# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1jogA 146 2.31e-20 a.24.16.2 77142 1cxc 124 5.58e-01 1ycc a.3.1.1 15890 2cxbA 124 6.26e-01 1ycc a.3.1.1 15891 1i58A 189 7.11e-01 1b3qA d.122.1.3 61773 1jnyA 435 8.28e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1dtyA 429 1.17e+00 1dtyA c.67.1.4 34495 1g55A 343 1.21e+00 1g55A c.66.1.26 34247 1s0aA 429 1.30e+00 c.67.1.4 -8201 1m5tA 124 1.40e+00 c.23.1.1 78660 1s7zA 117 1.72e+00 unknown_sccs -344 1qj5A 429 1.87e+00 1dtyA c.67.1.4 34493 1mb3A 124 2.05e+00 c.23.1.1 78907 1jipA 403 2.26e+00 a.104.1.1 66748 1oxa 403 2.38e+00 1f4tA a.104.1.1 18965 1ghc 75 2.59e+00 1hstA a.4.5.13 16142 1k6wA 426 3.66e+00 b.92.1.2 68236 c.1.9.5 68237 1kl7A 514 4.09e+00 c.79.1.1 72678 1eupA 403 4.47e+00 1rom a.104.1.1 18967 1b3qA 379 4.90e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1nznA 126 4.99e+00 a.118.8.1 -1616 2hvm 273 6.58e+00 1cnv c.1.8.5 28985 1acc 735 6.75e+00 1acc f.11.1.1 43828 1j6wA 175 7.54e+00 1j98A d.185.1.2 62663 1a0p 290 7.93e+00 1a0p a.60.9.1 18105 d.163.1.1 42165 1jj2B 337 8.00e+00 1ffkB b.43.3.2 63086 1e6yB 433 8.89e+00 1mroB a.89.1.1 18535 d.58.31.2 39453 1jvsA 400 9.11e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1iw7C 1119 9.39e+00 e.29.1.1 71474 1s72B 338 9.61e+00 1dfmA 223 9.69e+00 1d2iA c.52.1.5 33295 1r5pA 108 9.91e+00 unknown_sccs -7487 1r5lA 262 1.04e+01 a.5.3.1 -360 c.13.1.1 -6215 1d2iA 223 1.06e+01 1d2iA c.52.1.5 33297 1ubeA 349 1.07e+01 c.37.1.11 88412 d.48.1.1 88413 1j9jA 247 1.08e+01 c.106.1.1 62758 7a3hA 303 1.09e+01 7a3hA c.1.8.3 28817 1tmy 120 1.10e+01 1dbwA c.23.1.1 31083 1h5vA 304 1.16e+01 c.1.8.3 70898 1k4nA 192 1.20e+01 d.32.1.5 72059 1j9lA 247 1.21e+01 c.106.1.1 62762 1a3h 300 1.22e+01 7a3hA c.1.8.3 28819 1g19A 350 1.27e+01 2reb c.37.1.11 32284 d.48.1.1 38770 1vls 146 1.27e+01 1vls a.24.2.1 16532 1m5yA 408 1.39e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1g60A 260 1.48e+01 c.66.1.11 70151 1q0qA 406 1.54e+01 1orjA 130 1.59e+01 unknown_sccs -611 1qrjB 199 1.68e+01 1qrjB a.28.3.1 16952 1p4oA 322 1.70e+01 d.144.1.7 87775 1nnwA 252 1.73e+01 d.159.1.5 80674 1brwA 433 1.77e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1dbhA 354 1.84e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1h5yA 253 1.90e+01 c.1.2.1 65638 1f6fA 199 1.93e+01 1f6fA a.26.1.1 16839 1vhnA 318 2.03e+01 c.1.4.1 -5209 1fmjA 351 2.08e+01 c.37.1.5 59879 2ligA 164 2.09e+01 1vls a.24.2.1 16530 1cby 259 2.09e+01 1cby d.103.1.1 40705 1ffk1 177 2.13e+01 1ffk1 1dk8A 147 2.17e+01 1agrE a.91.1.1 18548 1aa3 63 2.17e+01 2reb d.48.1.1 38769 1jae 471 2.19e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1iygA 133 2.33e+01 a.118.8.1 76947 1fpoA 171 2.35e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1k5hA 398 2.40e+01 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 1isiA 265 2.45e+01 e.4.1.1 71394 1h6pA 203 2.48e+01 a.146.1.1 60690 1l1yA 678 2.61e+01 a.102.1.2 73486 1dbqA 289 2.68e+01 1qpzA c.93.1.1 35666 1k8cA 322 2.69e+01 c.1.7.1 72172 1j99A 293 2.70e+01 c.37.1.5 71618 1q1aA 289 2.74e+01 c.31.1.5 -6781 1jyoA 130 2.76e+01 d.198.1.1 67483 1tqnA 486 2.80e+01 1qpzA 340 2.86e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1om0A 274 2.91e+01 c.1.8.5 87058 2igd 61 2.97e+01 2igd d.15.7.1 37821 1kdgA 546 2.97e+01 c.3.1.2 77337 d.16.1.1 77338 1igd 61 2.97e+01 2igd d.15.7.1 37822 1buoA 121 3.13e+01 1buoA d.42.1.1 38631 1h7cA 108 3.18e+01 a.7.5.1 70914 1vh7A 265 3.26e+01 c.1.2.1 -5159 1emn 82 3.30e+01 1emn g.3.11.1 44322 g.3.11.1 44323 1khyA 148 3.31e+01 a.174.1.1 77410 1ujnA 348 3.33e+01 e.22.1.1 -11998 1d6jA 211 3.34e+01 1d6jA c.37.1.4 31940 1ta3A 274 3.35e+01 1liaA 164 3.35e+01 1cpcA a.1.1.3 15661 1cg2A 393 3.44e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1vhzA 198 3.47e+01 d.113.1.1 -10897 1pgx 83 3.54e+01 2igd d.15.7.1 37823 1mi3A 322 3.55e+01 c.1.7.1 -5257 1udsA 255 3.61e+01 d.14.1.4 -9055 d.101.1.1 -10745 1s0uA 408 3.63e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1i50K 120 3.71e+01 d.74.3.2 61765 1ek9A 428 3.74e+01 1ek9A f.5.1.1 43809