# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores 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 2awaA 390 1.27e+00 2rgf 97 1.29e+00 1lfdA d.15.1.5 37627 1raxA 115 2.03e+00 1lfdA d.15.1.5 37626 1gyfA 62 2.28e+00 1gyfA d.76.1.1 39749 1syxB 86 2.33e+00 1nxmA 197 2.53e+00 b.82.1.1 86385 1ps2 60 4.22e+00 2pspA g.16.1.1 44746 2amyA 246 4.69e+00 1cv8 174 4.79e+00 1cv8 d.3.1.1 37089 1ark 60 5.93e+00 1bb9 b.34.2.1 24473 1ck7A 631 6.50e+00 1ck7A b.66.1.1,g.14.1.2,g.14.1.2,g.14.1.2,a.20.1.2,d.92.1.11 27538,44674,44675,44676,58969,58970 2sas 185 7.28e+00 2sas a.39.1.5 17258 1lxdA 100 7.66e+00 1lfdA d.15.1.5 37624 2gaxA 135 7.98e+00 1eo1A 124 1.04e+01 1eo1A c.55.5.1 33739 1y6iA 233 1.18e+01 1jj2V 154 1.22e+01 1ffkT d.59.1.1 63107 1wstA 417 1.23e+01 1s72W 154 1.24e+01 d.59.1.1 105342 2c7xA 436 1.25e+01 1vqoW 154 1.29e+01 1m2tB 263 1.30e+01 b.42.2.1,b.42.2.1 84762,84763 2aqlA 173 1.48e+01 1wxxA 382 1.72e+01 1k2fA 190 1.93e+01 b.8.1.2 68054 1ffkT 154 2.02e+01 1ffkT d.59.1.1 39527 1q8fA 313 2.06e+01 c.70.1.1 96203 1lfdA 87 2.10e+01 1lfdA d.15.1.5 37622 1xtnA 120 2.12e+01 1q5qA 259 2.12e+01 d.153.1.4 95904 2fa8A 105 2.21e+01 1tqzA 133 2.46e+01 1ac0 108 2.52e+01 1kum b.3.1.1 22526 1gdhA 320 2.53e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1kum 108 2.57e+01 1kum b.3.1.1 22525 2fueA 262 2.77e+01 1sz6B 263 2.98e+01 1lplA 95 3.00e+01 b.34.10.1 74173 1q6hA 224 3.11e+01 d.26.1.1 95975 1s6lA 212 3.14e+01 1gh9A 71 3.16e+01 1gh9A g.41.6.1 45266 2ahjA 206 3.34e+01 2ahjA d.149.1.1 41772 1n7zA 334 3.38e+01 b.127.1.1 85380 1pm3A 78 3.43e+01 b.41.1.2 94889 1tuwA 109 3.44e+01 d.58.4.8 107346 1wwrA 171 3.51e+01 1weuA 91 3.61e+01 1cnt3 187 3.76e+01 1cnt3 1xteA 154 3.86e+01 2c31A 568 3.94e+01 1q6uA 245 3.96e+01 d.26.1.1 95998 1tovA 98 4.06e+01 b.34.10.1 107179 2cz1A 206 4.07e+01 1acz 108 4.16e+01 1kum b.3.1.1 22524 1ak4C 145 4.17e+01 1ak4C a.73.1.1 18321 1th0A 226 4.23e+01 d.3.1.7 106903 1dik 874 4.39e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2ahjC 206 4.54e+01 2ahjA d.149.1.1 41773 2bjbA 462 4.57e+01 1lenB 52 4.60e+01 2ltnB 1lybB 241 4.64e+01 1smrA 1uurA 473 4.73e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1h3iA 293 4.74e+01 b.76.2.1,b.85.7.1 76635,76636 2h1tA 188 4.92e+01 1k47A 337 5.09e+01 d.14.1.5,d.58.26.4 72040,72041 1ccr 112 5.12e+01 1ycc a.3.1.1 15877 1wiwA 290 5.15e+01 1mvfD 82 5.17e+01 b.129.1.1 85143 1iuaA 83 5.24e+01 g.35.1.1 71438 1bmr 68 5.42e+01 1aho g.3.7.1 44144 1bcpC 199 5.57e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1ycqA 107 5.60e+01 1ycqA a.42.1.1 17419 1v37A 177 5.69e+01 1ak2 233 5.76e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1ab7 89 5.78e+01 1ay7B c.9.1.1 30835 2d93A 134 5.90e+01 1doi 128 5.94e+01 1awd d.15.4.1 37676 1b3sD 90 6.08e+01 1ay7B c.9.1.1 30846 1g71A 347 6.19e+01 1g71A d.264.1.1 43268 1m9xC 146 6.24e+01 a.73.1.1 84907 1j5eE 161 6.25e+01 d.14.1.1,d.50.1.2 71547,71548 1nnxA 109 6.27e+01 b.40.10.1 92013 1kvdA 63 6.32e+01 1kveA d.70.1.2 39592 1b8aA 438 6.35e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1kveA 63 6.36e+01 1kveA d.70.1.2 39590 1a8vA 121 6.49e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 3ldh 330 6.54e+01 3ldh i.12.1.1 46015 2bepA 159 6.54e+01 1mnmC 87 6.69e+01 1akhB a.4.1.1 15983 1wz4A 23 6.77e+01 1hcxA 127 6.81e+01 b.109.1.1 65800 1h8gA 95 6.86e+01 b.109.1.1 65735 1kblA 873 7.02e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1so9A 164 7.02e+01 b.146.1.1 105842 1j7vR 214 7.08e+01 b.1.2.1,b.1.2.1 62705,62706 1ahjA 207 7.13e+01 2ahjA d.149.1.1 41774 1fjgE 162 7.19e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1x3kA 152 7.22e+01 2ge7A 108 7.28e+01 1ug1A 92 7.38e+01 b.34.2.1 99360 1ego 85 7.76e+01 1kte c.47.1.1 32767 1esc 306 7.82e+01 1esc c.23.10.1 31334 1b27D 90 7.87e+01 1ay7B c.9.1.1 30840 1fafA 79 7.87e+01 1fafA a.2.3.1 15700 2aaiB 262 8.16e+01 1abrB b.42.2.1,b.42.2.1 25561,25562 1lqsR 214 8.16e+01 b.1.2.1,b.1.2.1 74194,74195 1brsD 89 8.25e+01 1ay7B c.9.1.1 30825 1h0hB 214 8.41e+01 d.58.1.5 76437 1uedA 406 8.53e+01 a.104.1.1 99256 2bb6A 414 8.61e+01 1gweA 503 8.73e+01 e.5.1.1 70667 1hbzA 498 8.80e+01 1cf9A e.5.1.1 60937 1ay7B 89 8.85e+01 1ay7B c.9.1.1 30836 1egr 85 8.97e+01 1kte c.47.1.1 32765