# List of top-scoring protein chains for T0316.t2k-w0.5 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 1eal 127 6.78e-01 1hmt b.60.1.2 27227 1b7yB 785 7.90e-01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1o1uA 127 2.79e+00 b.60.1.2 81076 1s1iH 191 4.09e+00 i.1.1.1 105182 1ok0A 74 4.84e+00 b.5.1.1 93191 1hm7A 336 5.77e+00 a.128.1.4 76719 1xngA 268 5.84e+00 1mioA 533 6.01e+00 1qguA c.92.2.3 35601 1mkeA 152 7.87e+00 b.55.1.4 79231 1bkf 107 9.51e+00 1fkj d.26.1.1 38382 1iq4A 179 9.71e+00 1iq4A d.77.1.1 62641 1ps1A 337 1.03e+01 1ps1A a.128.1.4 19450 2azqA 311 1.04e+01 1t2xA 639 1.22e+01 b.1.18.2,b.18.1.1,b.69.1.1 106292,106293,106294 1gof 639 1.22e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1k3iA 656 1.22e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1fkj 107 1.27e+01 1fkj d.26.1.1 38384 1tcoC 107 1.29e+01 1fkj d.26.1.1 38426 1ojt 482 1.39e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30581,30582,40212 1bhy 482 1.40e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30583,30584,40213 1po5A 476 1.44e+01 a.104.1.1 94963 1eymA 107 1.47e+01 1fkj d.26.1.1 38403 1bl4A 107 1.51e+01 1fkj d.26.1.1 38393 2dg4A 107 1.60e+01 1fkl 107 1.65e+01 1fkj d.26.1.1 38423 2dg9A 107 1.76e+01 1suoA 476 1.78e+01 a.104.1.1 106026 2aw4F 178 1.79e+01 1cicA 214 1.86e+01 8fabA b.1.1.1,b.1.1.2 19964,21024 1mjiA 182 1.93e+01 d.77.1.1 79208 1ntyA 311 1.97e+01 a.87.1.1,b.55.1.1 103873,103874 1xrtA 467 2.02e+01 1dq3A 454 2.20e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1vckA 115 2.22e+01 1r4mA 529 2.35e+01 c.111.1.2 96999 1yovA 537 2.35e+01 1tt5A 531 2.35e+01 c.111.1.2 107291 1lbvA 252 2.36e+01 e.7.1.1 73813 1lba 146 2.58e+01 1lba d.118.1.1 41062 1aroL 151 2.72e+01 1lba d.118.1.1 41063 2aj3A 213 2.76e+01 1zovA 386 2.93e+01 1qdqA 253 3.05e+01 1theB d.3.1.1 37064 1m94A 93 3.27e+01 d.15.1.1 78865 1nfdE 212 3.40e+01 8fabA b.1.1.1,b.1.1.2 20186,21202 1dn0B 232 3.43e+01 1igtB b.1.1.1,b.1.1.2 19831,20935 1g47A 77 3.45e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1qlrB 232 3.46e+01 1igtB b.1.1.1,b.1.1.2 19835,20939 1l9cA 389 3.53e+01 c.3.1.2,d.16.1.3 77815,77816 1el5A 389 3.67e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1kbaA 66 4.10e+01 3ebx g.7.1.1 44431 1sp4B 205 4.46e+01 1cc1L 498 4.60e+01 1h2rL e.18.1.1 43301 1yat 113 4.64e+01 1fkj d.26.1.1 38427 1rhhA 215 4.65e+01 b.1.1.1,b.1.1.2 97473,97474 2dccA 256 4.72e+01 1m5xA 170 4.73e+01 d.95.2.1 84844 1cqqA 180 5.12e+01 1cqqA b.47.1.4 26422 1j83A 180 5.19e+01 b.18.1.12 66430 2g0wA 296 5.24e+01 6cgt 684 5.51e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21837,22506,27744,28731 1eoaA 209 5.51e+01 3pchA b.3.6.1 22732 2creA 71 5.55e+01 4cgt 678 5.55e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21825,22494,27732,28719 5cgt 684 5.56e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21824,22493,27731,28718 8cgtA 684 5.57e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21831,22500,27738,28725 1cgt 684 5.57e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 1oy1A 228 5.62e+01 c.23.16.2 87548 2cokA 113 5.63e+01 1vhqA 232 5.70e+01 c.23.16.2 100696 1eo9A 209 5.70e+01 3pchA b.3.6.1 22731 2fb4L 216 5.87e+01 8fabA b.1.1.1,b.1.1.2 19846,20950 1jvkA 216 5.98e+01 b.1.1.1,b.1.1.2 71897,71898 1bn7A 294 6.25e+01 1bn6A c.69.1.8 34677 2a6hC 1119 6.73e+01 1uffA 93 6.83e+01 b.34.2.1 99335 1cteA 254 7.30e+01 1theB d.3.1.1 37058 1theA 260 7.35e+01 1theB d.3.1.1 37056 1cqwA 295 7.64e+01 1b6g c.69.1.8 34679 1odkA 235 7.70e+01 c.56.2.1 86863 1pswA 348 7.76e+01 c.87.1.7 88287 1g5cA 170 8.11e+01 1g5cA c.53.2.1 60264 1jmmA 377 8.11e+01 b.30.6.1 71749 1tocR 120 8.29e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1x5uA 105 8.30e+01 1ydlA 79 8.34e+01 2a7yA 83 8.42e+01 1pt2A 447 8.50e+01 b.67.2.2 95086 1ihjA 98 8.50e+01 1pdr b.36.1.1 62382 1fyvA 161 8.53e+01 1fyvA c.23.2.1 31127 1qtfA 246 8.54e+01 1agjA b.47.1.1 25830 1oygA 447 8.57e+01 b.67.2.2 93726 1dt2A 245 8.71e+01 b.47.1.1 76138 1es7A 116 8.74e+01 2tgi g.17.1.2 44786 1rewA 114 8.92e+01 g.17.1.2 97334