# List of top-scoring protein chains for t06-100-40-40-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 1yndA 165 1.19e-18 1dywA 173 2.30e-18 2cpl b.62.1.1 27505 1ihgA 370 5.45e-18 2cpl a.118.8.1,b.62.1.1 62380,62381 1h0pA 182 1.43e-17 b.62.1.1 76450 1lopA 164 3.30e-14 2cpl b.62.1.1 27510 1pbyA 489 1.39e+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 1uscA 178 2.52e+00 b.45.1.2 99860 1mixA 206 3.71e+00 a.11.2.1,b.55.1.5 79166,79167 1vr8A 142 4.18e+00 1i8dA 213 4.26e+00 b.43.4.3,b.43.4.3 61953,61954 1gteA 1025 4.85e+00 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 2gk3A 256 4.91e+00 1bqk 124 5.26e+00 1bqk b.6.1.1 22889 1vioA 243 6.40e+00 d.265.1.3,d.66.1.5 100762,100763 1gmiA 136 6.49e+00 b.7.1.1 65309 1jc4A 148 7.68e+00 1jc4A d.32.1.4 62863 1g0sA 209 7.74e+00 1g0sA d.113.1.1 60187 1x74A 360 8.02e+00 1pmi 440 8.53e+00 1pmi b.82.1.3 28114 1agjA 242 8.57e+00 1agjA b.47.1.1 25827 1qw9A 502 9.08e+00 b.71.1.2,c.1.8.3 96466,96467 1tjxA 159 9.31e+00 2gefA 217 9.66e+00 1ii7A 333 9.76e+00 1ii7A d.159.1.4 62415 1isiA 265 9.88e+00 e.4.1.1 71394 1xe7A 203 1.14e+01 2gf9A 189 1.15e+01 1ntyA 311 1.25e+01 a.87.1.1,b.55.1.1 103873,103874 1dfmA 223 1.27e+01 1d2iA c.52.1.5 33295 1juvA 193 1.28e+01 c.71.1.1 90912 1lq9A 112 1.30e+01 d.58.4.3 78129 1bdfA 235 1.30e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1jmxA 494 1.40e+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 1g5bA 221 1.41e+01 1g5bA d.159.1.3 60261 1ej8A 140 1.43e+01 1qupA b.1.8.1 22300 1dg9A 157 1.45e+01 1dg9A c.44.1.1 32637 1dz3A 130 1.47e+01 1dz3A c.23.1.1 31105 1b35A 260 1.52e+01 1b35A b.121.4.1 23333 1dl5A 317 1.59e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1w96A 554 1.70e+01 1em2A 229 1.73e+01 1em2A d.129.3.2 41321 1vjvA 415 1.89e+01 d.3.1.9 108632 1n13B 113 1.99e+01 1q8fA 313 2.02e+01 c.70.1.1 96203 1fvuB 125 2.04e+01 1ixxB d.169.1.1 42346 1aisA 182 2.13e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1ve2A 235 2.20e+01 2sli 679 2.20e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1vlaA 150 2.23e+01 d.227.1.2 108735 1brwA 433 2.25e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1j5wA 298 2.26e+01 d.104.1.1 71589 1fdr 248 2.28e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1g291 372 2.39e+01 1g291 3cla 213 2.41e+01 3cla c.43.1.1 32610 1fh0A 221 2.54e+01 1cs8A d.3.1.1 59832 1v6sA 390 2.59e+01 c.86.1.1 100424 1deuA 277 2.71e+01 1theB d.3.1.1 37085 1f9zA 135 2.71e+01 1qipA d.32.1.1 38484 1pv5A 264 2.80e+01 d.251.1.1 95150 1dytA 133 2.92e+01 7rsa d.5.1.1 37288 1hyoA 421 3.00e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1c4rA 182 3.02e+01 1c4rA b.29.1.4 24229 1lv7A 257 3.04e+01 c.37.1.20 78232 1rg8A 146 3.13e+01 1lugA 259 3.14e+01 b.74.1.1 91127 1nkiA 135 3.19e+01 d.32.1.2 91941 1o7iA 119 3.22e+01 b.40.4.3 86642 1jndA 420 3.23e+01 c.1.8.5,d.26.3.1 71757,71758 1ewnA 219 3.27e+01 1bnkA b.46.1.2 25762 1jk7A 323 3.28e+01 1auiA d.159.1.3 63144 1ewkA 490 3.29e+01 1ewkA c.93.1.1 35712 1ec7A 446 3.49e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1t9hA 307 3.50e+01 1q7zA 566 3.50e+01 c.1.21.2,c.1.26.1 96090,96091 1gtmA 419 3.52e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1ja1A 622 3.54e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1vpbA 451 3.54e+01 1im5A 180 3.54e+01 c.33.1.3 66211 1qh5A 260 3.56e+01 1qh5A d.157.1.2 42057 1uuzA 137 3.63e+01 d.233.1.1 100024 1o9wA 177 3.64e+01 b.2.3.5 86713 1xrkA 124 3.68e+01 1h54A 754 3.68e+01 a.102.1.4,b.30.5.3 60634,60635 1iu8A 206 3.74e+01 c.56.4.1 71436 1o54A 277 3.79e+01 c.66.1.13 92482 1oygA 447 3.79e+01 b.67.2.2 93726 1dnlA 199 3.82e+01 1ci0A b.45.1.1 25753 1jl3A 139 3.83e+01 c.44.1.1 66826 1g7sA 594 3.85e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1vkpA 383 4.02e+01 d.126.1.6 108686 1sqeA 109 4.03e+01 d.58.4.5 105908 1lfwA 470 4.03e+01 c.56.5.4,d.58.19.1 77942,77943 1fjgQ 105 4.04e+01 1fjfQ b.40.4.5 25352 1h8eD 482 4.05e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1fxoA 293 4.11e+01 1g0rA c.68.1.6 34524 1hqsA 423 4.13e+01 1iso c.77.1.1 61154 1dzkA 157 4.18e+01 1obpA b.60.1.1 27096 1sjyA 159 4.22e+01 d.113.1.1 98900 1qwgA 251 4.23e+01 c.1.27.1 96473 1txlA 215 4.25e+01 b.60.1.4 107429 1b9mA 265 4.29e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1ixh 321 4.30e+01 1ixh c.94.1.1 35761 1gpc 218 4.35e+01 1gpc b.40.4.7 25393 1fljA 260 4.43e+01 2cba b.74.1.1 27954 1vfjA 116 4.48e+01 1s0aA 429 4.60e+01 c.67.1.4 98263 1gpmA 525 4.64e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1xfsA 178 4.66e+01 d.129.3.5 109589 1at0 145 4.67e+01 1at0 b.86.1.1 28374 1y0kA 209 4.67e+01 1lqtA 456 4.75e+01 c.3.1.1,c.4.1.1 74198,74199 1ixcA 294 4.75e+01 a.4.5.37,c.94.1.1 83764,83765 1d1qA 161 4.76e+01 1dg9A c.44.1.1 32642 1afwA 393 4.84e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1g66A 207 4.85e+01 1bs9 c.69.1.30 31329 1rc9A 221 4.98e+01 1m2dA 110 5.01e+01 c.47.1.11 78476 1m1nA 491 5.03e+01 c.92.2.3 78417 1e5kA 201 5.11e+01 1fr9A c.68.1.8 34578 1htwA 158 5.12e+01 c.37.1.18 71083 1gqzA 274 5.26e+01 d.21.1.1,d.21.1.1 83311,83312 1bebA 162 5.30e+01 1bebA b.60.1.1 27115 1rreA 200 5.34e+01 d.14.1.10 97791 1e42A 258 5.35e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1mxiA 160 5.45e+01 c.116.1.1 79646 1d5rA 324 5.47e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1ktgA 138 5.47e+01 d.113.1.1 72972 1jihA 531 5.50e+01 d.240.1.1,e.8.1.7 90374,90375 1jssA 224 5.67e+01 d.129.3.2 71844 1di6A 195 5.69e+01 1di6A c.57.1.1 33863 1at3A 247 5.70e+01 1at3A b.57.1.1 27021 1rhs 296 5.71e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1ep3B 262 5.75e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1a2zA 220 5.76e+01 1a2zA c.56.4.1 33794 1c1yB 77 5.76e+01 1c1yB d.15.1.5 37618 1bw0A 416 5.81e+01 1bw0A c.67.1.1 34385 1hztA 190 5.83e+01 1i9aA d.113.1.2 61459 1gqiA 708 5.98e+01 c.1.8.10,d.92.2.2 76279,76280 1cliA 345 6.01e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1eaxA 241 6.04e+01 b.47.1.2 64889 1y80A 210 6.06e+01 1elvA 333 6.14e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1h6tA 291 6.16e+01 b.1.18.15,c.10.2.1 65686,65687 1jovA 270 6.30e+01 b.30.5.7 84192 1s99A 200 6.31e+01 3proC 166 6.31e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1bqcA 302 6.33e+01 1bqcA c.1.8.3 28831 1jer 138 6.36e+01 2cbp b.6.1.1 23022 1jbeA 128 6.37e+01 3chy c.23.1.1 62845 1rk6A 496 6.37e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1gsoA 431 6.38e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1dmlA 319 6.40e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1ejeA 192 6.51e+01 1ejeA b.45.1.2 25757 1k07A 263 6.52e+01 d.157.1.1 77218 1dc1A 323 6.54e+01 1dc1A c.52.1.11 33321 1h4xA 117 6.54e+01 1auz c.13.2.1 60626 1fjgJ 105 6.55e+01 1fjfJ d.58.15.1 39330 1aj2 282 6.59e+01 1aj2 c.1.21.1 29665 1w3iA 293 6.60e+01 c.1.10.1 109152 1jubA 311 6.62e+01 c.1.4.1 90908 1i40A 175 6.66e+01 b.40.5.1 66024 1dcs 311 6.71e+01 1dcs b.82.2.1 28124 1ef8A 261 6.75e+01 1ef8A c.14.1.3 30921 1o4vA 183 6.78e+01 c.23.8.1 86628 1mh1 186 6.80e+01 1eesA c.37.1.8 32002 1xqaA 113 6.81e+01 1j58A 385 6.83e+01 b.82.1.2 71531 1s7kA 182 6.86e+01 1yg9A 330 6.89e+01 1jtdB 273 6.89e+01 b.69.5.2 67265 1jljA 189 6.90e+01 c.57.1.1 63169 1g9gA 629 6.92e+01 a.102.1.2 83279 1u0fA 564 6.98e+01 1i9gA 280 6.99e+01 c.66.1.13 62090 1kwgA 645 7.00e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1btkA 169 7.06e+01 1btkA b.55.1.1 26959 1dp4A 435 7.12e+01 1dp4A c.93.1.1 35710 1f0xA 571 7.14e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1ckmA 330 7.19e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1j6qA 136 7.27e+01 b.40.9.1 77091 1tyjA 170 7.28e+01 1drw 273 7.30e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1ks9A 291 7.36e+01 a.100.1.7,c.2.1.6 68857,68858 1in0A 163 7.52e+01 d.58.49.1,d.58.49.1 83694,83695 1dbqA 289 7.60e+01 1qpzA c.93.1.1 35666 1f3lA 321 7.69e+01 1g6q2 c.66.1.6 59630 2bopA 85 7.74e+01 2bopA d.58.8.1 39217 1x7dA 350 7.74e+01 1fhgA 154 7.77e+01 1tlk b.1.1.4 21706 1hf8A 289 7.77e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1jx6A 342 8.01e+01 c.93.1.1 67406 1b43A 340 8.07e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1cjaA 342 8.08e+01 1cjaA d.144.1.3 41708 1i12A 160 8.08e+01 1i21A d.108.1.1 61515 1g87A 614 8.08e+01 a.102.1.2,b.2.2.2 83275,83276 1z57A 339 8.09e+01 1bvyF 191 8.10e+01 1bvyF c.23.5.1 31207 1jflA 228 8.12e+01 c.78.2.1,c.78.2.1 71656,71657 1fjrA 195 8.13e+01 1fjrA b.102.1.1 59855 1vhnA 318 8.20e+01 c.1.4.1 100693 1vhsA 175 8.20e+01 d.108.1.1 100698 1c0pA 363 8.21e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1xk7A 408 8.24e+01 1kid 203 8.25e+01 1derA c.8.5.1 30771 1t2dA 322 8.28e+01 c.2.1.5,d.162.1.1 99084,99085 1h6uA 308 8.29e+01 b.1.18.15,c.10.2.1 65688,65689 1erjA 393 8.29e+01 1erjA b.69.4.1 27660 1h5rA 293 8.30e+01 c.68.1.6 65623 1iibA 106 8.41e+01 1iibA c.44.2.1 32648 4eugA 229 8.41e+01 3eugA c.18.1.1 31019 1oboA 169 8.44e+01 c.23.5.1 86776 1cs6A 382 8.47e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1rwrA 301 8.51e+01 b.80.1.11 97990 1fuiA 591 8.51e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1i3cA 149 8.58e+01 c.23.1.1 71112 1yb3A 175 8.59e+01 1f6bA 198 8.61e+01 c.37.1.8 64986 1g8lA 411 8.63e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1nxuA 333 8.74e+01 c.122.1.1 86389 1gttA 429 8.79e+01 d.177.1.1,d.177.1.1 70529,70530 1idpA 172 8.80e+01 d.17.4.1 83685 1o6sB 105 8.81e+01 b.1.6.1 81096 1fi2A 201 8.82e+01 1fi2A b.82.1.2 59845 1gt1A 159 8.95e+01 b.60.1.1 90515