# List of top-scoring protein chains for t2k-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 1hn6A 110 3.07e-20 g.61.1.1 76721 1e32A 458 3.21e-01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1j58A 385 6.98e-01 b.82.1.2 71531 1uocA 289 7.37e-01 unknown_sccs -7671 1tocR 120 1.02e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1p63A 144 1.17e+00 b.42.1.1 -4002 7icd 416 1.29e+00 1iso c.77.1.1 35072 1jt7A 146 1.38e+00 b.42.1.1 67255 1pb1A 416 1.90e+00 c.77.1.1 88014 1jqzA 146 1.97e+00 b.42.1.1 67109 1onwA 390 2.04e+00 b.92.1.7 87172 c.1.9.13 87173 1iso 416 2.04e+00 1iso c.77.1.1 35065 1a48 306 2.15e+00 1a48 d.143.1.1 41590 1onxA 390 2.34e+00 b.92.1.7 87176 c.1.9.13 87177 1ezwA 349 2.46e+00 1ezwA c.1.16.3 29558 1jm4B 118 2.57e+00 a.29.2.1 71746 1jb7B 260 2.92e+00 1otcB b.40.4.3 62839 2reb 352 3.05e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1mhnA 59 3.13e+00 b.34.9.1 84964 1fkf 107 3.24e+00 1fkj d.26.1.1 38386 1fkd 107 3.27e+00 1fkj d.26.1.1 38383 1ecfB 504 3.34e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1fkj 107 3.43e+00 1fkj d.26.1.1 38384 1g5vA 88 3.62e+00 1g5vA b.34.9.1 60292 1a49A 530 4.30e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1dtx 59 4.30e+00 1bpi g.8.1.1 44551 1p3wA 404 4.48e+00 c.67.1.3 87752 2afgA 140 4.59e+00 1bfg b.42.1.1 25514 1ep3B 262 4.85e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1pkn 530 4.96e+00 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1gtxA 472 4.99e+00 1gtxA 1ecfA 504 5.05e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1jyoA 130 5.33e+00 d.198.1.1 67483 1obdA 306 5.44e+00 d.143.1.1 86767 1l8fA 207 5.46e+00 b.52.1.1 84537 1meyC 87 5.88e+00 2gliA k.12.1.1 46430 1ohvA 472 6.03e+00 c.67.1.4 -8181 1dxrL 273 6.30e+00 6prcL f.26.1.1 43431 1i50A 1733 6.33e+00 e.29.1.2 61754 1e6yA 569 6.57e+00 1mroA a.89.1.1 18529 d.58.31.2 39447 1hqsA 423 6.63e+00 1iso c.77.1.1 61154 1bkf 107 6.85e+00 1fkj d.26.1.1 38382 1jcfA 344 6.91e+00 c.55.1.1 62878 c.55.1.1 62879 1ep2B 261 6.91e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 1b77A 228 7.30e+00 1b77A d.131.1.2 41362 d.131.1.2 41363 2hgf 97 7.30e+00 1bhtA g.10.1.1 44607 6prcL 273 7.64e+00 6prcL f.26.1.1 43434 1l8dA 112 8.12e+00 h.4.12.1 73687 1pcp 106 8.19e+00 2pspA g.16.1.1 44742 g.16.1.1 44743 1g25A 65 8.27e+00 1g25A g.44.1.1 45325 1eybA 471 8.63e+00 1ey2A b.82.1.4 28115 1ig8A 486 9.29e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1hd5A 213 9.58e+00 2eng b.52.1.1 26896 1jceA 344 9.88e+00 c.55.1.1 62876 c.55.1.1 62877 1e4uA 78 9.95e+00 1e4uA g.44.1.1 59231 1ogoX 574 1.07e+01 unknown_sccs -3237 unknown_sccs -4783 1a9v 129 1.08e+01 1a9v b.1.18.7 21946 1e6iA 121 1.09e+01 1b91A a.29.2.1 16969 2nef 136 1.14e+01 1efnB d.102.1.1 40704 2eng 210 1.16e+01 2eng b.52.1.1 26895 1kf6D 119 1.17e+01 f.21.2.2 72400 2knt 58 1.19e+01 1bpi g.8.1.1 44537 1gmnA 183 1.20e+01 g.10.1.1 65315 g.14.1.1 65316 1knt 58 1.20e+01 1bpi g.8.1.1 44538 1q8iA 783 1.27e+01 c.55.3.5 -7635 e.8.1.1 -11885 1hg4A 279 1.28e+01 1lbd a.123.1.1 19333 1k8eA 345 1.29e+01 1o17A 345 1.29e+01 a.46.2.1 80765 c.27.1.1 80766 1kthA 58 1.35e+01 g.8.1.1 68863 1oi2A 366 1.36e+01 c.32.1.2 87039 d.79.2.2 87040 1jg8A 347 1.53e+01 1jg8A c.67.1.1 62946 1m6sA 347 1.54e+01 c.67.1.1 78701 2nllB 103 1.55e+01 2nllB g.39.1.2 45115 1tsrA 219 1.56e+01 1tupA b.2.5.2 22437 1iqqA 200 1.64e+01 d.124.1.1 66274 1k9jA 139 1.64e+01 d.169.1.1 68353 1r5rA 119 1.65e+01 a.39.2.1 -893 1vkfA 188 1.65e+01 1j5wA 298 1.66e+01 d.104.1.1 71589 1shp 55 1.69e+01 1bpi g.8.1.1 44553 1jj2Y 73 1.70e+01 1ffkW g.41.8.1 63110 1o8bA 219 1.74e+01 unknown_sccs 81180 d.58.40.1 81181 1eg7A 557 1.80e+01 1eg7A c.37.1.10 32241 1miwA 404 1.85e+01 a.173.1.1 79162 d.218.1.4 79163 1mvlA 209 1.94e+01 c.34.1.1 85146 1q1gA 276 1.96e+01 c.56.2.1 -7846 1vcc 77 1.99e+01 1vcc d.121.1.1 41092 1b91A 118 2.03e+01 1b91A 1enwA 114 2.04e+01 1enwA a.5.4.1 16291 1lufA 343 2.09e+01 d.144.1.7 78223 1e0lA 37 2.14e+01 1e0lA b.72.1.1 27804 1hq3C 136 2.16e+01 1aoiA a.22.1.1 16454 1ey2A 471 2.17e+01 1ey2A b.82.1.4 28116 1eut 605 2.18e+01 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 2tct 207 2.20e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1bhtA 176 2.23e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1i50B 1224 2.29e+01 e.29.1.1 61755 1abmA 198 2.31e+01 1avmA 1j7rA 86 2.32e+01 1j7rA a.39.1.5 62701 1bn5 478 2.37e+01 1bn5 a.4.5.25 16224 d.127.1.1 41161 1toaA 313 2.37e+01 1toaA c.92.2.2 35598 1tupA 219 2.40e+01 1tupA b.2.5.2 22434 2pspA 106 2.45e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1pl4A 198 2.47e+01 a.2.11.1 -132 d.44.1.1 -9733 1fzyA 149 2.48e+01 d.20.1.1 65072 1h2bA 359 2.49e+01 b.35.1.2 -3679 c.2.1.1 -5703 1itwA 741 2.53e+01 c.77.1.2 76793 1kx5A 135 2.53e+01 a.22.1.1 77593 1k7kA 221 2.59e+01 c.51.4.1 72104 1b6a 478 2.68e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1lnh 857 2.70e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1lv3A 68 2.71e+01 g.39.1.9 78231 1ohfA 644 2.71e+01 unknown_sccs -3012 1dekA 241 2.80e+01 1dekA c.37.1.1 31842 1dklA 410 2.84e+01 1dklA c.60.1.2 33996 1fmjA 351 2.93e+01 c.37.1.5 59879 2sxl 88 2.94e+01 1b7fA d.58.7.1 39179 1lki 180 2.94e+01 1lki a.26.1.1 16829 1e66A 543 2.96e+01 c.69.1.1 59291 1qbkB 890 2.99e+01 1qbkB a.118.1.1 19127 2fn2 59 3.00e+01 1e8bA g.14.1.2 44668 1cm7A 363 3.02e+01 1cnzA c.77.1.1 35063 1em2A 229 3.12e+01 1em2A d.129.3.2 41321 1k32A 1045 3.12e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1iqrA 420 3.18e+01 a.99.1.1 66275 c.28.1.1 66276 1ea5A 537 3.19e+01 2bce c.69.1.1 34592 1kxoA 184 3.20e+01 b.60.1.1 84475 1nngA 153 3.21e+01 d.38.1.1 -9636 1eagA 342 3.24e+01 1eagA b.50.1.2 26826 1oz2A 331 3.26e+01 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1bmfA 510 3.30e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1uvjA 664 3.31e+01 e.8.1.6 -11964 1iybA 208 3.32e+01 d.124.1.1 -10977 1n0nA 199 3.35e+01 a.2.11.1 79750 d.44.1.1 79751 1hhsA 664 3.48e+01 1hi0P e.8.1.6 61045 1ur6B 52 3.50e+01 g.44.1.1 -12825 1nstA 325 3.52e+01 1nstA c.37.1.5 31951 1cjwA 166 3.62e+01 1cjwA d.108.1.1 40818 1hi0P 664 3.67e+01 1hi0P e.8.1.6 61051 1dxrM 323 3.69e+01 6prcM f.26.1.1 43432 1vxrA 537 3.71e+01 2bce c.69.1.1 34595 1e20A 209 3.81e+01 1e20A c.34.1.1 31759 1uolA 219 3.93e+01 b.2.5.2 -2886 1hce 118 3.93e+01 1hce b.42.5.2 25625 1l8aA 886 3.95e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1lt8A 406 3.95e+01 c.1.26.1 78186