# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1f7sA 139 4.45e-31 1cof d.109.1.2 40857 1v6fA 151 8.05e-29 1cof 143 6.19e-28 1cof d.109.1.2 40860 1cnuA 137 6.21e-28 1cof d.109.1.2 40862 1cfyA 143 2.05e-27 1cof d.109.1.2 40858 1m4jA 142 2.96e-23 d.109.1.2 78602 1ak7 174 2.84e-21 1cof d.109.1.2 40864 1hqz9 141 6.03e-12 1hqz1 141 6.22e-12 1udmA 149 3.52e-08 1btn 106 2.49e-01 1btn b.55.1.1 26952 1uayA 242 7.57e-01 c.2.1.2 88390 1s4kA 120 1.31e+00 1qcxA 359 1.48e+00 1qcxA b.80.1.2 28028 1qqp2 218 1.53e+00 1qqp2 1khhA 198 2.21e+00 c.66.1.16 68615 1mai 131 2.85e+00 1mai b.55.1.1 26951 1ro2A 216 2.87e+00 unknown_sccs -11391 1p1cA 199 2.94e+00 c.66.1.16 87669 1nwbA 124 3.84e+00 b.124.1.1 86296 1f8xA 157 4.68e+00 1f8xA c.23.14.1 31397 1asyA 490 5.07e+00 1b8aA b.40.4.1 25242 d.104.1.1 40763 1thx 115 5.19e+00 1thx c.47.1.1 32732 1s2dA 167 5.38e+00 c.23.14.1 -6469 1f8yA 157 5.46e+00 1f8xA c.23.14.1 31395 1mhnA 59 5.56e+00 b.34.9.1 84964 1uzcA 71 5.78e+00 a.159.2.1 -339 1fyhB 229 6.08e+00 1jrhI b.1.2.1 22055 b.1.2.1 22056 1p32A 209 6.24e+00 1p32A d.25.1.1 38379 1h40A 71 6.43e+00 1g5vA 88 7.64e+00 1g5vA b.34.9.1 60292 2vil 126 7.66e+00 2vil d.109.1.1 40830 1ro0A 216 7.69e+00 unknown_sccs -11390 1gtrA 553 9.50e+00 1gtrA b.53.1.2 26939 c.26.1.1 31578 1fg9C 245 9.71e+00 1jrhI b.1.2.1 22060 b.1.2.1 22061 1g1sA 162 1.02e+01 d.169.1.1 65100 g.3.11.1 65101 1elt 236 1.07e+01 5ptp b.47.1.2 26281 1ad3A 452 1.08e+01 1ad3A c.82.1.1 35335 1mo7A 213 1.10e+01 d.220.1.1 85028 2polA 366 1.11e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1qtqA 553 1.12e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 2fsp 124 1.13e+01 1dz3A c.23.1.1 31119 1mmiA 366 1.16e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1k66A 149 1.17e+01 c.23.1.1 -6406 1q1hA 110 1.21e+01 unknown_sccs -262 1vhzA 198 1.27e+01 d.113.1.1 -10897 1btl 263 1.50e+01 1btl e.3.1.1 42691 1aszB 490 1.68e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1r72A 211 1.71e+01 unknown_sccs -215 unknown_sccs -5981 1uqtA 482 1.74e+01 c.87.1.6 -8593 1pbp 321 1.98e+01 1ixh c.94.1.1 35768 1fe0A 68 1.99e+01 1cc8A d.58.17.1 39345 1faaA 124 1.99e+01 1erv c.47.1.1 32738 1idk 359 2.11e+01 1qcxA b.80.1.2 28025 8rucI 123 2.29e+01 1rboC d.73.1.1 39629 1apa 266 2.30e+01 1qi7A d.165.1.1 42205 1uquA 482 2.35e+01 c.87.1.6 -8591 1fy7A 278 2.40e+01 1fy7A d.108.1.1 40817 2ila 155 2.56e+01 2ila b.42.1.2 25560 1oi0A 124 2.59e+01 unknown_sccs -8782 1hynP 379 2.77e+01 1hynP d.112.1.2 61408 1g38A 393 2.79e+01 2admA c.66.1.27 60235 4icb 76 2.81e+01 4icb a.39.1.1 17145 1cjxA 357 2.94e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1rboC 123 2.94e+01 1rboC d.73.1.1 39634 1kz1A 159 3.00e+01 c.16.1.1 73318 1hcz 252 3.02e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 1pjpA 226 3.05e+01 5ptp b.47.1.2 26301 1j09A 468 3.09e+01 a.97.1.1 77025 c.26.1.1 77026 1okrA 123 3.09e+01 unknown_sccs -235 1ln4A 104 3.11e+01 d.68.4.1 74043 1nw2A 105 3.11e+01 c.47.1.1 -7380 1mut 129 3.24e+01 1tum d.113.1.1 40921 1obfO 335 3.31e+01 c.2.1.3 86768 d.81.1.1 86769 1b00A 127 3.35e+01 3chy c.23.1.1 31122 1p9rA 418 3.51e+01 c.37.1.11 -7142 1usuA 260 3.54e+01 unknown_sccs -9045 1qftA 175 3.63e+01 1qftA b.60.1.1 27151 1a04A 215 3.64e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1kwhA 492 3.65e+01 c.94.1.1 68876 1aqjA 421 3.73e+01 2admA c.66.1.27 34242 1gz5A 456 3.79e+01 c.87.1.6 76406 1vypX 364 3.82e+01 1lxnA 99 3.90e+01 d.58.48.1 84737 1gln 468 3.99e+01 1gln a.97.1.1 18752 c.26.1.1 31588