# 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.soe.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 1vi0A 206 1.45e-15 a.4.1.9,a.121.1.1 100720,100721 1pb6A 212 1.53e-15 a.4.1.9,a.121.1.1 88017,88018 3cdlA 203 3.04e-15 3bruA 222 4.74e-15 3bcgA 215 1.13e-14 2uxuA 210 4.00e-14 1zkgA 212 5.07e-14 a.4.1.9,a.121.1.1 125194,125195 2hytA 197 5.54e-14 1z77A 200 6.17e-14 a.4.1.9,a.121.1.1 124588,124589 2g3bA 208 6.32e-14 a.4.1.9,a.121.1.1 134558,134559 2iekA 200 6.37e-14 2id6A 202 6.84e-14 2f07A 197 1.21e-13 2g7sA 194 1.91e-13 a.4.1.9,a.121.1.1 134737,134738 2pbxA 203 2.25e-13 3bhqA 211 2.55e-13 2iaiA 230 2.78e-13 2i10A 202 3.08e-13 a.4.1.9,a.121.1.1 136960,136961 2ibdA 204 3.43e-13 2fx0A 201 3.98e-13 a.4.1.9,a.121.1.1 134269,134270 2genA 197 4.15e-13 a.4.1.9,a.121.1.1 135062,135063 1rktA 205 4.15e-13 a.4.1.9,a.121.1.1 97623,97624 3crjA 199 5.43e-13 2jj7A 186 6.31e-13 1t56A 216 8.58e-13 a.4.1.9,a.121.1.1 106428,106429 2d6yA 202 1.39e-12 a.4.1.9,a.121.1.1 131313,131314 2hyjA 200 1.46e-12 1ui5A 215 2.11e-12 a.4.1.9,a.121.1.1 107856,107857 2gfnA 209 2.21e-12 a.4.1.9,a.121.1.1 135101,135102 2nx4A 194 2.65e-12 2eh3A 179 3.22e-12 2qwtA 196 3.82e-12 2qtqA 213 5.11e-12 2qibA 231 5.16e-12 1qvtA 194 8.21e-12 a.4.1.9,a.121.1.1 104602,104603 3ccyA 203 1.06e-11 1sgmA 191 1.10e-11 a.4.1.9,a.121.1.1 105537,105538 1jt6A 188 1.22e-11 a.4.1.9,a.121.1.1 67247,67248 2fbqA 235 1.65e-11 a.4.1.9,a.121.1.1 133256,133257 2qcoA 210 3.03e-11 2zcmA 192 3.59e-11 2q24A 194 3.69e-11 3cjdA 198 5.46e-11 2fq4A 192 5.71e-11 a.4.1.9,a.121.1.1 133937,133938 2rasA 212 7.63e-11 2rekA 199 1.09e-10 2guhA 214 1.18e-10 2raeA 207 1.32e-10 2id3A 225 1.44e-10 a.4.1.9,a.121.1.1 137261,137262 2np5A 203 1.87e-10 a.4.1.9,a.121.1.1 138424,138425 2fd5A 180 1.90e-10 a.4.1.9,a.121.1.1 133291,133292 3b81A 203 2.18e-10 3c2bA 221 2.20e-10 2of7A 260 2.25e-10 2dg8A 193 6.05e-10 2zb9A 214 6.55e-10 3bniA 229 9.64e-10 1t33A 224 1.09e-09 a.4.1.9,a.121.1.1 106295,106296 3bjbA 207 1.27e-09 3colA 196 2.19e-09 2oi8A 216 2.50e-09 3cwrA 208 2.83e-09 2oerA 214 2.91e-09 1zk8A 183 5.09e-09 a.4.1.9,a.121.1.1 125177,125178 1v7bA 185 1.33e-08 a.4.1.9,a.121.1.1 119861,119862 2o7tA 199 1.46e-08 2yveA 185 2.09e-08 2hkuA 215 3.11e-08 3bqyA 209 4.56e-08 2tct 207 5.75e-08 2tct 2dg7A 195 5.83e-08 2qkoA 215 5.99e-08 1a6i 217 7.94e-08 2tct 2o7oA 207 8.03e-08 a.4.1.9,a.121.1.1 138930,138931 1z0xA 220 9.44e-08 a.4.1.9,a.121.1.1 124334,124335 2vprA 207 1.06e-07 2g7lA 243 5.10e-07 a.4.1.9,a.121.1.1 134734,134735 2optA 234 1.61e-06 2hxoA 237 1.65e-06 2iu5A 195 6.36e-06 2g7gA 213 1.35e-05 a.4.1.9,a.121.1.1 134732,134733 2pg4A 95 5.48e-01 1pufB 73 1.39e+00 a.4.1.1 95132 1b72B 87 1.47e+00 1akhA a.4.1.1 16001 2qulA 290 1.56e+00 1du6A 64 1.69e+00 1akhA a.4.1.1 16002 2q0zX 339 1.79e+00 1b8iB 63 1.85e+00 1akhA a.4.1.1 16011 1qtqA 553 1.96e+00 1gtrA b.53.1.2,c.26.1.1 26940,31579 2imhA 231 1.98e+00 2douA 376 1.98e+00 3c1mA 473 2.04e+00 1gtrA 553 2.26e+00 1gtrA b.53.1.2,c.26.1.1 26939,31578 1oqyA 368 2.60e+00 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1tdzA 272 2.75e+00 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1b5l 172 2.80e+00 1b5l 1b5lA 172 2.94e+00 a.26.1.3 16900 1gwcA 230 3.50e+00 a.45.1.1,c.47.1.5 70660,70661 1mhyD 521 3.70e+00 1mhyD a.25.1.2 16780 1uuqA 440 3.74e+00 c.1.8.3 100015 2on5A 206 3.94e+00 1zcaA 359 4.60e+00 a.66.1.1,c.37.1.8 124897,124898 1uwsA 489 4.63e+00 c.1.8.4 108073 2bjcA 62 4.64e+00 a.35.1.5 128620 1pjjA 271 4.94e+00 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 7aatA 401 4.95e+00 1ajsA c.67.1.1 34250 2avkA 136 5.11e+00 2czlA 272 5.38e+00 c.94.1.1 131055 2g2bA 150 5.39e+00 1b0nA 111 5.47e+00 1b0nA a.34.1.1,a.35.1.3 17001,17064 1akaA 401 5.50e+00 1ajsA c.67.1.1 34258 3bqpA 80 5.70e+00 1b37B 472 5.93e+00 1b37B c.3.1.2,d.16.1.5 30390,37954 1b5qA 472 6.27e+00 1b37B c.3.1.2,d.16.1.5 30404,37968 1xqiA 195 6.52e+00 d.58.6.1 122237 1aisB 200 6.67e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1djxB 624 6.71e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1wjgA 137 7.06e+00 c.26.2.4 114696 1pveA 72 7.12e+00 a.189.1.1 104322 1d3uB 201 7.25e+00 1aisB a.74.1.2,a.74.1.2 18386,18387 1k1xA 659 7.79e+00 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1y1uA 585 7.80e+00 1eia 207 7.84e+00 1eia 1vg0A 650 8.02e+00 c.3.1.3,d.16.1.6 108596,108597 3b7hA 78 8.38e+00 1a0cA 438 8.57e+00 1a0cA c.1.15.3 29529 1wc3A 219 8.90e+00 d.58.29.1 114495 1es9A 232 9.07e+00 1wab c.23.10.3 31340 1ulyA 192 9.29e+00 a.4.5.58 113297 1ho8A 480 1.01e+01 1ho8A a.118.1.9 61107 1cjgA 62 1.07e+01 1pru a.35.1.5 17112 1fouA 309 1.07e+01 1fouA e.27.1.1 43364 1s7oA 113 1.08e+01 a.4.13.3 105354 1gowA 489 1.09e+01 1qvbA c.1.8.4 28981 1auoA 218 1.11e+01 1auoA c.69.1.14 34716 1lccA 51 1.12e+01 1pru a.35.1.5 17110 2i2xB 258 1.13e+01 3cmgA 667 1.15e+01 1f81A 88 1.15e+01 1f81A g.53.1.1 45383 2b81A 323 1.22e+01 3cz8A 319 1.26e+01 1wab 232 1.28e+01 1wab 1fkx 349 1.33e+01 1a4mA 1yqyA 523 1.35e+01 d.92.1.14,d.166.1.1 123903,123904 1y60A 169 1.36e+01 d.14.1.12 116489 2eueA 279 1.38e+01 2inpC 328 1.39e+01 1a4mA 349 1.39e+01 1a4mA c.1.9.1 29014 3bofA 566 1.40e+01 2jt1A 77 1.40e+01 2f4mB 61 1.40e+01 a.189.1.1 132931 1hu3A 260 1.42e+01 1hu3A a.118.1.14 19137 1z23A 163 1.45e+01 1umdA 367 1.47e+01 c.36.1.11 99599 1q7zA 566 1.48e+01 c.1.21.2,c.1.26.1 96090,96091 1vjpA 394 1.52e+01 c.2.1.3,d.81.1.3 100828,100829 3fruA 269 1.60e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2dpoA 319 1.61e+01 1g0cA 364 1.62e+01 7a3hA c.1.8.3 60165 1eyeA 280 1.64e+01 1aj2 c.1.21.1 29672 1wgzA 510 1.64e+01 2yv4A 105 1.64e+01 2depA 356 1.66e+01 1qvbA 481 1.67e+01 1qvbA c.1.8.4 28983 3b5oA 244 1.69e+01 1hcrA 52 1.70e+01 1hcrA a.4.1.2 16020 2qxlA 658 1.71e+01 1djxA 624 1.74e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1ka2A 499 1.76e+01 d.92.1.5 77305 2o09A 189 1.84e+01 1fj2A 232 1.86e+01 1auoA c.69.1.14 34720 1dik 874 1.87e+01 1dik 1a0eA 443 1.92e+01 1a0cA c.1.15.3 29537 1w0bA 102 1.96e+01 a.7.11.1 108985 1k3yA 221 1.99e+01 a.45.1.1,c.47.1.5 77245,77246 1jkoC 52 2.02e+01 a.4.1.2 66809 1a6q 382 2.02e+01 1a6q 2jfrA 234 2.05e+01 1ltlA 279 2.05e+01 b.40.4.11 84701 2oqhA 385 2.07e+01 2b33A 140 2.08e+01 d.79.1.1 127765 2oikA 154 2.10e+01 3cinA 394 2.10e+01 1kblA 873 2.11e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 3xis 387 2.14e+01 4xis 2q7wA 396 2.14e+01 4xis 387 2.19e+01 4xis 2ig3A 127 2.19e+01 2fji1 399 2.23e+01 1w1iE 357 2.30e+01 c.1.9.1 109051 1qc7A 101 2.31e+01 1qc7A a.118.14.1 18456 1qpzA 340 2.36e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1zr6A 503 2.37e+01 2gsoA 393 2.39e+01 1qisA 396 2.42e+01 1ajsA c.67.1.1 34284 1hdoA 206 2.43e+01 1he2A c.2.1.2 60965 1aiaA 396 2.46e+01 1ajsA c.67.1.1 34306 2yzrA 330 2.47e+01 2cstA 411 2.51e+01 1ajsA c.67.1.1 34273 2ceyA 306 2.56e+01 1xg2B 153 2.58e+01 1jftA 340 2.61e+01 a.35.1.5,c.93.1.1 66652,66653 2ex5A 207 2.62e+01 1h6zA 913 2.62e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1arhA 396 2.64e+01 1ajsA c.67.1.1 34321 2q8uA 336 2.65e+01 1v38A 78 2.66e+01 a.60.1.2 100280 2qs8A 418 2.66e+01 1xt8A 292 2.77e+01 c.94.1.1 122293 1vjzA 341 2.78e+01 c.1.8.3 100838 2g39A 497 2.78e+01 c.124.1.2,c.124.1.2 134553,134554 2oxoA 103 2.83e+01 1qjwA 365 2.85e+01 1bvwA c.6.1.1 30657 1t9mA 214 2.91e+01 b.45.1.1 112364 1gw9A 388 2.94e+01 c.1.15.3 70658 1ars 396 2.97e+01 1ajsA 1wmwA 330 2.97e+01 1j1qA 261 2.97e+01 d.165.1.1 90768 2vofA 157 2.98e+01 1i5pA 633 2.99e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 2q88A 257 3.03e+01 1hqkA 154 3.09e+01 c.16.1.1 65902 2goyA 275 3.09e+01 1arsA 396 3.13e+01 c.67.1.1 34287 2g7uA 257 3.16e+01 1tzjA 338 3.18e+01 c.79.1.1 112868 2cz2A 223 3.18e+01 1l1zA 274 3.18e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 2p61A 162 3.19e+01 1kgnA 329 3.24e+01 a.25.1.2 68584 1h5wA 309 3.27e+01 e.27.1.1 65635 2dc5A 231 3.27e+01 2afwA 329 3.28e+01 c.56.5.8 126707 1gsjA 258 3.28e+01 c.73.1.2 70397 1m7vA 363 3.31e+01 d.174.1.1 78748 1ty9A 222 3.33e+01 b.45.1.1 112827 1mhlC 466 3.40e+01 1mhlC 1on2A 142 3.41e+01 a.4.5.24,a.76.1.1 87103,87104 1tz9A 367 3.45e+01 c.1.15.6 107466 1binA 143 3.49e+01 2gdm a.1.1.2 15231 1dlcA 584 3.53e+01 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 3b50A 310 3.54e+01 2oc5A 244 3.57e+01 1j9yA 385 3.57e+01 1j9yA c.1.8.3 62791 2a2jA 246 3.59e+01 b.45.1.1 126033 1y0hA 105 3.69e+01 d.58.4.11 116303 1vflA 356 3.70e+01 c.1.9.1 120041 1q1vA 70 3.73e+01 a.159.4.1 104479 1jndA 420 3.74e+01 c.1.8.5,d.26.3.1 71757,71758 2dvzA 314 3.77e+01 1vpwA 340 3.86e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1a0dA 440 3.86e+01 1a0cA c.1.15.3 29533 2gu2A 312 3.91e+01 1odoA 408 3.91e+01 a.104.1.1 92783 1dciA 275 3.92e+01 1dciA c.14.1.3 30918 2q8xA 331 3.94e+01 2hq1A 247 3.97e+01 1n2sA 299 3.99e+01 c.2.1.2 79857 1z8uA 102 4.07e+01 a.7.11.1 124724 2ivnA 330 4.07e+01 1ee8A 266 4.14e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1gseA 221 4.16e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 2imrA 420 4.16e+01 1he2A 206 4.19e+01 1he2A c.2.1.2 60966 1sh5A 245 4.23e+01 a.40.1.1,a.40.1.1 105543,105544 256bA 106 4.23e+01 256bA a.24.3.1 16539 1g2hA 61 4.23e+01 1g2hA a.4.1.12 60224 2vm6A 150 4.26e+01 2d58A 107 4.36e+01 2fr7A 412 4.43e+01 1sxrA 183 4.47e+01 d.118.1.1 106101 1w4xA 542 4.52e+01 c.3.1.5,c.3.1.5 109171,109172 2g0dA 409 4.53e+01 1jipA 403 4.53e+01 a.104.1.1 66748 1rh9A 373 4.54e+01 c.1.8.3 118773 2f2lA 167 4.55e+01 d.118.1.1 132843 1wc1A 226 4.67e+01 d.58.29.1 114492 1l7mA 211 4.71e+01 c.108.1.4 73664 1gs5A 258 4.73e+01 c.73.1.2 70395 1vffA 423 4.79e+01 c.1.8.4 120033 2qkmB 266 4.79e+01 1ariA 396 4.83e+01 1ajsA c.67.1.1 34331 1oj5A 132 4.86e+01 d.110.3.8 93087 2rgxA 206 4.91e+01 1sdsA 117 4.99e+01 d.79.3.1 105439 1q1fA 151 5.00e+01 a.1.1.2 104476 2q4zA 312 5.00e+01 1uaaA 673 5.01e+01 1pjr c.37.1.19,c.37.1.19 32401,32402 1w9hA 427 5.02e+01 c.55.3.10 120785 1pq9A 253 5.02e+01 a.123.1.1 95004 7a3hA 303 5.04e+01 7a3hA c.1.8.3 28817 1d2kA 392 5.04e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 2a7oA 112 5.06e+01 3cerA 343 5.06e+01 1hlvA 131 5.09e+01 a.4.1.7,a.4.1.7 65854,65855 2hd5A 359 5.12e+01 1sr9A 644 5.12e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1wy9A 147 5.15e+01 2dg6A 222 5.15e+01 1buqA 125 5.16e+01 1opy d.17.4.3 38111 1j97A 211 5.16e+01 1f5sA c.108.1.4 62753 2d4eA 515 5.16e+01 1m85A 484 5.20e+01 e.5.1.1 74578 2z5bA 151 5.20e+01 2qpqA 301 5.21e+01 1yhuB 144 5.22e+01 1mhyB 395 5.24e+01 1mtyB a.25.1.2 16781 2qz8A 149 5.35e+01 2pnqA 467 5.36e+01 2obpA 96 5.37e+01 2vebA 195 5.38e+01 1f5sA 211 5.42e+01 1f5sA c.108.1.4 59656 1xwl 580 5.54e+01 1xwl 1bjwA 382 5.55e+01 1bjwA c.67.1.1 34349 1ll7A 392 5.62e+01 c.1.8.5,d.26.3.1 78085,78086 1txdA 385 5.63e+01 a.87.1.1,b.55.1.1 107422,107423 2gdrA 202 5.75e+01 2i8lA 156 5.89e+01 2bw8A 227 5.91e+01 b.29.1.11 129324 1n82A 331 5.93e+01 c.1.8.3 91703 1goiA 499 5.93e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 2imsA 171 5.94e+01 1ew2A 513 5.95e+01 1b8jA c.76.1.1 59525 2g9zA 348 5.96e+01 2d2mD 145 5.97e+01 1h5vA 304 6.01e+01 c.1.8.3 70898 1z8oA 404 6.05e+01 a.104.1.1 124722 1taq 832 6.05e+01 1taq 1zcbA 362 6.17e+01 a.66.1.1,c.37.1.8 124901,124902 2f9iB 285 6.18e+01 2f5xA 312 6.19e+01 4xiaA 393 6.30e+01 4xis c.1.15.3 29439 1kfrA 147 6.39e+01 a.1.1.2 72424 1h0bA 256 6.40e+01 b.29.1.11 83422 1ur1A 378 6.40e+01 c.1.8.3 99804 2oyoA 196 6.47e+01 1xbiA 120 6.57e+01 d.79.3.1 121840 2doaA 104 6.63e+01 1b5pA 385 6.74e+01 c.67.1.1 90403 2gwmA 200 6.75e+01 1h3fA 432 6.82e+01 c.26.1.1,d.66.1.4 76631,76632 2hmcA 344 6.88e+01 1rwsA 77 6.89e+01 d.15.3.2 97991 1yb3A 175 7.01e+01 d.296.1.2 122869 2eq7C 40 7.04e+01 1mkmA 249 7.07e+01 a.4.5.33,d.110.2.2 79242,79243 1aq0A 306 7.08e+01 1aq0A c.1.8.3 28842 2px6A 316 7.10e+01 1b3eA 330 7.12e+01 1nnt c.94.1.2 35897 2hqbA 296 7.13e+01 1bgcA 174 7.16e+01 a.26.1.1 16822 1r8mE 203 7.23e+01 a.118.3.1 97242 1lkvX 232 7.27e+01 a.118.14.1 73980 2h8gA 267 7.38e+01 1k1gA 131 7.42e+01 d.51.1.1 68015 1mw7A 240 7.43e+01 e.39.1.1 79557 2va8A 715 7.44e+01 1e70M 501 7.48e+01 1e70M c.1.8.4 28926 1vbuA 328 7.49e+01 c.1.8.3 119963 1gln 468 7.49e+01 1gln 1wviA 257 7.54e+01 c.108.1.14 114915 1n7kA 234 7.54e+01 c.1.10.1 85374 2a6tA 271 7.57e+01 a.242.1.1,d.113.1.7 126309,126310 2e1dA 331 7.62e+01 1ohtA 215 7.63e+01 d.118.1.1 87036 1a8e 329 7.67e+01 1cb6A 1tp4A 97 7.73e+01 a.189.1.1 107183 1cfzA 162 7.74e+01 1cfzA c.56.1.1 33754 1ajsA 412 7.77e+01 1ajsA c.67.1.1 34276 2zc2A 78 7.78e+01 1ku2A 241 7.86e+01 a.4.13.1,a.177.1.1 83096,83097 1yzfA 195 7.87e+01 c.23.10.5 124275 1e15A 499 7.87e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 1wtyA 119 7.90e+01 a.24.16.2 114880 2oo2A 86 7.98e+01