# List of top-scoring protein chains for t04-100-30-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 6.70e-02 d.21.1.3 107147 1w61A 414 1.38e-01 1gqzA 274 1.41e-01 d.21.1.1,d.21.1.1 83311,83312 2gkeA 274 1.41e-01 1bwzA 274 2.41e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1xubA 298 2.96e-01 1u1wA 298 3.53e-01 1t6kA 278 4.70e-01 1ym5A 300 1.45e+00 1o17A 345 1.92e+00 a.46.2.1,c.27.1.1 80765,80766 1p3dA 475 2.10e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1wc3A 219 3.45e+00 1o0pA 104 3.67e+00 d.58.7.1 86535 1dp4A 435 4.97e+00 1dp4A c.93.1.1 35710 1mxmA 254 6.30e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1sr8A 298 7.65e+00 e.54.1.1 105959 1azsB 212 7.71e+00 1azsA d.58.29.1 39423 1oe4A 247 8.09e+00 c.18.1.3 86895 1dkqA 410 9.07e+00 1dklA c.60.1.2 33998 1d0iA 156 9.10e+00 2dhqA c.23.13.1 31383 1dkmA 410 9.30e+00 1dklA c.60.1.2 34000 1ab8A 220 1.40e+01 1azsA d.58.29.1 39414 1smlA 269 1.49e+01 1smlA d.157.1.1 42053 2aioA 269 1.49e+01 1xttA 216 1.58e+01 1ycoA 279 1.64e+01 2aliA 158 1.73e+01 1nkqA 259 1.76e+01 d.177.1.1 103862 1u9yA 284 1.77e+01 1kay 381 1.79e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 2b61A 377 1.88e+01 1z5hA 780 1.93e+01 1j1iA 296 1.93e+01 c.69.1.10 83977 1bupA 386 1.94e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1wekA 217 1.94e+01 1g5cA 170 2.28e+01 1g5cA c.53.2.1 60264 1jc9A 269 2.33e+01 d.171.1.1 66490 1vh5A 148 2.49e+01 d.38.1.5 100642 1bvqA 141 2.51e+01 1bvqA d.38.1.1 38542 1lo7A 141 2.55e+01 d.38.1.1 74144 1vdkA 466 2.60e+01 a.127.1.1 100561 1nnsA 326 2.74e+01 c.88.1.1 85910 1dgfA 497 2.87e+01 1cf9A e.5.1.1 42782 1gv3A 248 2.94e+01 a.2.11.1,d.44.1.1 70585,70586 1vquA 374 3.10e+01 1kq3A 376 3.12e+01 e.22.1.2 68790 1wxxA 382 3.45e+01 1qx4A 274 3.46e+01 b.43.4.2,c.25.1.1 104624,104625 1ug1A 92 3.47e+01 b.34.2.1 99360 1xtqA 177 3.50e+01 1xhlA 297 3.53e+01 c.2.1.2 109591 1r2rA 248 3.58e+01 c.1.1.1 96875 4uagA 437 3.74e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1h9dB 134 3.90e+01 2jhbA b.54.1.1 60822 1kvkA 395 3.90e+01 d.14.1.5,d.58.26.3 73060,73061 1pjcA 361 3.99e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ymmA 191 4.07e+01 1jf9A 408 4.07e+01 1c0nA c.67.1.3 62931 2h0bA 184 4.11e+01 1kkcA 221 4.13e+01 a.2.11.1,d.44.1.1 68660,68661 1t6aA 126 4.23e+01 d.129.8.1 106555 1kr7A 110 4.25e+01 a.1.1.4 72890 2b3nA 159 4.25e+01 1ieaA 192 4.38e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1f2rI 100 4.39e+01 1c9fA d.15.2.1 37641 1bw0A 416 4.41e+01 1bw0A c.67.1.1 34385 1qwnA 1045 4.43e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 2a8yA 270 4.48e+01 1eg9A 449 4.52e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1htyA 1015 4.52e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1umkA 275 4.53e+01 1hzdA 272 4.59e+01 c.14.1.3 65969 1o5zA 442 4.74e+01 c.59.1.2,c.72.2.2 92530,92531 2azpA 318 4.80e+01 1sg4A 260 4.87e+01 1yuwA 554 4.90e+01 2essA 248 4.98e+01 1o7nA 449 4.99e+01 b.33.1.2,d.129.3.3 81162,81163 2cxcA 144 5.11e+01 1l0wA 580 5.34e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1azsA 220 5.46e+01 1azsA d.58.29.1 39416 1ru0A 105 5.47e+01 2g84A 197 5.51e+01 2cs7A 55 5.57e+01 1i7oA 429 5.66e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1xhkA 187 5.67e+01 1p1mA 406 5.69e+01 b.92.1.4,c.1.9.9 87696,87697 1khdA 345 5.71e+01 a.46.2.1,c.27.1.1 77400,77401 1zl0A 311 5.77e+01 1pjpA 226 5.82e+01 5ptp b.47.1.2 26301 2b5wA 357 5.84e+01 1i7pA 274 6.11e+01 b.43.4.2,c.25.1.1 66048,66049 1tph1 247 6.14e+01 1amk 1f08A 148 6.16e+01 1f08A d.89.1.2 59564 1j6pA 418 6.22e+01 b.92.1.4,c.1.9.9 77089,77090 1h7wA 1025 6.23e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1d0vA 356 6.35e+01 1d0vA c.39.1.1 32476 1l5oA 356 6.38e+01 c.39.1.1 77711 1m7sA 484 6.41e+01 e.5.1.1 74574 2a74A 643 6.53e+01 1zy7A 403 6.57e+01 1i6iA 366 6.59e+01 1bg2 c.37.1.9 61844 1z5lA 285 6.60e+01 2b0tA 738 6.61e+01 1sdjA 310 6.92e+01 d.21.1.2,d.21.1.2 98807,98808 1gteA 1025 6.95e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1ixlA 131 7.01e+01 d.38.1.5 90717 1r44A 202 7.15e+01 d.65.1.4 104787 2aneA 125 7.21e+01 2eveA 157 7.34e+01 1rsy 152 7.35e+01 1rsy b.7.1.2 23192 1mqvA 125 7.36e+01 a.24.3.2 79415 1dwkA 156 7.38e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1uebA 184 7.54e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1qstA 160 7.55e+01 1yghA d.108.1.1 40804 1q15A 503 7.60e+01 c.26.2.1,d.153.1.1 95538,95539 1ouwA 152 7.68e+01 b.77.3.1 93571 1woqA 267 7.69e+01 c.55.1.10,c.55.1.10 109462,109463 1alu 186 7.85e+01 1alu a.26.1.1 16826 2ga9D 469 7.91e+01 2hrvA 142 7.94e+01 2hrvA b.47.1.4 26429 1tx4B 178 8.00e+01 1ctqA c.37.1.8 32045 1ndh 272 8.03e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2a19A 175 8.06e+01 1su4A 994 8.08e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1q3iA 214 8.18e+01 d.220.1.1 104524 1y791 680 8.18e+01 1o0iA 138 8.30e+01 d.38.1.5 86532 2akrA 285 8.33e+01 1u0kA 288 8.34e+01 d.21.1.2,d.21.1.2 107547,107548 1gtzA 156 8.36e+01 c.23.13.1 70539 1jj2P 95 8.40e+01 1ffkN b.34.5.1 63101 1s72Q 96 8.41e+01 b.34.5.1 105336 1vqoQ 96 8.49e+01 1zbqA 327 8.61e+01 1klt 226 8.69e+01 5ptp b.47.1.2 26300 1mngA 203 8.76e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1w77A 228 8.89e+01 2bvbA 137 8.93e+01 1uz5A 402 8.96e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219