# List of top-scoring protein chains for t2k.100-30-str 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 1.23e-01 1h2rL e.18.1.1 59189 2i53A 258 1.50e-01 a.74.1.1 147505 a.74.1.1 147506 2frvB 536 2.53e-01 1h2rL e.18.1.1 43291 2nqoA 376 3.32e-01 d.153.1.6 138473 1ubkL 534 4.61e-01 e.18.1.1 88422 1jlvA 209 5.06e-01 a.45.1.1 71729 c.47.1.5 71730 1wuiL 534 5.28e-01 e.18.1.1 121289 1h2rL 534 5.84e-01 1h2rL e.18.1.1 43298 1dzlA 505 5.85e-01 1dzlA b.121.6.1 23586 1h2aL 567 6.28e-01 1h2rL e.18.1.1 43299 1frvB 536 6.30e-01 1h2rL e.18.1.1 43296 1txvA 452 6.93e-01 2vdrA 452 7.51e-01 2qmcA 377 1.10e+00 2zuvA 759 1.82e+00 3gy9A 150 2.33e+00 3h3xQ 549 2.34e+00 3gtiA 337 2.79e+00 3kucB 81 3.19e+00 3gthA 337 3.33e+00 3gtfA 337 3.34e+00 2wlwA 165 3.38e+00 3gtxA 339 3.39e+00 2fxqA 264 3.48e+00 3ck6A 252 3.90e+00 2fmyA 220 4.20e+00 1guaB 81 4.35e+00 1c1yB d.15.1.5 37619 2p4dA 172 4.70e+00 2bemA 170 4.81e+00 b.1.18.2 116698 3kudB 81 4.87e+00 3gu1A 337 5.25e+00 2zc1A 333 5.34e+00 3htwA 328 5.35e+00 1xiwB 79 5.43e+00 b.1.1.4 115368 3do7A 296 5.45e+00 3gu9A 331 5.50e+00 3bevA 274 5.50e+00 3k0mA 165 5.62e+00 3fdkA 323 5.62e+00 1p1jA 533 5.81e+00 c.2.1.3 87687 d.81.1.3 87688 2gwdA 449 6.27e+00 1yndA 165 6.41e+00 b.62.1.1 123721 1i2kA 269 6.49e+00 e.17.1.1 90661 1u55A 188 7.02e+00 d.278.1.1 107677 1wozA 177 7.18e+00 2ewdA 317 7.18e+00 1nfkA 325 7.44e+00 1a3qA b.1.18.1 21929 b.2.5.3 22444 3gu2A 336 7.74e+00 3dnhA 258 7.87e+00 1awsA 164 7.95e+00 2cpl b.62.1.1 27431 1awqA 164 8.45e+00 2cpl b.62.1.1 27461 2wfpA 394 8.82e+00 2wbfX 265 8.91e+00 3ipqA 283 8.93e+00 3h1wA 393 9.13e+00 2ijmA 281 9.33e+00 d.144.1.7 147714 3fdhA 499 9.56e+00 2z4tA 514 9.92e+00 2koeA 40 1.02e+01 1z57A 339 1.03e+01 1et0A 269 1.04e+01 1et0A e.17.1.1 43289 1c1yB 77 1.04e+01 1c1yB d.15.1.5 37618 2x2dB 165 1.07e+01 3bxjA 507 1.07e+01 3lahA 188 1.09e+01 1vkxA 273 1.12e+01 1a3qA b.1.18.1 21941 b.2.5.3 22454 2jesA 503 1.12e+01 1tit 98 1.13e+01 1tit 1mp8A 281 1.14e+01 d.144.1.7 91384 3abaA 403 1.15e+01 2pm7A 399 1.16e+01 2es4D 332 1.17e+01 a.137.15.1 145122 2bbhA 269 1.18e+01 d.328.1.1 128266 1sgoA 139 1.21e+01 d.82.3.1 98857 1iknA 286 1.24e+01 1a3qA b.1.18.1 21936 b.2.5.3 22449 3ch3X 265 1.25e+01 2vu9A 444 1.27e+01 2igvA 173 1.28e+01 b.62.1.1 147667 1qvtA 194 1.28e+01 a.4.1.9 104602 a.121.1.1 104603 2kuaA 170 1.30e+01 1p2xA 159 1.31e+01 a.40.1.1 104062 3gmeA 549 1.32e+01 3dzvA 273 1.32e+01 2gwgA 350 1.37e+01 c.1.9.15 135805 1p5sA 203 1.39e+01 a.40.1.1 94147 1dcoA 104 1.39e+01 1dcpA d.74.1.1 39680 3br2A 194 1.42e+01 1pg4A 652 1.43e+01 e.23.1.1 88067 2x25B 169 1.46e+01 2db0A 253 1.47e+01 2aclB 244 1.48e+01 a.123.1.1 144801 3cuzA 532 1.51e+01 2ob9A 130 1.51e+01 3ir4A 218 1.53e+01 1tw9A 206 1.53e+01 a.45.1.1 107381 c.47.1.5 107382 2qklA 127 1.55e+01 2zihA 347 1.61e+01 1jt6A 188 1.67e+01 a.4.1.9 67247 a.121.1.1 67248 3dn7A 194 1.71e+01 3e5jA 403 1.76e+01 1h5uA 842 1.77e+01 1a8i c.87.1.4 60655 1a8i 842 1.78e+01 1a8i 1ockA 412 1.81e+01 c.117.1.1 86802 1g5cA 170 1.82e+01 1g5cA c.53.2.1 60264 2raaA 204 1.82e+01 1ru0A 105 1.93e+01 d.74.1.1 111937 2ah6A 208 1.93e+01 1ofwA 296 1.97e+01 a.138.1.1 92850 2x2aA 165 1.99e+01 3ilhA 146 2.02e+01 1xeaA 323 2.05e+01 c.2.1.3 109572 d.81.1.5 109573 3l60A 250 2.08e+01 3k1qI 639 2.12e+01 3btiA 188 2.12e+01 a.4.1.9 155566 a.121.1.1 155567 2oerA 214 2.12e+01 2j22A 148 2.13e+01 2w5yA 192 2.18e+01 3bqzA 194 2.18e+01 2vfjA 366 2.18e+01 1nfiA 301 2.22e+01 1a3qA b.1.18.1 21942 b.2.5.3 22455 1amuA 563 2.25e+01 1amuA e.23.1.1 43351 3br5A 194 2.29e+01 3kyjA 144 2.29e+01 2p5mA 83 2.31e+01 d.74.2.1 149254 3cm3A 176 2.33e+01 1edg 380 2.35e+01 1edg 1edgA 380 2.35e+01 c.1.8.3 28807 2wpnA 317 2.35e+01 2hujA 140 2.35e+01 a.24.26.1 136777 2wk6A 482 2.36e+01 3br3A 194 2.37e+01 3mcrA 213 2.42e+01 1jmeA 455 2.53e+01 a.104.1.1 66885 2k5gA 191 2.54e+01 d.129.3.5 148273 2cwaA 263 2.58e+01 2basA 431 2.59e+01 c.1.33.1 128244 d.110.6.2 128245 1qnaA 200 2.59e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1t8hA 277 2.59e+01 d.194.1.2 106664 2acvA 463 2.66e+01 c.87.1.10 146047 3gocA 237 2.68e+01 3fc6B 266 2.69e+01 3f0nA 414 2.70e+01 1xk4C 113 2.75e+01 a.39.1.2 122057 3hf2A 482 2.82e+01 1awe 130 2.86e+01 1awe 2j0lA 276 2.87e+01 2fs6A 137 2.89e+01 b.60.1.2 134005 2g7bA 137 2.91e+01 1ymkA 175 2.92e+01 c.46.1.1 123699 3dkbA 390 2.94e+01 2znrA 178 3.02e+01 1p27B 106 3.07e+01 d.58.7.1 93908 2hu9A 130 3.12e+01 5cytR 104 3.20e+01 1ycc a.3.1.1 15878 2phjA 251 3.21e+01 2wqkA 251 3.21e+01 1u36A 106 3.24e+01 b.1.18.1 107635 1ah7 245 3.26e+01 1ah7 1ah7A 245 3.26e+01 a.124.1.1 19339 1nd7A 374 3.29e+01 d.148.1.1 91817 2a2kA 175 3.41e+01 3cp8A 641 3.44e+01 3b4rA 224 3.51e+01 2pbyA 308 3.65e+01 1io7A 368 3.73e+01 1f4tA a.104.1.1 18971 3dclA 284 3.73e+01 2waqC 395 3.77e+01 2gvhA 288 3.79e+01 d.38.1.1 135776 d.38.1.1 135777 2au3A 407 3.83e+01 1ak0 270 3.83e+01 1ak0 1ak0A 270 3.83e+01 a.124.1.2 19345 2o9pA 454 3.84e+01 1om1A 332 3.85e+01 d.144.1.7 93347 2h8aA 154 3.85e+01 f.56.1.1 147239 3bb1A 274 3.88e+01