# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1g2qA 187 1.31e-20 c.61.1.1 65117 1o57A 291 1.23e-19 unknown_sccs -249 c.61.1.1 -7960 1p41A 291 1.23e-19 1l1qA 186 1.72e-17 c.61.1.1 77653 1opr 213 6.55e-17 1opr c.61.1.1 34091 1lh0A 213 1.50e-16 c.61.1.1 73896 1oroA 213 1.97e-16 1opr c.61.1.1 34093 1qb7A 236 7.41e-16 1qb7A c.61.1.1 34087 1ecfA 504 6.46e-11 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ecfB 504 2.25e-10 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ao0A 459 3.89e-10 1ecfB c.61.1.1 34049 d.153.1.1 41816 1grvB 182 2.13e-07 c.61.1.1 76322 1a3c 181 3.52e-07 1a3c c.61.1.1 34095 1bzyA 217 1.32e-06 1qk3A c.61.1.1 34071 1hgxA 183 1.60e-06 1tc1A c.61.1.1 34027 1dkuA 317 2.45e-06 1dkuA c.61.1.2 34118 c.61.1.2 34119 1nulA 152 2.64e-06 1nulA c.61.1.1 34011 1hmpA 217 3.22e-06 1qk3A c.61.1.1 34075 1ibsA 317 3.37e-06 c.61.1.2 66107 c.61.1.2 66108 1dkrA 317 3.46e-06 1dkuA c.61.1.2 34114 c.61.1.2 34115 1cjbA 231 1.08e-05 1qk3A c.61.1.1 34079 1fsgA 233 1.67e-05 1qk3A c.61.1.1 34029 1qk4A 233 1.93e-05 1qk3A c.61.1.1 34037 1i0lA 221 2.11e-05 c.61.1.1 71096 1tc1A 220 4.68e-05 1tc1A c.61.1.1 34083 1a98A 152 5.42e-05 1nulA c.61.1.1 34021 1qk3A 233 5.72e-05 1qk3A c.61.1.1 34031 1o5oA 221 4.33e-04 c.61.1.1 -7954 1dqpA 230 7.61e-04 1dqnA c.61.1.1 34069 1dqnA 230 1.47e-03 1dqnA c.61.1.1 34067 1bd3A 243 3.19e-01 1bd3A c.61.1.1 34098 1kq3A 376 3.28e-01 e.22.1.2 68790 1mk4A 157 4.57e-01 d.108.1.1 84979 1f0kA 364 5.07e-01 1f0kA c.87.1.2 35465 1tmy 120 7.34e-01 1dbwA c.23.1.1 31083 1cg2A 393 9.53e-01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1b0uA 262 1.52e+00 1b0uA c.37.1.12 32370 1o97C 264 1.75e+00 c.26.2.3 81232 1vi6A 208 1.82e+00 c.23.15.1 -6489 1gosA 520 1.93e+00 c.3.1.2 65425 d.16.1.5 65426 1iirA 415 1.97e+00 1iirA c.87.1.5 62453 1d2nA 272 2.50e+00 1d2nA c.37.1.20 32428 1qv9A 283 2.79e+00 unknown_sccs -6888 1i16 130 2.93e+00 1i16 b.36.1.2 24787 1l9gA 192 3.02e+00 c.18.1.2 84568 1ojaA 520 3.10e+00 c.3.1.2 -6000 d.16.1.5 -9220 1jeoA 180 3.30e+00 c.80.1.3 66611 1nsf 273 3.44e+00 1d2nA c.37.1.20 32429 1hh1A 143 3.68e+00 1gefA c.52.1.18 61036 1qh8A 478 4.18e+00 1qguA c.92.2.3 35633 1qguA 478 4.18e+00 1qguA c.92.2.3 35625 1h1lA 481 4.19e+00 c.92.2.3 70851 1kl7A 514 4.23e+00 c.79.1.1 72678 1deaA 266 4.24e+00 1deaA unknown_sccs 31760 1fs5A 266 4.27e+00 unknown_sccs 65044 1hg3A 225 4.41e+00 1hg3A c.1.1.1 61025 1brt 277 4.66e+00 1brt c.69.1.12 34699 1broA 277 5.16e+00 1brt c.69.1.12 34700 1us5A 314 5.77e+00 c.94.1.1 -8686 1fsfA 266 5.78e+00 unknown_sccs 65047 1p8xA 344 6.23e+00 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1quqB 121 6.39e+00 1quqB b.40.4.3 25305 1vimA 200 6.57e+00 c.80.1.3 -8532 1s3eA 520 7.02e+00 c.3.1.2 -6022 d.16.1.5 -9242 1m1nA 491 7.63e+00 c.92.2.3 78417 1fjgB 256 7.77e+00 1fjfB c.23.15.1 31400 1cm7A 363 7.85e+00 1cnzA c.77.1.1 35063 1o4vA 183 7.95e+00 c.23.8.1 86628 1p0hA 318 8.84e+00 d.108.1.1 -10802 1g57A 217 9.31e+00 1g57A d.115.1.2 60253 6pfkA 319 9.32e+00 3pfk c.89.1.1 35583 2pfkA 320 9.58e+00 3pfk c.89.1.1 35577 1tia 279 9.66e+00 3tgl c.69.1.17 34737 1lk5A 229 9.67e+00 unknown_sccs 73960 d.58.40.1 73961 1nt4A 391 9.70e+00 c.60.1.2 -7942 1rpjA 288 9.71e+00 2dri c.93.1.1 35656 1ha3A 405 9.86e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1tgoA 773 1.02e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1pfkA 320 1.02e+01 3pfk c.89.1.1 35575 1skyB 502 1.07e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1ml8A 134 1.09e+01 d.227.1.2 85013 1mqeA 207 1.12e+01 d.113.1.1 -10884 1a8q 274 1.12e+01 1brt c.69.1.12 34702 2scuA 288 1.20e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1d0nA 729 1.21e+01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1exmA 405 1.23e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1qmpA 130 1.31e+01 1dz3A c.23.1.1 31106 1on3A 523 1.35e+01 c.14.1.4 87107 c.14.1.4 87108 1hkhA 279 1.37e+01 c.69.1.12 -8342 1scuA 288 1.38e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1f6dA 376 1.41e+01 1f6dA c.87.1.3 35467 1lbqA 362 1.42e+01 c.92.1.1 77877 1pnsB 234 1.42e+01 i.1.1.1 88169 1j5eB 256 1.43e+01 c.23.15.1 71543 1pea 385 1.43e+01 1pea c.93.1.1 35662 1fb6A 105 1.45e+01 1thx c.47.1.1 32739 1bsjA 168 1.46e+01 1bs4A d.167.1.1 42302 1kezA 300 1.46e+01 c.69.1.22 68546 1b06A 210 1.48e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1v4vA 376 1.49e+01 c.87.1.3 -8583 1v02A 565 1.51e+01 1vkfA 188 1.51e+01 1l2uA 245 1.53e+01 c.1.2.3 73516 3pfk 319 1.59e+01 3pfk c.89.1.1 35581 1nslA 184 1.59e+01 d.108.1.1 86137 3minC 491 1.63e+01 1qguA c.92.2.3 35607 1s1pA 331 1.65e+01 c.1.7.1 -5240 1aipE 405 1.67e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1reqD 637 1.68e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1lfwA 470 1.69e+01 c.56.5.4 77942 d.58.19.1 77943 1ps9A 671 1.69e+01 c.1.4.1 -5206 7timA 247 1.73e+01 1amk c.1.1.1 28457 1d2eA 397 1.84e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1i45A 248 1.84e+01 1amk c.1.1.1 61665 1vgvA 384 1.85e+01 c.87.1.3 -8575 1neyA 247 1.88e+01 c.1.1.1 80449 1p99A 295 1.88e+01 c.94.1.1 -8697 1o97D 320 1.90e+01 c.26.2.3 81233 c.31.1.2 81234 1reqB 637 1.90e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1j6nA 303 1.91e+01 1o58A 303 1.91e+01 c.79.1.1 -8503 1icjA 168 1.92e+01 1bs4A d.167.1.1 42284 7reqB 637 1.92e+01 1reqB c.1.19.1 29617 c.23.6.1 31244 1bs4A 168 1.94e+01 1bs4A d.167.1.1 42287 1a8s 273 1.98e+01 1brt c.69.1.12 34710 1p5jA 372 1.98e+01 2minA 491 2.03e+01 1qguA c.92.2.3 35609 2ucz 165 2.04e+01 1u9aA d.20.1.1 38330 1mo0A 275 2.05e+01 c.1.1.1 79329 1iq6A 134 2.12e+01 d.38.1.4 76755 4pfk 319 2.12e+01 3pfk c.89.1.1 35582 1b74A 254 2.14e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1em8A 147 2.21e+01 unknown_sccs -7272 1dz3A 130 2.24e+01 1dz3A c.23.1.1 31105 1m5tA 124 2.30e+01 c.23.1.1 78660 1j9eA 147 2.33e+01 c.23.5.1 62756 1k89 449 2.34e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1h70A 255 2.38e+01 1h70A d.126.1.3 60711 1fp4A 492 2.43e+01 c.92.2.3 76187 1n62B 809 2.50e+01 d.41.1.1 80092 d.133.1.1 80093 1nv8A 284 2.56e+01 c.66.1.30 86224 1qj2B 809 2.58e+01 1qj2B 1bu5A 147 2.58e+01 5nul c.23.5.1 31155 1dqwA 267 2.65e+01 1dqwA c.1.2.3 28551 1va4A 279 2.66e+01 1eo1A 124 2.66e+01 1eo1A c.55.5.1 33739 1s6yA 450 2.69e+01 1f4pA 147 2.70e+01 5nul c.23.5.1 59651 1eypA 222 2.72e+01 1eypA d.36.1.1 38536 1gudA 288 2.76e+01 c.93.1.1 83326 7aatA 401 2.79e+01 1ajsA c.67.1.1 34250 1cus 200 2.80e+01 1cex unknown_sccs 31287 1pmmA 466 2.89e+01 c.67.1.6 -8159 1lkzA 219 2.90e+01 unknown_sccs 73991 d.58.40.1 73992 1akr 147 2.93e+01 1rcf c.23.5.1 31152 1byrA 155 2.95e+01 1byrA d.136.1.1 41450 1cye 129 2.95e+01 3chy c.23.1.1 31077 1go3E 187 2.97e+01 b.40.4.5 83054 d.230.1.1 83055 2fx2 147 2.97e+01 1rcf c.23.5.1 31158 1spa 396 2.97e+01 1ajsA c.67.1.1 34291 1g3mA 294 2.98e+01 c.37.1.5 83268 1hy3A 294 3.02e+01 c.37.1.5 71090 3chy 128 3.03e+01 3chy c.23.1.1 31038 1cex 214 3.03e+01 1cex unknown_sccs 31285 1lwjA 441 3.06e+01 b.71.1.1 74303 c.1.8.1 74304 2trxA 108 3.08e+01 1thx c.47.1.1 32719 1n55A 251 3.08e+01 c.1.1.1 80007 1i1qA 520 3.10e+01 1qdlA d.161.1.1 61543 1qs0A 407 3.11e+01 1qs0A c.36.1.11 31829 1tk9A 188 3.11e+01 1s3iA 310 3.16e+01 b.46.1.1 -4111 c.65.1.1 -8042 1mo2A 294 3.19e+01 c.69.1.22 79331 1agy 200 3.21e+01 1cex unknown_sccs 31286 1e8gA 560 3.22e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1jbeA 128 3.24e+01 3chy c.23.1.1 62845 1e6mA 128 3.27e+01 3chy c.23.1.1 31039 1e1dA 553 3.29e+01 1e1dA e.26.1.1 43363 1hqcA 324 3.29e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1b25A 619 3.34e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1p77A 272 3.40e+01 c.2.1.7 -5965 c.58.1.5 -6371 1gzqA 300 3.43e+01 b.1.1.2 70818 d.19.1.1 70819 1pwhA 327 3.47e+01 c.79.1.1 -8524 1ihjA 98 3.50e+01 1pdr b.36.1.1 62382 1jx4A 352 3.53e+01 unknown_sccs -10188 unknown_sccs -11898 1dik 874 3.54e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1jq5A 370 3.57e+01 e.22.1.2 67084 1j8fA 323 3.58e+01 1j8fA c.31.1.5 62738 1upaA 573 3.61e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1n7eA 97 3.62e+01 b.36.1.1 -3745 1gypA 358 3.63e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1qhtA 775 3.64e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1j5rA 371 3.65e+01 1l8nA 679 3.70e+01 c.1.8.10 84564 d.92.2.2 84565 1ysc 421 3.73e+01 1ivyA c.69.1.5 34652 1db3A 372 3.76e+01 1db3A c.2.1.2 29813 1vheA 373 3.77e+01 unknown_sccs -4280 c.56.5.4 -7890 1r4wA 226 3.79e+01 unknown_sccs -7447 1mjhA 162 3.81e+01 1mjhA c.26.2.4 31639 1theB 260 3.82e+01 1theB d.3.1.1 37057 1hvbA 349 3.83e+01 3pte e.3.1.1 42686 1pwgA 349 3.84e+01 1mvoA 136 3.91e+01 c.23.1.1 79513 1jepA 222 3.92e+01 d.36.1.1 66612 1theA 260 3.93e+01 1theB d.3.1.1 37056 1jqaA 370 3.93e+01 e.22.1.2 67085 1rlaA 323 3.94e+01 1d3vA c.42.1.1 32561 1b5qA 472 3.95e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 3pte 349 3.95e+01 3pte e.3.1.1 42687 1mnaA 298 3.97e+01 c.69.1.22 79322 1qpoA 284 3.99e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597