# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1mugA 168 9.23e-01 1mugA c.18.1.2 31030 1qysA 106 2.39e+00 k.41.1.1 96603 1g33A 73 2.58e+00 a.39.1.4 65121 2lbd 267 3.09e+00 2lbd a.123.1.1 19287 1fcyA 236 3.24e+00 2lbd a.123.1.1 19282 1auq 208 3.33e+00 1auq c.62.1.1 34137 1sra 151 3.48e+00 1sra a.39.1.3 17190 4lbd 267 3.59e+00 2lbd a.123.1.1 19289 1oshA 232 3.84e+00 a.123.1.1 93496 1ijbA 202 4.08e+00 c.62.1.1 71229 1oakA 196 4.89e+00 1auq c.62.1.1 34138 1y9wA 140 5.70e+00 1wgeA 83 7.38e+00 1m0qA 433 7.86e+00 c.67.1.4 78350 1fnsA 196 8.18e+00 1auq c.62.1.1 34136 1souA 194 8.28e+00 c.124.1.6 105858 1u6zA 513 8.62e+00 1jk7A 323 8.88e+00 1auiA d.159.1.3 63144 1bh9A 45 9.19e+00 1bh9A a.22.1.3 16483 1k3xA 262 1.05e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1ul4A 94 1.09e+01 g.72.1.1 99538 1g7dA 106 1.12e+01 1g7dA a.71.1.1 18318 2fhi 147 1.13e+01 1fit d.13.1.1 37505 1asyA 490 1.18e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1nrlA 316 1.21e+01 a.123.1.1 92091 1vrmA 325 1.24e+01 1vqoE 178 1.31e+01 1s72E 178 1.48e+01 d.141.1.1,d.141.1.1 105323,105324 1fit 147 1.53e+01 1fit d.13.1.1 37499 1aszB 490 1.71e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1ijgA 309 1.72e+01 1fouA e.27.1.1 62493 1m13A 316 1.73e+01 a.123.1.1 84746 2gi3A 476 1.87e+01 1cyi 90 1.88e+01 1ctj a.3.1.1 15804 1jj2E 177 1.99e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1phk 298 2.00e+01 1cdkA d.144.1.7 41635 1pz4A 116 2.05e+01 d.106.1.1 95400 1xvjA 109 2.16e+01 1ffk1 177 2.16e+01 1ffk1 1h6qA 168 2.19e+01 1h6qA b.88.1.2 60692 1t0qB 330 2.20e+01 a.25.1.2 106221 2dkb 433 2.29e+01 2dkb c.67.1.4 34438 1q6zA 528 2.30e+01 1vhrA 184 2.38e+01 1vhrA c.45.1.1 32651 1wywA 230 2.45e+01 1dqnA 230 2.53e+01 1dqnA c.61.1.1 34067 1rtxA 123 2.55e+01 a.1.1.1 97827 1rwyA 109 2.76e+01 a.39.1.4 98002 1fmjA 351 2.78e+01 c.37.1.5 59879 1dqpA 230 2.85e+01 1dqnA c.61.1.1 34069 1ht9A 76 2.90e+01 4icb a.39.1.1 61252 1r8mE 203 2.96e+01 a.118.3.1 97242 1ohzB 60 3.04e+01 a.139.1.1 93044 1okrA 123 3.04e+01 a.4.5.39 93269 1zthA 258 3.05e+01 1fouA 309 3.06e+01 1fouA e.27.1.1 43364 1bfd 528 3.09e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1u32A 293 3.09e+01 d.159.1.3 107631 1l8dA 112 3.13e+01 h.4.12.1 73687 1b1gA 75 3.16e+01 1psrA a.39.1.1 17151 1cyj 90 3.17e+01 1ctj a.3.1.1 15805 1ryp1 222 3.18e+01 1ryp1 1yvoA 172 3.21e+01 1qynA 153 3.29e+01 d.33.1.1 96597 1w33A 181 3.32e+01 1h1hA 134 3.47e+01 d.5.1.1 76468 1puc 105 3.54e+01 1puc d.97.1.1 40675 1uluA 261 3.63e+01 1g0uL 241 3.70e+01 d.153.1.4 41894 1focA 132 3.76e+01 1c52 a.3.1.1 15812 2bl1A 172 3.77e+01 1z3xA 238 3.77e+01 1xoyA 161 3.80e+01 1fjmA 330 3.82e+01 1auiA d.159.1.3 42082 2f6hX 419 3.92e+01 1dugA 234 3.96e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 2a74B 188 4.10e+01 1j7vR 214 4.17e+01 b.1.2.1,b.1.2.1 62705,62706 1lxtA 561 4.22e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35432,35433,35434,41309 1b26A 416 4.22e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1yxmA 303 4.28e+01 1a8l 226 4.33e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1bndB 119 4.38e+01 1bndA g.17.1.3 44794 1bgc 174 4.45e+01 1bgc a.26.1.1 16822 1vq0A 302 4.54e+01 1sjqA 105 4.68e+01 d.58.7.1 105660 1b3bA 415 4.72e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 4rxn 54 4.79e+01 1rb9 g.41.5.1 45226 1m3sA 186 4.84e+01 c.80.1.3 78573 1gpqA 135 4.86e+01 d.233.1.1 83295 1j08A 226 4.94e+01 c.47.1.2,c.47.1.2 83855,83856 1wtaA 275 4.95e+01 1mjhB 162 4.95e+01 1mjhA c.26.2.4 31640 2es9A 115 4.97e+01 5rxn 54 4.98e+01 1rb9 g.41.5.1 45225 1us8A 147 5.07e+01 c.37.1.12 99859 1c52 131 5.19e+01 1c52 a.3.1.1 15810 1ucrA 78 5.20e+01 a.4.5.45 99188 1qmtA 134 5.21e+01 7rsa d.5.1.1 37290 1gy7A 125 5.22e+01 d.17.4.2 70738 1y01A 102 5.37e+01 1ukfA 188 5.42e+01 d.3.1.10 99488 1daqA 71 5.49e+01 1daqA a.139.1.1 59113 1gqwA 283 5.53e+01 b.82.2.5 70377 1oz9A 150 5.57e+01 d.92.1.15 93808 2bopA 85 5.60e+01 2bopA d.58.8.1 39217 1z8uA 102 5.69e+01 1gtmA 419 5.69e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2d9rA 104 5.72e+01 1w07A 659 5.72e+01 1dytA 133 5.72e+01 7rsa d.5.1.1 37288 1pbv 195 5.72e+01 1pbv a.118.3.1 19179 1d7uA 433 5.76e+01 2dkb c.67.1.4 34439 1wa5B 530 5.93e+01 1ee8A 266 6.00e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1r8sE 203 6.03e+01 a.118.3.1 97248 1o60A 292 6.13e+01 c.1.10.4 92532 1f2tA 149 6.16e+01 1f2tA c.37.1.12 32373 1bk5A 422 6.33e+01 1bk5A a.118.1.1 19130 1qeyA 31 6.33e+01 1qeyA h.2.1.1 45666 1otjA 283 6.34e+01 b.82.2.5 93517 1ysqA 193 6.40e+01 1n1jA 93 6.49e+01 a.22.1.3 79813 1lqsR 214 6.58e+01 b.1.2.1,b.1.2.1 74194,74195 1fsd 28 6.59e+01 k.14.1.1 46439 1h7sA 365 6.61e+01 d.14.1.3,d.122.1.2 65705,65706 1m4jA 142 6.64e+01 d.109.1.2 78602 1s69A 124 6.67e+01 a.1.1.1 105305 1dguA 183 6.70e+01 1dguA a.39.1.5 17333 1gz6A 319 6.71e+01 c.2.1.2 76410 1sceA 112 6.74e+01 1puc d.97.1.1 40676 2f1rA 171 6.81e+01 1og6A 298 6.86e+01 c.1.7.1 86984 1o5iA 249 6.87e+01 c.2.1.2 92499 1gy9A 283 6.89e+01 b.82.2.5 70742 1cec 343 6.91e+01 1ceo c.1.8.3 28809 1w0bA 102 6.97e+01 a.7.11.1 108985 1msk 331 6.99e+01 1msk d.173.1.1 42495 1feuA 206 7.28e+01 1feuA b.53.1.1 59801 1bba 36 7.29e+01 1bba j.6.1.1 46088 1s1hM 132 7.31e+01 i.1.1.1 105165 1rb9 53 7.32e+01 1rb9 g.41.5.1 45214 1u55A 188 7.36e+01 d.278.1.1 107677 1x6mA 196 7.38e+01 1hqi 90 7.39e+01 1hqi d.137.1.1 41454 1tp5A 119 7.44e+01 8rxnA 52 7.46e+01 1rb9 g.41.5.1 45215 1c5cL 214 7.50e+01 32c2A b.1.1.1,b.1.1.2 20474,21438 1dbdA 100 7.50e+01 2bopA d.58.8.1 39218 1dhkB 223 7.62e+01 1led b.29.1.1 24157 1tkeA 224 7.62e+01 1ceo 343 7.70e+01 1ceo c.1.8.3 28808 1iu4A 331 7.75e+01 d.3.1.8 71430 2fm9A 215 7.78e+01 1gyxA 76 7.79e+01 d.80.1.1 76387 1bp1 456 7.79e+01 1bp1 d.83.1.1,d.83.1.1 40026,40027 2cevA 299 7.94e+01 1d3vA c.42.1.1 32576 1be9A 119 7.97e+01 1pdr b.36.1.1 24774 1mtzA 293 8.05e+01 c.69.1.7 79467 1bbo 57 8.11e+01 1bbo g.37.1.1,g.37.1.1 45046,45047 1ryp2 233 8.12e+01 1ryp2 1y6hA 177 8.16e+01 1c1dA 355 8.21e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1quuA 250 8.21e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1aoiD 99 8.21e+01 1aoiD a.22.1.1 16452 1wlxA 129 8.24e+01 2gpjA 252 8.35e+01 1wt4A 73 8.35e+01 1h5wA 309 8.45e+01 e.27.1.1 65635 1ae1A 273 8.46e+01 1bdb c.2.1.2 29943 1tvgA 153 8.53e+01 1jjoC 261 8.62e+01 1bk6A 422 8.64e+01 1bk5A a.118.1.1 19133 1amp 291 8.66e+01 1amp c.56.5.4 33837 2anpA 291 8.72e+01 1yruB 74 8.82e+01 1vr5A 547 8.83e+01 1b8xA 280 8.83e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1ozjA 144 8.90e+01 d.164.1.1 93846 1hq3B 126 8.96e+01 1aoiD a.22.1.1 16444