# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1xngA 268 5.78e-02 2a2pA 129 3.55e-01 2cokA 113 5.56e-01 1xzoA 174 6.00e-01 2ew2A 316 1.18e+00 1qwdA 177 1.23e+00 b.60.1.1 96471 1gpmA 525 1.35e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1zljA 78 1.40e+00 1kijA 390 1.53e+00 d.14.1.3,d.122.1.2 72514,72515 1pmzA 86 1.83e+00 a.39.1.10 104195 1iloA 77 2.41e+00 c.47.1.1 66205 1k3iA 656 2.50e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1zp7A 206 2.93e+00 1ih8A 271 3.25e+00 2nsyA c.26.2.1 62377 1rznA 205 3.31e+00 1qtfA 246 3.32e+00 1agjA b.47.1.1 25830 1gof 639 3.67e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1xcbA 211 3.94e+00 a.4.5.38,c.2.1.12 109552,109553 1jmmA 377 3.97e+00 b.30.6.1 71749 1goh 639 4.05e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1k2yX 463 4.16e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1z5yE 149 4.56e+00 1p5dX 463 4.59e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1qsgA 265 4.87e+00 1eny c.2.1.2 29935 1c14A 262 4.88e+00 1eny c.2.1.2 29927 1id3B 102 5.15e+00 a.22.1.1 66113 1bymA 97 5.31e+00 1bi0 b.34.1.2 24458 1aoiB 87 6.35e+00 1aoiB a.22.1.1 16470 1yezA 68 6.92e+00 2nsyA 271 6.92e+00 2nsyA c.26.2.1 31612 1kqpA 271 7.01e+00 c.26.2.1 72883 1ew3A 159 7.25e+00 1mup b.60.1.1 27114 1xl3C 92 7.57e+00 1nsyA 271 7.67e+00 2nsyA c.26.2.1 31614 1qg6A 261 8.00e+00 1eny c.2.1.2 29919 1uvzA 119 8.17e+00 1hq3D 103 8.19e+00 1aoiB a.22.1.1 16464 1tzyD 103 8.19e+00 a.22.1.1 107533 1st9A 143 8.19e+00 c.47.1.10 98987 1aoiF 87 8.20e+00 1aoiB a.22.1.1 16471 1kppA 145 8.22e+00 d.20.1.2 72846 1zczA 464 8.22e+00 1o4sA 389 8.33e+00 c.67.1.1 86620 1tif 78 8.80e+00 1tif d.15.8.1 37836 1vetA 124 9.56e+00 d.110.7.1 108553 1kx5B 102 9.62e+00 a.22.1.1 77594 1qmeA 702 9.64e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2pcdA 200 9.69e+00 3pchA b.3.6.1 22665 2g76A 335 1.00e+01 1w4vA 119 1.00e+01 1ass 159 1.01e+01 1a6dA c.8.5.2 30818 1kn0A 212 1.01e+01 d.50.1.3 77444 1r26A 125 1.05e+01 c.47.1.1 96847 3pcnA 200 1.11e+01 3pchA b.3.6.1 22725 1ru8A 232 1.15e+01 c.26.2.1 97849 1sb2A 133 1.16e+01 3pchA 200 1.18e+01 3pchA b.3.6.1 22653 2f9sA 151 1.19e+01 1theB 260 1.23e+01 1theB d.3.1.1 37057 1wu7A 434 1.25e+01 1knmA 130 1.28e+01 b.42.2.1 72781 1knlA 130 1.29e+01 b.42.2.1 72780 1asx 159 1.30e+01 1a6dA c.8.5.2 30821 1louA 101 1.31e+01 1ris d.58.14.1 39323 1theA 260 1.33e+01 1theB d.3.1.1 37056 1hjrA 158 1.35e+01 1hjrA c.55.3.6 33727 1wy5A 317 1.35e+01 1o50A 157 1.39e+01 d.37.1.1,d.37.1.1 92478,92479 1uroA 367 1.50e+01 1uroA c.1.22.1 29675 1r3sA 367 1.51e+01 c.1.22.1 96963 1ni5A 433 1.52e+01 c.26.2.5,d.229.1.1 80533,80534 1mr4A 47 1.53e+01 g.3.7.5 91429 1ut7A 171 1.54e+01 b.143.1.1 99906 1k8qA 377 1.55e+01 c.69.1.6 72177 2aotA 292 1.57e+01 1jqeA 292 1.60e+01 c.66.1.19 71789 1zg2A 107 1.64e+01 1hgxA 183 1.69e+01 1tc1A c.61.1.1 34027 1ebdC 41 1.70e+01 1ebdC a.9.1.1 16355 1f5aA 513 1.80e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1qw1A 121 1.83e+01 1wy2A 351 1.86e+01 1q79A 514 1.87e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2dlbA 80 1.87e+01 1g0sA 209 1.93e+01 1g0sA d.113.1.1 60187 2axcA 264 1.95e+01 1sh0A 510 1.98e+01 e.8.1.4 98876 1lb2B 84 2.02e+01 a.60.3.1 77871 1skoA 143 2.13e+01 d.110.7.1 105676 1eal 127 2.19e+01 1hmt b.60.1.2 27227 2b43A 526 2.20e+01 1wlyA 333 2.26e+01 1dy9A 187 2.27e+01 1jxpA b.47.1.3 26400 2f5gA 133 2.31e+01 1wn5A 130 2.32e+01 1s3cA 141 2.34e+01 1lfpA 249 2.35e+01 e.39.1.1 73885 1j9bA 141 2.39e+01 c.47.1.12 66459 1vddA 228 2.40e+01 e.49.1.1 108519 1e3aB 560 2.43e+01 1ajqB 1qtnA 164 2.48e+01 1pauA c.17.1.1 30999 1gk9B 557 2.48e+01 1gm9B 557 2.49e+01 1gkfB 557 2.50e+01 1ab6A 125 2.51e+01 3chy c.23.1.1 31054 1w8oA 601 2.67e+01 2alp 198 2.68e+01 1qq4A b.47.1.1 25772 1ky9B 448 2.68e+01 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 3pcgA 200 2.68e+01 3pchA b.3.6.1 22647 1z2lA 423 2.73e+01 1hlvA 131 2.80e+01 a.4.1.7,a.4.1.7 65854,65855 1u24A 337 2.84e+01 1h1jS 51 2.86e+01 a.140.2.1 70850 1gm7B 557 2.86e+01 1nslA 184 2.88e+01 d.108.1.1 86137 1d5tA 433 2.91e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1jbeA 128 2.91e+01 3chy c.23.1.1 62845 1qydA 313 2.92e+01 c.2.1.2 96583 1w85I 49 2.96e+01 1eur 365 2.96e+01 1eut b.68.1.1 27607 1xer 103 2.96e+01 1xer d.58.1.3 38990 1l0bA 229 3.01e+01 c.15.1.3,c.15.1.3 73391,73392 1uu1A 335 3.04e+01 c.67.1.1 99993 1xwyA 264 3.04e+01 1fdr 248 3.16e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1ssxA 198 3.17e+01 b.47.1.1 98978 1ajqB 557 3.18e+01 1ajqB 1oeyA 83 3.23e+01 d.15.2.2 92800 1dgmA 363 3.24e+01 1bx4A c.72.1.1 34936 1arhA 396 3.24e+01 1ajsA c.67.1.1 34321 1lbvA 252 3.28e+01 e.7.1.1 73813 1pnkB 557 3.39e+01 1ajqB 1gxuA 91 3.43e+01 d.58.10.1 76378 1ky9A 448 3.44e+01 b.36.1.4,b.47.1.1 73198,73199 2g6fX 59 3.51e+01 1vlmA 219 3.51e+01 c.66.1.41 108836 1nf8A 207 3.54e+01 c.33.1.3 85630 2bu3A 254 3.56e+01 2ae8A 221 3.66e+01 2d13A 227 3.71e+01 1eut 605 3.73e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1eucB 396 3.76e+01 2scuB c.23.4.1,d.142.1.4 31149,41570 1scmB 145 3.78e+01 1wdcB a.39.1.5 17304 1eudB 396 3.78e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1oxsC 353 3.81e+01 b.40.6.3,c.37.1.12 87519,87520 1xewX 182 3.82e+01 1n4kA 381 3.88e+01 a.118.22.1,b.42.6.1 79992,79993 2coeA 120 3.91e+01 1oxxK 353 3.92e+01 b.40.6.3,c.37.1.12 93715,93716 1hm2A 700 4.00e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 2fp4B 395 4.01e+01 1euu 605 4.03e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1r7aA 504 4.03e+01 b.71.1.1,c.1.8.1 97192,97193 1ud9A 245 4.03e+01 d.131.1.2,d.131.1.2 107768,107769 2absA 383 4.04e+01 2bxxA 134 4.06e+01 1brlB 324 4.12e+01 1lucA c.1.16.1 29554 1bmr 68 4.13e+01 1aho g.3.7.1 44144 1e6mA 128 4.14e+01 3chy c.23.1.1 31039 1f89A 291 4.14e+01 d.160.1.1 64988 2fuvA 549 4.15e+01 1j8yF 297 4.16e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1u6zA 513 4.16e+01 1b97A 244 4.16e+01 1rvaA c.52.1.2 33252 1j8mF 297 4.22e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1z3eB 73 4.25e+01 1eonA 245 4.26e+01 1rvaA c.52.1.2 33238 2bzsA 236 4.26e+01 1b96A 244 4.26e+01 1rvaA c.52.1.2 33268 1k0eA 453 4.27e+01 d.161.1.1 67938 1nf9A 207 4.29e+01 c.33.1.3 85631 1rvaA 244 4.30e+01 1rvaA c.52.1.2 33240 2pdd 43 4.31e+01 1ebdC a.9.1.1 16358 2gvhA 288 4.31e+01 1pyaB 228 4.32e+01 1pyaB 1bw0A 416 4.33e+01 1bw0A c.67.1.1 34385 1wcqA 601 4.34e+01 1cye 129 4.35e+01 3chy c.23.1.1 31077 1b94A 244 4.36e+01 1rvaA c.52.1.2 33250 1ibvB 229 4.38e+01 1csbB 205 4.42e+01 1theB 1apj 74 4.45e+01 1apj g.23.1.1 44899 1yrgB 385 4.46e+01 1yrgA c.10.1.2 30855 1lucB 324 4.53e+01 1lucA c.1.16.1 29548 2awaA 390 4.55e+01 2b7kA 200 4.58e+01 1gheA 177 4.59e+01 d.108.1.1 76222 1k9dA 679 4.62e+01 c.1.8.10,d.92.2.2 77292,77293 1a6pA 94 4.63e+01 1cdcA b.1.1.1 19748 1j5eK 129 4.63e+01 c.55.4.1 71554 1yvcA 70 4.65e+01 1w6tA 444 4.68e+01 1sx5A 244 4.68e+01 c.52.1.2 99023 1p04A 198 4.68e+01 1qq4A b.47.1.1 25805 1m6yA 301 4.71e+01 a.60.13.1,c.66.1.23 78716,78717 1fjgK 129 4.73e+01 1fjfK c.55.4.1 33733 1gcyA 527 4.75e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 1vrmA 325 4.76e+01 1cll 148 4.78e+01 1cll a.39.1.5 17263 1wdcB 156 4.79e+01 1wdcB a.39.1.5 17302 1wd5A 208 4.79e+01 1yrgA 385 4.84e+01 1yrgA c.10.1.2 30854 1cdcB 99 4.87e+01 1cdcA b.1.1.1 19747 1vgwA 231 4.90e+01 c.68.1.13 100612 1jqlB 140 4.93e+01 c.37.1.20 63234 1a64A 97 4.95e+01 1cdcA b.1.1.1 19750 1ycoA 279 4.97e+01 1mylA 53 4.97e+01 1bazA a.43.1.1 17427 1cdcA 99 4.98e+01 1cdcA b.1.1.1 19746 1yruB 74 4.98e+01 2ak5A 64 5.01e+01 1a12A 413 5.01e+01 1a12A b.69.5.1 27663 1coo 98 5.11e+01 1coo a.60.3.1 17967 1hup 141 5.12e+01 1rtm1 d.169.1.1,h.1.1.1 42354,45422 7catA 506 5.13e+01 1cf9A e.5.1.1 42781 1qq4A 198 5.15e+01 1qq4A b.47.1.1 25768 1z5bA 469 5.15e+01 2mysB 166 5.17e+01 1wdcB a.39.1.5 17308 1l8nA 679 5.18e+01 c.1.8.10,d.92.2.2 84564,84565 2blnA 305 5.19e+01 2ca6A 386 5.22e+01 1gm6A 175 5.24e+01 b.60.1.1 70272 1z4vA 532 5.28e+01 1i1kA 309 5.28e+01 1daaA e.17.1.1 61533 1o9wA 177 5.31e+01 b.2.3.5 86713 1txb 73 5.31e+01 1txb g.7.1.1 44455 1wpoB 256 5.34e+01 1lay b.57.1.1 27013 1meoA 209 5.34e+01 c.65.1.1 79035 1z4xA 532 5.37e+01 1zmaA 118 5.37e+01 1askA 127 5.38e+01 1ounA d.17.4.2 38094 1osa 148 5.43e+01 1cll a.39.1.5 17300 1kk8B 139 5.44e+01 a.39.1.5 77430 1c3pA 375 5.45e+01 1c3pA c.42.1.2 32606 1gngX 39 5.45e+01 1t64A 377 5.46e+01 c.42.1.2 106543 1l1nA 183 5.46e+01 b.47.1.4 73476 2fp7B 172 5.50e+01 1cb8A 678 5.52e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1lvl 458 5.56e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1y9wA 140 5.58e+01 2cgpA 210 5.60e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 1mjc 69 5.61e+01 1mjc b.40.4.5 25319 1ti5A 46 5.65e+01 1gy6A 127 5.73e+01 d.17.4.2 70736 1ris 101 5.75e+01 1ris d.58.14.1 39314 2fl4A 149 5.76e+01 1iyeA 309 5.77e+01 e.17.1.1 83786 1nbwB 117 5.78e+01 c.51.3.2 80396 1p0zA 131 5.78e+01 d.110.6.1 93882 1r13A 148 5.78e+01 d.169.1.1,h.1.1.1 96782,96783 1qk3A 233 5.82e+01 1qk3A c.61.1.1 34031 1df9A 191 5.84e+01 1befA b.47.1.3 26420 1n8fA 350 5.89e+01 c.1.10.4 85397 1ounA 127 5.94e+01 1ounA d.17.4.2 38090 1qr7A 350 5.95e+01 1qr7A c.1.10.4 29191 1p5hA 428 5.97e+01 c.123.1.1 87802 1zs9A 261 6.00e+01 1qsoA 149 6.02e+01 1qsmA d.108.1.1 40812 1j7rA 86 6.05e+01 1j7rA a.39.1.5 62701 1jb2A 127 6.09e+01 d.17.4.2 71624 1uohA 226 6.15e+01 d.211.1.1 99690 2a7oA 112 6.15e+01 1z84A 351 6.15e+01 1lufA 343 6.15e+01 d.144.1.7 78223 1tzjA 338 6.17e+01 1lj5A 379 6.18e+01 e.1.1.1 73928 1k6wA 426 6.19e+01 b.92.1.2,c.1.9.5 68236,68237 1j58A 385 6.20e+01 b.82.1.2 71531 1exrA 148 6.24e+01 1cll a.39.1.5 17299 1ar0A 127 6.29e+01 1ounA d.17.4.2 38092 1j5xA 342 6.30e+01 c.80.1.1 71591 1uluA 261 6.31e+01 1cqqA 180 6.35e+01 1cqqA b.47.1.4 26422 1a7cA 379 6.38e+01 1sek e.1.1.1 42660 2fomB 185 6.40e+01 1gg1A 350 6.42e+01 1qr7A c.1.10.4 29187 1i9gA 280 6.45e+01 c.66.1.13 62090 1ecpA 238 6.46e+01 1ecpA c.56.2.1 33775 1iyxA 432 6.47e+01 c.1.11.1,d.54.1.1 83815,83816 1x0pA 143 6.47e+01 1a3gA 308 6.49e+01 1daaA e.17.1.1 43286 1lcyA 325 6.53e+01 b.36.1.4,b.47.1.1 73834,73835 1xpxA 163 6.56e+01 1ra0A 430 6.58e+01 1y1oA 203 6.58e+01 1aeiA 315 6.65e+01 1avc a.65.1.1 18180 1kbaA 66 6.79e+01 3ebx g.7.1.1 44431 1zrjA 50 6.80e+01 2fyxA 143 6.86e+01 1kmmA 424 6.86e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1fzaB 328 6.88e+01 3fib d.171.1.1,h.1.8.1 42480,45621 1yioA 208 6.88e+01 1rewC 135 6.88e+01 g.7.1.3 97336 1wiwA 290 7.06e+01 1befA 181 7.11e+01 1befA b.47.1.3 26419 1i1iP 681 7.14e+01 1i1iP d.92.1.5 40297 1cqmA 101 7.14e+01 1ris d.58.14.1 39321 1whzA 70 7.14e+01 1b7dA 61 7.19e+01 1aho g.3.7.1 44139 1lv7A 257 7.24e+01 c.37.1.20 78232 1j83A 180 7.27e+01 b.18.1.12 66430 1lvwA 295 7.34e+01 c.68.1.6 84723 1dqeA 137 7.35e+01 1dqeA a.39.2.1 17388 1dgrM 93 7.41e+01 1caxB b.82.1.2 28101 1npiA 61 7.43e+01 g.3.7.1 80685 1p3cA 215 7.54e+01 b.47.1.1 93996 1mszA 86 7.56e+01 d.68.7.1 79428 1pvmA 184 7.67e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ariA 396 7.67e+01 1ajsA c.67.1.1 34331 2bcmA 165 7.77e+01 1s3iA 310 7.85e+01 b.46.1.1,c.65.1.1 98435,98436 1zo0A 126 7.89e+01 1asg 396 7.94e+01 1ajsA c.67.1.1 34335 1kxvC 121 7.94e+01 b.1.1.1 73190 1zk5A 176 7.94e+01 1h72C 296 8.00e+01 d.14.1.5,d.58.26.1 60712,60713 1imbA 277 8.01e+01 1imbA e.7.1.1 42957 1wdcC 156 8.03e+01 1wdcC a.39.1.5 17317 1pkoA 139 8.08e+01 b.1.1.1 88147 1t7lA 766 8.10e+01 2atxA 194 8.11e+01 1dgrW 93 8.18e+01 1caxB 1ymiA 334 8.24e+01 1xypA 190 8.24e+01 1axkA b.29.1.11 24327 1x0vA 354 8.30e+01 1art 396 8.33e+01 1ajsA c.67.1.1 34285 1ahxA 396 8.34e+01 1ajsA c.67.1.1 34293 1hlgA 371 8.35e+01 1hlgA c.69.1.6 34656 1xi1A 575 8.41e+01 2fueA 262 8.44e+01 1kwkA 645 8.49e+01 b.71.1.1,c.1.8.1,c.23.16.5 77565,77566,77567 1kwgA 645 8.53e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1crwG 333 8.57e+01 1dssG c.2.1.3,d.81.1.1 30026,39941 3erk 364 8.66e+01 1hcl d.144.1.7 41654 2nef 136 8.69e+01 1efnB d.102.1.1 40704 1v74B 87 8.69e+01 a.24.20.1 100443 1kpeA 126 8.74e+01 1kpf d.13.1.1 37508 1nkqA 259 8.77e+01 d.177.1.1 103862 1jenA 267 8.81e+01 1jenA 1a6dA 545 8.82e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1ycdA 243 8.86e+01 1omhA 293 8.89e+01 d.89.1.5 93348 1kamA 194 8.99e+01 c.26.1.3 72254 1uwvA 433 9.00e+01 b.40.4.12,c.66.1.40 100128,100129