# List of top-scoring protein chains for t04-100-30-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 1dq3A 454 3.48e-01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1xngA 268 3.52e-01 1d2eA 397 7.54e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1nezG 128 1.17e+00 b.1.1.1 85592 1l1jA 239 1.27e+00 b.47.1.1 84516 1bqhG 129 1.90e+00 1cd8 b.1.1.1 19715 1z0sA 278 1.92e+00 1suwA 249 2.00e+00 e.52.1.1 106027 1wckA 220 2.14e+00 1zvnA 99 2.84e+00 1yhfA 115 4.46e+00 1rzfL 213 4.68e+00 b.1.1.1,b.1.1.2 98152,98153 1lkdA 297 6.36e+00 d.32.1.3,d.32.1.3 78059,78060 1han 297 6.42e+00 1han d.32.1.3,d.32.1.3 38506,38507 1sz6B 263 6.79e+00 1e3aB 560 7.12e+00 1ajqB 1zn8A 180 7.15e+00 1lvwA 295 7.49e+00 c.68.1.6 84723 1kk1A 410 7.84e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1xypA 190 8.13e+00 1axkA b.29.1.11 24327 1zljA 78 9.22e+00 1eylA 186 1.00e+01 1wba b.42.4.1 25593 1oaqL 120 1.06e+01 b.1.1.1 92708 1iloA 77 1.08e+01 c.47.1.1 66205 2a2pA 129 1.09e+01 1ih8A 271 1.13e+01 2nsyA c.26.2.1 62377 1a6wL 109 1.20e+01 1mfa b.1.1.1 20252 1ifrA 121 1.21e+01 b.1.16.1 71203 1hq3D 103 1.33e+01 1aoiB a.22.1.1 16464 1tzyD 103 1.33e+01 a.22.1.1 107533 1r6vA 671 1.36e+01 1cb8A 678 1.40e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1ass 159 1.44e+01 1a6dA c.8.5.2 30818 1a65A 504 1.45e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1g5cA 170 1.48e+01 1g5cA c.53.2.1 60264 1io1A 398 1.50e+01 1io1A e.32.1.1 62611 1eo9A 209 1.54e+01 3pchA b.3.6.1 22731 1h9sA 140 1.63e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1qmeA 702 1.64e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1el5A 389 1.66e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1tlyA 278 1.74e+01 f.4.6.1 107143 1kx5B 102 1.77e+01 a.22.1.1 77594 1ofdA 1520 1.78e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1k2yX 463 1.81e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1c5cH 215 1.84e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1p5dX 463 1.84e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2fimA 276 1.85e+01 1fl0A 171 1.86e+01 1eujA b.40.4.4 25315 1riqA 465 1.89e+01 a.203.1.1,d.104.1.1 97516,97517 1psuA 140 1.89e+01 d.38.1.5 88285 1gg4A 452 1.97e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1gk9B 557 1.99e+01 1dyoA 160 2.03e+01 1dyoA b.18.1.7 23771 1qwdA 177 2.07e+01 b.60.1.1 96471 1b9mA 265 2.08e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1xe1A 116 2.11e+01 b.43.3.1 109571 2fs2A 151 2.12e+01 1hoe 74 2.13e+01 1hoe b.5.1.1 22833 1ok0A 74 2.13e+01 b.5.1.1 93191 1yfsA 465 2.13e+01 1khoA 370 2.22e+01 a.124.1.1,b.12.1.3 72489,72490 1t9fA 187 2.29e+01 b.42.6.1 106710 1hfuA 503 2.31e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1gt1A 159 2.50e+01 b.60.1.1 90515 1nlqA 108 2.55e+01 b.121.3.1 85853 1h09A 338 2.58e+01 b.109.1.1,c.1.8.8 83420,83421 1kqpA 271 2.58e+01 c.26.2.1 72883 2fvgA 340 2.65e+01 2bwrA 401 2.68e+01 1xnkA 196 2.69e+01 1gpmA 525 2.85e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ca1 370 2.94e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1j83A 180 3.01e+01 b.18.1.12 66430 1air 353 3.03e+01 1air b.80.1.1 28018 1wdcC 156 3.15e+01 1wdcC a.39.1.5 17317 1a6wH 120 3.26e+01 1mfa b.1.1.1 20253 1jmcA 246 3.26e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 2bynA 227 3.32e+01 1pne 140 3.36e+01 1pne d.110.1.1 40866 1xzoA 174 3.45e+01 1f3lA 321 3.47e+01 1g6q2 c.66.1.6 59630 1wkaA 147 3.60e+01 1pmzA 86 3.67e+01 a.39.1.10 104195 1dg6A 191 3.69e+01 1d4vB b.22.1.1 23883 1kcvL 214 3.73e+01 b.1.1.1,b.1.1.2 72317,72318 2djkA 133 3.74e+01 1f6fB 210 3.77e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2fcbA 173 3.78e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1lktA 104 3.81e+01 1lktA b.90.1.1 28398 1wdcB 156 3.92e+01 1wdcB a.39.1.5 17302 2cokA 113 3.98e+01 1sznA 417 4.02e+01 b.71.1.1,c.1.8.1 106162,106163 1nukA 183 4.06e+01 1nukA b.18.1.4 23721 1yhpA 212 4.08e+01 1hn2A 159 4.28e+01 b.60.1.1 65890 1y8tA 324 4.49e+01 1ojqA 212 4.53e+01 d.166.1.1 93146 1mfa 247 4.71e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 1rhfA 182 4.72e+01 b.1.1.1,b.1.1.4 97469,97470 1wisA 124 4.77e+01 1qcsA 211 4.77e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1nofA 383 4.86e+01 b.71.1.2,c.1.8.3 92020,92021 1rl2A 137 4.89e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1m6yA 301 4.90e+01 a.60.13.1,c.66.1.23 78716,78717 1tbuA 118 4.94e+01 1h1aA 191 5.03e+01 b.29.1.11 83450 1u2fA 90 5.03e+01 1u2fA d.58.7.1 39168 1ebdC 41 5.03e+01 1ebdC a.9.1.1 16355 1i50A 1733 5.04e+01 e.29.1.2 61754 1ub3A 220 5.07e+01 c.1.10.1 88395 1twfA 1733 5.30e+01 1vrmA 325 5.37e+01 1pxfA 111 5.42e+01 b.40.4.4 88341 1xl3C 92 5.44e+01 1wy5A 317 5.51e+01 1z6bA 154 5.51e+01 1m4rA 151 5.59e+01 a.26.1.3 84799 1y7yA 74 5.75e+01 1rsy 152 5.76e+01 1rsy b.7.1.2 23192 2a9mL 110 5.80e+01 1zkiA 133 5.86e+01 2ew2A 316 6.02e+01 1zxkA 98 6.08e+01 1zczA 464 6.36e+01 1njkA 156 6.43e+01 d.38.1.1 85818 1nciA 110 6.47e+01 1edhA b.1.6.1 22191 1bymA 97 6.52e+01 1bi0 b.34.1.2 24458 1obpA 159 6.54e+01 1obpA b.60.1.1 27092 1ukgA 252 6.56e+01 b.29.1.1 99489 1onxA 390 6.60e+01 b.92.1.7,c.1.9.13 87176,87177 1tul 108 6.62e+01 1tul b.85.5.1 28373 1qhdA 398 6.62e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1y6hA 177 6.63e+01 1o4tA 133 6.75e+01 b.82.1.9 86622 1y9qA 192 6.76e+01 1nqeA 594 6.79e+01 f.4.3.3 86027 2rhe 114 6.88e+01 8fabA b.1.1.1 20523 1s6lA 212 7.01e+01 1dkgA 197 7.01e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1s0uA 408 7.11e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1sh0A 510 7.23e+01 e.8.1.4 98876 1xrsA 516 7.29e+01 1ax0 239 7.31e+01 1led b.29.1.1 24042 1oqkA 97 7.34e+01 b.137.1.1 93419 1w85I 49 7.38e+01 1u3oA 82 7.41e+01 2b43A 526 7.49e+01 2cyeA 133 7.50e+01 1kk8B 139 7.60e+01 a.39.1.5 77430 1zkkA 167 7.66e+01 2eifA 136 7.70e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 2g0qA 173 8.17e+01 1wlnA 120 8.19e+01 1m2xA 223 8.33e+01 d.157.1.1 84764 1bjmA 216 8.40e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 2asuB 234 8.59e+01 1hlvA 131 8.64e+01 a.4.1.7,a.4.1.7 65854,65855 1fvuB 125 8.64e+01 1ixxB d.169.1.1 42346 1olmA 403 8.66e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 2gjgA 248 8.72e+01 1bbt3 220 8.91e+01 1qqp3 1y7rA 133 8.94e+01 1cd9B 215 8.97e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1yu2A 381 8.98e+01