# 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.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 1mkmA 249 1.30e-33 a.4.5.33,d.110.2.2 79242,79243 1yspA 181 1.03e-32 1td5A 202 3.35e-31 d.110.2.2 106767 2o99A 182 3.09e-30 d.110.2.2 138952 1tf1A 198 7.73e-30 d.110.2.2 106826 2ia2A 265 3.62e-28 1ysqA 193 1.80e-27 2g7uA 257 4.90e-27 3bjnA 165 2.74e-23 2o0yA 260 1.21e-22 1mc0A 368 1.84e-03 d.110.2.1,d.110.2.1 78937,78938 1ykdA 398 2.08e-01 2oqrA 230 2.83e-01 2aexA 346 5.23e-01 1yw5A 177 7.21e-01 2abyA 146 7.31e-01 2pb2A 420 8.54e-01 2o28A 184 9.71e-01 1itpA 77 1.17e+00 d.58.3.2 66371 1v5iB 76 1.20e+00 1id0A 152 1.43e+00 d.122.1.3 66111 3caxA 369 1.64e+00 1xtmA 175 1.87e+00 1s4iA 175 2.11e+00 1f5mA 180 2.14e+00 1f5mB d.110.2.1 40895 1xtlA 175 2.25e+00 2bjoA 136 2.75e+00 1vs3A 249 3.32e+00 1mx3A 347 3.36e+00 c.2.1.4,c.23.12.1 79638,79639 1jqgA 433 4.20e+00 c.56.5.1,d.58.3.1 71791,71792 2qybA 181 4.51e+00 2mysB 166 5.44e+00 1wdcB a.39.1.5 17308 1vr4A 103 5.49e+00 d.230.5.1 120432 1q7lA 198 5.67e+00 c.56.5.4 96044 2fgoA 82 6.95e+00 2qvpA 275 7.03e+00 2yvyA 278 7.10e+00 1fb6A 105 7.63e+00 1thx c.47.1.1 32739 1r5jA 337 7.94e+00 c.77.1.5 97097 2absA 383 8.54e+00 c.72.1.1 126534 2dgdA 223 8.66e+00 1ko7A 314 9.26e+00 c.98.2.1,c.91.1.2 72797,72798 2e85A 159 9.34e+00 2uv0E 175 9.61e+00 3c19A 186 9.68e+00 2j6vA 301 9.75e+00 2f5gA 133 9.90e+00 d.58.57.1 132991 1bg2 325 1.03e+01 1bg2 1bg2A 325 1.03e+01 c.37.1.9 32189 1fmjA 351 1.09e+01 c.37.1.5 59879 1iurA 88 1.10e+01 a.2.3.1 90704 2dy1A 665 1.14e+01 1bavA 309 1.20e+01 1aye c.56.5.1 33806 1dgmA 363 1.23e+01 1bx4A c.72.1.1 34936 1adeA 431 1.24e+01 1adeA c.37.1.10 32213 3rubS 123 1.24e+01 1rboC d.73.1.1 39616 2gx5A 170 1.26e+01 1n9lA 109 1.28e+01 d.110.3.6 85468 1liiA 363 1.29e+01 c.72.1.1 73921 1b64 91 1.30e+01 1b64 2iwtA 125 1.31e+01 1l2tA 235 1.32e+01 c.37.1.12 73514 1mvwB 145 1.33e+01 i.15.1.1 79524 2fldA 165 1.34e+01 2qr6A 393 1.35e+01 2v0uA 146 1.36e+01 1y96B 85 1.40e+01 1vfvA 366 1.41e+01 c.37.1.9 108592 2r00A 336 1.41e+01 2pjhB 193 1.43e+01 1erv 105 1.47e+01 1erv 2atrA 138 1.48e+01 d.108.1.1 127305 2qdfA 335 1.57e+01 1lpjA 133 1.57e+01 b.60.1.2 78123 1t9mA 214 1.58e+01 b.45.1.1 112364 2ou6A 190 1.60e+01 1vefA 395 1.61e+01 c.67.1.4 120018 3cblA 377 1.61e+01 1louA 101 1.65e+01 1ris d.58.14.1 39323 1erw 105 1.67e+01 1erv 2b18A 164 1.68e+01 1qxhA 167 1.69e+01 c.47.1.10 96528 2ddzA 190 1.72e+01 3c6kA 381 1.75e+01 2qfmA 364 1.75e+01 1f60A 458 1.76e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1o65A 246 1.81e+01 b.58.1.2 92544 1rypF 233 1.84e+01 1rypF d.153.1.4 41937 1y791 680 1.84e+01 2ifqA 105 1.84e+01 c.47.1.1 137343 1qgvA 142 1.88e+01 1qgvA c.47.1.8 33056 2q02A 272 1.92e+01 2r6uA 148 1.96e+01 1hyeA 313 1.97e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 2vluA 122 1.98e+01 1g0uE 234 2.00e+01 d.153.1.4 41950 1duxC 94 2.01e+01 1awcA a.4.5.21 16170 1wubA 178 2.02e+01 b.61.6.1 114891 1yexA 186 2.07e+01 c.47.1.10 123021 1svdM 110 2.08e+01 d.73.1.1 119059 1b34A 119 2.09e+01 1d3bA b.38.1.1 24796 2d4pA 141 2.10e+01 1aiu 105 2.10e+01 1erv 2j5aA 110 2.18e+01 1r13A 148 2.31e+01 d.169.1.1,h.1.1.1 96782,96783 1wlxA 129 2.34e+01 2trxA 108 2.41e+01 1thx c.47.1.1 32719 1q2lA 939 2.49e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 1vi9A 299 2.51e+01 c.72.1.5 100750 1mnmA 100 2.52e+01 1mnmA d.88.1.1 40232 2cpmA 94 2.53e+01 1jfuA 186 2.55e+01 c.47.1.10 62940 1j6wA 175 2.62e+01 1j98A d.185.1.2 62663 2o11A 407 2.64e+01 1n8jA 186 2.65e+01 c.47.1.10 85401 8rucI 123 2.66e+01 1rboC d.73.1.1 39629 2aaoA 166 2.69e+01 2ae6A 166 2.72e+01 d.108.1.1 126600 1t00A 112 2.72e+01 2vjvA 159 2.75e+01 1kp8A 547 2.75e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 2okjA 504 2.75e+01 1hbxA 92 2.76e+01 1mnmA d.88.1.1 60930 2q2gA 180 2.78e+01 1cr1A 296 2.79e+01 1cr1A c.37.1.11 32286 1uae 419 2.83e+01 1uae 1ym5A 300 2.88e+01 1s28A 132 3.04e+01 d.198.1.1 105223 2i1uA 121 3.07e+01 1td2A 287 3.09e+01 c.72.1.5 106765 2q3uA 383 3.12e+01 d.126.1.6 139809 1i6iA 366 3.15e+01 1bg2 c.37.1.9 61844 2fcoA 200 3.17e+01 2q81A 119 3.20e+01 2pbqA 178 3.26e+01 1ylkA 172 3.29e+01 1ris 101 3.31e+01 1ris 2c1cA 312 3.31e+01 c.56.5.1 129630 3ceaA 346 3.32e+01 2e7uA 424 3.38e+01 2b06A 155 3.40e+01 d.113.1.1 127624 1sgjA 284 3.43e+01 c.1.12.5 105535 1rsgA 516 3.46e+01 1s2oA 244 3.46e+01 c.108.1.10 118846 1njrA 284 3.48e+01 c.50.1.2 103858 1tljA 213 3.50e+01 d.282.1.1 107126 2ha8A 184 3.50e+01 1r7mA 235 3.52e+01 d.95.2.1,d.95.2.1 111713,111714 3c0wA 235 3.54e+01 2vfjA 366 3.55e+01 1p3dA 475 3.56e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2g76A 335 3.59e+01 2dfaA 250 3.61e+01 c.6.2.5 131469 2q04A 211 3.63e+01 2icyA 469 3.66e+01 b.81.1.4,c.68.1.5 137257,137258 1ru8A 232 3.68e+01 c.26.2.1 97849 1nlfA 279 3.71e+01 c.37.1.11 85850 1k6kA 143 3.72e+01 a.174.1.1 77274 1y56A 493 3.73e+01 1g8yA 279 3.73e+01 1g8yA c.37.1.11 32302 1i5sA 367 3.74e+01 1bg2 c.37.1.9 61822 1mo2A 294 3.75e+01 c.69.1.22 79331 1i6uA 130 3.76e+01 d.140.1.1 61850 2nx9A 464 3.85e+01 1ir21 140 3.90e+01 1e32A 458 4.04e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1iae 200 4.05e+01 1iae 2fug5 207 4.07e+01 2ajrA 331 4.10e+01 c.72.1.1 126892 1cqmA 101 4.11e+01 1ris d.58.14.1 39321 2cxaA 256 4.13e+01 d.108.1.6 130993 1vkpA 383 4.20e+01 d.126.1.6 108686 2vgdA 218 4.23e+01 2pc1A 201 4.23e+01 1iab 200 4.24e+01 1iae 1iabA 200 4.24e+01 d.92.1.8 40312 2hc5A 117 4.29e+01 1z2uA 150 4.33e+01 d.20.1.1 124389 1z90A 469 4.37e+01 b.81.1.4,c.68.1.5 124732,124733 1p3y1 194 4.42e+01 1yarA 233 4.43e+01 d.153.1.4 122837 1gx1A 160 4.45e+01 d.79.5.1 70675 1pz7A 204 4.46e+01 b.29.1.4 95405 2r9qA 370 4.53e+01 1sffA 426 4.54e+01 c.67.1.4 105482 2j13A 247 4.58e+01 c.6.2.3 137934 1gk8I 140 4.58e+01 d.73.1.1 65242 1jc4A 148 4.60e+01 1jc4A d.32.1.4 62863 2v2gA 233 4.63e+01 1qwgA 251 4.65e+01 c.1.27.1 96473 1rz2A 254 4.66e+01 b.100.1.1 105130 2hx1A 284 4.72e+01 2hv2A 400 4.73e+01 1ejdA 419 4.74e+01 1uae d.68.2.2 39576 1ockA 412 4.74e+01 c.117.1.1 86802 1et0A 269 4.76e+01 1et0A e.17.1.1 43289 1mjfA 281 4.77e+01 c.66.1.17 79198 1m4lA 307 4.77e+01 c.56.5.1 78604 1uuqA 440 4.77e+01 c.1.8.3 100015 2burB 241 4.79e+01 b.3.6.1 129228 1yvkA 163 4.80e+01 d.108.1.1 124101 2fdoA 94 4.81e+01 d.337.1.1 133314 1u7bA 261 4.84e+01 d.131.1.2,d.131.1.2 113083,113084 2ctc 307 4.86e+01 1aye 1p0zA 131 4.95e+01 d.110.6.1 93882 1ea0A 1479 4.97e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1rypB 250 4.97e+01 1rypB d.153.1.4 41933 1wycA 392 5.00e+01 1vliA 385 5.00e+01 b.85.1.1,c.1.10.6 108830,108831 2ffeA 311 5.08e+01 c.143.1.1 133381 1wybA 392 5.09e+01 2gjlA 328 5.19e+01 1p7gA 222 5.20e+01 a.2.11.1,d.44.1.1 94223,94224 2a6mA 155 5.25e+01 d.58.57.1 126287 1p2fA 220 5.27e+01 a.4.6.1,c.23.1.1 87720,87721 1vcdA 126 5.27e+01 d.113.1.1 119970 1f39A 101 5.43e+01 1umuA b.87.1.1 28386 2g0bA 198 5.54e+01 2d5cA 263 5.56e+01 2oqzA 223 5.57e+01 b.100.1.1 139255 2fa8A 105 5.60e+01 c.47.1.23 133185 2qmjA 870 5.62e+01 1tig 94 5.63e+01 1tig 1tigA 94 5.63e+01 d.68.1.1 39566 2oo6A 409 5.64e+01 2apxA 112 5.73e+01 1y1oA 203 5.74e+01 c.52.1.28 116345 1w4tA 299 5.75e+01 d.3.1.5 120639 2nq2C 253 5.92e+01 1jo8A 58 5.93e+01 b.34.2.1 71774 1wa3A 205 5.95e+01 c.1.10.1 120802 2c5uA 375 5.96e+01 2a2lA 145 5.96e+01 d.110.9.1 126035 2vbuA 136 5.99e+01 1dkzA 219 6.11e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1qwjA 229 6.14e+01 c.68.1.13 96478 2kinA 238 6.15e+01 1bg2 c.37.1.9 32190 1q1cA 280 6.15e+01 d.26.1.1,d.26.1.1 104474,104475 1qo8A 566 6.31e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 1poiA 317 6.32e+01 1poiA c.124.1.2 34153 2fx0A 201 6.35e+01 a.4.1.9,a.121.1.1 134269,134270 1rfmA 344 6.44e+01 c.122.1.1 97385 1ywqA 200 6.45e+01 d.90.1.1 124162 3cloA 258 6.48e+01 1pmaA 233 6.60e+01 1pmaA d.153.1.4 41918 1fbnA 230 6.61e+01 1fbnA c.66.1.3 34181 2z26A 347 6.68e+01 2bbkH 355 6.69e+01 2bbkH b.69.2.1 27634 1lc0A 294 6.72e+01 c.2.1.3,d.81.1.4 73823,73824 1ji7A 89 6.73e+01 a.60.1.1 71682 1crkA 380 6.78e+01 1qh4A a.83.1.1,d.128.1.2 18458,41193 1g8sA 230 6.82e+01 c.66.1.3 90507 2qvkA 192 6.83e+01 1xw8A 252 6.86e+01 c.6.2.5 116111 1ohvA 472 6.87e+01 c.67.1.4 93031 2hgcA 102 6.87e+01 1j31A 262 6.89e+01 d.160.1.2 90808 1twdA 256 6.90e+01 c.1.30.1 107397 2hw2A 143 6.90e+01 2oajA 902 6.95e+01 1k3eA 156 6.97e+01 d.198.1.1 68103 1nxiA 132 6.99e+01 d.58.47.1 86381 1ehiA 377 7.01e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1t3wA 148 7.02e+01 a.236.1.1 112233 2dcfA 392 7.03e+01 2h5nA 133 7.06e+01 1sa3A 262 7.12e+01 c.52.1.23 105400 1jr3A 373 7.18e+01 a.80.1.1,c.37.1.20 63245,63246 2fgeA 995 7.19e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 133430,133431,133432,133433 2gc7A 386 7.26e+01 b.69.2.1 134954 1vr7A 142 7.33e+01 d.156.1.2 120443 2rjrA 537 7.34e+01 2fd4A 122 7.34e+01 1ae9A 179 7.37e+01 1ae9A d.163.1.1 42153 2o6pA 161 7.37e+01 2i74A 189 7.48e+01 b.18.1.29 137100 1rscI 111 7.50e+01 d.73.1.1 118620 1j4aA 333 7.51e+01 c.2.1.4,c.23.12.1 71502,71503 1wb9A 800 7.51e+01 a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 120833,120834,120835,120836 2cxiA 348 7.57e+01 1u55A 188 7.58e+01 d.278.1.1 107677 2hyvA 308 7.61e+01 1tluA 130 7.66e+01 d.156.1.2 107139 1zhhB 242 7.66e+01 1w44A 331 7.71e+01 c.37.1.11 114147 1ev0A 58 7.71e+01 1ev0A d.71.1.1 39594 2a6hA 315 7.75e+01 d.74.3.1,d.181.1.1 126260,126261 2inpL 89 7.86e+01 1g71A 347 7.87e+01 1g71A d.264.1.1 43268 2j66A 428 7.94e+01 1eh9A 558 7.97e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1e3mA 800 7.99e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747