# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 5.09e-01 1h2rL e.18.1.1 59189 2frvB 536 8.03e-01 1h2rL e.18.1.1 43291 1h2aL 567 1.47e+00 1h2rL e.18.1.1 43299 1jlvA 209 1.75e+00 a.45.1.1,c.47.1.5 71729,71730 1h2rL 534 1.95e+00 1h2rL e.18.1.1 43298 1ubkL 534 2.23e+00 e.18.1.1 88422 1wuiL 534 2.33e+00 e.18.1.1 121289 2i53A 258 2.49e+00 a.74.1.1,a.74.1.1 147505,147506 2gwgA 350 2.85e+00 c.1.9.15 135805 1i2kA 269 2.89e+00 e.17.1.1 90661 2nqoA 376 3.02e+00 d.153.1.6 138473 3gtiA 337 3.19e+00 1frvB 536 3.46e+00 1h2rL e.18.1.1 43296 1txvA 452 4.00e+00 2vdrA 452 4.14e+00 3gtfA 337 4.28e+00 3do7A 296 4.30e+00 3gtxA 339 4.33e+00 3gthA 337 4.45e+00 1et0A 269 4.58e+00 1et0A e.17.1.1 43289 3gmeA 549 4.67e+00 1dzlA 505 4.80e+00 1dzlA b.121.6.1 23586 1t8hA 277 4.91e+00 d.194.1.2 106664 2zuvA 759 4.97e+00 2raaA 204 5.96e+00 3h3xQ 549 5.99e+00 2z4tA 514 6.13e+00 3dnhA 258 6.19e+00 3gu1A 337 6.71e+00 3dzvA 273 6.88e+00 2zc1A 333 6.92e+00 3htwA 328 6.93e+00 3gu9A 331 6.95e+00 1p1jA 533 7.82e+00 c.2.1.3,d.81.1.3 87687,87688 3fdkA 323 7.85e+00 2waqC 395 8.36e+00 3l60A 250 8.44e+00 1yndA 165 8.99e+00 b.62.1.1 123721 2qmcA 377 9.48e+00 2e56A 144 9.49e+00 1ldnA 316 9.52e+00 1hyhA c.2.1.5,d.162.1.1 30166,42133 1xeaA 323 9.76e+00 c.2.1.3,d.81.1.5 109572,109573 3gu2A 336 9.98e+00 1awsA 164 1.02e+01 2cpl b.62.1.1 27431 2bemA 170 1.03e+01 b.1.18.2 116698 1awqA 164 1.04e+01 2cpl b.62.1.1 27461 2wlwA 165 1.05e+01 3k0mA 165 1.08e+01 3ck6A 252 1.09e+01 1g5cA 170 1.11e+01 1g5cA c.53.2.1 60264 1ez4A 318 1.15e+01 c.2.1.5,d.162.1.1 64917,64918 3ksyA 1049 1.16e+01 1edg 380 1.19e+01 1edg 1edgA 380 1.19e+01 c.1.8.3 28807 2phjA 251 1.24e+01 2wqkA 251 1.24e+01 2x2dB 165 1.27e+01 1oltA 457 1.30e+01 c.1.28.2 93334 1tit 98 1.35e+01 1tit 3d0oA 317 1.40e+01 3kucB 81 1.42e+01 3bb1A 274 1.42e+01 2ob9A 130 1.50e+01 3cp8A 641 1.55e+01 2wk6A 482 1.55e+01 2igvA 173 1.55e+01 b.62.1.1 147667 1qvtA 194 1.59e+01 a.4.1.9,a.121.1.1 104602,104603 1ockA 412 1.62e+01 c.117.1.1 86802 2koeA 40 1.64e+01 2fmyA 220 1.67e+01 2p4dA 172 1.68e+01 3dkbA 390 1.75e+01 1wozA 177 1.85e+01 1dcoA 104 1.85e+01 1dcpA d.74.1.1 39680 1jbjA 186 1.93e+01 b.1.1.4,b.1.1.4 66482,66483 2ewdA 317 2.01e+01 1ypxA 375 2.03e+01 2i8lA 156 2.06e+01 1xiwB 79 2.10e+01 b.1.1.4 115368 2fxqA 264 2.11e+01 1amy 403 2.20e+01 1jdc 1guaB 81 2.20e+01 1c1yB d.15.1.5 37619 1sb2A 133 2.21e+01 d.169.1.1 118927 1h65A 270 2.25e+01 c.37.1.8 65640 3kudB 81 2.26e+01 3ir4A 218 2.26e+01 2ijmA 281 2.27e+01 d.144.1.7 147714 3k1qI 639 2.29e+01 2wbfX 265 2.31e+01 1u55A 188 2.39e+01 d.278.1.1 107677 2vfjA 366 2.45e+01 1jt6A 188 2.46e+01 a.4.1.9,a.121.1.1 67247,67248 2ah6A 208 2.46e+01 1mp8A 281 2.49e+01 d.144.1.7 91384 2a97A 439 2.52e+01 2b2hA 399 2.57e+01 3ch3X 265 2.66e+01 3bxjA 507 2.67e+01 2qklA 127 2.75e+01 2e85A 159 2.75e+01 1nd7A 374 2.79e+01 d.148.1.1 91817 2wpnA 317 2.80e+01 1ru0A 105 2.81e+01 d.74.1.1 111937 1ta0A 197 2.85e+01 c.108.1.16 106729 3fdhA 499 2.86e+01 2ajrA 331 2.88e+01 c.72.1.1 126892 2i5iA 263 2.89e+01 c.6.2.8 147514 1ah7 245 2.92e+01 1ah7 1ah7A 245 2.92e+01 a.124.1.1 19339 2x25B 169 2.94e+01 3cdjA 559 2.95e+01 2x2aA 165 2.98e+01 2pm7A 399 2.99e+01 3br2A 194 3.00e+01 1nfiA 301 3.11e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 2acvA 463 3.15e+01 c.87.1.10 146047 3btiA 188 3.24e+01 a.4.1.9,a.121.1.1 155566,155567 1p2xA 159 3.26e+01 a.40.1.1 104062 3ievA 308 3.28e+01 1p5sA 203 3.36e+01 a.40.1.1 94147 2vkhA 546 3.38e+01 c.68.1.22 153225 2ghtA 181 3.39e+01 2a8aA 439 3.40e+01 2zihA 347 3.42e+01 3bk2A 562 3.42e+01 1amuA 563 3.44e+01 1amuA e.23.1.1 43351 2h6rA 219 3.47e+01 3gocA 237 3.56e+01 3lahA 188 3.57e+01 1u7gA 385 3.59e+01 f.44.1.1 107723 3hv0A 393 3.62e+01 3cc6A 281 3.63e+01 3dn7A 194 3.82e+01 5cytR 104 3.83e+01 1ycc a.3.1.1 15878 2kllA 161 3.84e+01 1avaA 403 3.85e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 2xcyA 386 3.87e+01 2bvlA 543 3.87e+01 c.68.1.22 146219 3br3A 194 3.93e+01 1xk4C 113 3.98e+01 a.39.1.2 122057 2o4vA 411 4.02e+01 1ymkA 175 4.06e+01 c.46.1.1 123699 3br5A 194 4.10e+01 3eyxA 216 4.15e+01 1g7oA 215 4.27e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 3bqzA 194 4.36e+01 3khdA 520 4.38e+01 1wn1A 356 4.39e+01 2gwdA 449 4.45e+01 2pbyA 308 4.50e+01 2wslA 529 4.56e+01 1ve2A 235 4.58e+01 c.90.1.1 120008 1a5zA 319 4.62e+01 c.2.1.5,d.162.1.1 30181,42148 1eyeA 280 4.63e+01 1aj2 c.1.21.1 29672 1c1yB 77 4.67e+01 1c1yB d.15.1.5 37618 3eheA 313 4.70e+01 3pga1 337 4.79e+01 4pgaA 1p0iA 529 4.79e+01 c.69.1.1 93867 1u6zA 513 4.86e+01 a.211.1.5,c.55.1.8,c.55.1.8 119608,119609,119610 1tw9A 206 4.91e+01 a.45.1.1,c.47.1.5 107381,107382 1l8nA 679 4.92e+01 c.1.8.10,d.92.2.2 84564,84565 3ll4A 292 4.94e+01 1zvdA 380 4.94e+01 2f2bA 246 5.00e+01 2j22A 148 5.03e+01 1a22B 238 5.11e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 1hrkA 359 5.14e+01 1hrkA c.92.1.1 61228 1zg2A 107 5.15e+01 3gy9A 150 5.23e+01 2hb5A 164 5.24e+01 3i24A 149 5.33e+01 1ivnA 190 5.34e+01 c.23.10.5 83719 2izzA 322 5.37e+01 3bevA 274 5.39e+01 2kuaA 170 5.44e+01 2a2kA 175 5.45e+01 3cvoA 202 5.52e+01 1i7nA 309 5.52e+01 c.30.1.5,d.142.1.3 83681,83682 3ipqA 283 5.54e+01 3hf2A 482 5.56e+01 1fj2A 232 5.63e+01 1auoA c.69.1.14 34720 2pkpA 170 5.64e+01 1u36A 106 5.70e+01 b.1.18.1 107635 1gqiA 708 5.70e+01 c.1.8.10,d.92.2.2 76279,76280 1z57A 339 5.71e+01 3eeqA 336 5.80e+01 c.151.1.1,c.152.1.1 158123,158124 2px2A 269 5.83e+01 3l2nA 395 5.90e+01 1aym1 285 5.99e+01 1aym1 3lwsA 357 6.03e+01 2gerA 321 6.07e+01 1qb0A 211 6.20e+01 1c25 c.46.1.1 32699 2gvhA 288 6.22e+01 d.38.1.1,d.38.1.1 135776,135777 3ezzA 144 6.24e+01 1gydB 315 6.24e+01 b.67.2.1 70751 1gp6A 356 6.29e+01 b.82.2.1 65441 3d4pA 317 6.29e+01 2k5gA 191 6.31e+01 d.129.3.5 148273 2madH 373 6.32e+01 2bbkH b.69.2.1 27639 3mbfA 342 6.36e+01 1p27B 106 6.40e+01 d.58.7.1 93908 1uouA 474 6.41e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2aegA 268 6.43e+01 d.303.1.1 126622 3canA 182 6.45e+01 2qtfA 364 6.57e+01 2b69A 343 6.66e+01 c.2.1.2 127974 1sgoA 139 6.67e+01 d.82.3.1 98857 3mbdA 342 6.78e+01 2hujA 140 6.81e+01 a.24.26.1 136777 1q6zA 528 6.83e+01 c.31.1.3,c.36.1.5,c.36.1.9 111655,111656,111657 3l0yA 184 6.90e+01 2qptA 550 7.03e+01 2es4D 332 7.05e+01 a.137.15.1 145122 3ilhA 146 7.06e+01 2hraA 209 7.06e+01 2onfA 140 7.06e+01 d.227.1.1 148901 1u7nA 336 7.08e+01 c.77.1.4 107726 1awe 130 7.09e+01 1awe 2qcuA 501 7.11e+01 3b4rA 224 7.13e+01 1we9A 64 7.13e+01 g.50.1.2 114549 2j0fA 482 7.24e+01 2h8aA 154 7.34e+01 f.56.1.1 147239 2hrcA 359 7.36e+01 c.92.1.1 136687 2gvkA 317 7.50e+01 d.58.4.14 135782 2db0A 253 7.52e+01 1wab 232 7.55e+01 1wab 1es9A 232 7.59e+01 1wab c.23.10.3 31340 2au3A 407 7.62e+01 2oyrA 258 7.63e+01 c.66.1.55 149078 1waaA 93 7.66e+01 1jmeA 455 7.67e+01 a.104.1.1 66885 1vppV 102 7.69e+01 1vpfA g.17.1.1 44753 2o9pA 454 7.73e+01 2wugA 291 7.79e+01 4pgaA 337 7.81e+01 4pgaA c.88.1.1 35565 3i3uA 112 7.86e+01 3f0nA 414 7.87e+01 3lg2A 292 7.92e+01 3jq0A 493 7.96e+01