# List of top-scoring protein chains for t2k-100-30-alpha 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 1opaA 135 1.30e+00 1hmt b.60.1.2 27214 1opbA 135 1.64e+00 1hmt b.60.1.2 27216 1ig0A 319 2.63e+00 1ig0A b.82.6.1 62354 c.100.1.1 62355 1kqwA 134 2.68e+00 b.60.1.2 72887 1pwaA 162 3.44e+00 b.42.1.1 -4009 1cl2A 395 5.02e+00 1cl2A c.67.1.3 34397 1cl1A 395 5.10e+00 1cl2A c.67.1.3 34395 1oheA 348 5.65e+00 c.45.1.1 87013 c.45.1.1 87014 4matA 278 6.78e+00 1c24A d.127.1.1 41150 1akeA 214 6.88e+00 1zin c.37.1.1 31905 g.41.2.1 45185 1c24A 263 7.37e+00 1c24A d.127.1.1 41148 1mat 264 7.82e+00 1c24A d.127.1.1 41152 1dmtA 696 8.08e+00 1dmtA d.92.1.4 40296 2matA 264 8.37e+00 1c24A d.127.1.1 41146 1oivA 191 9.19e+00 c.37.1.8 -7074 1mz4A 137 9.58e+00 a.3.1.1 -150 1hssA 124 9.60e+00 1bea a.52.1.2 17819 1j0wA 103 1.07e+01 b.55.1.2 -4364 1fo1A 271 1.11e+01 1fo1A c.10.2.3 30869 d.58.7.2 39213 1ky3A 182 1.25e+01 c.37.1.8 73193 1jfvA 131 1.26e+01 c.44.1.1 66654 1ew4A 106 1.28e+01 1ew4A d.82.2.1 40023 1jf8A 131 1.43e+01 c.44.1.1 66621 1ftrA 296 1.44e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1qv9A 283 1.47e+01 unknown_sccs -6888 1c0aA 585 1.52e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1cm9A 74 1.52e+01 1b3aA d.9.1.1 37405 1nd6A 354 1.54e+01 c.60.1.2 80407 1e4yA 214 1.64e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1vk5A 157 1.67e+01 2hpaA 342 1.69e+01 1cviA c.60.1.2 33985 1ooyA 481 1.75e+01 unknown_sccs -6867 unknown_sccs -6873 1jgsA 138 1.80e+01 a.4.5.28 66683 1i24A 404 1.82e+01 c.2.1.2 83663 1js8A 394 1.84e+01 a.86.1.1 67219 b.112.1.1 67220 1ml4A 308 1.88e+01 c.78.1.1 79255 c.78.1.1 79256 1nsj 205 1.88e+01 1nsj c.1.2.4 28560 1n6zA 105 1.90e+01 unknown_sccs 85369 1who 96 1.93e+01 1who b.7.3.1 23215 1d2iA 223 1.94e+01 1d2iA c.52.1.5 33297 1lmiA 131 1.96e+01 b.1.19.1 78098 1cdwA 179 1.98e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 3kvt 115 2.00e+01 1t1dA d.42.1.2 38642 1dfmA 223 2.04e+01 1d2iA c.52.1.5 33295 1cviA 342 2.13e+01 1cviA c.60.1.2 33989 1dyr 206 2.13e+01 1aoeA c.71.1.1 34916 1aba 87 2.15e+01 1aba c.47.1.1 32760 1k75A 434 2.15e+01 c.82.1.2 68253 1o9lA 481 2.20e+01 unknown_sccs 81242 unknown_sccs 81241 1bmw 96 2.27e+01 1who b.7.3.1 23217 1h67A 108 2.29e+01 a.40.1.1 65643 1kaeA 434 2.34e+01 c.82.1.2 72247 1i2aA 219 2.37e+01 e.24.1.1 -12012 1cjaA 342 2.43e+01 1cjaA d.144.1.3 41708 1qhxA 178 2.61e+01 1qhsA c.37.1.3 31936 1cjsA 219 2.71e+01 1cjsA e.24.1.1 43354 1olgA 42 2.77e+01 1olgA a.53.1.1 17835 1qrrA 394 2.78e+01 1qrrA c.2.1.2 29824 1dgsA 667 2.80e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1vduA 172 2.80e+01 unknown_sccs -1651 4rxn 54 2.81e+01 1rb9 g.41.5.1 45226 1iugA 352 2.84e+01 c.67.1.3 -8176 1th8A 145 2.93e+01 1jysA 242 2.97e+01 c.56.2.1 77216 1djxB 624 2.98e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1f7wA 144 3.00e+01 1f46A d.129.4.1 59679 1ffkG 145 3.10e+01 1ffkG c.21.1.1 31035 1yagA 375 3.11e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1dpb 243 3.11e+01 1eaf c.43.1.1 32618 1eaf 243 3.19e+01 1eaf c.43.1.1 32617 1e5xA 486 3.34e+01 c.79.1.1 59283 1lbeA 258 3.35e+01 1lbeA e.4.1.1 42773 1s8fA 177 3.35e+01 1ct9A 553 3.38e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1ytbB 180 3.40e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1dgnA 89 3.46e+01 1dgnA a.77.1.3 18436 1jj2I 145 3.52e+01 1ffkG c.21.1.1 63094 1d7kA 421 3.58e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1f7uA 607 3.62e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1r12A 258 3.62e+01 e.4.1.1 -11807 1o6zA 303 3.74e+01 c.2.1.5 81107 d.162.1.1 81108 1qhsA 178 3.77e+01 1qhsA c.37.1.3 31938 1p9qC 256 3.90e+01 1h0cA 392 3.96e+01 c.67.1.3 83424 2ak3A 226 3.98e+01 1zin c.37.1.1 31892 g.41.2.1 45193