# 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 1v04A 355 1.90e-01 b.68.6.2 100240 2ae0X 345 8.41e-01 1mrj 247 1.55e+00 1mrj d.165.1.1 42177 1wi1A 126 1.59e+00 2c3mA 1231 1.61e+00 1a34A 159 1.83e+00 1a34A b.121.7.1 23286 2gaeA 346 2.00e+00 1wucA 250 2.21e+00 2gw6A 123 2.33e+00 1y2tA 142 3.28e+00 1zx5A 300 3.49e+00 1nuyA 337 3.54e+00 e.7.1.1 86213 1f8fA 371 3.69e+00 b.35.1.2,c.2.1.1 83246,83247 1vdwA 254 3.97e+00 e.7.1.1 100569 1r77A 103 4.47e+00 1kmvA 186 4.88e+00 c.71.1.1 72757 1s5uA 138 5.15e+00 d.38.1.1 98573 1ni9A 338 5.57e+00 e.7.1.2 85739 1qwrA 319 6.17e+00 b.82.1.3 96491 1ja1A 622 7.49e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1vj0A 380 8.01e+00 b.35.1.2,c.2.1.1 100786,100787 2bgiA 272 8.73e+00 1v3vA 333 8.93e+00 b.35.1.2,c.2.1.1 108345,108346 1xezA 721 9.00e+00 2pth 193 9.35e+00 2pth c.56.3.1 33793 2bbhA 269 9.71e+00 1mrg 263 1.02e+01 1mrj d.165.1.1 42183 1ftrA 296 1.02e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1yqzA 438 1.03e+01 1x54A 434 1.05e+01 1dmhA 311 1.06e+01 1dmhA b.3.6.1 22633 1d2fA 390 1.10e+01 1d2fA c.67.1.3 34411 1jhsA 188 1.13e+01 d.107.1.1 84172 1txlA 215 1.17e+01 b.60.1.4 107429 1l8fA 207 1.24e+01 b.52.1.1 84537 1zr6A 503 1.26e+01 1vhh 162 1.35e+01 1vhh d.65.1.2 39550 1aoeA 192 1.36e+01 1aoeA c.71.1.1 34923 1js8A 394 1.38e+01 a.86.1.1,b.112.1.1 67219,67220 1kmqA 184 1.39e+01 c.37.1.8 84412 1x8vA 455 1.39e+01 1va0A 239 1.43e+01 3pcgA 200 1.49e+01 3pchA b.3.6.1 22647 1mqoA 227 1.51e+01 d.157.1.1 103846 1gnyA 153 1.53e+01 b.18.1.11 65404 1pl8A 356 1.60e+01 b.35.1.2,c.2.1.1 94878,94879 8dfr 189 1.60e+01 1aoeA c.71.1.1 34895 1bn7A 294 1.70e+01 1bn6A c.69.1.8 34677 1wmxA 205 1.85e+01 b.18.1.24 109418 1lbvA 252 1.86e+01 e.7.1.1 73813 1d1gA 168 1.89e+01 1d1gA c.71.1.1 34889 1utcA 363 1.89e+01 a.118.1.4,b.69.6.1 99914,99915 3cox 507 1.90e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 2eng 210 1.97e+01 2eng b.52.1.1 26895 1g79A 218 1.99e+01 1ci0A b.45.1.1 25752 1g0sA 209 1.99e+01 1g0sA d.113.1.1 60187 1efyA 350 2.04e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 2fsxA 148 2.05e+01 1oe8A 211 2.11e+01 a.45.1.1,c.47.1.5 86905,86906 1x3lA 440 2.13e+01 2a9gA 418 2.15e+01 1y791 680 2.19e+01 1vj1A 363 2.19e+01 b.35.1.2,c.2.1.1 100794,100795 1s68A 249 2.25e+01 d.142.2.4 98591 2fhxA 246 2.33e+01 1mfgA 95 2.37e+01 b.36.1.1 79043 1kveB 77 2.38e+01 1kveB 1pixA 587 2.39e+01 c.14.1.4 94708 1dfmA 223 2.47e+01 1d2iA c.52.1.5 33295 2cxxA 190 2.50e+01 1m2tA 254 2.53e+01 d.165.1.1 84761 2ajtA 500 2.54e+01 2biqA 219 2.55e+01 1h2bA 359 2.60e+01 b.35.1.2,c.2.1.1 90543,90544 1qw2A 102 2.61e+01 d.249.1.1 96456 1ixlA 131 2.69e+01 d.38.1.5 90717 1n4wA 504 2.74e+01 c.3.1.2,d.16.1.1 91676,91677 1dywA 173 2.75e+01 2cpl b.62.1.1 27505 1e5pA 151 2.85e+01 1bj7 b.60.1.1 59272 1oacA 727 2.89e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1f5jA 199 3.01e+01 1axkA b.29.1.11 24342 1jvbA 347 3.02e+01 b.35.1.2,c.2.1.1 77181,77182 2booA 247 3.05e+01 1y0bA 197 3.06e+01 3bamA 213 3.08e+01 1bam c.52.1.3 33288 1rypK 198 3.09e+01 d.153.1.4 41879 3fib 249 3.12e+01 3fib d.171.1.1 42455 2fy6A 143 3.14e+01 3seb 238 3.18e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1lzlA 323 3.24e+01 c.69.1.2 78306 1zn8A 180 3.27e+01 2audA 257 3.35e+01 2cy5A 140 3.37e+01 1s5aA 150 3.39e+01 d.17.4.10 98525 1ysrA 150 3.41e+01 1odkA 235 3.47e+01 c.56.2.1 86863 1sglA 209 3.48e+01 d.124.1.1 105536 2bjiA 277 3.51e+01 1qy6A 274 3.52e+01 b.47.1.1 96574 1zh5A 195 3.56e+01 1kolA 398 3.57e+01 b.35.1.2,c.2.1.1 77474,77475 1vgyA 393 3.57e+01 c.56.5.4,d.58.19.1 100620,100621 2fh7A 595 3.61e+01 2atpB 115 3.66e+01 1g2qA 187 3.66e+01 c.61.1.1 65117 1txnA 328 3.69e+01 1at3A 247 3.75e+01 1at3A b.57.1.1 27021 1cliA 345 3.78e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1cz4A 185 3.79e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1i9zA 347 3.79e+01 1i9yA d.151.1.2 62102 1fl2A 310 3.89e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1widA 130 3.90e+01 1a2yB 116 3.93e+01 1gc1H b.1.1.1 19927 1i2aA 219 3.94e+01 e.24.1.1 90660 1dnlA 199 3.97e+01 1ci0A b.45.1.1 25753 1m7bA 184 4.00e+01 c.37.1.8 74572 1yueA 427 4.17e+01 1uylA 236 4.17e+01 d.122.1.1 108147 1byfA 125 4.19e+01 1byfA d.169.1.1 42419 1is3A 135 4.21e+01 b.29.1.3 76773 1orvA 728 4.23e+01 b.70.3.1,c.69.1.24 87354,87355 2fnjA 226 4.24e+01 3pcgM 238 4.26e+01 3pchM b.3.6.1 22742 2cyeA 133 4.26e+01 1rzuA 485 4.31e+01 c.87.1.8 105140 1dyoA 160 4.32e+01 1dyoA b.18.1.7 23771 2cx1A 187 4.33e+01 1jmcA 246 4.33e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1hw5A 210 4.34e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1sqrA 95 4.34e+01 1xocA 520 4.36e+01 1mj5A 302 4.41e+01 c.69.1.8 91285 2pia 321 4.46e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1vzoA 355 4.50e+01 d.144.1.7 108971 1ko3A 230 4.59e+01 d.157.1.1 90974 2a67A 167 4.61e+01 1gntA 553 4.66e+01 e.26.1.1 70290 1l3iA 192 4.67e+01 c.66.1.22 77676 1qreA 247 4.70e+01 1qreA b.81.1.5 28066 1ekeA 230 4.71e+01 1ekeA c.55.3.1 33572 1t2wA 145 4.77e+01 b.100.1.1 106289 1r6lA 239 4.78e+01 d.14.1.4,d.101.1.1 97153,97154 1kapP 479 4.80e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1cfzA 162 4.85e+01 1cfzA c.56.1.1 33754 1pqhA 143 4.98e+01 b.52.2.1 95017 1xtqA 177 4.98e+01 1vd3A 217 4.99e+01 2fxqA 264 5.02e+01 1uacL 107 5.05e+01 b.1.1.1 99133 1pgl1 185 5.10e+01 1tp9A 162 5.10e+01 1uq5A 263 5.10e+01 d.165.1.1 99778 1v2bA 177 5.11e+01 d.107.1.2 108279 1roaA 122 5.18e+01 d.17.1.2 105024 1v37A 177 5.19e+01 2bvbA 137 5.20e+01 1sx5A 244 5.20e+01 c.52.1.2 99023 1v25A 541 5.23e+01 e.23.1.1 108275 1fh0A 221 5.24e+01 1cs8A d.3.1.1 59832 1deuA 277 5.30e+01 1theB d.3.1.1 37085 1q6uA 245 5.31e+01 d.26.1.1 95998 1m5q1 130 5.32e+01 1vhwA 253 5.38e+01 c.56.2.1 100706 1gmyA 261 5.40e+01 d.3.1.1 76236 1y10A 407 5.42e+01 1l0wA 580 5.45e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1yb5A 351 5.52e+01 1cbs 137 5.56e+01 1hmt b.60.1.2 27201 1m40A 263 5.56e+01 e.3.1.1 74437 1w6nA 134 5.63e+01 1vqoA 240 5.63e+01 2fsjA 346 5.68e+01 1g3kA 174 5.77e+01 1nedA d.153.1.4 41989 1whi 122 5.77e+01 1whi b.39.1.1 24810 1pne 140 5.79e+01 1pne d.110.1.1 40866 1kwmA 402 5.87e+01 c.56.5.1,d.58.3.1 73079,73080 1ikoP 178 5.90e+01 b.6.1.5 71243 1h8eD 482 5.91e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1io1A 398 6.08e+01 1io1A e.32.1.1 62611 1jhjA 171 6.10e+01 b.18.1.9 66714 1tmxA 293 6.12e+01 1xcbA 211 6.13e+01 a.4.5.38,c.2.1.12 109552,109553 1sq9A 397 6.16e+01 b.69.4.1 105889 1cr5A 189 6.24e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1wb4A 297 6.24e+01 2a8nA 144 6.28e+01 1ve2A 235 6.28e+01 1se8A 301 6.35e+01 b.40.4.3 105448 1qmeA 702 6.36e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1iruK 201 6.38e+01 d.153.1.4 71362 1a2yA 107 6.43e+01 8fabA b.1.1.1 19926 2bg1A 494 6.45e+01 1mvuB 121 6.46e+01 b.1.1.1 91475 1zanH 224 6.64e+01 1qdeA 224 6.65e+01 1qvaA c.37.1.19 32410 1mkzA 172 6.67e+01 c.57.1.1 84998 1j05B 121 6.70e+01 b.1.1.1 90736 1uirA 314 6.71e+01 c.66.1.17 99429 2d28C 149 6.73e+01 1a62 130 6.73e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1uk8A 282 6.77e+01 c.69.1.10 107907 1jpaA 312 6.78e+01 d.144.1.7 67011 1zkpA 268 6.81e+01 1y5eA 169 6.83e+01 1wqsA 173 6.84e+01 1jayA 212 6.92e+01 c.2.1.6 66478 1m2oA 768 6.99e+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 2cwzA 141 7.09e+01 2f51A 118 7.25e+01 7ahlA 293 7.28e+01 7ahlA f.6.1.1 43812 1tif 78 7.28e+01 1tif d.15.8.1 37836 2bcjB 340 7.31e+01 1x99A 145 7.32e+01 1tcvA 287 7.38e+01 1wmhB 86 7.39e+01 2ajgA 196 7.42e+01 1pyoA 167 7.42e+01 c.17.1.1 95370 1mqkL 120 7.46e+01 b.1.1.1 85054 1n6aA 259 7.50e+01 b.76.2.1,b.85.7.1 80121,80122 1wpoA 256 7.51e+01 1lay b.57.1.1 27012 1i4uA 181 7.52e+01 b.60.1.1 61732 2c3gA 98 7.59e+01 1jhfA 202 7.59e+01 a.4.5.2,b.87.1.1 63057,63058 1cs8A 316 7.65e+01 1cs8A d.3.1.1 37065 1vjoA 393 7.68e+01 c.67.1.3 100827 2ck3D 482 7.74e+01 1n67A 359 7.82e+01 b.2.3.4,b.2.3.4 85354,85355 1xkgA 312 7.85e+01 1ogiA 303 7.85e+01 b.43.4.2,c.25.1.1 92914,92915 1j6qA 136 7.91e+01 b.40.9.1 77091 1vdmA 153 7.93e+01 1whmA 92 7.94e+01 1uz5A 402 7.95e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1q5xA 161 8.02e+01 c.8.7.1 95947 1ihjA 98 8.06e+01 1pdr b.36.1.1 62382 1xyiA 66 8.07e+01 1t0yA 122 8.24e+01 d.15.1.1 99066 1obbA 480 8.25e+01 c.2.1.5,d.162.1.2 86760,86761 1zdrA 164 8.27e+01 1gw5S 142 8.27e+01 d.110.4.2 70633 1neyA 247 8.33e+01 c.1.1.1 80449 1wwrA 171 8.39e+01 1k4nA 192 8.56e+01 d.32.1.5 72059 1xruA 282 8.60e+01 1u3wA 374 8.61e+01 1nf3A 195 8.63e+01 c.37.1.8 85594 1oq1A 223 8.68e+01 b.29.1.17 93408 2a8eA 220 8.70e+01 1ex2A 189 8.78e+01 1ex2A c.51.4.2 33225 1pq7A 224 8.80e+01 b.47.1.2 95002 3gcb 470 8.80e+01 3gcb d.3.1.1 37032 1vfrA 218 8.87e+01 1vfrA d.90.1.1 40247 1y96B 85 8.92e+01 2f91A 237 8.94e+01