# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1mo9A 523 6.74e-02 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1q4mA 221 2.11e-01 unknown_sccs -1910 1aa8A 347 2.97e-01 1an9A 1ve9A 347 3.28e-01 c.4.1.2 -6056 d.16.1.3 -9214 1an9A 340 4.45e-01 1an9A c.4.1.2 30617 d.16.1.3 37904 1i1gA 141 5.19e-01 a.4.5.32 65982 d.58.4.2 65983 1gv4A 528 5.24e-01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1t7pA 698 5.41e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1nzjA 298 7.88e-01 c.26.1.1 -6600 1ht6A 405 8.09e-01 b.71.1.1 83629 c.1.8.1 83630 1m6iA 493 8.24e-01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1nrzA 164 8.60e-01 c.38.1.1 86131 1oz9A 150 1.02e+00 unknown_sccs -10588 1hleA 345 1.17e+00 1ovaA e.1.1.1 42618 1qumA 285 1.19e+00 1qumA c.1.15.1 29393 1jflA 228 1.44e+00 c.78.2.1 71656 c.78.2.1 71657 1gox 370 1.44e+00 1gox c.1.4.1 28607 1qtwA 285 1.54e+00 1qumA c.1.15.1 29392 1q9uA 130 1.69e+00 unknown_sccs -11025 1qspA 165 1.87e+00 1qspA a.24.10.2 16639 1sv0C 82 2.02e+00 1pmi 440 2.13e+00 1pmi b.82.1.3 28114 1g2aA 168 2.17e+00 d.167.1.1 65109 1odeA 122 2.22e+00 d.79.1.2 86846 1bs4A 168 2.25e+00 1bs4A d.167.1.1 42287 1icjA 168 2.37e+00 1bs4A d.167.1.1 42284 1n5nA 180 2.57e+00 d.167.1.1 85336 1bsjA 168 2.59e+00 1bs4A d.167.1.1 42302 1ohuA 175 2.62e+00 f.1.4.1 -12058 1c02A 166 2.63e+00 1qspA a.24.10.2 16633 2scuA 288 2.65e+00 2scuA c.2.1.8 30303 c.23.4.1 31131 1gseA 221 2.91e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 1sek 378 2.98e+00 1sek e.1.1.1 42675 1h0cA 392 3.02e+00 c.67.1.3 83424 1c7gA 456 3.26e+00 c.67.1.2 -8153 1ju2A 536 3.34e+00 c.3.1.2 77169 d.16.1.1 77170 1mdoA 393 3.78e+00 c.67.1.4 79013 1r3nA 462 3.90e+00 c.56.5.4 -7872 d.58.19.1 -10096 1aisA 182 3.99e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1vdwA 254 4.37e+00 e.7.1.1 -11868 1ee9A 320 4.40e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1j6wA 175 4.57e+00 1j98A d.185.1.2 62663 1chl 36 4.57e+00 1sis g.3.7.2 44157 1gp1A 198 4.60e+00 1gp1A c.47.1.10 33059 1edzA 320 4.66e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1pyfA 312 4.83e+00 c.1.7.1 -5251 1tplA 426 4.87e+00 1ax4A c.67.1.2 34387 1k3lA 221 4.94e+00 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 4.94e+00 a.45.1.1 77245 c.47.1.5 77246 1jc4A 148 4.95e+00 1jc4A d.32.1.4 62863 1q3kA 259 5.05e+00 unknown_sccs -6335 1avaA 403 5.11e+00 1jdc b.71.1.1 27797 c.1.8.1 28784 1v7zA 260 5.45e+00 unknown_sccs -6353 1ejxC 567 6.10e+00 b.92.1.1 83184 c.1.9.2 83185 1ntvA 152 6.11e+00 b.55.1.2 86168 1jfrA 262 6.16e+00 1jfrA c.69.1.16 34724 2emo 237 6.31e+00 1ema d.22.1.1 38366 1mo2A 294 6.49e+00 c.69.1.22 79331 1mvoA 136 6.54e+00 c.23.1.1 79513 1kdgA 546 6.58e+00 c.3.1.2 77337 d.16.1.1 77338 1f47B 144 6.63e+00 1f46A d.129.4.1 59645 1ema 236 6.77e+00 1ema d.22.1.1 38339 1mb3A 124 6.94e+00 c.23.1.1 78907 1ufyA 122 7.12e+00 d.79.1.2 88489 1xvaA 292 7.14e+00 1xvaA c.66.1.5 34183 1bli 483 7.18e+00 1bli b.71.1.1 27715 c.1.8.1 28702 1fwcC 567 7.28e+00 1ubpC b.92.1.1 28410 c.1.9.2 29032 1qdbA 473 7.31e+00 1qdbA a.138.1.3 19688 1oxdA 227 7.43e+00 d.22.1.1 -9438 1jfuA 186 7.54e+00 c.47.1.10 62940 1ejrC 567 7.68e+00 1ubpC b.92.1.1 28420 c.1.9.2 29042 1g55A 343 7.74e+00 1g55A c.66.1.26 34247 1k6wA 426 7.78e+00 b.92.1.2 68236 c.1.9.5 68237 1scuA 288 7.83e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1izcA 339 7.84e+00 c.1.12.5 83838 1m6sA 347 7.85e+00 c.67.1.1 78701 1jg8A 347 7.89e+00 1jg8A c.67.1.1 62946 5csmA 256 7.92e+00 5csmA a.130.1.2 19494 1f3aA 222 8.22e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1aogA 485 8.45e+00 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1qtoA 122 8.79e+00 1bylA d.32.1.2 38494 1hph 37 8.82e+00 1hph j.15.1.1 46159 1lkyA 77 9.16e+00 a.60.1.1 73985 1pq1A 196 9.17e+00 f.1.4.1 -12055 1ptmA 329 9.23e+00 unknown_sccs -8456 1dhy 292 9.31e+00 1han d.32.1.3 38504 d.32.1.3 38505 1uxoA 192 9.37e+00 1l2mA 118 9.66e+00 d.89.1.4 77657 1hdmA 201 9.77e+00 1iakA b.1.1.2 21583 d.19.1.1 38157 1ajsA 412 9.87e+00 1ajsA c.67.1.1 34276 1d2gA 292 1.00e+01 1xvaA c.66.1.5 34187 1lrzA 426 1.01e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 3tgl 269 1.02e+01 3tgl c.69.1.17 34733 1qf6A 642 1.06e+01 1qf6A c.51.1.1 33210 d.15.10.1 39551 d.67.1.1 39562 d.104.1.1 40759 1vjqA 79 1.07e+01 unknown_sccs -13478 8abp 306 1.09e+01 8abp c.93.1.1 35647 1csmA 256 1.13e+01 5csmA a.130.1.2 19495 1asyA 490 1.13e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 1m5tA 124 1.15e+01 c.23.1.1 78660 1hjzA 192 1.16e+01 c.50.1.2 83520 1f46A 140 1.23e+01 1f46A d.129.4.1 59643 1vhuA 211 1.24e+01 c.50.1.2 -7934 1vjoA 393 1.25e+01 c.67.1.3 -8173 1oi2A 366 1.25e+01 c.32.1.2 87039 d.79.2.2 87040 1u2fA 90 1.28e+01 1u2fA d.58.7.1 39168 1kypA 237 1.29e+01 d.22.1.1 73280 1h6rA 236 1.30e+01 d.22.1.1 65683 1ax4A 467 1.34e+01 1ax4A c.67.1.2 34391 1cr1A 296 1.34e+01 1cr1A c.37.1.11 32286 1f6yA 262 1.37e+01 1f6yA c.1.21.2 29673 1vjs 483 1.39e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1pzsA 208 1.43e+01 1vxrA 537 1.44e+01 2bce c.69.1.1 34595 1ea5A 537 1.46e+01 2bce c.69.1.1 34592 1p9sA 300 1.49e+01 b.47.1.4 87999 1e66A 543 1.51e+01 c.69.1.1 59291 1gdgA 293 1.52e+01 1b00A 127 1.52e+01 3chy c.23.1.1 31122 1qidA 537 1.53e+01 2bce c.69.1.1 34593 1j0sA 157 1.56e+01 b.42.1.2 -4016 1fkx 349 1.57e+01 1a4mA c.1.9.1 29018 1sv6A 269 1.63e+01 1cr0A 296 1.63e+01 1cr1A c.37.1.11 32287 1fwrA 213 1.66e+01 1fwrA c.1.10.1 29164 1gvoA 364 1.69e+01 c.1.4.1 76357 1tqnA 486 1.70e+01 1gulA 222 1.70e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1aim 215 1.71e+01 1cs8A d.3.1.1 37044 1jqjC 343 1.71e+01 a.80.1.1 67097 c.37.1.20 67098 1a99A 344 1.73e+01 1pot c.94.1.1 35812 1evlA 401 1.73e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1gumA 222 1.74e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1h61A 364 1.75e+01 1oyc c.1.4.1 60657 1ae9A 179 1.76e+01 1ae9A d.163.1.1 42153 1fukA 165 1.77e+01 1fukA c.37.1.19 32409 1kw3B 292 1.79e+01 d.32.1.3 77549 d.32.1.3 77550 1uetA 437 1.80e+01 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1vkfA 188 1.80e+01 1nal1 297 1.81e+01 1nal3 1cwyA 500 1.81e+01 1cwyA c.1.8.1 28789 1jr3D 343 1.82e+01 a.80.1.1 63251 c.37.1.20 63252 1bhjA 292 1.82e+01 1xvaA c.66.1.5 34189 1ntr 124 1.87e+01 1dbwA c.23.1.1 31092 1jj2W 91 1.89e+01 1ffkU d.29.1.1 63108 1fd9A 213 1.91e+01 1fd9A d.26.1.1 59771 1s72X 92 1.95e+01 1maz 221 1.96e+01 1maz f.1.4.1 43393 1bh5A 183 1.96e+01 1qipA d.32.1.1 38476 1a4mA 349 1.97e+01 1a4mA c.1.9.1 29014 1dfaA 454 1.97e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1d0iA 156 1.98e+01 2dhqA c.23.13.1 31383 1oxkB 134 2.00e+01 c.23.1.1 -6411 1cg2A 393 2.00e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1f7wA 144 2.01e+01 1f46A d.129.4.1 59679 1gyzA 60 2.01e+01 a.144.2.1 70793 1d9eA 284 2.02e+01 1d9eA c.1.10.4 29195 1add 349 2.03e+01 1a4mA c.1.9.1 29020 1r5lA 262 2.10e+01 a.5.3.1 -360 c.13.1.1 -6215 1o20A 427 2.13e+01 c.82.1.1 86556 1eswA 500 2.16e+01 1cwyA c.1.8.1 59500 1qipA 183 2.19e+01 1qipA d.32.1.1 38470 1jmoA 480 2.19e+01 e.1.1.1 77138 1et1A 34 2.20e+01 1hpy j.15.1.1 46152 1ex2A 189 2.21e+01 1ex2A c.51.4.2 33225 1fq0A 213 2.22e+01 1fwrA c.1.10.1 29161 1r26A 125 2.23e+01 c.47.1.1 -7389 1b9hA 388 2.24e+01 1b9hA c.67.1.4 34488 1ualA 274 2.24e+01 c.116.1.4 88383 1o60A 292 2.26e+01 c.1.10.4 -5549 1qmzB 259 2.30e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1nxiA 132 2.31e+01 d.58.47.1 86381 1hh1A 143 2.32e+01 1gefA c.52.1.18 61036 1cz1A 394 2.33e+01 1cz1A c.1.8.3 28839 1vin 268 2.35e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1qe3A 489 2.45e+01 2bce c.69.1.1 34630 1d2fA 390 2.45e+01 1d2fA c.67.1.3 34411 1tnfA 158 2.50e+01 2tnfA b.22.1.1 23871 1mszA 86 2.51e+01 d.68.7.1 79428 1ukcA 522 2.53e+01 1j5yA 187 2.55e+01 a.4.5.1 71592 d.94.2.1 71593 1kafA 108 2.55e+01 d.199.1.1 68372 1rtwA 220 2.62e+01 unknown_sccs -1904 1ux6A 350 2.66e+01 unknown_sccs -3451 unknown_sccs -12886 1jrrA 382 2.66e+01 e.1.1.1 63256 1c3jA 351 2.67e+01 1c3jA c.87.1.1 35459 1nbwA 607 2.69e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 2bgu 351 2.69e+01 1c3jA c.87.1.1 35460 1kezA 300 2.69e+01 c.69.1.22 68546 3ebx 62 2.69e+01 3ebx g.7.1.1 44389 1q7sA 117 2.72e+01 unknown_sccs -7522 1jkxA 212 2.73e+01 c.65.1.1 66813 1j2mA 99 2.73e+01 a.165.1.1 84018 1gtzA 156 2.74e+01 c.23.13.1 70539 1dbtA 239 2.75e+01 1dbtA c.1.2.3 28539 1p9aG 290 2.76e+01 c.10.2.7 87990 1qrqA 325 2.78e+01 1qrqA c.1.7.1 28667 1ahpA 797 2.78e+01 1a8i c.87.1.4 35544 1a6q 382 2.80e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 1ojrA 274 2.80e+01 c.74.1.1 -8441 1nu5A 370 2.81e+01 c.1.11.2 -5565 d.54.1.1 -9823 1zwa 34 2.81e+01 j.15.1.1 46162 1nxb 62 2.83e+01 3ebx g.7.1.1 44395 1kkjA 419 2.85e+01 c.67.1.4 72647 1efdN 266 2.85e+01 1efdN c.92.2.1 35597 1gt7A 274 2.86e+01 c.74.1.1 70398 1c0pA 363 2.89e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1kl1A 419 2.90e+01 c.67.1.4 72663 1sdoA 203 2.91e+01 unknown_sccs -7558 1dppA 507 2.92e+01 1dpe c.94.1.1 35800 1fvyA 31 2.93e+01 1fvyA j.15.1.1 46157 1lfb 99 3.03e+01 1lfb a.4.1.1 15989 1l5zA 155 3.04e+01 c.23.1.1 77722 1sspE 223 3.07e+01 3eugA c.18.1.1 31009 1han 297 3.07e+01 1han d.32.1.3 38506 d.32.1.3 38507 1lgtA 297 3.08e+01 d.32.1.3 77956 d.32.1.3 77957 1bxrA 1073 3.11e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1lkdA 297 3.12e+01 d.32.1.3 78059 d.32.1.3 78060 1l0wA 580 3.12e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1j1hA 144 3.16e+01 b.111.1.1 77056 1vgyA 393 3.16e+01 c.56.5.4 -7882 d.58.19.1 -10106 1ejbA 168 3.17e+01 1rvv1 c.16.1.1 59417 1thg 544 3.21e+01 1thg c.69.1.17 34763 1ukgA 252 3.24e+01 b.29.1.1 -3390 1cdwA 179 3.33e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1aszB 490 3.35e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1cs0C 1073 3.36e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1k87A 669 3.37e+01 a.176.1.1 77286 c.1.23.2 77287 1qkkA 155 3.38e+01 1dbwA c.23.1.1 31104 1i4wA 353 3.40e+01 c.66.1.24 66028 1atiA 505 3.42e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1th8A 145 3.43e+01 1m2tA 254 3.44e+01 d.165.1.1 84761 1qhlA 227 3.53e+01 1qhlA c.37.1.12 32382 1atiB 505 3.55e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1tdj 514 3.57e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1o4sA 389 3.62e+01 c.67.1.1 86620 1gal 583 3.62e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1ih7A 903 3.69e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1uzxA 169 3.71e+01 d.20.1.2 -9409 1nktA 922 3.73e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1a8vA 121 3.77e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1g4fA 86 3.80e+01 1qubA g.18.1.1 44873 1c3oA 1073 3.82e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1kczA 413 3.83e+01 c.1.11.2 68451 d.54.1.1 68452 1tnrA 144 3.84e+01 2tnfA b.22.1.1 23867 1bwx 39 3.85e+01 1bwx j.15.1.1 46155 1mjhA 162 3.85e+01 1mjhA c.26.2.4 31639 1pa7A 130 3.85e+01 a.40.1.1 -896 1aoa 275 3.86e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1qn2A 100 3.87e+01 1ycc a.3.1.1 15882 1tlfA 301 3.87e+01 1tlfA c.93.1.1 35687 1faeA 629 3.93e+01 1fce a.102.1.2 18837 1k5oA 86 3.94e+01 a.165.1.1 77269 1eiwA 111 3.97e+01 1eiwA c.23.3.1 31130 1l7vC 249 4.00e+01 c.37.1.12 73674