# List of top-scoring protein chains for t04-100-30-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 1w33A 181 2.46e-01 1htjF 210 3.26e-01 1htjF a.91.1.1 61254 1s72B 338 3.88e-01 b.43.3.2 105320 1f45B 197 4.84e-01 1f45B a.26.1.1 59642 1jj2B 337 5.84e-01 1ffkB b.43.3.2 63086 1ll2A 333 7.66e-01 c.68.1.14 74005 1vqoB 338 9.71e-01 1xteA 154 1.54e+00 1io7A 368 2.31e+00 1f4tA a.104.1.1 18971 1b5eA 246 2.82e+00 1b5eA d.117.1.1 41056 1jnyA 435 2.99e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2bvfA 459 3.09e+00 2br9A 234 3.36e+00 2iugA 120 3.44e+00 2etsA 128 3.98e+00 1fs7A 485 4.66e+00 1qdbA a.138.1.3 19691 1t3wA 148 5.17e+00 1j8yF 297 5.39e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 2ahqA 76 5.79e+00 1w5fA 353 6.69e+00 1j8mF 297 7.10e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1x9gA 200 7.39e+00 c.33.1.3 109527 2g3kA 94 7.52e+00 1xtnA 120 8.83e+00 1q8fA 313 9.12e+00 c.70.1.1 96203 1d8dA 377 9.20e+00 1ft1A a.118.6.1 19185 1wkbA 810 9.94e+00 1gg1A 350 1.05e+01 1qr7A c.1.10.4 29187 1e6iA 121 1.05e+01 1b91A a.29.2.1 16969 1qhlA 227 1.10e+01 1qhlA c.37.1.12 32382 1nthA 458 1.26e+01 c.1.25.1 80730 1tn6A 382 1.32e+01 1ld8A 382 1.36e+01 a.118.6.1 73838 1bjwA 382 1.42e+01 1bjwA c.67.1.1 34349 1c02A 166 1.49e+01 1qspA a.24.10.2 16633 2b06A 155 1.51e+01 2b1eA 564 1.55e+01 1dkiA 371 1.55e+01 1dkiA d.3.1.1 37090 1b5pA 385 1.59e+01 c.67.1.1 90403 1lmb3 92 1.60e+01 1lmb3 1j4aA 333 1.72e+01 c.2.1.4,c.23.12.1 71502,71503 1szqA 483 1.74e+01 e.44.1.1 99045 1w2wA 211 1.83e+01 c.124.1.5 109130 1xsvA 113 1.83e+01 1zs3A 182 1.92e+01 1q8bA 105 1.99e+01 d.58.4.6 96201 1nx8A 273 2.05e+01 b.82.2.8 86374 2aq8A 269 2.09e+01 1huxA 270 2.13e+01 1huxA c.55.1.5 61278 1w7jA 795 2.17e+01 1fohA 664 2.26e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 2hrvA 142 2.41e+01 2hrvA b.47.1.4 26429 1v4eA 299 2.55e+01 a.128.1.1 100296 1k92A 455 2.57e+01 c.26.2.1,d.210.1.1 68325,68326 1au1A 166 2.70e+01 1ifa a.26.1.3 16889 1rw1A 114 2.74e+01 1cktA 71 2.83e+01 1cktA a.21.1.1 16417 1px5A 349 2.92e+01 a.160.1.2,d.218.1.6 95277,95278 1f5nA 592 3.03e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1z8fA 228 3.08e+01 2b3hA 329 3.11e+01 1de4C 640 3.11e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1rj1A 151 3.28e+01 a.29.6.1 97526 1ej2A 181 3.38e+01 1f9aA c.26.1.3 59414 1sfjA 238 3.65e+01 1qmqA 414 3.69e+01 1phd a.104.1.1 18907 1w9gA 104 3.70e+01 1su0B 159 3.75e+01 d.224.1.2 106015 1flcB 175 3.79e+01 1flcB h.3.1.1 45716 1jykA 254 3.85e+01 c.68.1.13 67458 1b8dA 164 3.86e+01 1cpcA a.1.1.3 15665 1ry6A 360 3.89e+01 c.37.1.9 98090 1yt3A 375 3.91e+01 1s4qA 228 4.00e+01 c.37.1.1 98507 1oz2A 331 4.01e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1tdpA 111 4.05e+01 a.29.8.1 106781 1wtyA 119 4.08e+01 1oe9A 795 4.08e+01 b.34.3.1,c.37.1.9 92792,92793 1bm9A 122 4.13e+01 1bm9A a.4.5.7 16116 1qleD 43 4.27e+01 1qleD f.23.8.1 43623 1jyaA 130 4.40e+01 d.198.1.1 67453 2booA 247 4.48e+01 2a8kA 108 4.63e+01 1pwhA 327 4.71e+01 c.79.1.1 95224 2cj4A 150 4.83e+01 1wz7A 111 5.01e+01 1mp1A 111 5.07e+01 a.188.1.1 91382 1m56D 51 5.22e+01 f.23.8.1 74475 2gnoA 305 5.22e+01 1w9cA 321 5.28e+01 1s72M 194 5.32e+01 d.12.1.2 105332 1vqoM 195 5.33e+01 1aba 87 5.61e+01 1aba c.47.1.1 32760 1sflA 238 5.89e+01 1ekeA 230 5.89e+01 1ekeA c.55.3.1 33572 1cp2A 269 5.91e+01 1cp2A c.37.1.10 32269 1muwA 386 5.93e+01 c.1.15.3 79495 2ab5A 269 5.94e+01 2eu9A 355 5.97e+01 2ohxA 374 6.00e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1wn0A 145 6.22e+01 2bmaA 470 6.28e+01 1ldjA 760 6.29e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1kmdA 117 6.37e+01 d.189.1.1 72744 1hb6A 86 6.37e+01 a.11.1.1 70959 1ekqA 272 6.43e+01 1c3qA c.72.1.2 34941 1chmA 401 6.46e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1j6rA 214 6.48e+01 d.173.1.2 71598 1aquA 297 6.50e+01 1aquA c.37.1.5 31942 1a8q 274 6.51e+01 1brt c.69.1.12 34702 1w2qA 127 6.52e+01 1id1A 153 6.65e+01 1id1A c.2.1.9 62286 1n8kA 374 6.69e+01 b.35.1.2,c.2.1.1 80298,80299 1tllA 688 6.80e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1ygmA 118 6.83e+01 1iugA 352 6.85e+01 c.67.1.3 90699 4xis 387 6.97e+01 4xis c.1.15.3 29421 1hetA 374 7.01e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1n4xH 120 7.03e+01 b.1.1.1 85324 1d4oA 184 7.19e+01 1d4oA c.31.1.4 31748 1dpe 507 7.28e+01 1dpe c.94.1.1 35799 1jvnA 555 7.34e+01 c.1.2.1,c.23.16.1 67355,67356 2g9zA 348 7.39e+01 1ho8A 480 7.46e+01 1ho8A a.118.1.9 61107 1d2zA 108 7.46e+01 1d2zA a.77.1.2 18437 1u2pA 163 7.58e+01 1dusA 194 7.61e+01 1dusA c.66.1.4 34182 1pzxA 289 7.64e+01 c.119.1.1 95484 1o0uA 429 7.74e+01 c.118.1.1 80743 1re9A 414 7.81e+01 1g3mA 294 8.00e+01 c.37.1.5 83268 1owqA 361 8.06e+01 c.1.8.5,d.26.3.1 104041,104042 2ex0A 399 8.15e+01 1s69A 124 8.16e+01 a.1.1.1 105305 1dz4A 414 8.20e+01 1phd a.104.1.1 18903 1ej5A 107 8.27e+01 1ej5A a.68.1.1 18268 1h3qA 140 8.33e+01 d.110.4.3 76652 1ki9A 192 8.36e+01 c.37.1.1 84404 1jsxA 207 8.42e+01 c.66.1.20 71846 1v71A 323 8.49e+01 1urjA 1136 8.49e+01 1qy6A 274 8.51e+01 b.47.1.1 96574 1qoyA 318 8.74e+01 1qoyA h.4.4.1 45788