# 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 1qdlB 195 2.06e-01 1qdlB c.23.16.1 31437 1v7lA 163 2.68e-01 1qmeA 702 5.43e-01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1pmd 675 1.22e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1d2gA 292 1.24e+00 1xvaA c.66.1.5 34187 1xvaA 292 1.45e+00 1xvaA c.66.1.5 34183 1rxyA 253 1.88e+00 c.56.2.1 98065 1lx7A 253 1.88e+00 c.56.2.1 74329 1dleA 298 2.14e+00 1dleA b.47.1.2 26312 1vddA 228 2.36e+00 e.49.1.1 108519 1k3fA 253 2.64e+00 c.56.2.1 68105 1vbkA 307 2.76e+00 2aa4A 289 3.13e+00 1cjbA 231 3.47e+00 1qk3A c.61.1.1 34079 1bhjA 292 4.32e+00 1xvaA c.66.1.5 34189 1uarA 285 4.72e+00 c.46.1.2,c.46.1.2 107762,107763 1g8lA 411 4.77e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1bg6 359 5.35e+00 1bg6 a.100.1.5,c.2.1.6 18810,30214 1ik6A 369 6.49e+00 c.36.1.7,c.48.1.2 66174,66175 2coeA 120 7.59e+00 1b3mA 389 8.13e+00 1b3mA 1el5A 389 8.64e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1d2pA 373 9.38e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1q1gA 276 9.83e+00 c.56.2.1 95574 1l9fA 389 1.05e+01 c.3.1.2,d.16.1.3 73716,73717 1jwyB 315 1.05e+01 c.37.1.8 67401 2atrA 138 1.06e+01 1jx2B 315 1.08e+01 c.37.1.8 67404 1c3gA 170 1.13e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 1rznA 205 1.18e+01 1mrzA 293 1.20e+01 b.43.5.1,c.26.1.3 91452,91453 1c1yB 77 1.25e+01 1c1yB d.15.1.5 37618 1zemA 262 1.27e+01 1rfa 79 1.31e+01 1c1yB d.15.1.5 37620 1vhsA 175 1.37e+01 d.108.1.1 100698 1ab3 88 1.41e+01 1a32 a.16.1.2 16395 1g57A 217 1.43e+01 1g57A d.115.1.2 60253 1vi4A 174 1.45e+01 c.8.7.1 100731 1gheA 177 1.49e+01 d.108.1.1 76222 1gggA 226 1.53e+01 1lst c.94.1.1 35817 1m22A 503 1.54e+01 c.117.1.1 78464 1efaA 333 1.56e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1guaB 81 1.58e+01 1c1yB d.15.1.5 37619 1cjcA 460 1.71e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1l3yA 41 1.75e+01 g.3.11.6 73558 1tlfA 301 1.84e+01 1tlfA c.93.1.1 35687 2bsxA 253 1.85e+01 1gcoA 261 1.86e+01 1ybvA c.2.1.2 29884 1jbkA 195 1.96e+01 c.37.1.20 71631 1zm8A 259 1.98e+01 2beiA 170 1.99e+01 2ganA 190 2.02e+01 1cs1A 386 2.03e+01 1ibjA c.67.1.3 34399 1w36D 608 2.07e+01 1dvfD 120 2.07e+01 1mfa b.1.1.1 20107 1auoA 218 2.07e+01 1auoA c.69.1.14 34716 1ja9A 274 2.14e+01 c.2.1.2 62817 1cs1C 386 2.20e+01 1ibjA c.67.1.3 34401 2c46A 241 2.30e+01 1v3fA 120 2.32e+01 a.4.5.31 100289 1fc6A 388 2.35e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1i1hA 219 2.41e+01 1f2vA c.23.17.1 61530 1i9sA 210 2.70e+01 1i9sA c.45.1.1 62099 1fjhB 257 2.84e+01 1fjhB c.2.1.2 29871 1aquA 297 2.89e+01 1aquA c.37.1.5 31942 1g3qA 237 2.89e+01 1hyqA c.37.1.10 60237 1je0A 236 2.92e+01 c.56.2.1 66581 1x84A 189 3.05e+01 1ep3B 262 3.12e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1jyeA 349 3.13e+01 c.93.1.1 67455 1geeA 261 3.15e+01 c.2.1.2 90509 1zbmA 280 3.30e+01 2g76A 335 3.30e+01 1fwxA 595 3.46e+01 b.6.1.4,b.69.3.1 60069,60070 1aurA 218 3.46e+01 1auoA c.69.1.14 34718 1f56A 91 3.50e+01 2cbp b.6.1.1 22896 1rifA 282 3.50e+01 c.37.1.23 97507 1gz6A 319 3.51e+01 c.2.1.2 76410 1e1aA 314 3.61e+01 1e1aA b.68.6.1 59155 1yovA 537 3.62e+01 1nbwA 607 3.68e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1fjhA 257 3.78e+01 1fjhB c.2.1.2 29870 1ufoA 238 3.80e+01 c.69.1.27 99344 1vcbC 160 3.83e+01 1vcbC b.3.3.1 22535 1ooeA 236 3.84e+01 c.2.1.2 87196 2gn4A 344 3.90e+01 1vr9A 213 3.91e+01 8rucI 123 3.94e+01 1rboC d.73.1.1 39629 2fe7A 166 3.99e+01 1jud 232 4.06e+01 1qq5A c.108.1.1 43325 2fdrA 229 4.15e+01 1d2oA 187 4.21e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1lfwA 470 4.29e+01 c.56.5.4,d.58.19.1 77942,77943 1vf8A 377 4.38e+01 1jqbA 351 4.45e+01 b.35.1.2,c.2.1.1 77151,77152 1qhsA 178 4.54e+01 1qhsA c.37.1.3 31938 1mxmA 254 4.56e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1yrvA 169 4.57e+01 1rboC 123 4.68e+01 1rboC d.73.1.1 39634 1iw7C 1119 4.68e+01 e.29.1.1 71474 1yloA 348 4.79e+01 1s3cA 141 4.81e+01 1wdvA 152 4.87e+01 2d0oA 610 4.93e+01 1lrwA 600 4.98e+01 b.70.1.1 91111 1imjA 210 5.02e+01 c.69.1.23 71246 1z1dA 103 5.03e+01 1j8mF 297 5.10e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1okgA 373 5.14e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1acz 108 5.17e+01 1kum b.3.1.1 22524 1g0oA 283 5.17e+01 1ybvA c.2.1.2 60181 1z5vA 474 5.18e+01 1f2vA 219 5.19e+01 1f2vA c.23.17.1 59627 1ep2B 261 5.25e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1a4sA 503 5.32e+01 1bpwA c.82.1.1 35361 1atx 46 5.38e+01 1ahl g.9.1.1 44600 1nbwB 117 5.40e+01 c.51.3.2 80396 1zrn 232 5.42e+01 1qq5A c.108.1.1 43323 1w2wB 191 5.43e+01 1r0wA 286 5.46e+01 c.37.1.12 96754 1q0rA 298 5.63e+01 c.69.1.28 95508 1hztA 190 5.64e+01 1i9aA d.113.1.2 61459 1w15A 153 5.83e+01 b.7.1.2 109041 2gwgA 350 5.88e+01 1ad9B 219 6.10e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 2pkaA 80 6.12e+01 2pkaA b.47.1.2 26302 1gggB 226 6.13e+01 1lst c.94.1.1 35818 1w66A 232 6.25e+01 1qhxA 178 6.27e+01 1qhsA c.37.1.3 31936 1xcbA 211 6.30e+01 a.4.5.38,c.2.1.12 109552,109553 1bpwA 503 6.35e+01 1bpwA c.82.1.1 35365 3minB 522 6.39e+01 1qguB c.92.2.3 35606 1xebA 150 6.46e+01 1w99A 558 6.62e+01 1pamA 686 6.70e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1w6uA 302 6.74e+01 1m1nB 522 6.74e+01 c.92.2.3 78418 1k78A 149 6.76e+01 a.4.1.5,a.4.1.5 68255,68256 1hucA 47 6.76e+01 1hucA d.3.1.1 37049 1fs7A 485 6.76e+01 1qdbA a.138.1.3 19691 1a5z 319 6.79e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1nnfA 309 6.84e+01 c.94.1.1 85903 1kevA 351 6.85e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1nrfA 262 6.98e+01 e.3.1.1 92086 1ru8A 232 7.03e+01 c.26.2.1 97849 1pedA 351 7.05e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1mrp 309 7.09e+01 1mrp c.94.1.1 35796 1jw3A 140 7.09e+01 d.208.1.1 67373 1rhd 293 7.12e+01 1rhs c.46.1.2,c.46.1.2 32715,32716 2bgkA 278 7.17e+01 2minB 522 7.17e+01 1qguB c.92.2.3 35610 1bmfA 510 7.24e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18281,26446,32326 1pjxA 314 7.30e+01 b.68.6.1 104167 1gp1A 198 7.32e+01 1gp1A c.47.1.10 33059 1g87A 614 7.34e+01 a.102.1.2,b.2.2.2 83275,83276 1lzlA 323 7.41e+01 c.69.1.2 78306 1t0iA 191 7.43e+01 c.23.5.4 106209 1bzyA 217 7.55e+01 1qk3A c.61.1.1 34071 1tin 69 7.57e+01 2sniI d.40.1.1 38580 1vpwA 340 7.62e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1e0cA 271 7.64e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1i21A 159 7.66e+01 1i21A d.108.1.1 61549 1cliA 345 7.68e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1xkrA 206 7.75e+01 1u6mA 199 7.77e+01 1tr9A 341 7.83e+01 1z4eA 153 7.84e+01 1qpzA 340 7.88e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1gnwA 211 7.97e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1h8eA 510 8.09e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2evaA 307 8.09e+01 2d81A 318 8.13e+01 1zq6A 359 8.15e+01 1v95A 130 8.20e+01 c.51.1.1 108435 1lqbC 162 8.24e+01 b.3.3.1 74186 1yh1A 359 8.27e+01 1xs5A 241 8.34e+01 1ahl 49 8.36e+01 1ahl g.9.1.1 44601 1lnsA 763 8.43e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1i12A 160 8.45e+01 1i21A d.108.1.1 61515 1sc6A 404 8.46e+01 1jysA 242 8.47e+01 c.56.2.1 77216 1dckA 126 8.59e+01 1dbwA c.23.1.1 31097 1lm8V 160 8.64e+01 b.3.3.1 74035 1nhkL 144 8.66e+01 1npk d.58.6.1 39142 1rl6A 177 8.76e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1r5mA 425 8.77e+01 1na6A 404 8.80e+01 b.142.1.1,c.52.1.22 91748,91749 1zvnA 99 8.89e+01 1ockA 412 8.90e+01 c.117.1.1 86802 1p6pA 125 8.91e+01 b.60.1.2 87839 1fi2A 201 8.94e+01 1fi2A b.82.1.2 59845 2f8aA 208 8.95e+01