# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.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 1tm0A 350 1.52e-02 d.21.1.3 107147 1bwzA 274 3.10e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 2gkeA 274 3.69e-02 1gqzA 274 5.41e-02 d.21.1.1,d.21.1.1 83311,83312 1t6kA 278 2.28e-01 1u1wA 298 3.27e-01 1xubA 298 3.52e-01 1w61A 414 3.97e-01 1pzgA 331 1.61e+00 c.2.1.5,d.162.1.1 95425,95426 1o0pA 104 1.69e+00 d.58.7.1 86535 2b3nA 159 2.99e+00 1ym5A 300 3.16e+00 1oe4A 247 3.79e+00 c.18.1.3 86895 1d0iA 156 5.00e+00 2dhqA c.23.13.1 31383 1jj2F 119 5.40e+00 1ffkE d.79.3.1 63091 1qx4A 274 5.78e+00 b.43.4.2,c.25.1.1 104624,104625 1xjvA 294 5.95e+00 1gtzA 156 6.06e+00 c.23.13.1 70539 1souA 194 6.88e+00 c.124.1.6 105858 2azpA 318 8.17e+00 1xttA 216 1.11e+01 1n25A 368 1.12e+01 c.37.1.20 85264 1wybA 392 1.12e+01 2cxcA 144 1.18e+01 1nnxA 109 1.28e+01 b.40.10.1 92013 1sdjA 310 1.31e+01 d.21.1.2,d.21.1.2 98807,98808 1dnv 437 1.32e+01 1dnv b.121.5.3 23332 1s5jA 847 1.40e+01 1ixlA 131 1.41e+01 d.38.1.5 90717 1evhA 112 1.56e+01 1evhA b.55.1.4 26997 1je5A 206 1.72e+01 1je5A b.40.4.7 62909 1nnsA 326 1.79e+01 c.88.1.1 85910 2bl9A 238 1.83e+01 2gsq 202 1.91e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1othA 321 1.92e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1jjeA 222 1.93e+01 1a7tA d.157.1.1 63117 1ep2B 261 2.03e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1dd6A 228 2.03e+01 1a7tA d.157.1.1 42054 1wchA 315 2.08e+01 1q6uA 245 2.14e+01 d.26.1.1 95998 1f6fA 199 2.15e+01 1f6fA a.26.1.1 16839 2blcA 238 2.16e+01 1prxB 224 2.19e+01 1prxA c.47.1.10 33077 2av4A 162 2.21e+01 1vr3A 191 2.25e+01 2glzA 153 2.27e+01 1wycA 392 2.47e+01 1xp8A 366 2.48e+01 1rxr 83 2.58e+01 2nllB g.39.1.2 45114 1g55A 343 2.60e+01 1g55A c.66.1.26 34247 1pgyA 47 2.70e+01 a.5.2.1 94696 2avdA 219 2.81e+01 1nkpA 88 2.92e+01 a.38.1.1 80573 1wtaA 275 2.96e+01 1jjtA 228 2.97e+01 1a7tA d.157.1.1 63139 1hxmD 242 3.05e+01 b.1.1.1,b.1.1.2 61373,61374 1s7jA 262 3.25e+01 d.21.1.2 98647 1ep3B 262 3.41e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1ffkE 119 3.42e+01 1ffkE d.79.3.1 39812 1guzA 310 3.65e+01 c.2.1.5,d.162.1.1 65586,65587 1vm8A 534 3.72e+01 1vyiA 112 3.81e+01 1m32A 366 3.84e+01 c.67.1.3 78508 1nf2A 268 3.91e+01 c.108.1.10 91849 1uwkA 557 3.92e+01 e.51.1.1 108065 1lqaA 346 3.94e+01 c.1.7.1 84674 1q5zA 177 4.02e+01 a.196.1.1 95954 1kkoA 413 4.16e+01 c.1.11.2,d.54.1.1 68675,68676 1vdkA 466 4.21e+01 a.127.1.1 100561 1wdkC 390 4.25e+01 c.95.1.1,c.95.1.1 109258,109259 1rqlA 267 4.27e+01 c.108.1.3 97750 1l4iA 206 4.32e+01 b.1.11.1,b.7.2.1 73564,73565 1izmA 184 4.37e+01 a.199.1.1 90725 1qd1A 325 4.39e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1moq 368 4.76e+01 1moq c.80.1.1 35302 1s12A 94 4.86e+01 1i7pA 274 5.18e+01 b.43.4.2,c.25.1.1 66048,66049 1od3A 168 5.43e+01 b.18.1.10 86825 1sr8A 298 5.46e+01 e.54.1.1 105959 1cfzA 162 5.46e+01 1cfzA c.56.1.1 33754 16pk 415 5.53e+01 16pk c.86.1.1 35454 1zxxA 319 5.56e+01 1svmA 377 5.56e+01 1wudA 89 5.58e+01 1ab4 477 5.73e+01 1ab4 e.11.1.1 43251 1esc 306 5.75e+01 1esc c.23.10.1 31334 2b30A 301 5.75e+01 1quuA 250 5.76e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1ffkV 143 5.89e+01 1ffkV c.9.2.1 30849 1eucA 311 5.89e+01 2scuA c.2.1.8,c.23.4.1 30311,31139 1whnA 128 5.97e+01 1rdfA 267 6.01e+01 c.108.1.3 104884 2fueA 262 6.04e+01 1b7bA 310 6.18e+01 1b7bA c.73.1.1 34963 1c0aA 585 6.24e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1ja9A 274 6.27e+01 c.2.1.2 62817 1e32A 458 6.53e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1a2zA 220 6.67e+01 1a2zA c.56.4.1 33794 1mkmA 249 6.69e+01 a.4.5.33,d.110.2.2 79242,79243 1kskA 234 6.76e+01 d.66.1.5,d.265.1.3 72920,90389 1xmxA 385 7.04e+01 1a3z 155 7.05e+01 1rcy b.6.1.1 23019 1qgrA 876 7.35e+01 1qgrA a.118.1.1 19119 1rj9A 304 7.36e+01 a.24.13.1,c.37.1.10 97553,97554 1umkA 275 7.40e+01 1ivnA 190 7.52e+01 c.23.10.5 83719 1vljA 407 7.57e+01 e.22.1.2 108832 1q8fA 313 7.64e+01 c.70.1.1 96203 2d13A 227 7.72e+01 1r44A 202 7.73e+01 d.65.1.4 104787 1eudA 311 7.90e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1rq2A 382 8.10e+01 c.32.1.1,d.79.2.1 105048,105049 1swvA 267 8.14e+01 1oohA 126 8.56e+01 a.39.2.1 93383 1c7qA 445 8.58e+01 2pgi c.80.1.2 35307 2gfgA 193 8.76e+01 1a8i 842 8.97e+01 1a8i c.87.1.4 35490 2akzA 439 8.97e+01 1q6hA 224 8.99e+01 d.26.1.1 95975