# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2ah5A 210 4.44e-03 1t5oA 351 3.07e-01 c.124.1.5 106459 1pu6A 218 1.08e+00 a.96.1.5 95123 2f2eA 146 1.50e+00 1ihgA 370 1.68e+00 2cpl a.118.8.1,b.62.1.1 62380,62381 1izmA 184 1.76e+00 a.199.1.1 90725 1sf8A 126 3.85e+00 d.271.1.1 105472 1e19A 314 3.86e+00 1b7bA c.73.1.1 34967 2f1kA 279 3.95e+00 1hyp 80 4.19e+00 1hyp a.52.1.1 17806 1miwA 404 4.35e+00 a.173.1.1,d.218.1.4 79162,79163 1sly 618 5.30e+00 1qsaA a.118.5.1,d.2.1.6 19184,36990 2go7A 207 5.44e+00 1uc8A 280 5.95e+00 c.30.1.6,d.142.1.7 99165,99166 2ng1 293 6.49e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 1qsaA 618 7.06e+00 1qsaA a.118.5.1,d.2.1.6 19182,36988 1eexA 554 7.15e+00 1dioA c.1.19.3 29650 2coiA 386 7.49e+00 1dioA 554 7.51e+00 1dioA c.1.19.3 29656 2cbiA 594 7.62e+00 1z9hA 290 7.69e+00 1wa8B 95 8.28e+00 1ezwA 349 8.32e+00 1ezwA c.1.16.3 29558 1xnfA 275 8.37e+00 1is8A 230 9.09e+00 d.96.1.1 66321 1wusA 180 9.19e+00 1rh6A 55 9.62e+00 a.6.1.7 104935 2a5vA 213 9.85e+00 1ym3A 215 9.91e+00 1lx8A 55 9.92e+00 a.6.1.7 84734 1ffh 294 1.10e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1ekfA 365 1.12e+01 1ekfA e.17.1.1 59445 1fc4A 401 1.14e+01 1bs0A c.67.1.4 59760 1kt8A 365 1.16e+01 e.17.1.1 77531 1ktaA 365 1.17e+01 e.17.1.1 77533 1v54A 514 1.17e+01 f.24.1.1 100321 2a1hA 365 1.17e+01 1r0dA 206 1.21e+01 a.216.1.1 104715 1txdA 385 1.21e+01 a.87.1.1,b.55.1.1 107422,107423 1ng1 294 1.27e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1jpnA 296 1.33e+01 a.24.13.1,c.37.1.10 67039,67040 1ls1A 295 1.34e+01 a.24.13.1,c.37.1.10 78170,78171 1zkrA 153 1.35e+01 1pm6A 72 1.44e+01 a.6.1.7 94894 1sgmA 191 1.45e+01 a.4.1.9,a.121.1.1 105537,105538 1ygtA 111 1.49e+01 2fbqA 235 1.51e+01 2b49A 287 1.55e+01 1a59 378 1.58e+01 1aj8A a.103.1.1 18902 1v32A 101 1.64e+01 a.42.1.1 100277 2gk3A 256 1.65e+01 2fnaA 357 1.66e+01 1tx4A 198 1.67e+01 1tx4A a.116.1.1 19098 1j57A 143 1.71e+01 d.221.1.1 77079 2occA 514 1.71e+01 2occA f.24.1.1 43518 2grrB 170 1.75e+01 1wy9A 147 1.76e+01 1q1fA 151 1.85e+01 a.1.1.2 104476 18gsA 210 1.85e+01 1pgtA a.45.1.1,c.47.1.5 17528,32822 1ku1A 230 1.96e+01 a.118.3.1 72996 1aqwA 209 1.99e+01 1pgtA a.45.1.1,c.47.1.5 17517,32811 1r1hA 696 2.04e+01 d.92.1.4 104756 1dmtA 696 2.05e+01 1dmtA d.92.1.4 40296 1oaoA 674 2.05e+01 e.26.1.2 86744 111l 164 2.07e+01 1l92 d.2.1.3 36661 1pgtA 210 2.17e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 17gsA 210 2.19e+01 1pgtA a.45.1.1,c.47.1.5 17524,32818 1lbkA 208 2.19e+01 a.45.1.1,c.47.1.5 73809,73810 1o06A 20 2.38e+01 j.105.1.1 86524 1yyvA 131 2.58e+01 1oj6A 151 2.60e+01 a.1.1.2 93088 1vqwA 457 2.61e+01 1g0uE 234 2.69e+01 d.153.1.4 41950 1ft9A 222 2.72e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1pbwA 216 2.73e+01 1pbwA a.116.1.1 19103 1vekA 84 2.74e+01 1ukz 203 2.74e+01 1zin c.37.1.1 31840 1cfe 135 2.78e+01 1cfe d.111.1.1 40913 1nxuA 333 2.84e+01 c.122.1.1 86389 1qloA 34 2.87e+01 1qloA j.35.1.1 46281 1pysA 350 2.91e+01 1pysA d.104.1.1 40775 1wteA 272 2.93e+01 174lA 164 3.04e+01 1l92 d.2.1.3 36956 1puoA 170 3.07e+01 a.101.1.1,a.101.1.1 95134,95135 1b7yA 350 3.09e+01 1pysA d.104.1.1 40776 171l 164 3.11e+01 1l92 d.2.1.3 36962 1g59A 468 3.17e+01 a.97.1.1,c.26.1.1 60257,60258 1l0lB 439 3.23e+01 d.185.1.1,d.185.1.1 84484,84485 2a07F 93 3.28e+01 1fj7A 101 3.35e+01 1fj7A d.58.7.1 39209 1ppjB 439 3.36e+01 d.185.1.1,d.185.1.1 104254,104255 2at9 247 3.37e+01 1c3wA f.13.1.1 43427 1am4A 199 3.46e+01 1tx4A a.116.1.1 19100 1q6aA 107 3.47e+01 a.186.1.1 95966 1j09A 468 3.47e+01 a.97.1.1,c.26.1.1 77025,77026 1ug0A 88 3.49e+01 a.217.1.1 107822 1elrA 131 3.51e+01 1a17 a.118.8.1 19209 1aa2 108 3.51e+01 1bkrA a.40.1.1 17395 1w36C 1122 3.53e+01 1mhdA 132 3.58e+01 1mhdA d.164.1.1 42175 1c3wA 222 3.59e+01 1c3wA f.13.1.1 43405 1ecmA 109 3.61e+01 1ecmA a.130.1.1 19492 1vgoA 253 3.63e+01 1glqA 209 3.66e+01 1pgtA a.45.1.1,c.47.1.5 17588,32882 1i2aA 219 3.69e+01 e.24.1.1 90660 1bkrA 109 3.70e+01 1bkrA a.40.1.1 17394 1yviA 149 3.71e+01 1m0kA 262 3.76e+01 f.13.1.1 78344 1kv4A 42 3.81e+01 j.4.1.3 73051 1nm8A 616 3.81e+01 c.43.1.3,c.43.1.3 85872,85873 1vqoV 71 3.81e+01 1azwA 313 3.84e+01 1qtrA c.69.1.7 34658 2g7sA 194 3.93e+01 1d6mA 653 4.00e+01 1d6mA e.10.1.1 43248 1b3bA 415 4.00e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1pq1A 196 4.03e+01 f.1.4.1 94986 1e9rA 437 4.04e+01 c.37.1.11 64827 1fjeB 175 4.08e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 2c5uA 375 4.10e+01 192l 164 4.17e+01 1l92 d.2.1.3 36815 1odoA 408 4.22e+01 a.104.1.1 92783 1z6gA 218 4.25e+01 1b8zA 90 4.25e+01 1huuA a.55.1.1 17902 1t3tA 1303 4.32e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1ys7A 233 4.57e+01 1maz 221 4.60e+01 1maz f.1.4.1 43393 1dw0A 112 4.62e+01 1dw0A a.3.1.1 15911 1unlD 208 4.65e+01 2bykB 128 4.67e+01 1af3 196 4.67e+01 1maz f.1.4.1 43397 1kzuB 41 4.74e+01 1kzuB f.3.1.1 43728 1nkzB 41 4.74e+01 f.3.1.1 80612 1latA 82 4.77e+01 2nllB g.39.1.2 45122 1z83A 196 4.78e+01 1ozjA 144 4.79e+01 d.164.1.1 93846 1g2cA 52 4.79e+01 1g2cA h.3.2.1 45767 1h2aL 567 4.86e+01 1h2rL e.18.1.1 43299 1jj2U 70 4.91e+01 1ffkS a.2.2.1 63106 1s72V 71 4.94e+01 a.2.2.1 105341 1rypF 233 4.97e+01 1rypF d.153.1.4 41937 1kgbA 231 5.03e+01 f.13.1.1 68581 1pmi 440 5.04e+01 1pmi b.82.1.3 28114 1ir6A 424 5.06e+01 c.107.1.2 71342 2axtJ 40 5.06e+01 1wuiL 534 5.08e+01 1ubkL 534 5.08e+01 e.18.1.1 88422 1x24A 180 5.09e+01 1io1A 398 5.13e+01 1io1A e.32.1.1 62611 2fiqA 420 5.15e+01 2es4D 332 5.18e+01 1kxpD 458 5.26e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1vhtA 218 5.31e+01 c.37.1.1 100700 1h2rL 534 5.32e+01 1h2rL e.18.1.1 43298 1cg5B 141 5.45e+01 1cg5B a.1.1.2 15585 1zccA 248 5.47e+01 1ar1A 558 5.57e+01 2occA f.24.1.1 43618 1aj6 219 5.63e+01 1aj6 d.122.1.2 41106 2aorA 223 5.69e+01 1rvgA 305 5.74e+01 c.1.10.2 97920 1cz4A 185 5.78e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 2cosA 54 5.80e+01 1v2zA 111 5.87e+01 a.186.1.1 108300 2ccjA 205 5.88e+01 1nhyA 219 5.88e+01 a.45.1.1,c.47.1.5 80520,80521 2gtsA 86 5.89e+01 1g2cQ 52 5.90e+01 1g2cQ h.3.2.1 45775 1g2cK 52 5.93e+01 1g2cK h.3.2.1 45772 1jmsA 381 5.95e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1i7dA 659 5.95e+01 1d6mA e.10.1.1 61886 3vub 101 5.96e+01 3vub b.34.6.1 24613 2aebA 322 6.01e+01 1b2vA 188 6.03e+01 1b2vA d.35.1.1 38532 1dk0A 188 6.03e+01 1b2vA d.35.1.1 38530 1g2cO 52 6.08e+01 1g2cO h.3.2.1 45774 152l 164 6.28e+01 1l92 d.2.1.3 36904 1wzzA 334 6.34e+01 1ihoA 283 6.47e+01 1ihoA c.26.1.4 62390 1ndbA 596 6.52e+01 c.43.1.3,c.43.1.3 80411,80412 1bd3A 243 6.53e+01 1bd3A c.61.1.1 34098 1sz2A 332 6.56e+01 2aqwA 332 6.59e+01 2ew2A 316 6.60e+01 1y97A 238 6.69e+01 1uedA 406 6.71e+01 a.104.1.1 99256 1be3B 439 6.77e+01 1be3B d.185.1.1,d.185.1.1 58952,58953 2fji1 399 6.81e+01 5ukdA 194 6.81e+01 1zin c.37.1.1 31851 1h1nA 305 6.82e+01 c.1.8.3 70855 1qf9A 194 6.92e+01 1zin c.37.1.1 31848 1f1oA 431 6.92e+01 1f1oA a.127.1.1 19433 191l 164 6.96e+01 1l92 d.2.1.3 36826 1f3mA 80 7.11e+01 1f3mA j.66.1.1 46358 1f16A 192 7.14e+01 1f16A f.1.4.1 43400 1zbpA 273 7.16e+01 1l7vA 326 7.23e+01 f.22.1.1 73672 1bsg 266 7.30e+01 1btl e.3.1.1 42729 1vsgA 364 7.33e+01 1vsgA h.4.1.1 45782 1mxmA 254 7.39e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1so2A 420 7.43e+01 a.211.1.2 98936 1qcwA 410 7.47e+01 1gox c.1.4.1 28622 2gx9A 129 7.57e+01 1jqSB 32 7.59e+01 1jqsB 32 7.59e+01 i.1.1.1 63238 1l58 164 7.71e+01 1l92 d.2.1.3 36635 1szt 68 7.77e+01 1aikN h.3.2.1 45725 1kbjA 412 7.80e+01 c.1.4.1 72280 1y8qB 640 7.84e+01 1o5hA 214 7.90e+01 a.191.1.1 92497 1k8kA 418 7.94e+01 c.55.1.1,c.55.1.1 68305,68306 2fp1A 166 8.02e+01 2f6lA 166 8.02e+01 1tubA 440 8.04e+01 1tubA c.32.1.1,d.79.2.1 31751,39803 142l 164 8.09e+01 1l92 d.2.1.3 36874 118l 164 8.09e+01 1l92 d.2.1.3 36642 1jnyA 435 8.19e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 172l 164 8.23e+01 1l92 d.2.1.3 36905 2ci1A 275 8.28e+01 168lA 164 8.34e+01 1l92 d.2.1.3 36975 2ctoA 93 8.36e+01 2aexA 346 8.37e+01 1q18A 332 8.38e+01 c.55.1.7,c.55.1.7 104470,104471 126l 164 8.42e+01 1l92 d.2.1.3 36699 1odkA 235 8.46e+01 c.56.2.1 86863 2cqnA 77 8.47e+01 138l 164 8.52e+01 1l92 d.2.1.3 36679 2cdnA 201 8.55e+01 1qh4A 380 8.60e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1lw9A 164 8.60e+01 d.2.1.3 84727 1dk5A 322 8.62e+01 1dk5A a.65.1.1 18192 190l 164 8.62e+01 1l92 d.2.1.3 36892 1jwwA 80 8.66e+01 d.58.17.1 71919 129l 164 8.68e+01 1l92 d.2.1.3 36660 1vp8A 201 8.71e+01 1qqcA 773 8.73e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1zclA 180 8.77e+01 1jf4A 147 8.79e+01 a.1.1.2 71643 1kpsB 171 8.80e+01 a.118.12.1 68787 1l3pA 102 8.81e+01 a.24.17.1 84520 125l 164 8.84e+01 1l92 d.2.1.3 36672 1vpc 45 8.86e+01 1vpc j.11.1.1 46138 1ntr 124 8.87e+01 1dbwA c.23.1.1 31092 2a2fX 325 8.93e+01 2genA 197 8.96e+01 112l 164 8.98e+01 1l92 d.2.1.3 36677