# List of top-scoring protein chains for t2k-100-30-str2-scores 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.soe.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 1m70A 190 2.39e+00 a.3.1.4,a.3.1.4 91200,91201 2bjoA 136 2.43e+00 1pjaA 302 5.39e+00 c.69.1.13 94758 1fzdA 201 5.65e+00 3fib d.171.1.1 42484 3lfkA 129 6.67e+00 3bhwA 209 9.01e+00 3cqcB 227 9.86e+00 2djkA 133 1.04e+01 c.47.1.2 131548 2qzqA 152 1.16e+01 1i9gA 280 1.16e+01 c.66.1.13 62090 2j5zA 221 1.18e+01 3e38A 343 1.28e+01 2ko6A 89 1.30e+01 2boyA 254 1.30e+01 3ckdA 312 1.31e+01 3huiA 126 1.35e+01 1keaA 221 1.51e+01 a.96.1.2 68491 3dm8A 143 1.58e+01 d.17.4.20 157804 2i4lA 458 1.59e+01 2o9pA 454 1.65e+01 2x04A 80 1.67e+01 3fncA 163 1.76e+01 2wk7A 393 1.83e+01 3c1qA 123 1.86e+01 2yx1A 336 1.94e+01 1w9yA 319 2.00e+01 b.82.2.1 120801 2peqA 134 2.04e+01 a.280.1.1 149443 3f8mA 248 2.05e+01 3icvA 316 2.27e+01 3c7mA 195 2.29e+01 2g4rA 160 2.33e+01 3hinA 275 2.51e+01 2rfrA 155 2.56e+01 d.17.4.28 152000 2pvpA 367 2.68e+01 1f0yA 302 2.68e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1f8yA 157 2.71e+01 1f8xA c.23.14.1 31395 1f8xA 157 2.72e+01 1f8xA c.23.14.1 31397 3lq9A 134 2.74e+01 3eu8A 430 2.83e+01 3k2yA 109 2.85e+01 1sq9A 397 2.91e+01 b.69.4.1 105889 3hqsA 409 3.00e+01 3kkiA 409 3.00e+01 1whtB 153 3.10e+01 1whtB 3a0gA 141 3.10e+01 3lnoA 108 3.18e+01 1bcsB 160 3.19e+01 1whtB 1dx4A 586 3.22e+01 2bce c.69.1.1 34622 3e4rA 324 3.23e+01 1whsB 153 3.27e+01 1whtB 2ga8A 359 3.30e+01 3hemA 302 3.32e+01 1ehwA 162 3.40e+01 1npk d.58.6.1 39088 2zeqA 78 3.42e+01 d.15.1.1 154405 1y8aA 332 3.46e+01 c.108.1.24 145913 2gf4A 100 3.55e+01 a.8.10.1 135074 1dfoA 417 3.57e+01 1bj4A c.67.1.4 34480 3eyxA 216 3.58e+01 2gm2A 132 3.64e+01 2nn6B 249 3.65e+01 d.14.1.4,d.101.1.1 148297,148298 1ax8 146 3.74e+01 1ax8 1ax8A 146 3.74e+01 a.26.1.1 16844 2wk9A 389 3.91e+01 2jc7A 244 4.03e+01 1a9xB 379 4.04e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1s4uX 407 4.05e+01 b.69.4.1 112027 3fv7A 244 4.08e+01 1ml4A 308 4.12e+01 c.78.1.1,c.78.1.1 79255,79256 1cs0B 382 4.14e+01 1c3oB c.8.3.1,c.23.16.1 30740,31417 2i49A 429 4.17e+01 1tca 317 4.17e+01 1tca 1tcaA 317 4.17e+01 c.69.1.17 34726 2z7eA 157 4.18e+01 1ztuA 341 4.22e+01 d.110.2.1,d.110.3.9 146024,146025 1r5mA 425 4.23e+01 1gtfA 74 4.28e+01 b.82.5.1 70460 1fxkB 109 4.32e+01 1fxkA a.2.5.1 15704 3l9vA 189 4.32e+01 2x75A 431 4.39e+01 1gdtA 183 4.47e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 3eerA 148 4.50e+01 3by6A 126 4.57e+01 1fxkA 107 4.58e+01 1fxkA a.2.5.1 15703 1kpfA 125 4.75e+01 d.13.1.1 37507 1kpf 126 4.80e+01 1kpf 2hdhA 293 4.90e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 2wnpF 217 4.93e+01 2h5eA 529 4.95e+01 3hadA 308 5.00e+01 2hdhA a.100.1.3,c.2.1.6 18799,30203 3kzqA 208 5.05e+01 2o9cA 342 5.05e+01 d.110.2.1,d.110.3.9 148684,148685 1wab 232 5.05e+01 1wab 1dguA 183 5.05e+01 1dguA a.39.1.5 17333 2wkbA 125 5.12e+01 2jhmF 218 5.14e+01 2d39A 237 5.26e+01 1fmk 452 5.33e+01 1fmk 1ta8A 332 5.36e+01 d.142.2.2 112375 3gbxA 420 5.36e+01 1j4aA 333 5.40e+01 c.2.1.4,c.23.12.1 71502,71503 1kpgA 287 5.62e+01 c.66.1.18 68735 2c5rA 67 5.64e+01 a.251.1.1 129944 1go4E 100 5.74e+01 h.1.22.1 70296 3kusA 88 6.04e+01 3d01A 165 6.09e+01 2vk8A 563 6.12e+01 2fk8A 318 6.20e+01 c.66.1.18 133648 2v7kA 361 6.36e+01 1ru3A 732 6.38e+01 e.26.1.3 97835 1es9A 232 6.41e+01 1wab c.23.10.3 31340 3h35A 185 6.45e+01 1l8rA 101 6.61e+01 a.6.1.4 73700 2jgdA 933 6.63e+01 1pjcA 361 6.66e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 2extA 77 6.67e+01 b.82.5.1 132563 3ctlA 231 6.70e+01 3d5lA 221 6.71e+01 3loyA 633 6.72e+01 3e4wA 320 6.73e+01 1yaiA 151 6.79e+01 1yaiA b.1.8.1 22289 3hhtB 229 6.81e+01 1t64A 377 6.82e+01 c.42.1.2 106543 1oalA 151 6.85e+01 b.1.8.1 86739 3k28A 429 6.86e+01 1y7tA 327 6.86e+01 c.2.1.5,d.162.1.1 122718,122719 1aocA 175 6.89e+01 1aocA g.17.1.5 44817 1vbgA 876 6.91e+01 c.1.12.2,c.8.1.1,d.142.1.5 119951,119952,119953 2glwA 92 6.95e+01 3aazB 229 7.01e+01 1rm6A 769 7.15e+01 d.41.1.1,d.133.1.1 111872,111873 3fmsA 209 7.17e+01 1bdmA 327 7.29e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1wmuA 141 7.33e+01 a.1.1.2 109416 1c0aA 585 7.48e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1oaoC 729 7.63e+01 e.26.1.3 86746 2hi2A 158 7.63e+01 2hxjA 144 7.71e+01 a.136.1.1 147432 3g4pA 244 7.72e+01 1wyjA 125 7.78e+01 1a7hA 86 7.94e+01 1amm b.11.1.1 23600 1ubpB 122 7.98e+01 1ubpB b.85.3.1 28346 3c25A 383 8.00e+01