# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2ghrA 302 1.83e-52 1wl8A 189 3.77e-20 1gpmA 525 3.25e-16 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1o1yA 239 2.99e-11 c.23.16.1 86554 1qdlB 195 5.87e-11 1qdlB c.23.16.1 31437 1i1qB 192 7.70e-10 1qdlB c.23.16.1 61544 1i7qB 193 1.28e-09 1qdlB c.23.16.1 61902 1cs0B 382 9.57e-08 1c3oB c.8.3.1,c.23.16.1 30740,31417 1c3oB 382 5.14e-06 1c3oB c.8.3.1,c.23.16.1 30744,31421 1a9xB 379 5.53e-06 1c3oB c.8.3.1,c.23.16.1 30732,31409 1c30B 382 1.08e-05 c.8.3.1,c.23.16.1 30736,31413 1q7rA 219 1.42e-03 c.23.16.1 96054 1r9gA 216 1.22e-02 c.23.16.1 97258 1vcoA 550 1.77e-02 c.23.16.1,c.37.1.10 108508,108509 1k9vF 201 2.02e-02 c.23.16.1 68365 1gpwB 201 2.70e-02 c.23.16.1 65461 1fcqA 350 6.43e-02 c.1.8.9 65006 1ox6A 555 1.96e-01 c.1.2.1,c.23.16.1 87505,87506 1jvnA 555 2.36e-01 c.1.2.1,c.23.16.1 67355,67356 1tx2A 297 2.57e-01 c.1.21.1 107420 1h72C 296 3.81e-01 d.14.1.5,d.58.26.1 60712,60713 1n2zA 245 4.46e-01 c.92.2.2 79865 1l9xA 315 4.58e-01 c.23.16.1 73762 1iba 101 5.78e-01 1iba d.95.1.1 40567 1ppjC 379 6.57e-01 f.32.1.1,f.21.1.2 104256,104257 1kmdA 117 7.41e-01 d.189.1.1 72744 1be3C 379 7.59e-01 1be3C f.32.1.1,f.21.1.2 75805,75806 1qcrC 378 7.60e-01 1be3C f.32.1.1,f.21.1.2 75931,75932 1zq1A 438 8.55e-01 1fwkA 296 8.55e-01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1lp4A 332 9.53e-01 d.144.1.7 74170 1om1A 332 1.01e+00 d.144.1.7 93347 1m2rA 327 1.04e+00 d.144.1.7 84760 1lpuA 332 1.28e+00 d.144.1.7 74177 1xx4A 261 1.28e+00 1t0bA 252 1.44e+00 c.23.16.6 106199 1whzA 70 1.56e+00 1a6o 332 1.58e+00 1a6o 2b4wA 315 1.70e+00 1tcvA 287 1.75e+00 2lbp 346 1.96e+00 2liv c.93.1.1 35709 1g2iA 166 1.99e+00 1g2iA c.23.16.2 31438 1v54B 227 2.33e+00 b.6.1.2,f.17.2.1 100322,100323 2liv 344 2.64e+00 2liv c.93.1.1 35708 3ldh 330 2.89e+00 3ldh i.12.1.1 46015 1cb0A 283 3.01e+00 1cb0A c.56.2.1 33790 1a9nB 96 3.17e+00 1urnA d.58.7.1 39165 1c25 161 3.38e+00 1c25 c.46.1.1 32698 2abwA 227 3.57e+00 1scfA 273 3.66e+00 1exzA a.26.1.2 16873 1o51A 114 3.81e+00 d.58.5.4 92480 2gokA 429 3.84e+00 2d81A 318 4.03e+00 1z15A 344 4.16e+00 1wnfA 328 4.25e+00 1wlsA 328 4.26e+00 2gk3A 256 4.46e+00 2bmfA 451 4.52e+00 1vl8A 267 4.55e+00 c.2.1.2 108733 1azl 147 4.78e+00 5nul c.23.5.1 31154 1fjhA 257 4.85e+00 1fjhB c.2.1.2 29870 1qf6A 642 5.05e+00 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1x1tA 260 5.07e+00 1ldm 329 5.31e+00 3ldh c.2.1.5,d.162.1.1 30160,42127 1sg4A 260 5.68e+00 1rk6A 496 5.80e+00 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1fjhB 257 5.90e+00 1fjhB c.2.1.2 29871 1wmbA 260 6.00e+00 1usgA 346 6.48e+00 c.93.1.1 99864 1eqjA 511 6.49e+00 1ejjA c.105.1.1,c.76.1.3 59495,59496 1jixA 351 6.55e+00 1c3jA c.87.1.1 63081 1m7jA 484 6.72e+00 b.92.1.6,b.92.1.6,c.1.9.11 78732,78733,78734 1cnv 299 6.73e+00 1cnv c.1.8.5 28989 1ymiA 334 6.84e+00 1xv5A 401 6.86e+00 1ihjA 98 6.87e+00 1pdr b.36.1.1 62382 1o98A 511 6.97e+00 c.105.1.1,c.76.1.3 86684,86685 1vc1A 110 7.06e+00 c.13.2.1 108493 1pwhA 327 7.11e+00 c.79.1.1 95224 1ejjA 511 7.11e+00 1ejjA c.105.1.1,c.76.1.3 59422,59423 1akw 147 7.22e+00 5nul c.23.5.1 31153 1gegA 256 7.25e+00 1ybvA c.2.1.2 29888 1ka9H 200 7.38e+00 c.23.16.1 77308 1jg7A 351 7.44e+00 1c3jA c.87.1.1 62945 1jwhA 337 7.74e+00 d.144.1.7 71913 1ysc 421 7.91e+00 1ivyA c.69.1.5 34652 2hsdA 253 7.93e+00 1e6wA c.2.1.2 29866 1wqaA 455 8.04e+00 1evlA 401 8.13e+00 1qf6A c.51.1.1,d.104.1.1 33202,40751 1ma3A 253 8.15e+00 c.31.1.5 78883 1o5iA 249 8.17e+00 c.2.1.2 92499 1yh3A 256 9.05e+00 1akr 147 9.24e+00 1rcf c.23.5.1 31152 1vcdA 126 9.59e+00 1oasA 322 9.67e+00 1oasA c.79.1.1 35293 1juvA 193 9.84e+00 c.71.1.1 90912 2bgu 351 9.85e+00 1c3jA c.87.1.1 35460 1fcjA 322 9.87e+00 1oasA c.79.1.1 35289 2g0wA 296 9.90e+00 1lfwA 470 9.95e+00 c.56.5.4,d.58.19.1 77942,77943 1w0mA 226 9.98e+00 c.1.1.1 109027 1tc1A 220 1.00e+01 1tc1A c.61.1.1 34083 1cpy 421 1.03e+01 1ivyA c.69.1.5 34651 1itcA 516 1.06e+01 b.3.1.1,c.1.8.1 83705,83706 1esmA 316 1.06e+01 1esmA c.37.1.6 31953 1qnxA 209 1.07e+01 1qnxA d.111.1.1 40914 1yucA 255 1.10e+01 1v0wA 506 1.13e+01 d.136.1.2,d.136.1.2 108220,108221 1f6kA 293 1.16e+01 1nal3 c.1.10.1 29081 1y7lA 316 1.16e+01 1aj0 282 1.17e+01 1aj2 c.1.21.1 29667 6ldh 330 1.18e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 2a84A 300 1.18e+01 1a4uA 254 1.19e+01 1b16A c.2.1.2 29878 1e19A 314 1.19e+01 1b7bA c.73.1.1 34967 1sbyA 254 1.20e+01 1hdcA 253 1.20e+01 1e6wA c.2.1.2 29862 1r5tA 142 1.24e+01 c.97.1.1 104812 1xv2A 237 1.24e+01 1uf3A 228 1.26e+01 d.159.1.6 99317 1i0lA 221 1.27e+01 c.61.1.1 71096 1kgsA 225 1.28e+01 a.4.6.1,c.23.1.1 68596,68597 1fgxA 288 1.28e+01 1fgxA c.68.1.2 34508 1enp 312 1.30e+01 1enp c.2.1.2 29906 1ur5A 309 1.31e+01 c.2.1.5,d.162.1.1 99807,99808 2c4wA 176 1.33e+01 1d7oA 297 1.37e+01 1enp c.2.1.2 29907 1uayA 242 1.37e+01 c.2.1.2 88390 1vhqA 232 1.38e+01 c.23.16.2 100696 1pk5A 248 1.38e+01 a.123.1.1 88139 1vzwA 244 1.43e+01 1bvyF 191 1.46e+01 1bvyF c.23.5.1 31207 1no5A 114 1.51e+01 d.218.1.5 92014 1f74A 293 1.52e+01 1nal3 c.1.10.1 29079 1vemA 516 1.53e+01 1uxjA 309 1.54e+01 c.2.1.5,d.162.1.1 108112,108113 1eno 312 1.55e+01 1enp c.2.1.2 29905 1b9zA 516 1.56e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1vzoA 355 1.59e+01 d.144.1.7 108971 1szoA 257 1.59e+01 c.14.1.3 106164 1ad1A 266 1.60e+01 1aj2 c.1.21.1 29668 1h5qA 265 1.61e+01 1cydA c.2.1.2 60643 1uheA 97 1.63e+01 9ldtA 332 1.63e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1exzA 141 1.65e+01 1exzA a.26.1.2 16877 1p2fA 220 1.71e+01 a.4.6.1,c.23.1.1 87720,87721 1nbaA 264 1.73e+01 1nbaA c.33.1.3 31753 1aj2 282 1.74e+01 1aj2 c.1.21.1 29665 1b16A 254 1.75e+01 1b16A c.2.1.2 29875 1zosA 230 1.76e+01 1gp1A 198 1.76e+01 1gp1A c.47.1.10 33059 1iupA 282 1.84e+01 c.69.1.10 76815 1uk8A 282 1.84e+01 c.69.1.10 107907 1jslA 327 1.85e+01 c.88.1.1 67233 1xygD 359 1.85e+01 9rnt 104 1.88e+01 9rnt d.1.1.4 36055 1jsrA 327 1.89e+01 c.88.1.1 67237 1o7jA 327 1.90e+01 c.88.1.1 81140 1to3A 304 1.93e+01 c.1.10.1 107161 2a5lA 200 1.96e+01 1mopA 300 1.97e+01 c.26.1.4 85035 1n2eA 300 1.98e+01 c.26.1.4 85268 1o8uA 257 1.98e+01 c.14.1.3 81194 3rnt 104 2.07e+01 9rnt d.1.1.4 36069 1zxxA 319 2.08e+01 1wq3A 322 2.09e+01 1ecfB 504 2.13e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1sq5A 308 2.13e+01 c.37.1.6 105882 1t9bA 677 2.17e+01 2fjlA 150 2.18e+01 1d3gA 367 2.20e+01 1d3gA c.1.4.1 28600 1t8hA 277 2.21e+01 d.194.1.2 106664 1i5rA 327 2.23e+01 c.2.1.2 83668 1ecfA 504 2.24e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1xq6A 253 2.28e+01 1or7A 194 2.29e+01 a.4.13.2,a.177.1.1 87332,87333 1ad9A 219 2.29e+01 8fabA b.1.1.1,b.1.1.2 20214,21226 1vizA 240 2.30e+01 c.1.4.1 100784 2agdA 287 2.33e+01 1gz2A 142 2.33e+01 d.169.1.1 83392 1x7oA 287 2.40e+01 2ew8A 249 2.44e+01 1c3jA 351 2.44e+01 1c3jA c.87.1.1 35459 2ajrA 331 2.47e+01 1d3hA 367 2.48e+01 1d3gA c.1.4.1 28601 1jtvA 327 2.53e+01 c.2.1.2 84230 2b0mA 393 2.55e+01 2fhzA 109 2.56e+01 1fdt 327 2.57e+01 1fds c.2.1.2 29841 1a27 289 2.59e+01 1fds c.2.1.2 29839 1i0vA 104 2.69e+01 9rnt d.1.1.4 36054 1q1gA 276 2.79e+01 c.56.2.1 95574 2fy7A 287 2.82e+01 2gcfA 73 2.90e+01 1idk 359 2.92e+01 1qcxA b.80.1.2 28025 2fexA 188 2.96e+01 1j8yF 297 2.97e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1nrjB 218 2.98e+01 c.37.1.8 86125 1jilA 420 2.99e+01 c.26.1.1 66745 1njrA 284 3.01e+01 c.50.1.2 103858 1kvs 338 3.02e+01 1xel c.2.1.2 29799 1fds 327 3.03e+01 1fds c.2.1.2 29838 1xel 338 3.06e+01 1xel c.2.1.2 29786 1mwvA 714 3.10e+01 a.93.1.3,a.93.1.3 85161,85162 1f0iA 504 3.13e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 2udpA 338 3.19e+01 1xel c.2.1.2 29791 1a9z 338 3.28e+01 1xel c.2.1.2 29795 1w8kA 447 3.29e+01 1nmmB 286 3.30e+01 c.68.1.2 80662 2cdnA 201 3.32e+01 1b74A 254 3.32e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 2occB 227 3.34e+01 2occB b.6.1.2,f.17.2.1 23027,43519 1udb 338 3.34e+01 1xel c.2.1.2 29787 2f6uA 234 3.37e+01 1bu5A 147 3.39e+01 5nul c.23.5.1 31155 1nzyA 269 3.40e+01 1nzyA c.14.1.3 30903 1ynuA 473 3.41e+01 1udc 338 3.42e+01 1xel c.2.1.2 29785 1akt 147 3.42e+01 5nul c.23.5.1 31157 1muhA 481 3.43e+01 c.55.3.4 79485 1b8gA 429 3.46e+01 1b8gA c.67.1.4 34499 1cr0A 296 3.48e+01 1cr1A c.37.1.11 32287 1mldA 314 3.49e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1vk5A 157 3.54e+01 a.220.1.1 108635 1plc 99 3.56e+01 1plc b.6.1.1 22846 1avu 181 3.59e+01 1wba b.42.4.1 25603 1a9y 338 3.61e+01 1xel c.2.1.2 29789 2pcy 99 3.61e+01 1plc b.6.1.1 22849 1i9zA 347 3.62e+01 1i9yA d.151.1.2 62102 2a2kA 175 3.63e+01 1i9yA 347 3.64e+01 1i9yA d.151.1.2 62101 1uanA 227 3.72e+01 c.134.1.1 99135 1gqoX 143 3.76e+01 c.23.13.1 76317 1xqwA 293 3.77e+01 1mtzA 293 3.77e+01 c.69.1.7 79467 2bh9A 489 3.81e+01 1fsu 492 3.82e+01 1auk c.76.1.2 35032 2bayA 61 3.82e+01 1wwrA 171 3.83e+01 1z90A 469 3.97e+01 1jr2A 286 3.99e+01 c.113.1.1 67111 1fj7A 101 4.07e+01 1fj7A d.58.7.1 39209 1m7yA 435 4.07e+01 c.67.1.4 78761 1wz8A 264 4.08e+01 1xyzA 347 4.08e+01 1taxA c.1.8.3 28804 1vr0A 247 4.08e+01 1o2dA 371 4.11e+01 e.22.1.2 86591 1lldA 319 4.11e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1w6uA 302 4.11e+01 1dciA 275 4.16e+01 1dciA c.14.1.3 30918 3pfk 319 4.23e+01 3pfk c.89.1.1 35581 1yj7A 171 4.23e+01 1kzhA 555 4.27e+01 c.89.1.1 73361 1azvA 153 4.29e+01 1mfmA b.1.8.1 22247 1j9eA 147 4.30e+01 c.23.5.1 62756 1h09A 338 4.37e+01 b.109.1.1,c.1.8.8 83420,83421 1j8mF 297 4.39e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1vzsA 76 4.41e+01 f.45.1.1 108972 1mo7A 213 4.43e+01 d.220.1.1 85028 1yacA 208 4.45e+01 1yacA c.33.1.3 31757 1b73A 254 4.57e+01 1b74A c.78.2.1,c.78.2.1 35266,35267 1b7gO 340 4.57e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 2faoA 309 4.58e+01 2d0iA 333 4.60e+01 1w5qA 337 4.64e+01 4pfk 319 4.70e+01 3pfk c.89.1.1 35582 1jmvA 141 4.73e+01 c.26.2.4 66897 1mkyA 439 4.78e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1dlfH 124 4.87e+01 1igtB b.1.1.1 20383 1vl2A 421 4.89e+01 c.26.2.1,d.210.1.1 108708,108709 1ayl 541 4.91e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1oen 540 4.93e+01 1ayl c.91.1.1,c.109.1.1 64750,64751 3pga1 337 4.99e+01 4pgaA 1j27A 102 5.04e+01 d.58.50.1 90778 1dx8A 70 5.05e+01 1rb9 g.41.5.1 45243 1dbrA 231 5.07e+01 1qk3A c.61.1.1 34041 1u7gA 385 5.08e+01 f.44.1.1 107723 1ibsA 317 5.09e+01 c.61.1.2,c.61.1.2 66107,66108 1b00A 127 5.13e+01 3chy c.23.1.1 31122 1ewqA 765 5.14e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2g2cA 167 5.19e+01 1ml4A 308 5.25e+01 c.78.1.1,c.78.1.1 79255,79256 1hkhA 279 5.34e+01 c.69.1.12 90628 1yxmA 303 5.35e+01 1r9dA 787 5.42e+01 c.7.1.1 104865 1q72L 218 5.42e+01 b.1.1.1,b.1.1.2 96016,96017 1b93B 152 5.46e+01 1b93A c.24.1.2 31508 6pfkA 319 5.50e+01 3pfk c.89.1.1 35583 1jmsA 381 5.52e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 5bcaA 516 5.59e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 2pfkA 320 5.64e+01 3pfk c.89.1.1 35577 1tljA 213 5.66e+01 d.282.1.1 107126 1g5cA 170 5.69e+01 1g5cA c.53.2.1 60264 1geqA 248 5.70e+01 2tysA c.1.2.4 28589 103l 167 5.72e+01 1l92 d.2.1.3 36870 1mj3A 260 5.73e+01 c.14.1.3 79183 2f8aA 208 5.74e+01 1pfkA 320 5.85e+01 3pfk c.89.1.1 35575 1nf5B 286 5.90e+01 c.68.1.2 80454 1b93A 152 5.94e+01 1b93A c.24.1.2 31507 1aba 87 5.98e+01 1aba c.47.1.1 32760 1twdA 256 5.99e+01 c.1.30.1 107397 1nxzA 246 6.04e+01 b.122.1.2,c.116.1.5 86391,86392 1dkrA 317 6.05e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1ba9 153 6.08e+01 1mfmA b.1.8.1 22272 1o7bT 98 6.08e+01 d.169.1.4 92620 1akq 147 6.10e+01 5nul c.23.5.1 31159 1geeA 261 6.18e+01 c.2.1.2 90509 1pztA 286 6.19e+01 c.68.1.2 95470 1icpA 376 6.21e+01 1oyc c.1.4.1 62270 1fjrA 195 6.23e+01 1fjrA b.102.1.1 59855 1aazA 87 6.24e+01 1aba c.47.1.1 32761 1gcoA 261 6.24e+01 1ybvA c.2.1.2 29884 1ad4A 266 6.27e+01 1aj2 c.1.21.1 29670 1qb0A 211 6.34e+01 1c25 c.46.1.1 32699 1cuj 214 6.38e+01 1cex c.69.1.30 31294 1ryaA 160 6.39e+01 d.113.1.5 105122 1kv5A 250 6.41e+01 c.1.1.1 73052 1nnwA 252 6.46e+01 d.159.1.5 80674 1mjuL 219 6.50e+01 b.1.1.1,b.1.1.2 91304,91305 1ymkA 175 6.52e+01 1ll7A 392 6.69e+01 c.1.8.5,d.26.3.1 78085,78086 1vf5F 35 6.73e+01 f.23.25.1 100586 2gdzA 267 6.77e+01 2f02A 323 6.81e+01 1be3H 78 6.81e+01 1be3H f.28.1.1 43670 1j7lA 264 6.86e+01 d.144.1.6 62697 1gt8C 1025 6.87e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 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154 8.80e+01 3pviA c.52.1.6 33306 1xfjA 261 8.91e+01 d.194.1.2 109585