# List of top-scoring protein chains for t2k-100-40-40-str2+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 1h4rA 314 8.94e-01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1mngA 203 2.09e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1m3jA 471 2.22e+00 f.9.1.1 -12372 1us8A 147 2.23e+00 c.37.1.12 -7194 1s14A 194 2.42e+00 d.122.1.2 -10973 1plr 258 2.82e+00 1plq d.131.1.2 41390 d.131.1.2 41391 1jofA 365 2.95e+00 b.69.10.1 71775 1rypH 205 3.03e+00 d.153.1.4 41876 1plq 258 3.14e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1m4jA 142 4.62e+00 d.109.1.2 78602 1dgwA 178 4.78e+00 1dgwA b.82.1.2 28090 1cr5A 189 4.80e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1aj6 219 4.98e+00 1aj6 d.122.1.2 41106 1iz5A 249 5.18e+00 d.131.1.2 83834 d.131.1.2 83835 1poiB 260 5.49e+00 1poiB unknown_sccs 34155 1m3iA 471 5.70e+00 f.9.1.1 -12374 1amuA 563 5.96e+00 1amuA e.23.1.1 43351 1ip9A 85 6.37e+00 1ip9A d.15.2.2 62638 1f2tA 149 6.61e+00 1f2tA c.37.1.12 32373 1ugmA 125 7.10e+00 1nmtA 392 7.27e+00 1nmtA d.108.1.2 40823 d.108.1.2 40824 1cfyA 143 7.30e+00 1cof d.109.1.2 40858 1ud9A 245 7.43e+00 1hnnA 282 7.47e+00 c.66.1.15 65895 1cof 143 8.01e+00 1cof d.109.1.2 40860 1t0yA 122 8.97e+00 d.15.1.1 -9151 1f7sA 139 9.16e+00 1cof d.109.1.2 40857 1mejA 223 9.20e+00 c.65.1.1 79029 1ky9A 448 9.40e+00 b.36.1.4 73198 b.47.1.1 73199 1oeyJ 107 9.40e+00 d.15.2.2 -9168 1jj2B 337 9.42e+00 1ffkB b.43.3.2 63086 1s72B 338 9.69e+00 1q6hA 224 9.84e+00 d.26.1.1 -9487 1nr0A 611 1.01e+01 b.69.4.1 86078 b.69.4.1 86079 1qasA 622 1.02e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1dgrC 178 1.04e+01 1dgwA b.82.1.2 28100 1nf3C 128 1.09e+01 b.36.1.1 85596 1jkxA 212 1.12e+01 c.65.1.1 66813 1lshA 1056 1.18e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1vybA 238 1.21e+01 1hp1A 516 1.21e+01 d.114.1.1 70976 d.159.1.2 70977 1ibvB 229 1.24e+01 1pyaB 228 1.25e+01 1pyaB 1ii7A 333 1.26e+01 1ii7A d.159.1.4 62415 1pfo 500 1.29e+01 1pfo f.9.1.1 43826 1cauA 181 1.35e+01 1dgwA b.82.1.2 28102 1sefA 274 1.48e+01 1nstA 325 1.50e+01 1nstA c.37.1.5 31951 1skoA 143 1.51e+01 1rg9A 383 1.51e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1j1tA 233 1.52e+01 unknown_sccs -3462 1ef1A 294 1.52e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1kzkA 99 1.55e+01 b.50.1.1 73371 1ig8A 486 1.55e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1g7sA 594 1.60e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 2sak 121 1.61e+01 2sak d.15.5.1 37711 1rwzA 245 1.64e+01 d.131.1.2 -11106 d.131.1.2 -11107 1i6uA 130 1.65e+01 d.140.1.1 61850 1nijA 318 1.69e+01 c.37.1.10 85741 d.237.1.1 85742 1xgsA 295 1.74e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1gnhA 206 1.78e+01 1sacA b.29.1.5 24252 1lu4A 136 1.80e+01 c.47.1.10 -7509 1hqz1 141 1.82e+01 1go3E 187 1.82e+01 b.40.4.5 83054 d.230.1.1 83055 1djxA 624 1.85e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 2cavA 445 1.86e+01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1b63A 333 1.90e+01 1b63A d.14.1.3 37566 d.122.1.2 41107 1ih7A 903 1.90e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1ci8A 392 1.92e+01 e.3.1.1 64765 1as4A 341 1.94e+01 1sek e.1.1.1 42623 1ge8A 249 1.95e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1obpA 159 1.95e+01 1obpA b.60.1.1 27092 1unnC 115 1.96e+01 unknown_sccs -10216 1ci9A 392 1.99e+01 e.3.1.1 64767 1jx4A 352 2.06e+01 unknown_sccs -10188 unknown_sccs -11898 1nnjA 271 2.22e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1e2tA 284 2.27e+01 1e2tA d.3.1.5 37121 1s6tA 285 2.29e+01 c.37.1.5 -7040 1vkjA 285 2.29e+01 1oeyA 83 2.33e+01 d.15.2.2 -9162 1l2hA 153 2.39e+01 b.42.1.2 77655 2i1b 153 2.42e+01 2i1b b.42.1.2 25538 1p0hA 318 2.42e+01 d.108.1.1 -10802 1hxn 219 2.42e+01 1hxn b.66.1.1 27529 1lci 550 2.48e+01 1lci e.23.1.1 43349 1j7dA 145 2.51e+01 1jatB d.20.1.1 62680 1thx 115 2.55e+01 1thx c.47.1.1 32732 1m1cA 680 2.56e+01 e.42.1.1 78395 1uch 230 2.57e+01 1uch d.3.1.6 37129 1ovnA 248 2.62e+01 a.71.1.1 -1096 c.47.1.7 -7477 1qzgA 187 2.63e+01 b.40.4.3 -3920 1ex2A 189 2.67e+01 1ex2A c.51.4.2 33225 1al0G 175 2.71e+01 2bpa2 b.121.5.1 23275 1h8eG 272 2.71e+01 1e79G c.49.2.1 60756 1difA 99 2.73e+01 1fmb b.50.1.1 26503 1g7rA 594 2.76e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1uypA 432 2.78e+01 unknown_sccs -3480 unknown_sccs -4554 1d5nA 205 2.79e+01 1avmA a.2.11.1 15762 d.44.1.1 38687 1g7tA 594 2.82e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1garA 212 2.82e+01 2gar c.65.1.1 34162 1g2aA 168 2.83e+01 d.167.1.1 65109 1k1tA 99 2.86e+01 b.50.1.1 71995 1f52A 468 2.89e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1c76A 136 2.91e+01 2sak d.15.5.1 37718 1qy5A 269 2.92e+01 d.122.1.1 -10958 1ix9A 205 2.96e+01 a.2.11.1 76899 d.44.1.1 76900 2pna 104 2.96e+01 1qadA d.93.1.1 40501 1qatB 622 2.97e+01 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1ppfE 218 3.00e+01 1a7s b.47.1.2 26234 1e3sA 261 3.00e+01 1e6wA c.2.1.2 59201 1hqz9 141 3.07e+01 2lgsA 468 3.11e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1pmhX 185 3.11e+01 1s2kA 206 3.12e+01 unknown_sccs -3494 2gar 212 3.13e+01 2gar c.65.1.1 34161 1q5qA 259 3.14e+01 d.153.1.4 -11433 1rwiA 270 3.15e+01 unknown_sccs -4603 1ky9B 448 3.17e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1dazC 99 3.17e+01 1hvc b.50.1.1 26501 1i0hA 205 3.27e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1ae9A 179 3.27e+01 1ae9A d.163.1.1 42153 2bpa2 175 3.28e+01 2bpa2 1lgr 468 3.30e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1utwA 432 3.30e+01 1bkf 107 3.30e+01 1fkj d.26.1.1 38382 1rypI 222 3.34e+01 d.153.1.4 41877 1huxA 270 3.39e+01 1huxA c.55.1.5 61278 1clc 639 3.41e+01 1clc a.102.1.2 18835 b.1.18.2 21872 21bi 153 3.41e+01 2i1b b.42.1.2 25542 1bmlC 362 3.41e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1br1B 150 3.44e+01 1wdcC a.39.1.5 17309 1auvA 311 3.46e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1r3eA 309 3.51e+01 b.122.1.1 -5118 unknown_sccs -10146 1m5q1 130 3.54e+01 1eb0A 147 3.55e+01 b.107.1.1 64890 d.58.38.1 64891 1h2cA 140 3.60e+01 b.31.1.1 83462 1meoA 209 3.61e+01 c.65.1.1 79035 1i1b 153 3.62e+01 2i1b b.42.1.2 25537 1lckA 175 3.63e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1i5sA 367 3.69e+01 1bg2 c.37.1.9 61822 1vk9A 151 3.70e+01 1ijtA 128 3.73e+01 1bfg b.42.1.1 62510 1ny72 369 3.85e+01 1gsa 316 3.86e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1jb7B 260 3.92e+01 1otcB b.40.4.3 62839 2glsA 470 3.94e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 1jhdA 396 3.96e+01 b.122.1.3 66712 c.26.1.5 66713