# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1pmi 440 1.89e-01 1pmi b.82.1.3 28114 1mo9A 523 2.42e-01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1t7pA 698 3.03e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1cr1A 296 3.51e-01 1cr1A c.37.1.11 32286 1ht6A 405 5.69e-01 b.71.1.1 83629 c.1.8.1 83630 1qspA 165 6.06e-01 1qspA a.24.10.2 16639 1ve9A 347 7.12e-01 c.4.1.2 -6056 d.16.1.3 -9214 1q4mA 221 8.73e-01 unknown_sccs -1910 1gv4A 528 1.01e+00 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1pyfA 312 1.20e+00 c.1.7.1 -5251 1an9A 340 1.22e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1aa8A 347 1.24e+00 1an9A 1m6iA 493 1.71e+00 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1k3lA 221 1.78e+00 a.45.1.1 77229 c.47.1.5 77230 1q9uA 130 1.85e+00 unknown_sccs -11025 1cr0A 296 1.92e+00 1cr1A c.37.1.11 32287 1k3yA 221 2.03e+00 a.45.1.1 77245 c.47.1.5 77246 1jflA 228 2.15e+00 c.78.2.1 71656 c.78.2.1 71657 1oz9A 150 2.32e+00 unknown_sccs -10588 1hleA 345 2.46e+00 1ovaA e.1.1.1 42618 1gseA 221 2.84e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 1sv0C 82 3.18e+00 1qumA 285 3.24e+00 1qumA c.1.15.1 29393 1nzjA 298 3.33e+00 c.26.1.1 -6600 1h0cA 392 3.51e+00 c.67.1.3 83424 1f3aA 222 3.59e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1gox 370 4.80e+00 1gox c.1.4.1 28607 1efdN 266 5.10e+00 1efdN c.92.2.1 35597 1mdoA 393 5.98e+00 c.67.1.4 79013 1r3nA 462 6.26e+00 c.56.5.4 -7872 d.58.19.1 -10096 1jc4A 148 6.34e+00 1jc4A d.32.1.4 62863 1bsjA 168 6.81e+00 1bs4A d.167.1.1 42302 1avaA 403 6.99e+00 1jdc b.71.1.1 27797 c.1.8.1 28784 1qtwA 285 7.11e+00 1qumA c.1.15.1 29392 1vdwA 254 7.18e+00 e.7.1.1 -11868 1i1gA 141 7.21e+00 a.4.5.32 65982 d.58.4.2 65983 1c02A 166 7.69e+00 1qspA a.24.10.2 16633 1ohuA 175 8.00e+00 f.1.4.1 -12058 1mvoA 136 8.54e+00 c.23.1.1 79513 1qhlA 227 8.86e+00 1qhlA c.37.1.12 32382 1aisA 182 9.09e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1gp1A 198 9.52e+00 1gp1A c.47.1.10 33059 1oxsC 353 9.93e+00 b.40.6.3 87519 c.37.1.12 87520 1bs4A 168 9.99e+00 1bs4A d.167.1.1 42287 1icjA 168 9.99e+00 1bs4A d.167.1.1 42284 1tplA 426 1.02e+01 1ax4A c.67.1.2 34387 1th8A 145 1.03e+01 1ee9A 320 1.04e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1ju2A 536 1.05e+01 c.3.1.2 77169 d.16.1.1 77170 1g2aA 168 1.07e+01 d.167.1.1 65109 1u4cA 349 1.08e+01 1uxoA 192 1.10e+01 1c7gA 456 1.11e+01 c.67.1.2 -8153 1edzA 320 1.13e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1odeA 122 1.19e+01 d.79.1.2 86846 1vjqA 79 1.21e+01 unknown_sccs -13478 1lrzA 426 1.22e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1gtzA 156 1.23e+01 c.23.13.1 70539 1hjzA 192 1.26e+01 c.50.1.2 83520 1n5nA 180 1.29e+01 d.167.1.1 85336 1gdgA 293 1.31e+01 1kw3B 292 1.31e+01 d.32.1.3 77549 d.32.1.3 77550 1ufyA 122 1.32e+01 d.79.1.2 88489 1gulA 222 1.33e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1vxrA 537 1.33e+01 2bce c.69.1.1 34595 1gumA 222 1.33e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1f6yA 262 1.34e+01 1f6yA c.1.21.2 29673 1qidA 537 1.34e+01 2bce c.69.1.1 34593 1ea5A 537 1.34e+01 2bce c.69.1.1 34592 1e66A 543 1.38e+01 c.69.1.1 59291 1bhjA 292 1.40e+01 1xvaA c.66.1.5 34189 1oxxK 353 1.59e+01 b.40.6.3 -3969 c.37.1.12 -7187 1d2gA 292 1.60e+01 1xvaA c.66.1.5 34187 1vhuA 211 1.62e+01 c.50.1.2 -7934 1ntvA 152 1.64e+01 b.55.1.2 86168 1sek 378 1.64e+01 1sek e.1.1.1 42675 1xvaA 292 1.64e+01 1xvaA c.66.1.5 34183 1ajsA 412 1.67e+01 1ajsA c.67.1.1 34276 1nu5A 370 1.82e+01 c.1.11.2 -5565 d.54.1.1 -9823 1pzsA 208 1.83e+01 3ebx 62 1.85e+01 3ebx g.7.1.1 44389 1o60A 292 1.95e+01 c.1.10.4 -5549 1vjoA 393 1.95e+01 c.67.1.3 -8173 1bli 483 1.95e+01 1bli b.71.1.1 27715 c.1.8.1 28702 1vjs 483 1.97e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1j6wA 175 1.98e+01 1j98A d.185.1.2 62663 1nxb 62 1.98e+01 3ebx g.7.1.1 44395 1gyzA 60 2.02e+01 a.144.2.1 70793 1jg8A 347 2.03e+01 1jg8A c.67.1.1 62946 1m6sA 347 2.03e+01 c.67.1.1 78701 1f3uA 118 2.04e+01 1f3uA b.65.1.1 27521 1hdmA 201 2.09e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 9gafA 295 2.11e+01 1apyA d.153.1.5 42008 1fwcC 567 2.19e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1asyA 490 2.21e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 1booA 323 2.27e+01 1booA c.66.1.11 34248 1aszB 490 2.35e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1k6wA 426 2.35e+01 b.92.1.2 68236 c.1.9.5 68237 1ejrC 567 2.36e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 2emo 237 2.36e+01 1ema d.22.1.1 38366 1d2fA 390 2.36e+01 1d2fA c.67.1.3 34411 1q3kA 259 2.40e+01 unknown_sccs -6335 1hh1A 143 2.40e+01 1gefA c.52.1.18 61036 1ek1A 554 2.42e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1m2tA 254 2.43e+01 d.165.1.1 84761 1g7vA 284 2.44e+01 1d9eA c.1.10.4 60335 1dhy 292 2.47e+01 1han d.32.1.3 38504 d.32.1.3 38505 1oxdA 227 2.47e+01 d.22.1.1 -9438 1ih7A 903 2.58e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1ema 236 2.58e+01 1ema d.22.1.1 38339 1pq1A 196 2.60e+01 f.1.4.1 -12055 1b00A 127 2.66e+01 3chy c.23.1.1 31122 1ejxC 567 2.66e+01 b.92.1.1 83184 c.1.9.2 83185 1jfrA 262 2.67e+01 1jfrA c.69.1.16 34724 1jqjC 343 2.81e+01 a.80.1.1 67097 c.37.1.20 67098 1qmyA 167 2.88e+01 1qmyA d.3.1.2 37094 1lcyA 325 2.93e+01 b.36.1.4 73834 b.47.1.1 73835 1fkx 349 2.95e+01 1a4mA c.1.9.1 29018 1d9eA 284 2.99e+01 1d9eA c.1.10.4 29195 1eiwA 111 3.00e+01 1eiwA c.23.3.1 31130 1thg 544 3.00e+01 1thg c.69.1.17 34763 1euaA 213 3.01e+01 1fwrA c.1.10.1 29155 1ukcA 522 3.06e+01 1tqnA 486 3.07e+01 1jr3D 343 3.08e+01 a.80.1.1 63251 c.37.1.20 63252 1fq0A 213 3.10e+01 1fwrA c.1.10.1 29161 1ut7A 171 3.14e+01 unknown_sccs -4724 1p4kA 295 3.15e+01 d.153.1.5 87772 1r26A 125 3.15e+01 c.47.1.1 -7389 1csmA 256 3.17e+01 5csmA a.130.1.2 19495 1oi2A 366 3.18e+01 c.32.1.2 87039 d.79.2.2 87040 1a4mA 349 3.20e+01 1a4mA c.1.9.1 29014 1add 349 3.21e+01 1a4mA c.1.9.1 29020 1pb1A 416 3.25e+01 c.77.1.1 88014 1evlA 401 3.25e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1h6rA 236 3.27e+01 d.22.1.1 65683 1zwa 34 3.27e+01 j.15.1.1 46162 1l2mA 118 3.28e+01 d.89.1.4 77657 1d0iA 156 3.31e+01 2dhqA c.23.13.1 31383 1uv7A 110 3.32e+01 unknown_sccs -10256 1et1A 34 3.32e+01 1hpy j.15.1.1 46152 1gl4B 98 3.35e+01 b.1.1.4 65288 1ejbA 168 3.41e+01 1rvv1 c.16.1.1 59417 1fvyA 31 3.48e+01 1fvyA j.15.1.1 46157 1fthA 122 3.50e+01 d.150.1.2 60028 1ukfA 188 3.54e+01 unknown_sccs -8886 1ji7A 89 3.57e+01 a.60.1.1 71682 1lkyA 77 3.57e+01 a.60.1.1 73985 3tgl 269 3.59e+01 3tgl c.69.1.17 34733 1ae9A 179 3.64e+01 1ae9A d.163.1.1 42153 1uzxA 169 3.64e+01 d.20.1.2 -9409 1wpoB 256 3.68e+01 1lay b.57.1.1 27013 1hph 37 3.75e+01 1hph j.15.1.1 46159 1ahpA 797 3.78e+01 1a8i c.87.1.4 35544 1c3jA 351 3.79e+01 1c3jA c.87.1.1 35459 1bxrA 1073 3.83e+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 1cuoA 129 3.87e+01 1nwpA b.6.1.1 23015 1l0oA 150 3.91e+01 d.122.1.3 73403 1g55A 343 3.92e+01 1g55A c.66.1.26 34247 1k5oA 86 3.94e+01 a.165.1.1 77269