# 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 1lq9A 112 7.06e-04 d.58.4.3 78129 1iujA 106 8.28e-04 unknown_sccs -9953 1edt 271 3.84e-02 2ebn c.1.8.5 28993 1q4rA 112 1.62e-01 d.58.4.4 -9943 1j27A 102 1.68e-01 unknown_sccs -10116 1q53A 112 1.88e-01 d.58.4.4 -9944 1cvjA 190 1.90e-01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1qysA 106 2.70e-01 unknown_sccs -13432 1q8bA 105 3.59e-01 unknown_sccs -9958 1qb0A 211 3.96e-01 1c25 c.46.1.1 32699 1jmtA 104 4.47e-01 d.58.7.3 63180 1fjcA 96 4.50e-01 1fjcA d.58.7.1 39212 1cnt1 187 4.91e-01 1cnt3 1j5yA 187 5.18e-01 a.4.5.1 71592 d.94.2.1 71593 1bm9A 122 6.31e-01 1bm9A a.4.5.7 16116 1g01A 364 6.45e-01 7a3hA c.1.8.3 60161 1cnt3 187 7.72e-01 1cnt3 1bc5A 269 8.21e-01 1af7 a.58.1.1 17929 c.66.1.8 34204 1af7 274 8.31e-01 1af7 a.58.1.1 17928 c.66.1.8 34203 1f4kA 122 8.88e-01 1bm9A a.4.5.7 59646 1g0cA 364 9.61e-01 7a3hA c.1.8.3 60165 1g7eA 122 1.07e+00 1g7eA c.47.1.7 33055 1j0wA 103 1.23e+00 b.55.1.2 -4364 1bix 287 1.40e+00 1bix d.151.1.1 41781 1f2fA 104 1.92e+00 1fmk d.93.1.1 40455 1o0uA 429 1.99e+00 c.118.1.1 80743 1c25 161 2.20e+00 1c25 c.46.1.1 32698 1e44B 96 2.21e+00 1e44B b.101.1.1 59220 1v02A 565 2.26e+00 1shdA 107 2.77e+00 1fmk d.93.1.1 40440 1umhA 184 2.93e+00 unknown_sccs -3127 1fjeB 175 3.28e+00 1fj7A d.58.7.1 39210 d.58.7.1 39211 1luzA 88 3.32e+00 b.40.4.5 74271 1g60A 260 4.34e+00 c.66.1.11 70151 1cvjB 190 4.34e+00 1cvjB d.58.7.1 39193 d.58.7.1 39194 1o4rA 108 4.47e+00 d.93.1.1 -10624 1dtdA 303 4.66e+00 1aye c.56.5.1 33823 1e55A 512 4.76e+00 1e70M c.1.8.4 28934 1h49A 512 4.81e+00 c.1.8.4 83477 1aye 401 5.02e+00 1aye c.56.5.1 33824 d.58.3.1 39065 2scuB 388 5.36e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 1vkbA 161 5.39e+00 1fi4A 416 5.61e+00 1fi4A d.14.1.5 59847 d.58.26.2 59848 1shaA 104 5.88e+00 1fmk d.93.1.1 40424 1gr2A 279 5.97e+00 1gr2A c.94.1.1 35825 1ftkA 279 5.98e+00 1gr2A c.94.1.1 35819 1shbA 104 5.98e+00 1fmk d.93.1.1 40425 1vjzA 341 6.20e+00 c.1.8.3 -5318 1e4iA 447 6.80e+00 1e70M c.1.8.4 59225 1a4iA 301 7.06e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1diaA 306 7.58e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1o0pA 104 7.86e+00 d.58.7.1 86535 1cx0A 95 8.20e+00 1urnA d.58.7.1 39158 1e50B 134 8.39e+00 2jhbA b.54.1.1 59245 1fxlA 167 8.56e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1khbA 625 8.59e+00 c.91.1.1 68606 c.109.1.1 68607 1h9dB 134 8.61e+00 2jhbA b.54.1.1 60822 1bjx 110 8.62e+00 1bjx c.47.1.2 32774 2bjxA 110 8.62e+00 1bjx c.47.1.2 32776 1gdhA 320 8.79e+00 1gdhA c.2.1.4 30095 c.23.12.1 31355 1k9dA 679 8.95e+00 c.1.8.10 77292 d.92.2.2 77293 1urnA 97 9.66e+00 1urnA d.58.7.1 39153 2jhbA 143 1.03e+01 2jhbA b.54.1.1 26950 1a4iB 301 1.04e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1bag 425 1.04e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1nu0A 138 1.07e+01 unknown_sccs -7658 1a99A 344 1.11e+01 1pot c.94.1.1 35812 1v7oA 165 1.21e+01 unknown_sccs -10249 1jwqA 179 1.29e+01 unknown_sccs -7897 1urrA 102 1.32e+01 1eceA 358 1.32e+01 1eceA c.1.8.3 28813 1mqiA 263 1.35e+01 c.94.1.1 -8681 1qfxA 460 1.35e+01 1qfxA c.60.1.2 33994 1mqdA 261 1.36e+01 c.94.1.1 85049 1m5dA 263 1.37e+01 c.94.1.1 78641 1v84A 253 1.38e+01 1cmiA 85 1.38e+01 1cmiA d.39.1.1 38551 1cnt2 187 1.41e+01 1cnt3 1ovnA 248 1.41e+01 a.71.1.1 -1096 c.47.1.7 -7477 1cbg 490 1.46e+01 1e70M c.1.8.4 28933 1uedA 406 1.47e+01 a.104.1.1 -1459 1g19A 350 1.49e+01 2reb c.37.1.11 32284 d.48.1.1 38770 1jclA 260 1.49e+01 c.1.10.1 66501 1a6cA 513 1.53e+01 1a6cA b.121.4.2 23296 b.121.4.2 23297 b.121.4.2 23298 1p1xA 260 1.56e+01 1v1aA 309 1.56e+01 c.72.1.1 -8400 1jjoC 261 1.56e+01 1h2vZ 156 1.58e+01 d.58.7.1 76595 1ubeA 349 1.59e+01 c.37.1.11 88412 d.48.1.1 88413 1f0iA 504 1.60e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1iibA 106 1.70e+01 1iibA c.44.2.1 32648 1m5oC 100 1.71e+01 d.58.7.1 78654 1n13B 113 1.72e+01 1jae 471 1.73e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1btkB 169 1.73e+01 1btkA b.55.1.1 26960 1l8nA 679 1.73e+01 c.1.8.10 84564 d.92.2.2 84565 1b7fA 168 1.77e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 1oef 24 1.83e+01 j.39.1.1 46299 1a0cA 438 1.83e+01 1a0cA c.1.15.3 29529 1m5eA 263 1.88e+01 c.94.1.1 78642 1n7hA 381 2.00e+01 c.2.1.2 80250 1tkaA 678 2.04e+01 1trkA c.36.1.6 31816 c.36.1.10 31815 c.48.1.1 33096 1s2dA 167 2.06e+01 c.23.14.1 -6469 1h09A 338 2.11e+01 b.109.1.1 83420 c.1.8.8 83421 1b31A 302 2.15e+01 1taxA c.1.8.3 28892 1bg4 302 2.15e+01 1taxA c.1.8.3 28806 1c4kA 730 2.17e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1c0dA 358 2.25e+01 1eceA c.1.8.3 28815 1gpuA 680 2.27e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1hvyA 288 2.36e+01 1bkpA d.117.1.1 41049 1trkA 680 2.36e+01 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1lvmA 229 2.43e+01 b.47.1.3 78243 1m15A 357 2.48e+01 a.83.1.1 78368 d.128.1.2 78369 1forL 210 2.52e+01 8fabA b.1.1.1 19988 b.1.1.2 21044 1thfD 253 2.53e+01 1thfD c.1.2.1 28535 1oflA 481 2.53e+01 1sacA 204 2.55e+01 1sacA b.29.1.5 24237 1dbgA 506 2.60e+01 1dbgA b.80.1.4 28033 1dboA 506 2.60e+01 1dbgA b.80.1.4 28034 1ro2A 216 2.65e+01 unknown_sccs -11391 3sxlA 184 2.79e+01 1b7fA d.58.7.1 39173 d.58.7.1 39174 1pbgA 468 2.83e+01 1e70M c.1.8.4 28946 1khcA 147 2.85e+01 b.34.9.2 68608 2ptd 298 2.86e+01 2plc c.1.18.2 29605 1btkA 169 2.91e+01 1btkA b.55.1.1 26959 1a3h 300 2.97e+01 7a3hA c.1.8.3 28819 7a3hA 303 2.97e+01 7a3hA c.1.8.3 28817 1ro0A 216 3.05e+01 unknown_sccs -11390 1d2kA 392 3.08e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1v6fA 151 3.19e+01 1k28A 584 3.21e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1ll7A 392 3.25e+01 c.1.8.5 78085 d.26.3.1 78086 1miuA 738 3.25e+01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1dbs 224 3.25e+01 1byi c.37.1.10 32209 1bk7A 190 3.30e+01 1bk7A d.124.1.1 41121 1byi 224 3.30e+01 1byi c.37.1.10 32199 1ucdA 190 3.31e+01 1rk8A 165 3.32e+01 d.58.7.1 -10018 3pbgA 468 3.34e+01 1e70M c.1.8.4 28951 1dad 224 3.36e+01 1byi c.37.1.10 32204 1sek 378 3.36e+01 1sek e.1.1.1 42675 1ucaA 190 3.38e+01 d.124.1.1 88462 1kp9B 287 3.49e+01 c.66.1.18 68734 1kpgA 287 3.54e+01 c.66.1.18 68735 1fmk 452 3.60e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1vjtA 483 3.65e+01 c.2.1.5 -5941 d.162.1.2 -11508 1fgyA 127 3.85e+01 1faoA b.55.1.1 26976 2u1a 88 3.91e+01 2u1a d.58.7.1 39164