.50e+01 b.1.18.2 116698 3e5jA 403 3.57e+01 3br3A 194 3.57e+01 3gmeA 549 3.57e+01 3hf2A 482 3.60e+01 1z57A 339 3.63e+01 2kuaA 170 3.63e+01 3ch3X 265 3.66e+01 3dn7A 194 3.66e+01 2yzsA 315 3.72e+01 2qklA 127 3.77e+01 2wutA 133 3.81e+01 1io7A 368 3.81e+01 1f4tA a.104.1.1 18971 1et0A 269 3.84e+01 1et0A e.17.1.1 43289 2bbhA 269 3.88e+01 d.328.1.1 128266 3br5A 194 3.89e+01 3ksyA 1049 3.90e+01 1edg 380 4.00e+01 1edg 1edgA 380 4.00e+01 c.1.8.3 28807 3f0nA 414 4.04e+01 3gu2A 336 4.07e+01 3b8mA 280 4.10e+01 d.58.60.1 154961 2hujA 140 4.11e+01 a.24.26.1 136777 1yviA 149 4.16e+01 a.24.10.2 124099 1cjaA 342 4.17e+01 1cjaA d.144.1.3 41708 2b2hA 399 4.17e+01 2z4tA 514 4.18e+01 2fs6A 137 4.20e+01 b.60.1.2 134005 1mp8A 281 4.24e+01 d.144.1.7 91384 3bk2A 562 4.25e+01 3kn6A 325 4.29e+01 2q4fA 149 4.33e+01 a.24.10.2 139847 2h8aA 154 4.33e+01 f.56.1.1 147239 2jesA 503 4.37e+01 2fikA 287 4.45e+01 b.1.1.2,d.19.1.1 133524,133525 1u36A 106 4.54e+01 b.1.18.1 107635 2ewdA 317 4.58e+01 1xqoA 256 4.64e+01 a.96.1.6 115853 1nd7A 374 4.76e+01 d.148.1.1 91817 2k5gA 191 4.77e+01 d.129.3.5 148273 1xk4C 113 4.96e+01 a.39.1.2 122057 1bg6 359 4.98e+01 1bg6 1bg6A 359 4.98e+01 a.100.1.5,c.2.1.6 18810,30214 2ebfX 746 5.05e+01 a.296.1.1,c.150.1.2,d.3.1.17 146766,146767,146768 2cgpA 210 5.09e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 3cc6A 281 5.16e+01 1n1cA 217 5.34e+01 a.184.1.1 85254 2baa 243 5.39e+01 1cnsA 2baaA 243 5.39e+01 d.2.1.1 36243 3bb1A 274 5.55e+01 2f2bA 246 5.67e+01 2dktA 143 5.70e+01 g.89.1.1,g.93.1.1 146537,146538 3a0oA 776 5.72e+01 1zg2A 107 5.77e+01 1g7oA 215 5.78e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1u7gA 385 5.82e+01 f.44.1.1 107723 3cp8A 641 5.85e+01 3g1qA 450 5.85e+01 2gtlM 217 5.86e+01 b.61.7.1,g.12.1.1,h.1.32.1 135667,135668,135669 3fc6B 266 5.91e+01 3lw6A 287 5.94e+01 3lwsA 357 6.22e+01 3kyjA 144 6.28e+01 3cm3A 176 6.37e+01 3k25A 289 6.44e+01 2hb5A 164 6.49e+01 1w53A 84 6.54e+01 a.186.1.2 109175 2w5yA 192 6.64e+01 2waqC 395 6.70e+01 1amuA 563 6.75e+01 1amuA e.23.1.1 43351 1tu7A 208 6.77e+01 a.45.1.1,c.47.1.5 112653,112654 2p9wA 334 6.77e+01 3eh2A 766 6.80e+01 1jbjA 186 6.81e+01 b.1.1.4,b.1.1.4 66482,66483 1a22B 238 6.82e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 2o9pA 454 6.83e+01 2hn2A 354 6.84e+01 d.328.1.1,f.17.3.1 136619,136620 2wghA 676 6.91e+01 2nvmA 126 6.97e+01 d.326.1.1 138631 1wirA 121 7.07e+01 g.37.1.5 114679 3iwgA 276 7.08e+01 3ceiA 213 7.12e+01 2ccyA 128 7.27e+01 2ccyA a.24.3.2 16544 1rh2F 165 7.30e+01 1rh2F a.26.1.3 16898 2akrA 285 7.41e+01 b.1.1.2,d.19.1.1 126931,126932 2kigA 161 7.42e+01 1izoA 417 7.46e+01 a.104.1.1 83851 2p39A 155 7.46e+01 1ah7 245 7.47e+01 1ah7 1ah7A 245 7.47e+01 a.124.1.1 19339 1nfkA 325 7.49e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1v5dA 386 7.60e+01 a.102.1.2 113537 3cuzA 532 7.72e+01 1cd1A 315 7.77e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1h65A 270 7.78e+01 c.37.1.8 65640 2raaA 204 7.82e+01 3jq0A 493 7.82e+01 2wslA 529 7.86e+01 1gqiA 708 7.89e+01 c.1.8.10,d.92.2.2 76279,76280 2r25A 167 7.92e+01 a.24.10.2 151529