# 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 1a58 177 4.08e-20 2cpl b.62.1.1 27495 2cpl 165 4.75e-20 2cpl b.62.1.1 27420 1yndA 165 5.81e-20 2bitX 165 5.87e-20 1awqA 164 8.50e-20 2cpl b.62.1.1 27461 1xo7A 166 1.00e-19 1awsA 164 1.03e-19 2cpl b.62.1.1 27431 1dywA 173 1.13e-19 2cpl b.62.1.1 27505 2cfeA 162 1.63e-19 2rmcA 182 2.05e-19 2cpl b.62.1.1 27491 1zcxA 178 2.06e-19 1qoiA 177 2.51e-19 2cpl b.62.1.1 27490 1vdnA 162 4.08e-19 1ihgA 370 5.30e-19 2cpl a.118.8.1,b.62.1.1 62380,62381 1h0pA 182 1.48e-18 b.62.1.1 76450 2a2nA 176 5.67e-18 1zkcA 197 1.94e-17 1xwnA 174 6.19e-17 2b71A 196 7.28e-17 2fu0A 160 9.09e-17 1v9tA 166 1.29e-15 b.62.1.1 108451 1j2aA 166 1.66e-15 b.62.1.1 90779 1lopA 164 9.05e-15 2cpl b.62.1.1 27510 1zx8A 136 1.17e-01 1kskA 234 1.95e+00 d.66.1.5,d.265.1.3 72920,90389 1uscA 178 2.82e+00 b.45.1.2 99860 1xhnA 184 4.07e+00 1pbyA 489 4.54e+00 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2gclA 261 4.55e+00 1x74A 360 4.63e+00 1bdfA 235 4.87e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 1gggA 226 5.09e+00 1lst c.94.1.1 35817 1vioA 243 5.51e+00 d.265.1.3,d.66.1.5 100762,100763 2bf6A 449 5.65e+00 1nbfA 353 6.12e+00 d.3.1.9 80387 2b8mA 117 6.18e+00 1m1hA 248 7.57e+00 b.114.1.1,d.58.42.1 78415,78416 1ja1A 622 8.86e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1vr8A 142 9.17e+00 1zoxA 113 1.06e+01 1pmi 440 1.11e+01 1pmi b.82.1.3 28114 1pmy 123 1.12e+01 1bqk b.6.1.1 22888 1lugA 259 1.20e+01 b.74.1.1 91127 1bqk 124 1.26e+01 1bqk b.6.1.1 22889 1nb8A 353 1.30e+01 d.3.1.9 80385 2cba 260 1.39e+01 2cba b.74.1.1 27821 1sxvA 172 1.41e+01 1mdbA 539 1.42e+01 e.23.1.1 79008 1ii7A 333 1.43e+01 1ii7A d.159.1.4 62415 2gk3A 256 1.59e+01 1wosA 364 1.69e+01 b.44.2.1,d.250.1.1 109468,109469 1i8dA 213 1.89e+01 b.43.4.3,b.43.4.3 61953,61954 1dl5A 317 1.90e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1c0pA 363 1.92e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2gfoA 396 1.93e+01 1b1cA 181 1.97e+01 1amoA c.23.5.2 31212 1wu7A 434 2.04e+01 1yo1A 260 2.09e+01 1y0kA 209 2.12e+01 1yphC 131 2.12e+01 2aexA 346 2.16e+01 1paz 123 2.18e+01 1bqk b.6.1.1 22878 1fr7A 260 2.19e+01 2cba b.74.1.1 27828 1jmxA 494 2.23e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1vk6A 269 2.31e+01 d.113.1.4,d.113.1.4 100851,100852 1g291 372 2.37e+01 1g291 1wvqA 167 2.38e+01 1mp4A 292 2.40e+01 c.68.1.6 79376 1hp1A 516 2.42e+01 d.114.1.1,d.159.1.2 70976,70977 1sczA 233 2.49e+01 c.43.1.1 98802 1ush 550 2.53e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1yoeA 322 2.58e+01 2bvfA 459 2.64e+01 1igrA 478 2.70e+01 1igrA c.10.2.5,c.10.2.5,g.3.9.1 30877,30878,44188 2arzA 247 2.73e+01 1ewkA 490 2.76e+01 1ewkA c.93.1.1 35712 1m2oA 768 2.82e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1k8wA 327 2.84e+01 b.122.1.1,d.265.1.2 83094,90388 2cy7A 396 2.87e+01 2ajtA 500 2.96e+01 1r64A 481 3.00e+01 b.18.1.20,c.41.1.1 97140,97141 1mixA 206 3.01e+01 a.11.2.1,b.55.1.5 79166,79167 1l1dA 152 3.02e+01 b.88.1.3 73452 1o8uA 257 3.02e+01 c.14.1.3 81194 1y89A 238 3.04e+01 1ha3A 405 3.05e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1qw9A 502 3.10e+01 b.71.1.2,c.1.8.3 96466,96467 1wdnA 226 3.11e+01 1lst c.94.1.1 35816 3grs 478 3.12e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 2b25A 336 3.15e+01 1xe7A 203 3.16e+01 1szoA 257 3.23e+01 c.14.1.3 106164 1vjvA 415 3.31e+01 d.3.1.9 108632 1tu5A 746 3.34e+01 1ywlA 96 3.36e+01 1gesA 450 3.40e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1xipA 388 3.42e+01 1r13A 148 3.57e+01 d.169.1.1,h.1.1.1 96782,96783 1ymiA 334 3.57e+01 1bu8A 452 3.57e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 2bibA 547 3.61e+01 1brwA 433 3.62e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1agjA 242 3.72e+01 1agjA b.47.1.1 25827 1h5rA 293 3.74e+01 c.68.1.6 65623 2coeA 120 3.83e+01 1p5hA 428 3.89e+01 c.123.1.1 87802 1qwgA 251 3.90e+01 c.1.27.1 96473 1q67A 231 3.92e+01 b.55.1.7 95960 1wv3A 238 3.94e+01 1vqvA 306 3.99e+01 1xgsA 295 4.00e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 2b9wA 424 4.05e+01 1xn9A 101 4.06e+01 2gefA 217 4.08e+01 2sli 679 4.12e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1fxoA 293 4.31e+01 1g0rA c.68.1.6 34524 1t5bA 201 4.32e+01 c.23.5.3 106433 3cla 213 4.34e+01 3cla c.43.1.1 32610 2awdA 323 4.34e+01 1ewnA 219 4.34e+01 1bnkA b.46.1.2 25762 2gtqA 867 4.37e+01 1e30A 155 4.43e+01 1rcy b.6.1.1 23016 1r3eA 309 4.56e+01 b.122.1.1,d.265.1.2 96907,96908 1ntyA 311 4.58e+01 a.87.1.1,b.55.1.1 103873,103874 2bh9A 489 4.60e+01 1gg6B 131 4.63e+01 5ptp 1fa0A 537 4.64e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1zoyA 622 4.68e+01 1zq4A 693 4.68e+01 1f9zA 135 4.70e+01 1qipA d.32.1.1 38484 1ri5A 298 4.70e+01 c.66.1.34 97502 1gteA 1025 4.87e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2ffjA 300 4.89e+01 1uovA 159 4.90e+01 b.7.1.2 107974 1k07A 263 4.92e+01 d.157.1.1 77218 1qmpA 130 4.92e+01 1dz3A c.23.1.1 31106 1xknA 355 4.93e+01 1fa8A 135 4.94e+01 1qipA d.32.1.1 38486 2g2cA 167 4.99e+01 1v8cA 168 5.05e+01 d.15.3.1,d.129.5.1 100495,100496 1ve4A 206 5.05e+01 1vfjA 116 5.06e+01 1bmv2 374 5.07e+01 1bmv2 1gctA 245 5.13e+01 5ptp b.47.1.2 26021 1v93A 296 5.13e+01 c.1.23.1 100532 1k0iA 394 5.19e+01 c.3.1.2,d.16.1.2 67942,67943 1ezvB 352 5.23e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1h6tA 291 5.24e+01 b.1.18.15,c.10.2.1 65686,65687 1k87A 669 5.28e+01 a.176.1.1,c.1.23.2 77286,77287 1b43A 340 5.30e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1qpxA 218 5.33e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1wsrA 375 5.34e+01 1kg0C 136 5.41e+01 d.169.1.1 72445 1auvA 311 5.48e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1juvA 193 5.52e+01 c.71.1.1 90912 1ef8A 261 5.52e+01 1ef8A c.14.1.3 30921 1ckmA 330 5.52e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2fxqA 264 5.54e+01 1nbwB 117 5.57e+01 c.51.3.2 80396 2foyA 260 5.60e+01 1dfmA 223 5.65e+01 1d2iA c.52.1.5 33295 1hcb 260 5.66e+01 2cba b.74.1.1 27814 2calA 154 5.68e+01 1yhfA 115 5.74e+01 2b4wA 315 5.78e+01 1t5rA 284 5.88e+01 f.6.1.1 106465 1f9mA 112 5.88e+01 1erv c.47.1.1 32736 1rybA 212 5.96e+01 c.56.3.1 98098 1f0xA 571 5.97e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1a70 97 5.99e+01 1awd d.15.4.1 37678 1lg7A 182 6.00e+01 d.213.1.1 73888 1j5wA 298 6.00e+01 d.104.1.1 71589 1yymG 313 6.03e+01 1d5rA 324 6.05e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1vctA 205 6.07e+01 1x54A 434 6.14e+01 1a0rP 245 6.15e+01 1b9yC c.47.1.6 33054 1yy5B 513 6.19e+01 1hskA 326 6.21e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1aisA 182 6.23e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2crvA 120 6.39e+01 2shpA 525 6.44e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1nslA 184 6.50e+01 d.108.1.1 86137 1fljA 260 6.58e+01 2cba b.74.1.1 27954 2b0aA 186 6.58e+01 2cbzA 237 6.63e+01 1mxiA 160 6.65e+01 c.116.1.1 79646 2b9hA 353 6.66e+01 2c1lA 358 6.68e+01 1zvnA 99 6.69e+01 1n0lA 224 6.76e+01 b.1.11.1,b.7.2.1 79744,79745 1u2zA 433 6.77e+01 c.66.1.31 107626 1byfA 125 6.80e+01 1byfA d.169.1.1 42419 1lqpA 135 6.84e+01 d.32.1.2 78151 2f0cA 191 6.85e+01 1vqzA 341 6.86e+01 1g5bA 221 6.89e+01 1g5bA d.159.1.3 60261 1h7wA 1025 6.89e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 3tdt 274 6.90e+01 3tdt b.81.1.2 28053 1o4vA 183 6.92e+01 c.23.8.1 86628 1nkiA 135 7.03e+01 d.32.1.2 91941 1wm1A 317 7.06e+01 c.69.1.7 109405 1rfmA 344 7.12e+01 c.122.1.1 97385 1v6sA 390 7.18e+01 c.86.1.1 100424 1ml4A 308 7.32e+01 c.78.1.1,c.78.1.1 79255,79256 1dz3A 130 7.37e+01 1dz3A c.23.1.1 31105 1npuA 117 7.39e+01 b.1.1.1 92038 1cliA 345 7.42e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1zbtA 371 7.65e+01 1zkoA 136 7.66e+01 1dytA 133 7.67e+01 7rsa d.5.1.1 37288 1qtrA 317 7.72e+01 1qtrA c.69.1.7 34660 2f02A 323 7.74e+01 1kb9B 352 7.75e+01 d.185.1.1,d.185.1.1 77313,77314 1pov1 302 7.76e+01 1pov1 1g1sA 162 7.89e+01 d.169.1.1,g.3.11.1 65100,65101 2eu9A 355 7.90e+01 1rcy 151 7.97e+01 1rcy b.6.1.1 23018 1oc2A 348 8.05e+01 c.2.1.2 92765 1isiA 265 8.08e+01 e.4.1.1 71394 1q8fA 313 8.11e+01 c.70.1.1 96203 1wchA 315 8.18e+01 1i7oA 429 8.18e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1op4A 159 8.18e+01 b.1.6.1 93397 1zlqA 502 8.20e+01 1svb 395 8.24e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1pswA 348 8.29e+01 c.87.1.7 88287 1yoxA 250 8.30e+01 1zs7A 190 8.30e+01 1tueA 212 8.31e+01 c.37.1.20 107323 1exmA 405 8.34e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1k8kD 300 8.38e+01 d.198.2.1,d.198.2.1 68309,68310 1ycoA 279 8.42e+01 1jljA 189 8.51e+01 c.57.1.1 63169 1t9fA 187 8.51e+01 b.42.6.1 106710 1k8kC 372 8.52e+01 b.69.4.1 68308 1aa8A 347 8.53e+01 1an9A 1s99A 200 8.54e+01 1pieA 419 8.62e+01 d.14.1.5,d.58.26.7 94706,94707 2fbwA 621 8.63e+01 1di6A 195 8.64e+01 1di6A c.57.1.1 33863 1kepA 348 8.71e+01 c.2.1.2 68536 2bdwA 362 8.72e+01 2prd 174 8.75e+01 2prd b.40.5.1 25435 1p4oA 322 8.77e+01 d.144.1.7 87775 1ud9A 245 8.79e+01 d.131.1.2,d.131.1.2 107768,107769 2b8eA 273 8.80e+01 2cx1A 187 8.91e+01 1v5sA 126 8.93e+01 d.129.6.1 108384 1faaA 124 8.96e+01 1erv c.47.1.1 32738 1xd3A 230 9.00e+01