# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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.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 1ud9A 245 1.23e+00 1s14A 194 1.43e+00 d.122.1.2 -10973 1h4rA 314 1.56e+00 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1us8A 147 2.04e+00 c.37.1.12 -7194 1pyaB 228 2.05e+00 1pyaB 1iz5A 249 2.32e+00 d.131.1.2 83834 d.131.1.2 83835 1m4jA 142 2.44e+00 d.109.1.2 78602 1nijA 318 2.59e+00 c.37.1.10 85741 d.237.1.1 85742 1vybA 238 2.61e+00 1p0hA 318 3.39e+00 d.108.1.1 -10802 1jj2O 148 3.66e+00 1ffkM a.94.1.1 63100 1j1tA 233 3.71e+00 unknown_sccs -3462 1m3iA 471 3.80e+00 f.9.1.1 -12374 1cr5A 189 3.94e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1qy5A 269 4.20e+00 d.122.1.1 -10958 1ex2A 189 4.30e+00 1ex2A c.51.4.2 33225 1s72P 149 4.52e+00 1amuA 563 5.03e+00 1amuA e.23.1.1 43351 1khiA 176 5.25e+00 b.34.5.2 77408 b.40.4.5 77409 1ip9A 85 5.34e+00 1ip9A d.15.2.2 62638 1pfo 500 5.44e+00 1pfo f.9.1.1 43826 1plq 258 6.37e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1f7sA 139 6.49e+00 1cof d.109.1.2 40857 1f2tA 149 6.64e+00 1f2tA c.37.1.12 32373 1meoA 209 7.23e+00 c.65.1.1 79035 1s72B 338 7.42e+00 1jj2B 337 7.58e+00 1ffkB b.43.3.2 63086 1unnC 115 8.34e+00 unknown_sccs -10216 1thx 115 8.69e+00 1thx c.47.1.1 32732 1g7sA 594 8.73e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1l2hA 153 9.16e+00 b.42.1.2 77655 1huxA 270 9.55e+00 1huxA c.55.1.5 61278 1umuA 116 9.66e+00 1umuA b.87.1.1 28382 1oeyJ 107 9.86e+00 d.15.2.2 -9168 1h9oA 112 1.11e+01 1qadA d.93.1.1 60837 1hqz1 141 1.13e+01 1mai 131 1.15e+01 1mai b.55.1.1 26951 1g6oA 330 1.17e+01 1g6oA c.37.1.11 32430 2gar 212 1.21e+01 2gar c.65.1.1 34161 1giqA 413 1.23e+01 d.166.1.1 76224 d.166.1.1 76225 2i1b 153 1.25e+01 2i1b b.42.1.2 25538 1h2cA 140 1.28e+01 b.31.1.1 83462 1rg9A 383 1.33e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1cy9A 264 1.37e+01 1ecl e.10.1.1 43236 1ib8A 164 1.40e+01 b.38.2.1 71168 d.52.4.1 71169 1qvcA 145 1.50e+01 3ullA b.40.4.3 25284 1t0yA 122 1.50e+01 d.15.1.1 -9151 1mngA 203 1.56e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1nbwA 607 1.67e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1dykA 394 1.72e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1gsa 316 1.76e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1lshA 1056 1.80e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1okiA 210 1.83e+01 b.11.1.1 -3030 b.11.1.1 -3031 1ucsA 64 1.86e+01 b.85.1.1 88466 1vk9A 151 1.93e+01 1mmiA 366 1.93e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1f5fA 205 1.93e+01 1d2sA b.29.1.4 24222 1hg7A 66 1.94e+01 1msi b.85.1.1 28280 1oeyA 83 2.03e+01 d.15.2.2 -9162 1bhtA 176 2.04e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1d5tA 433 2.06e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1ugmA 125 2.13e+01 1ayaA 101 2.14e+01 1qadA d.93.1.1 40460 1l1jA 239 2.16e+01 b.47.1.1 84516 1hw7A 255 2.19e+01 1i7fA d.193.1.1 61297 1uthA 315 2.34e+01 1ppfE 218 2.35e+01 1a7s b.47.1.2 26234 1r9fA 136 2.35e+01 unknown_sccs -10736 1ef1A 294 2.37e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1xvaA 292 2.37e+01 1xvaA c.66.1.5 34183 1ako 268 2.46e+01 1ako d.151.1.1 41779 1r4wA 226 2.50e+01 unknown_sccs -7447 1rypH 205 2.52e+01 d.153.1.4 41876 2trxA 108 2.56e+01 1thx c.47.1.1 32719 1m5q1 130 2.60e+01 1lmeA 176 2.62e+01 d.167.1.1 84629 1jb3A 131 2.64e+01 1jc7A b.40.3.2 62833 1nwwA 149 2.64e+01 d.17.4.8 86306 1dm9A 133 2.70e+01 1dm9A d.66.1.3 39560 1o7kA 131 2.78e+01 d.189.1.1 81144 1n9eA 787 2.80e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1hp1A 516 2.85e+01 d.114.1.1 70976 d.159.1.2 70977 1e2tA 284 2.87e+01 1e2tA d.3.1.5 37121 1jb0D 138 2.93e+01 1jb0D d.187.1.1 62823 1c4rA 182 2.93e+01 1c4rA b.29.1.4 24229 1qamA 244 2.98e+01 2ercA c.66.1.24 34220 2bpa2 175 2.99e+01 2bpa2 1t6aA 126 3.07e+01 1ca1 370 3.09e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1iqaA 160 3.10e+01 b.22.1.1 71274 1kngA 156 3.15e+01 c.47.1.10 72777 1ii7A 333 3.17e+01 1ii7A d.159.1.4 62415 1nstA 325 3.19e+01 1nstA c.37.1.5 31951 1jofA 365 3.26e+01 b.69.10.1 71775 1auiA 521 3.32e+01 1auiA d.159.1.3 42085 1ue1A 164 3.33e+01 b.40.4.3 -3905 1lci 550 3.41e+01 1lci e.23.1.1 43349 1j0sA 157 3.47e+01 b.42.1.2 -4016 1bkf 107 3.48e+01 1fkj d.26.1.1 38382 1skoA 143 3.50e+01 1jx4A 352 3.52e+01 unknown_sccs -10188 unknown_sccs -11898 1erv 105 3.52e+01 1erv c.47.1.1 32743 1dgwA 178 3.60e+01 1dgwA b.82.1.2 28090 1d4xG 126 3.62e+01 1d0nA d.109.1.1 59109 1fvuA 133 3.66e+01 1ixxB d.169.1.1 42345 1q6hA 224 3.67e+01 d.26.1.1 -9487 1qzgA 187 3.71e+01 b.40.4.3 -3920 1n1tA 641 3.72e+01 b.29.1.15 79821 b.68.1.1 79822 1amf 233 3.75e+01 1wod c.94.1.1 35833 1nr0A 611 3.76e+01 b.69.4.1 86078 b.69.4.1 86079 1gyfA 62 3.76e+01 1gyfA d.76.1.1 39749 1f39A 101 3.82e+01 1umuA b.87.1.1 28386 1uldA 150 3.87e+01 b.29.1.3 -3423 1b78A 193 3.90e+01 1b78A c.51.4.1 33221 1azpA 66 3.95e+01 1azpA b.34.13.1 37467 1hxn 219 3.98e+01 1hxn b.66.1.1 27529