# 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 1pj5A 830 5.56e-39 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1nrkA 328 4.16e-24 unknown_sccs -4071 unknown_sccs -10176 1jdw 423 7.12e-01 1jdw d.126.1.2 41129 1fr9A 194 9.39e-01 1fr9A c.68.1.8 34579 1i6wA 181 1.14e+00 1i6wA c.69.1.18 61859 1e5kA 201 1.15e+00 1fr9A c.68.1.8 34578 1ispA 181 1.95e+00 c.69.1.18 76778 1n40A 396 3.59e+00 a.104.1.1 79977 1ngvA 534 3.70e+00 c.111.1.2 85698 1k3fA 253 4.03e+00 c.56.2.1 68105 1iq4A 179 4.71e+00 1iq4A d.77.1.1 62641 1nhp 447 4.72e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1vknA 351 5.14e+00 1h6oA 204 5.79e+00 a.146.1.1 60689 1lx7A 253 6.19e+00 c.56.2.1 74329 1rxyA 253 6.24e+00 c.56.2.1 -7834 1g7sA 594 6.41e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1nhs 447 6.71e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1sxrA 183 7.61e+00 1g7rA 594 8.01e+00 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1nrjB 218 8.06e+00 c.37.1.8 86125 1cfe 135 8.94e+00 1cfe d.111.1.1 40913 2fx2 147 9.75e+00 1rcf c.23.5.1 31158 2gsaA 432 9.76e+00 2gsaA c.67.1.4 34446 1joa 447 9.79e+00 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1cl2A 395 1.04e+01 1cl2A c.67.1.3 34397 1hwyA 501 1.08e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1b1cA 181 1.12e+01 1amoA c.23.5.2 31212 1cl1A 395 1.12e+01 1cl2A c.67.1.3 34395 1k68A 140 1.17e+01 c.23.1.1 -6403 2fcr 173 1.19e+01 1rcf c.23.5.1 31151 1g7tA 594 1.29e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1v5sA 126 1.34e+01 1q0uA 219 1.38e+01 c.37.1.19 -7205 1bu5A 147 1.41e+01 5nul c.23.5.1 31155 1euhA 475 1.44e+01 1euhA c.82.1.1 35369 1uasA 362 1.45e+01 b.71.1.1 88388 c.1.8.1 88389 1m56B 264 1.46e+01 b.6.1.2 74472 f.17.2.1 74473 1quqB 121 1.64e+01 1quqB b.40.4.3 25305 2scuB 388 1.82e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1vi9A 299 1.90e+01 c.72.1.5 -8393 1hwxA 501 2.13e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1jpzA 473 2.19e+01 a.104.1.1 67069 1jjtA 228 2.21e+01 1a7tA d.157.1.1 63139 1j9eA 147 2.26e+01 c.23.5.1 62756 1jflA 228 2.32e+01 c.78.2.1 71656 c.78.2.1 71657 1l2lA 457 2.41e+01 c.72.1.3 77656 1jjeA 222 2.42e+01 1a7tA d.157.1.1 63117 1kc6A 257 2.47e+01 c.52.1.19 68419 1f4pA 147 2.48e+01 5nul c.23.5.1 59651 1qi6A 475 2.50e+01 1euhA c.82.1.1 35373 1qtwA 285 2.75e+01 1qumA c.1.15.1 29392 1jqjC 343 2.79e+01 a.80.1.1 67097 c.37.1.20 67098 1kfiA 572 2.82e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1fvuA 133 2.82e+01 1ixxB d.169.1.1 42345 1b5pA 385 2.84e+01 c.67.1.1 -8133 1edt 271 2.85e+01 2ebn c.1.8.5 28993 1tk9A 188 2.87e+01 7timA 247 3.05e+01 1amk c.1.1.1 28457 1fohA 664 3.20e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1k0fA 277 3.20e+01 c.92.2.2 71974 1pz7A 204 3.26e+01 b.29.1.4 -3439 1mo9A 523 3.30e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1h0pA 182 3.42e+01 b.62.1.1 76450 1chmA 401 3.51e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 2rmcA 182 3.56e+01 2cpl b.62.1.1 27491 1mjfA 281 3.60e+01 c.66.1.17 79198 1jmkC 230 3.60e+01 c.69.1.22 71747 1mp1A 111 3.62e+01 unknown_sccs -996 1kliH 254 3.65e+01 b.47.1.2 77435 1bjwA 382 3.72e+01 1bjwA c.67.1.1 34349