# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1a7m 180 4.08e-01 1lki a.26.1.1 16830 1is2A 661 5.65e-01 1m0kA 262 7.58e-01 1dseA 292 8.13e-01 1ryc a.93.1.1 59130 6prcM 323 8.22e-01 6prcM f.2.1.2 43435 1dxrM 323 1.07e+00 6prcM f.2.1.2 43432 1lki 180 1.29e+00 1lki a.26.1.1 16829 1kgbA 231 1.33e+00 f.2.1.1 68581 1bgc 174 1.53e+00 1bgc a.26.1.1 16822 153l 185 1.61e+00 153l d.2.1.5 36984 1c3wA 222 2.01e+00 1c3wA f.2.1.1 43405 1lghA 56 3.12e+00 1lghA f.3.1.1 43733 2at9 247 3.25e+00 1c3wA f.2.1.1 43427 1cd9C 175 3.93e+00 1bgc a.26.1.1 16816 1eqfA 280 4.20e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 1bgeB 175 5.68e+00 1bgc a.26.1.1 16824 1edzA 320 6.18e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ee9A 320 6.40e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1dzlA 505 6.51e+00 1dzlA b.10.1.4 23586 1gm0A 142 6.51e+00 a.39.2.1 65297 1dqeA 137 6.78e+00 1dqeA a.39.2.1 17388 1ryc 294 6.92e+00 1ryc a.93.1.1 18601 1ehkA 562 7.42e+00 1ehkA f.2.1.3 43624 1aw0 72 9.61e+00 1aw0 d.58.17.1 39342 1ccg 291 1.13e+01 1ryc a.93.1.1 18627 1gbs 185 1.14e+01 153l d.2.1.5 36986 1bvoA 175 1.28e+01 1a3qA b.2.5.1 22457 1pa2A 306 1.31e+01 1bgp a.93.1.1 18693 2pth 193 1.34e+01 2pth c.56.3.1 33793 1inp 400 1.47e+01 1inp e.7.1.1 42972 1gweA 503 1.51e+01 1ex1A 605 1.55e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1fgyA 127 1.59e+01 1faoA b.55.1.1 26976 1hbzA 498 1.62e+01 1cf9A e.5.1.1 60937 2a3dA 73 1.64e+01 2a3dA k.9.1.1 46424 1iexA 605 1.68e+01 c.1.8.7 66127 c.23.11.1 66128 1ffkB 338 1.69e+01 1ffkB b.43.3.2 25719 1ffkG 145 1.70e+01 1ffkG c.21.1.1 31035 4lbd 267 1.71e+01 2lbd a.123.1.1 19289 1vib 55 1.73e+01 1vib g.2.2.1 43999 2lbd 267 1.79e+01 2lbd a.123.1.1 19287 1brd 248 1.81e+01 1c3wA f.2.1.1 43404 1kk1A 410 1.91e+01 1qaxA 428 2.00e+01 1qaxA d.58.20.1 39376 d.179.1.1 42597 1a64A 97 2.00e+01 1cdcA b.1.1.1 19750 1uok 558 2.26e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1howA 373 2.30e+01 1hcl d.144.1.1 41679 7atjA 308 2.39e+01 1bgp a.93.1.1 18673 1rh2F 165 2.42e+01 1rh2F a.26.1.3 16898 1vcbA 118 2.51e+01 1vcbA d.15.1.1 37603 1auk 489 2.54e+01 1auk c.76.1.2 35030 1larA 575 2.55e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1e39A 571 2.56e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1cuk 203 2.58e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1dqzA 280 2.81e+01 1dqyA c.69.1.3 34638 1konA 249 2.82e+01 1dqyA 283 3.00e+01 1dqyA c.69.1.3 34640 1f5vA 240 3.04e+01 1bkjA d.90.1.1 40255 1fcyA 236 3.29e+01 2lbd a.123.1.1 19282 2cb5A 453 3.31e+01 3gcb d.3.1.1 37035 1rypI 222 3.47e+01 d.153.1.4 41877 1qjdA 571 3.48e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1bh6A 274 3.49e+01 1gci c.41.1.1 32487 1kssA 571 3.57e+01 1cfr 285 3.59e+01 1cfr c.52.1.7 33312 1bu8A 452 3.66e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1jj2B 337 3.69e+01 1ffkB b.43.3.2 63086 1neu 124 3.72e+01 1neu b.1.1.1 19704 1tdj 514 3.73e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1jbjA 186 3.77e+01 b.1.1.4 66482 b.1.1.4 66483 3lynA 136 3.86e+01 1lis a.19.1.1 16413 1ds4A 292 3.87e+01 1ryc a.93.1.1 59129 1qmqA 414 3.93e+01 1phd a.104.1.1 18907