# 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.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 1hg5A 289 3.68e-11 1hg5A a.118.10.1 19221 1hf8A 289 4.05e-11 1hg5A a.118.10.1 19219 1eduA 149 8.51e-02 1eduA a.118.9.1 19215 1eyhA 144 8.69e-02 1eduA a.118.9.1 19214 1ku2A 241 7.90e-01 1dt6A 473 7.93e-01 1dt6A a.104.1.1 18977 1gw5A 621 1.11e+00 1hleA 345 1.94e+00 1ovaA e.1.1.1 42618 1gk4A 84 2.21e+00 1gk4D 84 2.29e+00 1gk4C 84 2.52e+00 1fdyA 297 2.87e+00 1nal3 c.1.10.1 29071 1fj2A 232 2.99e+00 1auoA c.69.1.14 34720 1hgeB 175 3.24e+00 1hgeB h.3.1.1 45680 1i19A 561 3.49e+00 1i19A d.58.32.3 61522 d.145.1.1 61523 3hmgB 175 3.63e+00 1hgeB h.3.1.1 45704 1nal3 297 3.74e+00 1nal3 2viuB 175 3.89e+00 1hgeB h.3.1.1 45676 1bkdS 439 4.01e+00 1bkdS a.117.1.1 19111 1fsgA 233 4.13e+00 1qk3A c.61.1.1 34029 1xikA 375 4.32e+00 1xikA a.25.1.2 16784 1qk4A 233 4.34e+00 1qk3A c.61.1.1 34037 1frvB 536 4.52e+00 1h2rL e.18.1.1 43296 1nal1 297 5.91e+00 1nal3 1kxu 333 5.99e+00 1jkw a.74.1.1 18358 a.74.1.1 18359 1j77A 209 6.24e+00 1j77A a.132.1.2 62674 1jr3A 373 6.25e+00 a.80.1.1 63245 c.37.1.13 63246 1gqeA 365 6.91e+00 1jqcA 375 6.92e+00 1xikA a.25.1.2 63229 1jsdB 176 7.09e+00 h.3.1.1 63259 1jkw 323 7.24e+00 1jkw a.74.1.1 18356 a.74.1.1 18357 2frvB 536 7.33e+00 1h2rL e.18.1.1 43291 1ea1A 455 7.99e+00 1ea1A a.104.1.1 18970 1aurA 218 8.39e+00 1auoA c.69.1.14 34718 1ribA 375 8.63e+00 1xikA a.25.1.2 16788 1cviA 342 8.85e+00 1cviA c.60.1.2 33989 1ej3A 191 8.88e+00 1ej3A a.39.1.5 17259 1auoA 218 9.05e+00 1auoA c.69.1.14 34716 1ivhA 394 1.06e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1ha2A 585 1.07e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 2occA 514 1.07e+01 2occA f.2.1.3 43518 1ap7 168 1.07e+01 1bd8 a.118.2.1 19170 1e7aA 585 1.15e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1bzyA 217 1.16e+01 1qk3A c.61.1.1 34071 1cem 363 1.19e+01 1cem a.102.1.2 18826 1g4yB 101 1.21e+01 1g4yB f.2.1.11 60251 1bj5 585 1.23e+01 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1h2rL 534 1.25e+01 1h2rL e.18.1.1 43298 1kwfA 363 1.26e+01 1gumA 222 1.28e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1ignA 246 1.30e+01 1ignA a.4.1.6 16048 a.4.1.6 16049 1d9cA 121 1.41e+01 1d9cA a.26.1.3 16901 2hpaA 342 1.44e+01 1cviA c.60.1.2 33985 1dm5A 315 1.55e+01 1avc a.65.1.1 18186 1jfeA 491 1.57e+01 h.1.8.1 66626 1fps 348 1.60e+01 1uby a.128.1.1 19436 1e9xA 455 1.61e+01 1ea1A a.104.1.1 18969 1aoa 275 1.62e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1gpb 842 1.62e+01 1a8i c.87.1.4 35478 1i50B 1224 1.65e+01 e.29.1.2 61755 1i1iP 681 1.65e+01 1i1iP d.92.1.5 40297 1eumA 165 1.76e+01 1eumA a.25.1.1 59507 1ds4A 292 1.77e+01 1ryc a.93.1.1 59129 1b5l 172 1.87e+01 1b5l a.26.1.3 16900 2prgC 88 1.88e+01 2prgC a.137.6.1 19644 1a8i 842 1.88e+01 1a8i c.87.1.4 35490 1gotG 73 1.91e+01 1tbgE a.137.3.1 19629 1cjsA 219 1.91e+01 1cjsA e.24.1.1 43354 1hd8A 363 2.04e+01 b.105.1.1 65803 e.3.1.1 65804 1qq8A 214 2.07e+01 1qq8A a.132.1.1 19508 1imvA 398 2.13e+01 e.1.1.1 62591 2ligA 164 2.20e+01 1vls a.24.2.1 16530 1rfbA 119 2.29e+01 1d9cA a.26.1.3 16905 1qd1A 325 2.40e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1fx2A 235 2.41e+01 1fx2A d.58.29.1 39430 1adoA 363 2.42e+01 1fbaA c.1.10.1 29124 3fapB 94 2.46e+01 1nsgB a.24.7.1 16612 1thtA 305 2.57e+01 1thtA c.69.1.13 34711 1k3sA 113 2.60e+01 d.198.1.1 68120 1fohA 664 2.61e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1rss 151 2.65e+01 1rss a.75.1.1 18392 1ldjA 760 2.67e+01 1b9xB 68 2.73e+01 1tbgE a.137.3.1 19638 1ccg 291 2.77e+01 1ryc a.93.1.1 18627 1jmxA 494 2.86e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.1.6 66903 b.1.1.6 66904 b.61.4.1 66905 1g3jA 532 2.93e+01 3bct a.118.1.1 19114 1f5qB 252 2.95e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1fx8A 281 2.95e+01 f.2.1.5 43651 1qdbA 473 2.95e+01 1qdbA a.138.1.3 19688 1kkoA 413 2.95e+01 c.1.11.2 68675 d.54.1.1 68676 1jvpP 298 2.97e+01 d.144.1.1 67371 1h2aL 567 2.98e+01 1h2rL e.18.1.1 43299 1c2pA 576 3.00e+01 1quvA e.8.1.4 43117 1bi5A 389 3.01e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1i86A 389 3.01e+01 c.95.1.2 66068 c.95.1.2 66069 1h99A 224 3.06e+01 a.142.1.1 60814 a.142.1.1 60815 1sfcA 96 3.06e+01 1sfcA h.1.15.1 45643 1msk 331 3.06e+01 1msk d.173.1.1 42495 1ntcA 91 3.11e+01 1ntcA a.105.1.1 19004 1ceqA 316 3.17e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1kfiA 572 3.22e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1c8kA 842 3.24e+01 1a8i c.87.1.4 35491 1jbgA 109 3.27e+01 a.6.1.3 66480 1dseA 292 3.27e+01 1ryc a.93.1.1 59130 1i88A 389 3.32e+01 c.95.1.2 66070 c.95.1.2 66071 1h5uA 842 3.35e+01 1a8i c.87.1.4 60655 1ldg 316 3.41e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ryc 294 3.50e+01 1ryc a.93.1.1 18601 1qa7A 217 3.53e+01 1havA b.47.1.4 26425 1e1oA 504 3.53e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1jw2A 72 3.75e+01 a.23.5.1 67372 1sfcE 96 3.84e+01 1sfcE h.1.15.1 45647 1dvkA 173 3.91e+01 1dvkA a.72.1.1 18319 1i4sA 147 3.96e+01 a.149.1.1 66026 1jdhA 529 3.99e+01 a.118.1.1 66549