# 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 1m6bA 621 1.19e-02 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 2cgpA 210 1.53e-01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1hw5A 210 1.57e-01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1h9oA 112 7.03e-01 1qadA d.93.1.1 60837 1pkn 530 1.29e+00 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1a49A 530 1.96e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1o12A 376 2.39e+00 b.92.1.5 80758 c.1.9.10 80759 2nef 136 3.06e+00 1efnB d.102.1.1 40704 1mmsA 140 3.08e+00 1mmsA a.4.7.1 16247 d.47.1.1 38766 1tocR 120 3.53e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1mxgA 435 3.58e+00 b.71.1.1 85193 c.1.8.1 85194 1g8jB 133 3.94e+00 1g8jB b.33.1.1 24439 1edzA 320 4.06e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1n67A 359 4.14e+00 b.2.3.4 85354 b.2.3.4 85355 1t46A 313 4.19e+00 1ee9A 320 4.42e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1c4oA 664 4.57e+00 1d2mA c.37.1.19 32415 c.37.1.19 32416 2sil 381 4.59e+00 3sil b.68.1.1 27543 1m6eX 359 4.82e+00 unknown_sccs -8071 1d2mA 665 5.02e+00 1d2mA c.37.1.19 32417 c.37.1.19 32418 1qm9A 198 5.84e+00 1qm9A d.58.7.1 39207 d.58.7.1 39208 3sil 379 5.88e+00 3sil b.68.1.1 27542 1gk8I 140 6.71e+00 d.73.1.1 65242 1fdi 715 7.21e+00 2napA b.52.2.2 26918 c.81.1.1 35326 487dL 133 7.43e+00 1mmsA i.1.1.2 45839 1o0iA 138 7.50e+00 d.38.1.5 86532 1bfi 112 7.75e+00 1qadA d.93.1.1 40499 1f08A 148 7.90e+00 1f08A d.89.1.2 59564 1g5aA 628 8.16e+00 b.71.1.1 65152 c.1.8.1 65153 1f5qB 252 8.20e+00 1f5qB a.74.1.1 18362 a.74.1.1 18363 1dim 381 8.48e+00 3sil b.68.1.1 27544 1dtx 59 8.56e+00 1bpi g.8.1.1 44551 1go3E 187 8.65e+00 b.40.4.5 83054 d.230.1.1 83055 1jv2B 692 8.76e+00 b.1.15.1 67338 c.62.1.1 67339 d.200.1.1 67340 g.3.11.6 67341 g.3.11.6 67342 1j58A 385 9.62e+00 b.82.1.2 71531 1oghA 204 9.75e+00 b.85.4.1 86994 1n8yC 608 1.03e+01 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1mhnA 59 1.04e+01 b.34.9.1 84964 1kthA 58 1.08e+01 g.8.1.1 68863 2knt 58 1.08e+01 1bpi g.8.1.1 44537 1knt 58 1.08e+01 1bpi g.8.1.1 44538 1uocA 289 1.20e+01 unknown_sccs -7671 1b91A 118 1.22e+01 1b91A 1glcG 501 1.25e+01 1glcG c.55.1.4 33519 c.55.1.4 33520 1usrA 454 1.25e+01 b.68.1.1 -4569 1fdo 715 1.25e+01 2napA b.52.2.2 26917 c.81.1.1 35325 1hpcA 131 1.26e+01 1htp b.84.1.1 28221 1mwsA 646 1.27e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1htp 131 1.28e+01 1htp b.84.1.1 28220 1qadA 111 1.29e+01 1qadA d.93.1.1 40498 1jm4B 118 1.37e+01 a.29.2.1 71746 1nqzA 194 1.37e+01 d.113.1.1 86077 1g5vA 88 1.37e+01 1g5vA b.34.9.1 60292 1f39A 101 1.40e+01 1umuA b.87.1.1 28386 1gadO 330 1.42e+01 1dssG c.2.1.3 29950 d.81.1.1 39865 1iznA 286 1.43e+01 e.43.1.1 83847 1ox0A 430 1.49e+01 c.95.1.1 87495 c.95.1.1 87496 1g8kB 133 1.54e+01 1g8jB b.33.1.1 24435 1pamA 686 1.56e+01 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1lvk 762 1.60e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1pkhA 204 1.61e+01 b.85.4.1 -5053 1nrfA 262 1.61e+01 e.3.1.1 -11780 1omiA 248 1.62e+01 a.4.5.4 87079 b.82.3.3 87080 1olzA 663 1.66e+01 b.1.1.4 -2678 unknown_sccs -4626 unknown_sccs -12590 1umqA 81 1.68e+01 unknown_sccs -203 1b43A 340 1.78e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1h0oA 390 1.82e+01 a.25.1.2 70845 1mg7A 417 1.84e+01 d.14.1.6 84954 d.58.26.6 84955 1mrg 263 1.86e+01 1mrj d.165.1.1 42183 1iso 416 1.90e+01 1iso c.77.1.1 35065 1ksyA 154 1.91e+01 d.89.1.2 72948 1p49A 562 1.95e+01 c.76.1.2 -8432 1lufA 343 1.97e+01 d.144.1.7 78223 1crwG 333 2.11e+01 1dssG c.2.1.3 30026 d.81.1.1 39941 1dfaA 454 2.13e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 2f5bH 235 2.16e+01 b.1.1.1 88506 b.1.1.2 88507 1toaA 313 2.23e+01 1toaA c.92.2.2 35598 1gtxA 472 2.23e+01 1gtxA 1j71A 334 2.23e+01 1eagA b.50.1.2 62669 1pb1A 416 2.23e+01 c.77.1.1 88014 1n2sA 299 2.26e+01 c.2.1.2 79857 1fzyA 149 2.29e+01 d.20.1.1 65072 1ig8A 486 2.29e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1g71A 347 2.31e+01 1g71A unknown_sccs 43268 1kzyC 259 2.32e+01 c.15.1.4 73383 c.15.1.4 73384 1o8bA 219 2.36e+01 unknown_sccs 81180 d.58.40.1 81181 1jceA 344 2.37e+01 c.55.1.1 62876 c.55.1.1 62877 7icd 416 2.39e+01 1iso c.77.1.1 35072 1jcfA 344 2.40e+01 c.55.1.1 62878 c.55.1.1 62879 1meyC 87 2.44e+01 2gliA k.12.1.1 46430 1shp 55 2.44e+01 1bpi g.8.1.1 44553 1kc0A 299 2.48e+01 1tyv 542 2.49e+01 1tyv b.80.1.6 28038 1gmnA 183 2.58e+01 g.10.1.1 65315 g.14.1.1 65316 1f1sA 814 2.60e+01 a.102.3.2 64928 b.1.18.2 64929 b.24.1.1 64930 b.30.5.2 64931 1e6iA 121 2.63e+01 1b91A a.29.2.1 16969 1efnB 152 2.68e+01 1efnB d.102.1.1 40699 1dssG 333 2.78e+01 1dssG c.2.1.3 30022 d.81.1.1 39937 1rwtA 232 2.80e+01 unknown_sccs -12345 1qubA 319 2.85e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 1qa1A 554 2.85e+01 1tyv b.80.1.6 28047 1bw9A 356 2.90e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 2rgf 97 2.93e+01 1lfdA d.15.1.5 37627 1sek 378 2.96e+01 1sek e.1.1.1 42675 1qw9A 502 3.05e+01 b.71.1.2 -4677 c.1.8.3 -5348 1tyu 543 3.05e+01 1tyv b.80.1.6 28037 1l8dA 112 3.08e+01 h.4.12.1 73687 1hkkA 364 3.17e+01 c.1.8.5 -5384 d.26.3.1 -9506 1o1zA 234 3.30e+01 c.1.18.3 86555 1tsp 559 3.34e+01 1tyv b.80.1.6 28044 1ihfA 99 3.41e+01 1huuA a.55.1.1 17893 1owfA 99 3.41e+01 a.55.1.1 87487 1evyA 366 3.42e+01 1evyA a.100.1.6 18811 c.2.1.6 30215 1bhtA 176 3.45e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1jv2A 957 3.55e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1kaeA 434 3.57e+01 c.82.1.2 72247 1mwxA 646 3.58e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1d0yA 761 3.63e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1e8bA 160 3.79e+01 1e8bA g.14.1.2 44671 g.14.1.2 44672 g.27.1.1 44951 1m1cA 680 3.82e+01 e.42.1.1 78395 1liuA 528 3.83e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1e8tA 454 3.85e+01 1e8tA b.68.1.1 59387 1h7nA 342 3.92e+01 1b4kA c.1.10.3 60726 1qq1A 559 3.98e+01 1tyv b.80.1.6 28041