# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 6.32e-02 d.21.1.3 107147 1w61A 414 7.80e-02 1u1wA 298 2.09e-01 1xubA 298 2.13e-01 1t6kA 278 2.65e-01 2gkeA 274 3.13e-01 1gqzA 274 3.19e-01 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 5.61e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1ym5A 300 3.69e+00 1vdkA 466 3.89e+00 a.127.1.1 100561 1dkqA 410 4.04e+00 1dklA c.60.1.2 33998 1dklA 410 4.31e+00 1dklA c.60.1.2 33996 1h8lA 380 4.64e+00 b.3.2.1,c.56.5.1 65737,65738 1umkA 275 5.03e+00 1dkmA 410 5.79e+00 1dklA c.60.1.2 34000 1d0iA 156 6.29e+00 2dhqA c.23.13.1 31383 1i7pA 274 6.50e+00 b.43.4.2,c.25.1.1 66048,66049 1wc3A 219 7.22e+00 1mxmA 254 7.53e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1clqA 903 8.98e+00 1clqA c.55.3.5,e.8.1.1 33717,43006 1o0pA 104 9.28e+00 d.58.7.1 86535 1ih7A 903 9.42e+00 1clqA c.55.3.5,e.8.1.1 62375,62376 1qx4A 274 1.01e+01 b.43.4.2,c.25.1.1 104624,104625 1bvqA 141 1.10e+01 1bvqA d.38.1.1 38542 1u0kA 288 1.17e+01 d.21.1.2,d.21.1.2 107547,107548 1lo7A 141 1.27e+01 d.38.1.1 74144 2a74A 643 1.31e+01 2azpA 318 1.40e+01 1xttA 216 1.42e+01 2b5wA 357 1.49e+01 1oe4A 247 1.75e+01 c.18.1.3 86895 1azsB 212 1.78e+01 1azsA d.58.29.1 39423 1gqyA 475 1.92e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1a0dA 440 2.02e+01 1a0cA c.1.15.3 29533 1z5hA 780 2.04e+01 1p3dA 475 2.19e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1bx2B 191 2.19e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1aqdB 198 2.27e+01 1iakB b.1.1.2,d.19.1.1 21586,38160 1vh5A 148 2.27e+01 d.38.1.5 100642 1y9wA 140 2.30e+01 1b7yA 350 2.40e+01 1pysA d.104.1.1 40776 1kgqA 274 2.49e+01 b.81.1.2 72447 1fjgR 88 2.67e+01 1fjfR a.4.8.1 16252 1u9yA 284 2.86e+01 1ndh 272 2.88e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2aliA 158 2.91e+01 1l0wA 580 2.91e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2pcfB 250 2.93e+01 1hcz i.4.1.1 45911 1mjc 69 2.94e+01 1mjc b.40.4.5 25319 2tdt 274 2.98e+01 3tdt b.81.1.2 28054 1gtzA 156 3.04e+01 c.23.13.1 70539 1vquA 374 3.10e+01 1jx4A 352 3.16e+01 d.240.1.1,e.8.1.7 90378,90379 3tdt 274 3.20e+01 3tdt b.81.1.2 28053 1aqdA 192 3.29e+01 1iakA b.1.1.2,d.19.1.1 21585,38159 1tdtA 259 3.45e+01 3tdt b.81.1.2 28055 1dlhB 188 3.49e+01 1iakB b.1.1.2,d.19.1.1 21598,38172 1ffkE 119 3.49e+01 1ffkE d.79.3.1 39812 1xtqA 177 3.52e+01 1o17A 345 3.53e+01 a.46.2.1,c.27.1.1 80765,80766 1j6uA 469 3.55e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1sdjA 310 3.56e+01 d.21.1.2,d.21.1.2 98807,98808 1k0eA 453 3.66e+01 d.161.1.1 67938 2g84A 197 3.94e+01 1xjvA 294 4.11e+01 1woqA 267 4.22e+01 c.55.1.10,c.55.1.10 109462,109463 1sr8A 298 4.36e+01 e.54.1.1 105959 1ycoA 279 4.43e+01 1ixlA 131 4.48e+01 d.38.1.5 90717 1jihA 531 4.50e+01 d.240.1.1,e.8.1.7 90374,90375 1pysA 350 4.51e+01 1pysA d.104.1.1 40775 5gcnA 166 4.65e+01 1yghA d.108.1.1 40807 1g9oA 91 4.75e+01 1pdr b.36.1.1 60400 1on3A 523 4.76e+01 c.14.1.4,c.14.1.4 87107,87108 1gv3A 248 4.80e+01 a.2.11.1,d.44.1.1 70585,70586 1xqbA 247 4.88e+01 2b6eA 146 4.91e+01 1a0cA 438 4.98e+01 1a0cA c.1.15.3 29529 1giqA 413 5.15e+01 d.166.1.1,d.166.1.1 76224,76225 1g5cA 170 5.15e+01 1g5cA c.53.2.1 60264 1hcz 252 5.28e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1wekA 217 5.55e+01 1tafB 70 5.55e+01 1tafB a.22.1.3 16482 1mqvA 125 5.62e+01 a.24.3.2 79415 1w6uA 302 5.73e+01 1j5wA 298 5.83e+01 d.104.1.1 71589 1qstA 160 5.95e+01 1yghA d.108.1.1 40804 1ov3A 138 6.03e+01 b.34.2.1,b.34.2.1 87451,87452 1ug1A 92 6.11e+01 b.34.2.1 99360 1ycdA 243 6.17e+01 2cy2A 174 6.26e+01 1a8l 226 6.38e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1bib 321 6.65e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1izmA 184 6.78e+01 a.199.1.1 90725 1cjtA 217 7.01e+01 1azsA d.58.29.1 39419 1bia 321 7.01e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1ng2A 193 7.06e+01 b.34.2.1,b.34.2.1 85660,85661 1fneA 192 7.09e+01 1iakA b.1.1.2,d.19.1.1 59896,59897 1fngA 192 7.09e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 1ab8A 220 7.12e+01 1azsA d.58.29.1 39414 1ymmA 191 7.16e+01 1c0aA 585 7.21e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2b1xA 470 7.28e+01 1u55A 188 7.31e+01 d.278.1.1 107677 1o0iA 138 7.33e+01 d.38.1.5 86532 1wtaA 275 7.40e+01 1i92A 91 7.64e+01 1pdr b.36.1.1 61990 1hbnC 248 7.70e+01 1mroC d.58.31.1 60902 1wqwA 235 7.82e+01 1nkqA 259 7.99e+01 d.177.1.1 103862 1n2fA 142 8.02e+01 d.227.1.1 79853 1h2bA 359 8.11e+01 b.35.1.2,c.2.1.1 90543,90544 2aneA 125 8.16e+01 1x0tA 120 8.18e+01 1a6aA 176 8.20e+01 1iakA b.1.1.2,d.19.1.1 21615,38189 1azsA 220 8.28e+01 1azsA d.58.29.1 39416 1f08A 148 8.40e+01 1f08A d.89.1.2 59564 1ksyA 154 8.45e+01 d.89.1.2 72948 1prxA 224 8.50e+01 1prxA c.47.1.10 33076 1ieaA 192 8.63e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1vhtA 218 8.64e+01 c.37.1.1 100700 2fs2A 151 8.78e+01 1wteA 272 8.79e+01