# 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.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 2w01A 208 5.19e-34 1culA 217 8.73e-31 1azsA d.58.29.1 39417 2wz1A 219 3.00e-30 1azsA 220 3.36e-30 1azsA d.58.29.1 39416 1wc1A 226 1.48e-29 d.58.29.1 114492 1wc3A 219 1.93e-29 d.58.29.1 114495 1fx2A 235 1.71e-26 1fx2A d.58.29.1 39430 1azsB 212 1.93e-26 1azsA d.58.29.1 39423 1fx4A 231 7.82e-26 1fx2A d.58.29.1 39431 1ybtA 184 5.49e-25 1ab8A 220 1.80e-23 1azsA d.58.29.1 39414 1y10A 407 1.57e-21 2qv6A 268 3.03e-04 3lmbA 165 8.51e-03 3iclA 171 1.47e-02 1tgoA 773 8.66e-02 1tgoA c.55.3.5,e.8.1.1 33721,43010 2vwkA 773 9.63e-02 c.55.3.5,e.8.1.1 153677,153678 2fmyA 220 1.40e-01 1dgjA 907 2.17e-01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 3i5aA 334 2.18e-01 2hf9A 226 3.66e-01 1w25A 459 4.30e-01 c.23.1.1,c.23.1.1,d.58.29.2 114090,114091,114092 1qhtA 775 4.52e-01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1yvuA 706 6.48e-01 b.34.14.1,c.55.3.10 124120,124121 2a8mA 420 8.17e-01 3i5bA 179 8.57e-01 3breA 358 9.11e-01 3ezuA 342 9.27e-01 3gmgA 170 1.27e+00 1uqwA 509 1.44e+00 c.94.1.1 99799 1q5qA 259 1.62e+00 d.153.1.4 95904 2a8jA 420 2.03e+00 3i5cA 206 2.17e+00 3gqcA 504 2.39e+00 3khrA 341 2.43e+00 2a8lA 420 2.47e+00 2i09A 403 2.53e+00 c.76.1.5,d.327.1.1 136946,136947 3m7vA 413 2.55e+00 2dplA 308 2.70e+00 3h5aA 358 2.71e+00 3gyyA 341 2.77e+00 2vpnA 316 2.93e+00 3h5nA 353 2.99e+00 3hvaA 177 3.01e+00 2qdfA 335 3.06e+00 1im4A 221 3.34e+00 e.8.1.7 62581 1mx0A 472 3.53e+00 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1yzyA 413 3.99e+00 c.146.1.1 124292 2v0hA 456 4.25e+00 1o4sA 389 4.32e+00 c.67.1.1 86620 1phkA 298 4.76e+00 d.144.1.7 41635 1r8gA 372 4.89e+00 d.128.1.3 104845 3i4jA 430 4.92e+00 2aydA 76 5.22e+00 1ve2A 235 5.23e+00 c.90.1.1 120008 2ftpA 302 5.49e+00 2vqxA 341 5.52e+00 1jx4A 352 5.88e+00 d.240.1.1,e.8.1.7 90378,90379 2jejA 358 6.02e+00 d.240.1.1,e.8.1.7 138284,138285 1atzA 189 6.22e+00 1atzA c.62.1.1 34132 2g9hD 218 6.40e+00 b.40.2.2,d.15.6.1 145188,145189 1ebmA 317 6.54e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 1ao3A 187 6.90e+00 1atzA c.62.1.1 34134 3kruA 343 7.06e+00 1hjxA 362 7.10e+00 c.1.8.5,d.26.3.1 83512,83513 1taq 832 7.26e+00 1taq 1qqcA 773 7.54e+00 1tgoA c.55.3.5,e.8.1.1 33724,43013 1zj8A 566 7.79e+00 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 146003,146004,146005,146006 3d36A 244 7.95e+00 2pp6A 102 8.05e+00 b.106.1.2 149728 2q7tA 301 8.46e+00 1ta9A 450 8.65e+00 1zuoA 186 8.67e+00 d.20.1.1 125680 2fyxA 143 8.93e+00 d.58.57.1 134411 3ebuA 313 9.10e+00 2nvpA 435 9.49e+00 a.102.1.8 148478 3eawX 313 9.57e+00 2cjgA 449 9.87e+00 2jjeA 449 9.87e+00 2ps1A 226 9.97e+00 2q02A 272 1.04e+01 c.1.15.4 149978 3hdoA 360 1.08e+01 2g0wA 296 1.13e+01 c.1.15.4 134503 1n91A 108 1.16e+01 d.206.1.1 80326 1u08A 386 1.20e+01 c.67.1.1 107543 3ddvA 145 1.25e+01 d.190.1.2 157563 3gd4A 511 1.26e+01 1lwyA 324 1.27e+01 a.96.1.3,d.129.1.2 78285,78286 3cgxA 242 1.28e+01 3dffA 273 1.30e+01 1p4dA 330 1.31e+01 d.89.1.5 94101 3h4tA 404 1.34e+01 2jjhA 449 1.36e+01 3lotA 314 1.41e+01 3hvqC 170 1.41e+01 1df7A 159 1.41e+01 3dfr c.71.1.1 34885 2q8pA 260 1.42e+01 1n3lA 372 1.49e+01 c.26.1.1 79966 3e5xA 250 1.52e+01 2jjfA 449 1.53e+01 3douA 191 1.57e+01 2v4uA 289 1.57e+01 2hrzA 342 1.58e+01 1lrzA 426 1.60e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2pqcA 445 1.60e+01 2gg6A 455 1.61e+01 3bdkA 386 1.65e+01 2q0oA 236 1.67e+01 1kutA 230 1.69e+01 d.143.1.1 73017 1v7rA 186 1.73e+01 c.51.4.1 100482 3c0iA 351 1.77e+01 1kuuA 202 1.80e+01 d.153.2.1 73019 1m3qA 317 1.81e+01 a.96.1.3,d.129.1.2 91184,91185 1esfA 233 1.92e+01 3seb b.40.2.2,d.15.6.1 25146,37735 2diuA 96 1.93e+01 2p5yA 311 1.96e+01 1ypvA 313 1.97e+01 1qjdA 571 1.99e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 2qh9A 184 1.99e+01 1lj1A 571 2.03e+01 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1ps9A 671 2.05e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2w3wA 167 2.07e+01 1g6oA 330 2.08e+01 1g6oA c.37.1.11 32430 3fy1A 395 2.09e+01 2pjhB 193 2.10e+01 b.52.2.3,d.31.1.1 149563,149564 2pt7A 330 2.11e+01 c.37.1.11 149834 2ntkA 222 2.12e+01 d.153.2.1 138583 2dskA 311 2.14e+01 2rbdA 171 2.18e+01 1u02A 239 2.20e+01 c.108.1.15 107538 1ts3A 194 2.20e+01 1aw7A b.40.2.2,d.15.6.1 25168,37757 2wm1A 336 2.23e+01 3hkmA 246 2.27e+01 3gedA 247 2.33e+01 2fwmX 250 2.33e+01 3krtA 456 2.34e+01 2pgnA 589 2.37e+01 1pg5A 299 2.39e+01 c.78.1.1,c.78.1.1 104146,104147 3euhC 234 2.41e+01 1ko9A 345 2.43e+01 a.96.1.3,d.129.1.2 68717,68718 1p2hA 571 2.45e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1tz9A 367 2.47e+01 c.1.15.6 107466 3lxxA 239 2.48e+01 1q9iA 571 2.48e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 2vktA 289 2.59e+01 1m41A 380 2.66e+01 c.1.16.4 78595 1m64A 571 2.71e+01 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1t2dA 322 2.71e+01 c.2.1.5,d.162.1.1 99084,99085 1f2vA 219 2.74e+01 1f2vA c.23.17.1 59627 1rknA 110 2.79e+01 b.40.1.1 111855 2j5gA 263 2.80e+01 1jp4A 308 2.81e+01 1jp4A e.7.1.1 63223 3gycA 393 2.93e+01 1jmtA 104 2.95e+01 d.58.7.3 63180 2ifaA 208 2.98e+01 d.90.1.1 137329 3ehiX 313 3.00e+01 2bj7A 138 3.13e+01 a.43.1.3,d.58.18.4 128608,128609 1wj2A 78 3.16e+01 g.79.1.1 114689 2gaiA 633 3.23e+01 1x0tA 120 3.25e+01 3kxwA 590 3.33e+01 2pi6A 361 3.34e+01 c.1.8.5,d.26.3.1 149501,149502 2igbA 179 3.34e+01 c.61.1.1 147655 1e39A 571 3.38e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1bdb 277 3.39e+01 1bdb 1bdbA 277 3.39e+01 c.2.1.2 29874 1kssA 571 3.46e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1mk4A 157 3.52e+01 d.108.1.1 84979 1bmtA 246 3.54e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 3lnpA 468 3.54e+01 3drnA 161 3.61e+01 3k28A 429 3.67e+01 2hkjA 469 3.71e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 1vqtA 213 3.73e+01 c.1.2.3 120417 1snyA 267 3.75e+01 c.2.1.2 105833 2g0bA 198 3.78e+01 3cg0A 140 3.78e+01 2clbA 188 3.84e+01 2z67A 456 3.89e+01 c.67.1.9 154170 1nvpD 108 3.94e+01 a.32.1.1,b.56.1.1 92213,92214 3c6kA 381 4.00e+01 3dhnA 227 4.09e+01 3hhyA 280 4.11e+01 3gjzA 336 4.14e+01 3tglA 269 4.25e+01 c.69.1.17 34733 1t82A 155 4.27e+01 d.38.1.5 106639 2c3fA 358 4.27e+01 b.108.1.5 146370 1spxA 278 4.33e+01 c.2.1.2 98958 1vm6A 228 4.35e+01 d.81.1.3,c.2.1.3 108877,118631 1vkwA 218 4.35e+01 d.90.1.2 108695 1z2zA 446 4.37e+01 2zbvA 263 4.38e+01 1nqkA 381 4.40e+01 c.1.16.4 92050 2rilA 99 4.41e+01 1mioB 458 4.46e+01 1qguB c.92.2.3 35602 1duvG 333 4.50e+01 1othA c.78.1.1,c.78.1.1 35228,35229 2isbA 192 4.52e+01 c.8.9.1 137601 1gy8A 397 4.56e+01 c.2.1.2 83376 2i44A 324 4.73e+01 2fiuA 99 4.81e+01 d.58.4.16 133537 1hkkA 364 4.85e+01 c.1.8.5,d.26.3.1 90634,90635 2wlvA 144 4.86e+01 1j9yA 385 4.94e+01 1j9yA c.1.8.3 62791 1j93A 353 4.95e+01 c.1.22.1 66454 3fruA 269 5.06e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 3icjA 534 5.07e+01 3i3kA 461 5.16e+01 2vldA 251 5.24e+01 3ko5A 164 5.25e+01 1nnwA 252 5.26e+01 d.159.1.5 80674 2i1mA 333 5.27e+01 3d55A 91 5.30e+01 1y0pA 571 5.35e+01 a.138.1.3,c.3.1.4,d.168.1.1 122507,122508,122509 2f6kA 307 5.37e+01 c.1.9.15 133047 1a3c 181 5.37e+01 1a3c 1a3cA 181 5.37e+01 c.61.1.1 34095 3gzaA 443 5.39e+01 2ekgA 327 5.43e+01 2zysA 479 5.45e+01 1mqdA 261 5.53e+01 c.94.1.1 85049 2hzgA 401 5.61e+01 2dv6A 447 5.62e+01 3ei3B 383 5.63e+01 3e6cC 250 5.65e+01 a.4.5.4,b.82.3.2 158038,158039 2e12A 101 5.66e+01 1nv8A 284 5.68e+01 c.66.1.30 86224 3l8hA 179 5.70e+01 2zigA 297 5.75e+01 2okvA 209 5.76e+01 1j5uA 136 5.77e+01 d.208.1.1 71584 1goiA 499 5.79e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1jksA 294 5.79e+01 d.144.1.7 71710 1mqiA 263 5.79e+01 c.94.1.1 91398 3he8A 149 5.84e+01 1ydnA 295 5.86e+01 1mu5A 471 5.89e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 2zyhA 475 5.95e+01 3cfzA 292 5.96e+01 3htnA 149 5.96e+01 1ldg 316 5.98e+01 1ceqA 2hk0A 309 6.04e+01 3lcdA 329 6.11e+01 2imrA 420 6.14e+01 b.92.1.11,c.1.9.16 147734,147735 2tmdA 729 6.16e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1a2zA 220 6.18e+01 1a2zA c.56.4.1 33794 1lg2A 365 6.24e+01 c.1.8.5,d.26.3.1 77950,77951 2omkA 231 6.25e+01 1yj7A 171 6.26e+01 1gpmA 525 6.26e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1n7kA 234 6.32e+01 c.1.10.1 85374 2f5gA 133 6.35e+01 d.58.57.1 132991 1wb0A 445 6.36e+01 c.1.8.5,d.26.3.1 120825,120826 1c4oA 664 6.45e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 2p6wA 213 6.49e+01 2zyiA 475 6.49e+01 2pqmA 343 6.55e+01 2e2wA 113 6.62e+01 1iooA 196 6.65e+01 d.124.1.1 71250 2g37A 327 6.70e+01 2vvrA 149 6.78e+01 1lgyA 269 6.81e+01 3tgl c.69.1.17 34758 3tssA 194 6.82e+01 b.40.2.2,d.15.6.1 25160,37749 1atiA 505 6.86e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 2e74D 179 6.86e+01 b.33.1.1,f.23.12.1 132049,132050 2p10A 286 6.88e+01 c.1.12.9 149144 1ckeA 227 6.95e+01 1ckeA c.37.1.1 31846 2zbiA 292 6.95e+01 2pd0A 223 7.01e+01 3ighX 486 7.03e+01 1djqA 729 7.06e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 3lsfB 258 7.06e+01 1ktgA 138 7.06e+01 d.113.1.1 72972 2zyrA 484 7.08e+01 3gu4A 299 7.09e+01 1owqA 361 7.10e+01 c.1.8.5,d.26.3.1 104041,104042 1hufA 140 7.11e+01 1hufA d.195.1.1 61272 1hf2A 210 7.24e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 2zvcA 295 7.26e+01 1ceqA 316 7.27e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 3ct9A 356 7.30e+01 2dvtA 327 7.38e+01 c.1.9.15 131793 3gh2X 315 7.42e+01 1vgjA 184 7.46e+01 2o0rA 411 7.48e+01 1b48A 221 7.49e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1kzfA 230 7.56e+01 d.108.1.3 73354 1c3oA 1073 7.57e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1dfoA 417 7.64e+01 1bj4A c.67.1.4 34480 3gh0A 316 7.71e+01 1e15A 499 7.74e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 1squA 155 7.74e+01 d.252.1.1 98971 1iv8A 720 7.78e+01 b.71.1.1,c.1.8.1 76842,76843 3glcA 295 7.80e+01 2i2cA 272 7.91e+01 3k1rA 192 7.94e+01 1ltlA 279 7.99e+01 b.40.4.11 84701