# List of top-scoring protein chains for t04-100-30-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 1uu1A 335 3.80e-01 c.67.1.1 -8146 1sjyA 159 8.46e-01 d.113.1.1 -10908 1fxlA 167 1.12e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1brwA 433 2.91e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1dgyA 363 5.29e+00 1bx4A 1liiA 363 5.31e+00 c.72.1.1 73921 1vkmA 297 5.35e+00 1nmoA 247 6.94e+00 unknown_sccs -8746 1uqrA 154 7.16e+00 c.23.13.1 -6455 1hyeA 313 8.74e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1esmA 316 9.84e+00 1esmA c.37.1.6 31953 1o0wA 252 1.02e+01 a.149.1.1 80751 d.50.1.1 80752 1rypA 243 1.03e+01 1pmaA d.153.1.4 41932 1vicA 262 1.04e+01 c.68.1.13 -8252 1f3aA 222 1.07e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1vioA 243 1.09e+01 unknown_sccs -10154 d.66.1.5 -10240 1kgdA 180 1.11e+01 c.37.1.1 68582 1lci 550 1.19e+01 1lci e.23.1.1 43349 1pbtA 244 1.28e+01 unknown_sccs -6866 1j1yA 136 1.28e+01 d.38.1.5 -9671 1cseI 71 1.35e+01 1egpA d.40.1.1 38559 1kq3A 376 1.46e+01 e.22.1.2 68790 1izcA 339 1.64e+01 c.1.12.5 83838 1ev0A 58 1.64e+01 1ev0A d.71.1.1 39594 1gmuA 143 1.71e+01 b.107.1.1 65335 d.58.38.1 65336 1gs5A 258 1.73e+01 c.73.1.2 70395 1b9wA 89 1.77e+01 1b9wA g.3.11.4 44334 g.3.11.4 44335 1bjwA 382 1.82e+01 1bjwA c.67.1.1 34349 1mrzA 293 1.83e+01 b.43.5.1 -4048 c.26.1.3 -6616 1lhpA 312 1.84e+01 c.72.1.5 77960 2cbp 96 1.86e+01 2cbp b.6.1.1 22895 1b5pA 385 1.91e+01 c.67.1.1 -8133 1d2sA 170 1.91e+01 1d2sA b.29.1.4 24221 1ireA 204 2.03e+01 d.149.1.1 76769 1k3yA 221 2.07e+01 a.45.1.1 77245 c.47.1.5 77246 1s14A 194 2.11e+01 d.122.1.2 -10973 1gqzA 274 2.12e+01 d.21.1.1 83311 d.21.1.1 83312 1f5fA 205 2.16e+01 1d2sA b.29.1.4 24222 1ugpA 203 2.25e+01 1uisA 231 2.28e+01 d.22.1.1 -9450 3rabA 169 2.32e+01 1ctqA c.37.1.8 32018 1id0A 152 2.39e+01 d.122.1.3 66111 1gdeA 389 2.41e+01 c.67.1.1 60456 1ggzA 148 2.51e+01 a.39.1.5 70176 1t95A 240 2.55e+01 1ur1A 378 2.60e+01 c.1.8.3 -5311 1iw7C 1119 2.61e+01 e.29.1.1 71474 1fcjA 322 2.69e+01 1oasA c.79.1.1 35289 1k68A 140 2.74e+01 c.23.1.1 -6403 1bywA 110 2.81e+01 1bywA d.110.3.6 40912 1o5uA 101 2.96e+01 b.82.1.8 -4845 1pzxA 289 2.97e+01 c.119.1.1 -8623 1div 149 3.00e+01 1div d.99.1.1 40692 d.100.1.1 40693 1v5xA 203 3.01e+01 c.1.2.4 -5169 1pyoA 167 3.09e+01 c.17.1.1 -7932 1pz1A 333 3.11e+01 c.1.7.1 -5255 1c7nA 399 3.13e+01 1d2fA c.67.1.3 34413 1q5yA 85 3.41e+01 unknown_sccs -10081 1b93A 152 3.44e+01 1b93A c.24.1.2 31507 1e6yC 247 3.50e+01 1mroC d.58.31.1 39441 1bwzA 274 3.51e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1n3yA 198 3.53e+01 c.62.1.1 79976 1cc1L 498 3.58e+01 1h2rL e.18.1.1 43301 1juvA 193 3.61e+01 c.71.1.1 -8363 1s72S 85 3.64e+01 1jj2R 84 3.65e+01 1ffkP d.12.1.1 63103 1e4fT 419 3.66e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1l8rA 101 3.69e+01 a.6.1.4 73700 1e19A 314 3.73e+01 1b7bA c.73.1.1 34967 1q7lB 88 3.81e+01 1q3oA 109 3.81e+01 b.36.1.1 -3776 1vcaA 202 3.90e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1bb9 115 3.90e+01 1bb9 b.34.2.1 24554 1molA 94 3.91e+01 1molA d.17.1.1 37988