# List of top-scoring protein chains for t04-100-30-bys 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 1rvaA 244 6.01e-02 1rvaA c.52.1.2 33240 1sx5A 244 7.05e-02 c.52.1.2 -7551 1eonA 245 1.18e-01 1rvaA c.52.1.2 33238 1oj4A 283 2.46e-01 d.14.1.5 -9088 d.58.26.5 -10133 1regX 122 2.96e-01 1regX d.58.27.1 39406 1skoA 143 4.93e-01 1b8gA 429 5.45e-01 1b8gA c.67.1.4 34499 1cr1A 296 6.45e-01 1cr1A c.37.1.11 32286 1oi7A 288 6.51e-01 c.2.1.8 87049 c.23.4.1 87050 1m7yA 435 7.14e-01 c.67.1.4 78761 1p32A 209 7.48e-01 1p32A d.25.1.1 38379 2igd 61 7.66e-01 2igd d.15.7.1 37821 1hh1A 143 8.13e-01 1gefA c.52.1.18 61036 1lxjA 104 1.26e+00 d.58.48.1 84736 1ih8A 271 1.28e+00 2nsyA c.26.2.1 62377 1tk4A 121 1.36e+00 1vh5A 148 1.40e+00 d.38.1.5 -9677 1kqpA 271 1.49e+00 c.26.2.1 72883 1tj9A 121 1.73e+00 1gqiA 708 1.74e+00 c.1.8.10 76279 d.92.2.2 76280 1iyeA 309 1.76e+00 e.17.1.1 83786 1sqzA 121 1.86e+00 a.133.1.2 -1971 1f3lA 321 1.93e+00 1g6q2 c.66.1.6 59630 1o20A 427 2.07e+00 c.82.1.1 86556 1l2tA 235 2.15e+00 c.37.1.12 73514 1nrwA 288 2.33e+00 c.108.1.10 86128 1lfwA 470 2.36e+00 c.56.5.4 77942 d.58.19.1 77943 1qahA 136 2.55e+00 d.79.1.1 -10377 1mvfD 82 2.56e+00 b.129.1.1 85143 1aisA 182 2.79e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1udzA 182 2.85e+00 b.51.1.1 -4307 1fzrA 138 2.95e+00 1fzrA c.52.1.17 33336 1fe7A 121 3.11e+00 1poa 1o0iA 138 3.20e+00 d.38.1.5 86532 1n6zA 105 3.25e+00 unknown_sccs 85369 1m0dA 138 3.41e+00 c.52.1.17 74354 1oniA 137 3.53e+00 d.79.1.1 87144 1s72E 178 3.56e+00 1s2wA 295 3.86e+00 c.1.12.7 -5577 1i1kA 309 3.95e+00 1daaA e.17.1.1 61533 1ui0A 205 4.05e+00 c.18.1.2 -6328 1o8uA 257 4.13e+00 c.14.1.3 81194 1o7nA 449 4.37e+00 b.33.1.2 81162 d.129.3.3 81163 1h7mA 102 4.41e+00 d.79.3.1 83485 2kfnA 605 4.73e+00 1xwl c.55.3.5 33682 e.8.1.1 42975 1gvfA 286 4.92e+00 c.1.10.2 70599 1j97A 211 5.05e+00 1f5sA c.108.1.4 62753 1q74A 303 5.07e+00 unknown_sccs -8121 1l7mA 211 5.07e+00 c.108.1.4 73664 2ebn 289 5.30e+00 2ebn c.1.8.5 28990 1pymA 295 5.56e+00 1pymA c.1.12.7 29308 1jj2E 177 5.85e+00 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1eg9A 449 5.95e+00 1ndoA b.33.1.2 24443 d.129.3.3 41322 1mumA 295 5.96e+00 c.1.12.7 85108 1qopA 268 6.18e+00 2tysA c.1.2.4 28570 1n0wA 243 6.54e+00 c.37.1.11 79772 1q7fA 286 6.79e+00 unknown_sccs -4599 1pf5A 131 6.86e+00 d.79.1.1 -10368 1ho1A 242 7.21e+00 1ho1A c.1.24.1 61097 1dv1A 449 7.24e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1h49A 512 8.37e+00 c.1.8.4 83477 1p0kA 349 8.52e+00 c.1.4.1 87648 1mtyB 384 8.98e+00 1mtyB a.25.1.2 16740 1f1xA 322 9.35e+00 d.32.1.3 83208 d.32.1.3 83209 1v7zA 260 9.36e+00 unknown_sccs -6353 1bh9B 89 9.40e+00 1bh9B a.22.1.3 16485 1kutA 230 9.40e+00 d.143.1.1 73017 1f1uA 323 9.43e+00 d.32.1.3 83200 d.32.1.3 83201 1e55A 512 9.52e+00 1e70M c.1.8.4 28934 1o1zA 234 1.03e+01 c.1.18.3 86555 1qwgA 251 1.07e+01 unknown_sccs -5678 1rkqA 282 1.10e+01 c.108.1.10 -6847 1ogsA 497 1.13e+01 b.71.1.2 86997 c.1.8.3 86998 1skoB 130 1.16e+01 1sdjA 310 1.16e+01 d.21.1.2 -9420 d.21.1.2 -9421 1kkoA 413 1.19e+01 c.1.11.2 68675 d.54.1.1 68676 1iirA 415 1.23e+01 1iirA c.87.1.5 62453 1nm2A 317 1.24e+01 c.19.1.1 80654 d.58.23.1 80655 1ssqA 267 1.25e+01 1ri5A 298 1.27e+01 unknown_sccs -8063 8abp 306 1.29e+01 8abp c.93.1.1 35647 1xxaA 78 1.29e+01 1xxaA d.74.2.1 39700 1j31A 262 1.30e+01 d.160.1.2 -11473 1hc7A 477 1.30e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1psdA 409 1.31e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1eejA 216 1.31e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1bg6 359 1.32e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1d7yA 408 1.34e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1g8yA 279 1.37e+01 1g8yA c.37.1.11 32302 1t35A 191 1.38e+01 unknown_sccs -7285 1j1iA 296 1.40e+01 c.69.1.10 83977 1szoA 257 1.44e+01 1o5hA 214 1.44e+01 unknown_sccs -1078 1pfvA 551 1.44e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1ktbA 405 1.45e+01 b.71.1.1 72960 c.1.8.1 72961 1lqaA 346 1.49e+01 c.1.7.1 84674 1iv3A 152 1.51e+01 d.79.5.1 76828 1q7sA 117 1.53e+01 unknown_sccs -7522 1nlfA 279 1.53e+01 c.37.1.11 85850 1qwiA 143 1.55e+01 d.227.1.1 -11183 1qhxA 178 1.58e+01 1qhsA c.37.1.3 31936 1b5qA 472 1.59e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1f4lA 551 1.62e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1rv3A 483 1.62e+01 1v02A 565 1.64e+01 1hztA 190 1.66e+01 1i9aA d.113.1.2 61459 1ia8A 289 1.68e+01 1ia8A d.144.1.7 62112 1q9uA 130 1.70e+01 unknown_sccs -11025 1pztA 286 1.70e+01 c.68.1.2 -8213 1ezwA 349 1.74e+01 1ezwA c.1.16.3 29558 1g13A 162 1.75e+01 1g13A b.95.1.1 60194 1b63A 333 1.76e+01 1b63A d.14.1.3 37566 d.122.1.2 41107 1j8uA 325 1.80e+01 d.178.1.1 71611 1dq3A 454 1.88e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1b43A 340 1.90e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1l0wA 580 1.91e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1mg7A 417 1.94e+01 d.14.1.6 84954 d.58.26.6 84955 1gveA 327 1.98e+01 c.1.7.1 70597 1p9oA 313 2.00e+01 unknown_sccs -8423 1qqqA 264 2.02e+01 1bkpA d.117.1.1 40931 1lx7A 253 2.03e+01 c.56.2.1 74329 1vjzA 341 2.06e+01 c.1.8.3 -5318 1nf9A 207 2.10e+01 unknown_sccs 85631 1rxyA 253 2.10e+01 c.56.2.1 -7834 2prd 174 2.14e+01 2prd b.40.5.1 25435 1vk4A 298 2.16e+01 c.72.1.1 -8414 1mk4A 157 2.22e+01 d.108.1.1 84979 1nf8A 207 2.26e+01 unknown_sccs 85630 1cxqA 162 2.26e+01 1cxqA c.55.3.2 33621 1sh8A 154 2.26e+01 1h3nA 878 2.26e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1pwxA 254 2.27e+01 c.2.1.2 -5858 1uspA 139 2.28e+01 d.227.1.1 -11179 1nhs 447 2.28e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1g3qA 237 2.30e+01 1hyqA c.37.1.10 60237 1es9A 232 2.32e+01 1wab c.23.10.3 31340 1qyaA 307 2.33e+01 1ivg 388 2.34e+01 2qwc b.68.1.1 27578 2aaa 484 2.34e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1rvkA 382 2.35e+01 c.1.11.2 -5568 d.54.1.1 -9826 1jayA 212 2.40e+01 c.2.1.6 66478 1itwA 741 2.40e+01 c.77.1.2 76793 1psuA 140 2.41e+01 d.38.1.5 88285 1jyoA 130 2.42e+01 d.198.1.1 67483 1b77A 228 2.43e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1o6vA 466 2.45e+01 b.1.18.15 81099 c.10.2.1 81100 1nhp 447 2.45e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1s6tA 285 2.48e+01 c.37.1.5 -7040 1vkjA 285 2.48e+01 1fviA 297 2.51e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1avaA 403 2.52e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1ht6A 405 2.54e+01 b.71.1.1 83629 c.1.8.1 83630 4pah 308 2.55e+01 4pah d.178.1.1 42576 1j2rA 199 2.57e+01 unknown_sccs -6799 1ew4A 106 2.57e+01 1ew4A d.82.2.1 40023 1g8kA 825 2.58e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 1rw7A 243 2.59e+01 c.23.16.2 -6530 1k9uA 78 2.66e+01 a.39.1.10 84348 1nox 205 2.67e+01 1nox d.90.1.1 40242 1ihnA 113 2.68e+01 1ihnA c.103.1.1 62388 1ile 821 2.83e+01 1ile a.27.1.1 16924 b.51.1.1 26889 c.26.1.1 31591 1jjeA 222 2.89e+01 1a7tA d.157.1.1 63117 1pu5A 164 2.90e+01 1r4kA 169 2.90e+01 unknown_sccs -3625 1vjfA 180 2.91e+01 d.116.1.1 -10941 1j09A 468 2.93e+01 a.97.1.1 77025 c.26.1.1 77026 7a3hA 303 2.94e+01 7a3hA c.1.8.3 28817 1is1A 185 2.95e+01 d.67.3.1 83704 1qvzA 237 2.96e+01 c.23.16.2 -6537 1nar 290 2.98e+01 1nar c.1.8.5 28988 1mkyA 439 3.00e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1q33A 292 3.05e+01 d.113.1.1 -10901 1l8nA 679 3.06e+01 c.1.8.10 84564 d.92.2.2 84565 1uz5A 402 3.06e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1pixA 587 3.06e+01 c.14.1.4 -6282 1ow1A 195 3.08e+01 unknown_sccs -4422 1ad2 228 3.11e+01 1ad2 e.24.1.1 43353 1gqeA 365 3.12e+01 e.38.1.1 70351 1k2yX 463 3.13e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1kyhA 276 3.16e+01 c.72.1.4 73222 1g8pA 350 3.21e+01 1g8pA c.37.1.20 60376 1jndA 420 3.24e+01 c.1.8.5 71757 d.26.3.1 71758 1uanA 227 3.29e+01 unknown_sccs -8129 1eudB 396 3.33e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1tq8A 163 3.34e+01 1jysA 242 3.35e+01 c.56.2.1 77216 1p5dX 463 3.36e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1g94A 448 3.36e+01 b.71.1.1 65169 c.1.8.1 65170 1fgxA 288 3.37e+01 1fgxA c.68.1.2 34508 1meoA 209 3.40e+01 c.65.1.1 79035 2trcP 217 3.46e+01 1b9yC c.47.1.6 33051 1edt 271 3.46e+01 2ebn c.1.8.5 28993 1o1xA 155 3.47e+01 c.121.1.1 86553 1si2A 149 3.50e+01 5croA 66 3.52e+01 1orc a.35.1.2 17044 1dhpA 292 3.58e+01 1dhpA c.1.10.1 29097 1w2wB 191 3.59e+01 1lt8A 406 3.61e+01 c.1.26.1 78186 1vjrA 271 3.69e+01 unknown_sccs -6853 1har 216 3.69e+01 1rthA e.8.1.2 43025 1qf9A 194 3.73e+01 1zin c.37.1.1 31848 1nmmB 286 3.73e+01 c.68.1.2 80662 1jx4A 352 3.77e+01 unknown_sccs -10188 unknown_sccs -11898 1nc5A 373 3.81e+01 a.102.1.6 85548 1odmA 331 3.83e+01 b.82.2.1 86875 1bk0 331 3.85e+01 1bk0 b.82.2.1 28118 1k8wA 327 3.86e+01 b.122.1.1 83094 unknown_sccs -10143 1eg7A 557 3.91e+01 1eg7A c.37.1.10 32241 1hl9A 449 3.91e+01 unknown_sccs -4694 unknown_sccs -5365 153l 185 3.92e+01 153l d.2.1.5 36984 1cnv 299 3.93e+01 1cnv c.1.8.5 28989