# List of top-scoring protein chains for t2k-100-30-str2 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 1pwaA 162 1.66e+00 b.42.1.1 -4009 1ftrA 296 3.92e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1jgsA 138 4.52e+00 a.4.5.28 66683 1cdwA 179 5.00e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1hssA 124 5.44e+00 1bea a.52.1.2 17819 1vk5A 157 5.89e+00 1l0qA 391 6.05e+00 b.1.3.1 77644 b.69.2.3 77645 1ct9A 553 6.77e+00 1ct9A c.26.2.1 31616 d.153.1.1 41834 1who 96 6.82e+00 1who b.7.3.1 23215 4matA 278 7.15e+00 1c24A d.127.1.1 41150 1n6zA 105 7.19e+00 unknown_sccs 85369 1mat 264 7.28e+00 1c24A d.127.1.1 41152 1c24A 263 7.72e+00 1c24A d.127.1.1 41148 1lmiA 131 7.79e+00 b.1.19.1 78098 2matA 264 7.91e+00 1c24A d.127.1.1 41146 1qv9A 283 9.31e+00 unknown_sccs -6888 1olgA 42 9.43e+00 1olgA a.53.1.1 17835 1ytbB 180 9.95e+00 1ytbA d.129.1.1 41278 d.129.1.1 41279 1f7wA 144 1.01e+01 1f46A d.129.4.1 59679 1vduA 172 1.07e+01 unknown_sccs -1651 1kqfB 294 1.08e+01 d.58.1.5 75900 f.23.22.1 75901 1k75A 434 1.17e+01 c.82.1.2 68253 1kaeA 434 1.21e+01 c.82.1.2 72247 1ig0A 319 1.27e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1qhxA 178 1.37e+01 1qhsA c.37.1.3 31936 1qhsA 178 1.37e+01 1qhsA c.37.1.3 31938 1i1qA 520 1.38e+01 1qdlA d.161.1.1 61543 1jfvA 131 1.41e+01 c.44.1.1 66654 1iugA 352 1.47e+01 c.67.1.3 -8176 1i5hW 50 1.51e+01 1i5hW b.72.1.1 61785 1h0cA 392 1.53e+01 c.67.1.3 83424 1jf8A 131 1.59e+01 c.44.1.1 66621 1oheA 348 1.68e+01 c.45.1.1 87013 c.45.1.1 87014 1cl2A 395 1.69e+01 1cl2A c.67.1.3 34397 1jn5A 140 1.76e+01 d.17.4.2 66921 1cl1A 395 1.76e+01 1cl2A c.67.1.3 34395 1oivA 191 1.77e+01 c.37.1.8 -7074 1gpmA 525 1.77e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1ytbA 180 1.78e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1qdlA 422 1.90e+01 1qdlA d.161.1.1 42088 1djxB 624 1.94e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1j0wA 103 1.98e+01 b.55.1.2 -4364 1m5sA 297 1.99e+01 d.58.33.1 74511 d.58.33.1 74512 1t95A 240 2.01e+01 1vjuA 309 2.08e+01 unknown_sccs -9594 1ffkG 145 2.09e+01 1ffkG c.21.1.1 31035 1hb5A 394 2.15e+01 i.6.1.1 65752 1hx6A 394 2.15e+01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1opbA 135 2.16e+01 1hmt b.60.1.2 27216 1kkhA 317 2.19e+01 d.14.1.5 72645 d.58.26.3 72646 1aky 221 2.21e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1f47B 144 2.24e+01 1f46A d.129.4.1 59645 1opaA 135 2.24e+01 1hmt b.60.1.2 27214 1aba 87 2.38e+01 1aba c.47.1.1 32760 1k42A 168 2.40e+01 b.18.1.14 72032 2rgf 97 2.41e+01 1lfdA d.15.1.5 37627 1o9lA 481 2.48e+01 unknown_sccs 81242 unknown_sccs 81241 1cm9A 74 2.48e+01 1b3aA d.9.1.1 37405 1c9fA 90 2.49e+01 1c9fA d.15.2.1 37639 1di0A 158 2.68e+01 1di0A c.16.1.1 30957 1ooyA 481 2.68e+01 unknown_sccs -6867 unknown_sccs -6873 1js8A 394 2.71e+01 a.86.1.1 67219 b.112.1.1 67220 1raxA 115 2.72e+01 1lfdA d.15.1.5 37626 1bmw 96 2.78e+01 1who b.7.3.1 23217 1j26A 112 2.81e+01 1mz4A 137 2.82e+01 a.3.1.1 -150 1tbaB 180 2.86e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1pbyB 337 2.88e+01 b.69.2.2 -4611 1jjuB 337 2.90e+01 b.69.2.2 66779 1q5yA 85 2.90e+01 unknown_sccs -10081 1th8A 145 2.99e+01 1aonO 97 3.02e+01 b.35.1.1 24642 1jb1A 205 3.03e+01 1jb1A c.91.1.2 62832 1im4A 221 3.07e+01 unknown_sccs 62581 1lcyA 325 3.09e+01 b.36.1.4 73834 b.47.1.1 73835 1tyfA 193 3.29e+01 1tyfA c.14.1.1 30885 1jkgA 140 3.38e+01 d.17.4.2 66795 1cjaA 342 3.42e+01 1cjaA d.144.1.3 41708 1c0aA 585 3.47e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1sedA 117 3.49e+01 1lnwA 147 3.49e+01 a.4.5.28 78104 1cf2O 337 3.52e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1jj2I 145 3.60e+01 1ffkG c.21.1.1 63094 1co4A 42 3.64e+01 1co4A g.47.1.1 45347 1p9qC 256 3.66e+01 1o6zA 303 3.82e+01 c.2.1.5 81107 d.162.1.1 81108 1mp9A 198 3.86e+01 a.74.1.2 -1127 a.74.1.2 -1128 1gmwA 143 3.89e+01 b.107.1.1 65347 d.58.38.1 65348 1bt0A 76 3.91e+01 1ubi d.15.1.1 37607 1kb9B 352 3.94e+01 d.185.1.1 77313 d.185.1.1 77314 1gx3A 284 3.94e+01 d.3.1.5 70678 1hyhA 309 3.98e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1ezvB 352 3.99e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544