# 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 9.67e-02 d.21.1.3 107147 1w61A 414 1.04e-01 1gqzA 274 1.37e-01 d.21.1.1,d.21.1.1 83311,83312 2gkeA 274 1.37e-01 1bwzA 274 2.70e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1u1wA 298 3.31e-01 1xubA 298 3.40e-01 1t6kA 278 4.25e-01 1dkqA 410 4.31e+00 1dklA c.60.1.2 33998 1ym5A 300 4.50e+00 1dklA 410 4.55e+00 1dklA c.60.1.2 33996 1h8lA 380 4.99e+00 b.3.2.1,c.56.5.1 65737,65738 1vdkA 466 5.00e+00 a.127.1.1 100561 1o17A 345 5.26e+00 a.46.2.1,c.27.1.1 80765,80766 1dkmA 410 6.11e+00 1dklA c.60.1.2 34000 1wc3A 219 8.11e+00 1d0iA 156 8.27e+00 2dhqA c.23.13.1 31383 1clqA 903 1.22e+01 1clqA c.55.3.5,e.8.1.1 33717,43006 1ih7A 903 1.30e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 2a74A 643 1.36e+01 1u0kA 288 1.37e+01 d.21.1.2,d.21.1.2 107547,107548 1bvqA 141 1.43e+01 1bvqA d.38.1.1 38542 1azsB 212 1.51e+01 1azsA d.58.29.1 39423 1umkA 275 1.57e+01 1mxmA 254 1.58e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1i7pA 274 1.59e+01 b.43.4.2,c.25.1.1 66048,66049 1lo7A 141 1.65e+01 d.38.1.1 74144 1oe4A 247 1.91e+01 c.18.1.3 86895 2azpA 318 1.91e+01 1z5hA 780 2.05e+01 1bx2B 191 2.08e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1a0dA 440 2.11e+01 1a0cA c.1.15.3 29533 1qx4A 274 2.19e+01 b.43.4.2,c.25.1.1 104624,104625 1aqdB 198 2.20e+01 1iakB b.1.1.2,d.19.1.1 21586,38160 2pcfB 250 2.22e+01 1hcz i.4.1.1 45911 2b5wA 357 2.26e+01 1xtqA 177 2.29e+01 1b7yA 350 2.44e+01 1pysA d.104.1.1 40776 1xttA 216 2.45e+01 1fjgR 88 2.52e+01 1fjfR a.4.8.1 16252 1xjvA 294 2.62e+01 1vquA 374 2.63e+01 1l0wA 580 2.65e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1u9yA 284 3.04e+01 1o0pA 104 3.09e+01 d.58.7.1 86535 1kgqA 274 3.13e+01 b.81.1.2 72447 1dlhB 188 3.18e+01 1iakB b.1.1.2,d.19.1.1 21598,38172 1aqdA 192 3.32e+01 1iakA b.1.1.2,d.19.1.1 21585,38159 2aliA 158 3.41e+01 1vh5A 148 3.50e+01 d.38.1.5 100642 2tdt 274 3.57e+01 3tdt b.81.1.2 28054 1hcz 252 3.67e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1gqyA 475 3.74e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1mjc 69 3.78e+01 1mjc b.40.4.5 25319 2cy2A 174 3.85e+01 3tdt 274 3.92e+01 3tdt b.81.1.2 28053 1y9wA 140 3.95e+01 1sdjA 310 3.99e+01 d.21.1.2,d.21.1.2 98807,98808 1ffkE 119 4.00e+01 1ffkE d.79.3.1 39812 1uvqA 197 4.02e+01 b.1.1.2,d.19.1.1 100062,100063 1h9dB 134 4.17e+01 2jhbA b.54.1.1 60822 1jx4A 352 4.23e+01 d.240.1.1,e.8.1.7 90378,90379 1p3dA 475 4.26e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 5gcnA 166 4.35e+01 1yghA d.108.1.1 40807 1ndh 272 4.36e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1w6uA 302 4.38e+01 1gtzA 156 4.40e+01 c.23.13.1 70539 2g84A 197 4.43e+01 1k0eA 453 4.54e+01 d.161.1.1 67938 1tdtA 259 4.57e+01 3tdt b.81.1.2 28055 1jihA 531 4.70e+01 d.240.1.1,e.8.1.7 90374,90375 1pysA 350 4.80e+01 1pysA d.104.1.1 40775 1ov3A 138 4.82e+01 b.34.2.1,b.34.2.1 87451,87452 2jhbA 143 4.92e+01 2jhbA b.54.1.1 26950 1ixlA 131 4.95e+01 d.38.1.5 90717 1ycoA 279 5.11e+01 1wekA 217 5.37e+01 1ng2A 193 5.48e+01 b.34.2.1,b.34.2.1 85660,85661 1a0cA 438 5.60e+01 1a0cA c.1.15.3 29529 1j6uA 469 5.80e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1wtaA 275 5.82e+01 1woqA 267 5.96e+01 c.55.1.10,c.55.1.10 109462,109463 1a8l 226 6.02e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1qstA 160 6.03e+01 1yghA d.108.1.1 40804 1on3A 523 6.18e+01 c.14.1.4,c.14.1.4 87107,87108 1fneA 192 6.26e+01 1iakA b.1.1.2,d.19.1.1 59896,59897 1fngA 192 6.26e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 1mqvA 125 6.33e+01 a.24.3.2 79415 1ycdA 243 6.34e+01 1nkqA 259 6.46e+01 d.177.1.1 103862 1ymmA 191 6.46e+01 1cjtA 217 6.53e+01 1azsA d.58.29.1 39419 1ab8A 220 6.55e+01 1azsA d.58.29.1 39414 1tafB 70 6.77e+01 1tafB a.22.1.3 16482 1g9oA 91 6.85e+01 1pdr b.36.1.1 60400 1sr8A 298 6.91e+01 e.54.1.1 105959 1ffkN 95 6.94e+01 1ffkN b.34.5.1 24606 2myr 501 6.98e+01 1g5cA 170 6.99e+01 1g5cA c.53.2.1 60264 2b6eA 146 7.24e+01 1j5wA 298 7.27e+01 d.104.1.1 71589 1xqbA 247 7.35e+01 1hbnC 248 7.41e+01 1mroC d.58.31.1 60902 2essA 248 7.43e+01 1izmA 184 7.50e+01 a.199.1.1 90725 1vhtA 218 7.52e+01 c.37.1.1 100700 1ieaA 192 7.62e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1giqA 413 7.65e+01 d.166.1.1,d.166.1.1 76224,76225 1azsA 220 7.82e+01 1azsA d.58.29.1 39416 1gv3A 248 7.83e+01 a.2.11.1,d.44.1.1 70585,70586 1ug1A 92 7.95e+01 b.34.2.1 99360 1kkoA 413 7.96e+01 c.1.11.2,d.54.1.1 68675,68676 1rzuA 485 8.12e+01 c.87.1.8 105140 1qmuA 380 8.14e+01 1qmuA b.3.2.1,c.56.5.1 22534,33827 2a8yA 270 8.32e+01 1n2fA 142 8.38e+01 d.227.1.1 79853 1ecxA 384 8.42e+01 1ecxA c.67.1.3 34431 1d5mB 192 8.44e+01 1iakB b.1.1.2,d.19.1.1 21618,38192 7catA 506 8.52e+01 1cf9A e.5.1.1 42781 1hsbA 270 8.58e+01 1agdA b.1.1.2,d.19.1.1 20736,38257 1a6aA 176 8.71e+01 1iakA b.1.1.2,d.19.1.1 21615,38189 3ssi 113 8.78e+01 3ssi d.84.1.1 40032 1pwt 61 8.92e+01 1tud b.34.2.1 24490