# List of top-scoring protein chains for t2k-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 1xeeA 91 1.58e+00 2bjfA 329 1.88e+00 1k6zA 141 2.08e+00 d.198.1.1 68247 1gumA 222 3.19e+00 1pgtA a.45.1.1,c.47.1.5 17683,32977 1rypB 250 3.24e+00 1rypB d.153.1.4 41933 1gulA 222 3.54e+00 1pgtA a.45.1.1,c.47.1.5 17675,32969 1udxA 416 3.71e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1ze3D 125 5.51e+00 1x0oA 119 5.67e+00 1uvqA 197 6.99e+00 b.1.1.2,d.19.1.1 100062,100063 1zcjA 463 7.09e+00 1s6bA 119 7.09e+00 a.133.1.2 98592 1k7yA 577 7.40e+00 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1z9lA 128 7.72e+00 1xaoA 121 7.73e+00 1lzlA 323 7.79e+00 c.69.1.2 78306 1onqA 283 8.86e+00 b.1.1.2,d.19.1.1 93365,93366 1jyaA 130 8.99e+00 d.198.1.1 67453 1v32A 101 9.42e+00 a.42.1.1 100277 1gzqA 300 9.76e+00 b.1.1.2,d.19.1.1 70818,70819 1x47A 98 1.20e+01 1rw2A 152 1.21e+01 a.118.19.1 97961 1jjgA 102 1.38e+01 b.40.4.5 71696 2bmeA 186 1.51e+01 2a5jA 191 1.56e+01 1kjvA 284 1.78e+01 b.1.1.2,d.19.1.1 77421,77422 1vpkA 378 2.06e+01 1fzoA 274 2.07e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1gg4A 452 2.10e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1neeA 138 2.12e+01 d.241.1.1,g.59.1.1 91841,91842 1ho8A 480 2.13e+01 1ho8A a.118.1.9 61107 2f9lA 199 2.16e+01 1e3dB 542 2.17e+01 1h2rL e.18.1.1 59189 1kuuA 202 2.18e+01 d.153.2.1 73019 1trb 320 2.23e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1lqtA 456 2.30e+01 c.3.1.1,c.4.1.1 74198,74199 1eqkA 102 2.34e+01 1eqkA d.17.1.2 37998 1ugjA 141 2.35e+01 b.41.1.3 107826 1lzjA 292 2.35e+01 c.68.1.9 74352 1kmnD 424 2.36e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1bymA 97 2.44e+01 1bi0 b.34.1.2 24458 1bbzE 58 2.44e+01 1bbzA b.34.2.1 24479 2af6A 258 2.54e+01 2b8eA 273 2.54e+01 1fzkA 274 2.64e+01 1agdA b.1.1.2,d.19.1.1 60149,60150 1fnmA 691 2.66e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 6gsvA 217 2.68e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2g39A 497 2.72e+01 1bywA 110 2.73e+01 1bywA d.110.3.6 40912 1kmmA 424 2.75e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1pmaA 233 2.80e+01 1pmaA d.153.1.4 41918 1lk2A 274 2.88e+01 b.1.1.2,d.19.1.1 91056,91057 1hy3A 294 2.89e+01 c.37.1.5 71090 1lxdA 100 2.90e+01 1lfdA d.15.1.5 37624 1q0bA 367 2.91e+01 c.37.1.9 95502 1vkcA 158 2.92e+01 1gpmA 525 2.96e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1wr2A 238 2.97e+01 1t5eA 360 3.02e+01 f.46.1.1 106436 2cr4A 126 3.07e+01 2cxaA 256 3.15e+01 1k4nA 192 3.17e+01 d.32.1.5 72059 2occB 227 3.18e+01 2occB b.6.1.2,f.17.2.1 23027,43519 1tde 316 3.20e+01 1trb c.3.1.5,c.3.1.5 30531,30532 1bbzA 58 3.21e+01 1bbzA b.34.2.1 24477 1on0A 158 3.25e+01 d.108.1.1 87095 1aboA 62 3.30e+01 1bbzA b.34.2.1 24474 1r4xA 275 3.36e+01 b.1.10.3,d.105.1.2 97054,97055 1rylA 167 3.36e+01 d.276.1.1 105124 1go4E 100 3.41e+01 h.1.22.1 70296 2fbyA 205 3.47e+01 1fsgA 233 3.47e+01 1qk3A c.61.1.1 34029 1y75A 118 3.67e+01 1pzdA 322 3.73e+01 b.1.10.3,d.105.1.2 95413,95414 1g79A 218 3.76e+01 1ci0A b.45.1.1 25752 1s72N 187 3.77e+01 c.55.4.1 105333 1uehA 253 3.79e+01 c.101.1.1 99259 1kaeA 434 3.80e+01 c.82.1.2 72247 1g7pA 274 3.83e+01 b.1.1.2,d.19.1.1 70153,70154 1rypC 244 3.84e+01 1rypC d.153.1.4 41934 2f4iA 197 3.89e+01 2asfA 137 3.92e+01 1x6oA 174 3.92e+01 b.34.5.2,b.40.4.5 109493,109494 1eyrA 228 3.94e+01 1eyrA c.68.1.13 34514 1en7A 157 3.95e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1a3gA 308 4.03e+01 1daaA e.17.1.1 43286 1px5A 349 4.04e+01 a.160.1.2,d.218.1.6 95277,95278 3thiA 371 4.07e+01 2thiA c.94.1.1 35792 1j6rA 214 4.09e+01 d.173.1.2 71598 2dabA 282 4.18e+01 1daaA e.17.1.1 43274 1iyeA 309 4.19e+01 e.17.1.1 83786 1ai1H 221 4.24e+01 1igtB b.1.1.1,b.1.1.2 19883,20979 1vf1A 229 4.28e+01 1a34A 159 4.31e+01 1a34A b.121.7.1 23286 1womA 271 4.33e+01 1y08A 323 4.33e+01 1qk4A 233 4.36e+01 1qk3A c.61.1.1 34037 1a7qH 116 4.43e+01 1gc1H b.1.1.1 19955 3daaA 277 4.44e+01 1daaA e.17.1.1 43272 1cmxA 236 4.54e+01 1uch d.3.1.6 37130 1vkuA 100 4.55e+01 a.28.1.1 108690 1w6sB 74 4.61e+01 1qpoA 284 4.69e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1a0gA 282 4.69e+01 1daaA e.17.1.1 43276 1fazA 122 4.90e+01 1fazA a.133.1.3 59757 1k75A 434 4.94e+01 c.82.1.2 68253 1ufhA 180 4.94e+01 d.108.1.1 88485 1wgoA 123 5.04e+01 1vqoN 187 5.06e+01 1wguA 136 5.06e+01 1mkyA 439 5.12e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1pujA 282 5.13e+01 c.37.1.8 88294 1rybA 212 5.23e+01 c.56.3.1 98098 1hmvB 440 5.26e+01 1rthA e.8.1.2 43047 1x4rA 99 5.33e+01 2f2tA 161 5.35e+01 1uu1A 335 5.46e+01 c.67.1.1 99993 2gaiA 633 5.47e+01 1x82A 190 5.50e+01 2a0kA 161 5.58e+01 1jmtA 104 5.61e+01 d.58.7.3 63180 2f62A 161 5.64e+01 1k3bA 119 5.67e+01 b.61.5.1 72016 1d06A 130 5.72e+01 1drmA d.110.3.2 40906 2gf9A 189 5.77e+01 1ew0A 130 5.78e+01 1drmA d.110.3.2 40905 1jp3A 253 5.81e+01 1f75A c.101.1.1 63221 1y74A 57 5.83e+01 1ubkL 534 5.84e+01 e.18.1.1 88422 1i1gA 141 5.87e+01 a.4.5.32,d.58.4.2 65982,65983 1b4pA 217 5.94e+01 a.45.1.1,c.47.1.5 83158,83159 1wuiL 534 5.95e+01 1tf9A 284 6.00e+01 2bj0A 203 6.06e+01 1kpuA 274 6.14e+01 b.1.1.2,d.19.1.1 84456,84457 1ic7H 114 6.27e+01 1f3rB b.1.1.1 62258 1daaA 282 6.28e+01 1daaA e.17.1.1 43270 1tkjA 284 6.29e+01 1ieaA 192 6.31e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1h2rL 534 6.45e+01 1h2rL e.18.1.1 43298 1wjxA 122 6.50e+01 1msk 331 6.53e+01 1msk d.173.1.1 42495 1wurA 220 6.55e+01 2pvaA 345 6.56e+01 3pvaA d.153.1.3 41850 1x88A 359 6.63e+01 1h2aL 567 6.65e+01 1h2rL e.18.1.1 43299 2cg4A 152 6.66e+01 1a99A 344 6.67e+01 1pot c.94.1.1 35812 1kllA 130 6.68e+01 d.32.1.2 72720 1tjgH 237 6.73e+01 1zb9A 143 6.73e+01 1ze3H 122 6.79e+01 2c4jA 218 6.79e+01 1m1hA 248 6.81e+01 b.114.1.1,d.58.42.1 78415,78416 1k3yA 221 6.82e+01 a.45.1.1,c.47.1.5 77245,77246 1qq9A 284 7.01e+01 1xjo c.56.5.4 33841 1bx2B 191 7.05e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1ylkA 172 7.05e+01 1jm7B 117 7.08e+01 g.44.1.1 66881 1rlmA 271 7.11e+01 1yarA 233 7.13e+01 1u5kA 244 7.14e+01 1s6bB 119 7.18e+01 a.133.1.2 98593 2wsyB 396 7.20e+01 2tysB c.79.1.1 35288 2fji1 399 7.23e+01 1xw5A 217 7.24e+01 3pvaA 335 7.30e+01 3pvaA d.153.1.3 41854 1rgxA 114 7.33e+01 g.77.1.1 104932 2g3aA 152 7.38e+01 1g3mA 294 7.45e+01 c.37.1.5 83268 2lfb 100 7.49e+01 1lfb a.4.1.1 15990 2akrA 285 7.52e+01 1d4bA 122 7.52e+01 1d4bA d.15.2.1 37638 1jj2M 186 7.55e+01 1ffkK c.55.4.1 63098 1he7A 126 7.70e+01 1wwcA b.1.1.4 60970 1s3zA 165 7.71e+01 d.108.1.1 105250 1ry3A 64 7.76e+01 j.106.1.1 98084 2f5bH 235 7.81e+01 b.1.1.1,b.1.1.2 88506,88507 1wi5A 119 7.84e+01 1lj2A 110 7.88e+01 h.1.13.2 73926 1j1xH 114 7.95e+01 b.1.1.1 77063 2fuqA 747 7.97e+01 1k3lA 221 8.00e+01 a.45.1.1,c.47.1.5 77229,77230 1uacH 114 8.06e+01 b.1.1.1 99132 1qwtA 255 8.07e+01 b.26.1.3 96501 1nrgA 261 8.14e+01 b.45.1.1 80694 1zkcA 197 8.22e+01 2b4vA 468 8.26e+01 1bqnA 558 8.36e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1k8kB 394 8.39e+01 c.55.1.1 68307 1u69A 163 8.39e+01 d.32.1.7 107699 1t0tV 248 8.40e+01 d.58.4.10 106229 1b8xA 280 8.41e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 2apjA 260 8.46e+01 1y4oA 104 8.47e+01 1jfvA 131 8.48e+01 c.44.1.1 66654 1gpl 432 8.55e+01 1gpl b.12.1.2,c.69.1.19 23645,34793 1ylxA 103 8.57e+01 2b0oE 301 8.59e+01 1tu7A 208 8.71e+01 1z5lA 285 8.72e+01 1opc 110 8.74e+01 1opc a.4.6.1 16231 1ntcA 91 8.75e+01 1ntcA a.4.1.12 19004 2aabH 243 8.75e+01 2ayvA 166 8.76e+01 2adgB 222 8.88e+01 1aqdA 192 8.93e+01 1iakA b.1.1.2,d.19.1.1 21585,38159