# List of top-scoring protein chains for YDR019C.t2k-w0.5 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 1yx2A 365 4.36e-40 1wosA 364 5.31e-39 b.44.2.1 109468 d.250.1.1 109469 1vloA 381 6.55e-37 b.44.2.1 108838 d.250.1.1 108839 1wsrA 375 1.42e-36 1v5vA 401 5.06e-36 1x31A 964 2.34e-35 1pj5A 830 3.58e-33 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 1vlyA 338 2.60e-09 b.44.2.1 108871 d.250.1.1 108872 1nrkA 328 2.68e-09 b.44.2.1 92089 d.250.1.1 92090 1x31C 206 1.32e-03 1xzqB 149 1.80e+00 1xzpB 150 1.80e+00 1vl6A 388 4.22e+00 c.2.1.7 108724 c.58.1.3 108725 1mwwA 128 6.57e+00 d.80.1.4 91483 1c8sA 196 7.16e+00 1c3wA f.13.1.1 43410 1nsnL 218 7.81e+00 8fabA b.1.1.1 20070 b.1.1.2 21102 1brmA 367 8.55e+00 1brmA c.2.1.3 30030 d.81.1.1 39945 1t4bA 367 8.56e+00 c.2.1.3 106406 d.81.1.1 106407 1zhvA 134 9.61e+00 1gawA 314 1.01e+01 1fnc b.43.4.2 25643 c.25.1.1 31533 1s6yA 450 1.05e+01 c.2.1.5 105314 d.162.1.2 105315 1yt3A 375 1.11e+01 1d5bB 221 1.29e+01 8fabA b.1.1.1 20205 b.1.1.2 21221 1axsB 221 1.33e+01 1mfa b.1.1.1 20201 b.1.1.2 21217 1h68A 239 1.36e+01 f.13.1.1 60664 1trjA 314 1.46e+01 1tgoA 773 1.52e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1y56B 382 1.65e+01 1e6jL 210 1.68e+01 32c2A b.1.1.1 20496 b.1.1.2 21454 1e6oL 212 1.68e+01 32c2A b.1.1.1 20494 b.1.1.2 21452 1dmuA 299 1.69e+01 1dmuA c.52.1.4 33294 1xbyA 216 1.70e+01 1rh5B 74 1.71e+01 f.23.28.1 97465 1mt0A 241 1.73e+01 c.37.1.12 85096 1te0A 318 1.80e+01 1xefA 241 1.81e+01 1mwsA 646 1.85e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1vqqA 646 1.91e+01 1th5A 74 1.95e+01 1sotA 320 2.01e+01 b.36.1.4 105852 b.47.1.1 105853 1sozA 314 2.06e+01 b.36.1.4 105859 b.47.1.1 105860 1dgsA 667 2.11e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1hixA 190 2.30e+01 b.29.1.11 65839 1xbzA 216 2.33e+01 1uj6A 227 2.40e+01 c.124.1.4 107898 d.58.40.1 107899 1w8sA 263 2.44e+01 1bmdA 327 2.44e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1bdmA 327 2.45e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1a6q 382 2.53e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 2b2mA 136 2.57e+01 1akq 147 2.65e+01 5nul c.23.5.1 31159 1m5wA 243 2.67e+01 c.1.24.1 84836 1ho1A 242 2.67e+01 1ho1A c.1.24.1 61097 2bnmA 198 2.69e+01 1fnd 314 2.70e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1y7tA 327 2.83e+01 1jv2A 957 2.84e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1jw3A 140 2.91e+01 d.208.1.1 67373 1sk2A 140 3.00e+01 1pz1A 333 3.00e+01 c.1.7.1 95390 1sd8A 141 3.03e+01 1s3dA 138 3.04e+01 1d6vH 221 3.07e+01 1igtB b.1.1.1 20197 b.1.1.2 21213 1sk0A 140 3.08e+01 1sk1A 140 3.13e+01 1w8rA 263 3.15e+01 1o58A 303 3.24e+01 c.79.1.1 92491 1so4A 216 3.25e+01 c.1.2.3 105836 1ojxA 263 3.28e+01 c.1.10.1 93164 1q3iA 214 3.35e+01 d.220.1.1 104524 1wljA 189 3.47e+01 1q6oA 216 3.49e+01 c.1.2.3 95986 1ohvA 472 3.50e+01 c.67.1.4 93031 1ni3A 392 3.53e+01 c.37.1.8 80531 d.15.10.2 80532 1hv0A 185 3.54e+01 b.29.1.11 61285 1m9iA 672 3.56e+01 a.65.1.1 74589 a.65.1.1 74590 1so3A 216 3.60e+01 c.1.2.3 105834 1p88A 216 3.68e+01 1xzpA 482 3.70e+01 1i9dA 141 3.72e+01 c.47.1.12 66098 1tlhB 81 3.77e+01 1fxoA 293 3.77e+01 1g0rA c.68.1.6 34524 1c5hA 185 3.82e+01 1axkA b.29.1.11 24311 1s3cA 141 3.86e+01 1sk4A 163 3.87e+01 d.118.1.1 105664 1jzwA 140 3.87e+01 c.47.1.12 67883 1twqA 165 3.87e+01 1bcx 185 3.87e+01 1axkA b.29.1.11 24312 1j9bA 141 3.88e+01 c.47.1.12 66459 2a7lA 136 3.88e+01 1xnb 185 3.88e+01 1axkA b.29.1.11 24308 1xxnA 185 3.97e+01 1jqkA 639 3.97e+01 e.26.1.2 67101