# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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 1f7lA 121 2.47e-01 1f7lA d.150.1.2 59666 1f7tA 122 3.29e-01 1f7lA d.150.1.2 59667 1g0sA 209 1.32e+00 1g0sA d.113.1.1 60187 1fm0E 150 2.28e+00 1fmaE d.41.5.1 38629 1fmaE 150 2.39e+00 1fmaE d.41.5.1 38630 1g0uG 252 2.43e+00 d.153.1.4 41952 1fthA 122 2.68e+00 d.150.1.2 60028 1je0A 236 2.71e+00 c.56.2.1 66581 1rypA 243 2.84e+00 1pmaA d.153.1.4 41932 1e19A 314 2.86e+00 1b7bA c.73.1.1 34967 1fxlA 167 2.98e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1ako 268 3.00e+00 1ako d.151.1.1 41779 1l2mA 118 3.51e+00 d.89.1.4 77657 1qwlA 505 4.06e+00 e.5.1.1 -11823 1m7sA 484 4.13e+00 e.5.1.1 74574 1gefA 123 4.27e+00 1gefA c.52.1.18 60465 1rypD 241 4.63e+00 1rypD d.153.1.4 41935 1a8q 274 4.70e+00 1brt c.69.1.12 34702 1db3A 372 5.12e+00 1db3A c.2.1.2 29813 1ipiA 123 5.32e+00 c.52.1.18 66255 1bywA 110 5.33e+00 1bywA d.110.3.6 40912 1an8 208 5.50e+00 1an8 b.40.2.2 25202 d.15.6.1 37791 1ekgA 127 6.06e+00 1dlxA d.82.2.1 40021 1dgfA 497 6.40e+00 1cf9A e.5.1.1 42782 1dghB 498 6.50e+00 1cf9A e.5.1.1 42791 1jvwA 167 6.89e+00 d.26.1.1 71907 1bymA 97 7.04e+00 1bi0 b.34.1.2 24458 1ukkA 142 8.13e+00 d.227.1.1 -11206 1lqtA 456 8.70e+00 c.3.1.1 74198 c.4.1.1 74199 1gs5A 258 8.82e+00 c.73.1.2 70395 1ojqA 212 8.89e+00 d.166.1.1 -11568 1kgdA 180 9.02e+00 c.37.1.1 68582 1nsf 273 9.59e+00 1d2nA c.37.1.20 32429 1ro7A 259 9.66e+00 unknown_sccs -7322 1gky 187 9.78e+00 1gky c.37.1.1 31839 1ex7A 186 1.15e+01 1gky c.37.1.1 59537 1pg6A 243 1.22e+01 unknown_sccs -4997 1s96A 219 1.24e+01 c.37.1.1 -6972 1vh4A 435 1.26e+01 unknown_sccs -4794 1sjyA 159 1.27e+01 d.113.1.1 -10908 1n3yA 198 1.30e+01 c.62.1.1 79976 1lci 550 1.35e+01 1lci e.23.1.1 43349 1qcsA 211 1.36e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1btn 106 1.36e+01 1btn b.55.1.1 26952 1fr9A 194 1.38e+01 1fr9A c.68.1.8 34579 1d2nA 272 1.47e+01 1d2nA c.37.1.20 32428 1tif 78 1.53e+01 1tif d.15.8.1 37836 1jsmB 176 1.57e+01 h.3.1.1 63265 1avqA 228 1.60e+01 1avqA c.52.1.13 33326 3rabA 169 1.65e+01 1ctqA c.37.1.8 32018 1eu3A 210 1.68e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1exmA 405 1.71e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1p97A 114 1.72e+01 unknown_sccs -10844 1i7qB 193 1.77e+01 1qdlB c.23.16.1 61902 1kagA 173 1.77e+01 c.37.1.2 72249 1ha3A 405 1.78e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1b88A 114 1.78e+01 1tcrA b.1.1.1 20608 1hqcA 324 1.78e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1qg8A 255 1.79e+01 1qg8A c.68.1.1 34505 1ddt 535 1.80e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1k3rA 268 1.80e+01 b.40.4.10 72018 c.116.1.2 72019 1yna 194 1.85e+01 1axkA b.29.1.11 24335 1dlc 584 1.94e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1vkmA 297 1.97e+01 1dbwA 126 1.99e+01 1dbwA c.23.1.1 31095 1k8kD 300 2.04e+01 d.198.2.1 68309 d.198.2.1 68310 5ukdA 194 2.06e+01 1zin c.37.1.1 31851 1qq9A 284 2.08e+01 1xjo c.56.5.4 33841 1et9A 204 2.14e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1sjwA 144 2.17e+01 unknown_sccs -9296 1i50A 1733 2.17e+01 e.29.1.2 61754 1ly7A 121 2.18e+01 d.82.2.1 74339 1gfsA 321 2.19e+01 c.2.1.2 29811 1ekrA 161 2.19e+01 1ekrA d.58.21.1 39380 1gvnB 287 2.21e+01 c.37.1.21 76354 1qf9A 194 2.21e+01 1zin c.37.1.1 31848 1e6cA 173 2.22e+01 1shkA c.37.1.2 59296 1e5kA 201 2.24e+01 1fr9A c.68.1.8 34578 1uqrA 154 2.26e+01 c.23.13.1 -6455 1ntfA 282 2.26e+01 d.151.1.2 -11397 7catA 506 2.28e+01 1cf9A e.5.1.1 42781 1rypE 242 2.30e+01 1rypE d.153.1.4 41936 1ffkM 148 2.30e+01 1ffkM a.94.1.1 18740 1bsvA 321 2.39e+01 1bsvA c.2.1.2 29809 1e39A 571 2.39e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1r6xA 395 2.40e+01 b.122.1.3 -5125 c.26.1.5 -6620 1ef1A 294 2.44e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1oe4A 247 2.45e+01 c.18.1.3 86895 1n3lA 372 2.46e+01 c.26.1.1 79966 1dckA 126 2.48e+01 1dbwA c.23.1.1 31097 1g5cA 170 2.50e+01 1g5cA c.53.2.1 60264 1q7hA 153 2.51e+01 b.122.1.1 -5124 unknown_sccs -9313 1xjo 284 2.54e+01 1xjo c.56.5.4 33843 1iow 306 2.55e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1bwsA 321 2.56e+01 1bsvA c.2.1.2 29812 1g8fA 511 2.56e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1nzhA 282 2.58e+01 d.151.1.2 -11398 1jsdB 176 2.58e+01 h.3.1.1 63259 2ae2A 260 2.61e+01 1bdb c.2.1.2 29945 2cbp 96 2.61e+01 2cbp b.6.1.1 22895 1b63A 333 2.61e+01 1b63A d.14.1.3 37566 d.122.1.2 41107 2cbf 234 2.62e+01 1cbf c.90.1.1 35588 1gqoK 143 2.64e+01 c.23.13.1 76305 1spbP 78 2.73e+01 1scjB d.58.3.2 39068 1m64A 571 2.73e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1kssA 571 2.73e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1aba 87 2.77e+01 1aba c.47.1.1 32760 1fgkA 310 2.79e+01 1fgkA d.144.1.7 41693 1mpxA 615 2.84e+01 b.18.1.13 85041 c.69.1.21 85042 1g2yA 32 2.89e+01 unknown_sccs 17003 1ap8 213 2.90e+01 1ap8 d.86.1.1 40151 1v93A 296 2.98e+01 c.1.23.1 -5654 2dln 306 2.99e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1lc0A 294 3.01e+01 c.2.1.3 73823 d.81.1.4 73824 1dt9A 437 3.03e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1h9jA 145 3.06e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1hbzA 498 3.13e+01 1cf9A e.5.1.1 60937 1ihoA 283 3.13e+01 1ihoA c.26.1.4 62390 1b7bA 310 3.20e+01 1b7bA c.73.1.1 34963 1b3rA 431 3.22e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1kb5A 115 3.26e+01 1tvdA b.1.1.1 20611 1qjdA 571 3.27e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1i1qB 192 3.32e+01 1qdlB c.23.16.1 61544 1ko6A 187 3.35e+01 b.119.1.1 77471 1lj1A 571 3.42e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1g5qA 181 3.45e+01 1g5qA c.34.1.1 60288 1jobA 162 3.48e+01 1f35A b.94.1.1 63207 1jj2O 148 3.49e+01 1ffkM a.94.1.1 63100 1qhxA 178 3.50e+01 1qhsA c.37.1.3 31936 1cqzA 554 3.57e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1ia9A 280 3.58e+01 1ia9A d.144.1.5 62113 1bd2D 204 3.58e+01 1tcrA b.1.1.1 20622 b.1.1.2 21557 1s72S 85 3.63e+01 1j3bA 529 3.63e+01 c.91.1.1 77071 c.109.1.1 77072 1cr6B 554 3.63e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 2apr 325 3.64e+01 2er7E b.50.1.2 26819 1r17A 343 3.66e+01 b.2.3.4 -2870 b.2.3.4 -2871 1h9mA 145 3.67e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1e6yB 433 3.69e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1gtzA 156 3.69e+01 c.23.13.1 70539 1d0iA 156 3.72e+01 2dhqA c.23.13.1 31383 1e6wA 260 3.83e+01 1e6wA c.2.1.2 59326 1e7kA 128 3.83e+01 1ffkE d.79.3.1 39813 1gz6A 319 3.84e+01 c.2.1.2 76410 1gweA 503 3.84e+01 e.5.1.1 70667 1q9iA 571 3.89e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1qhsA 178 3.92e+01 1qhsA c.37.1.3 31938 1s72P 149 3.96e+01 1komA 93 3.98e+01 unknown_sccs -9564 1ky3A 182 3.99e+01 c.37.1.8 73193 1fbtA 190 3.99e+01 1bif c.60.1.4 34004