# List of top-scoring protein chains for T0380.t04-w0.5 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 1dnlA 199 1.48e-20 1ci0A b.45.1.1 25753 1g79A 218 1.49e-20 1ci0A b.45.1.1 25752 1nrgA 261 5.35e-18 b.45.1.1 80694 1t9mA 214 1.47e-16 1ty9A 222 1.42e-15 2a2jA 246 4.03e-15 1rfeA 162 3.38e-14 1ci0A 228 3.54e-14 1ci0A b.45.1.1 25750 2fhqA 141 1.44e-13 2fg9A 178 3.30e-12 1vl7A 157 3.46e-11 b.45.1.1 108732 2asfA 137 4.59e-10 2aq6A 147 8.65e-10 2arzA 247 4.72e-08 2furA 209 9.41e-08 1w3oA 216 1.41e-05 1wlkA 122 1.20e-04 1wllA 122 1.21e-04 1wliA 122 1.21e-04 1flmA 122 1.21e-04 1axj b.45.1.1 25747 1xhnA 184 3.88e-04 1ejeA 192 6.74e-02 1ejeA b.45.1.2 25757 1yxaA 398 5.76e-01 1wvbA 322 9.86e-01 2aebA 322 1.06e+00 1pvtA 238 3.13e+00 c.74.1.1 95189 1q5xA 161 4.21e+00 c.8.7.1 95947 1q1rA 431 6.97e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2etvA 346 8.86e+00 1gu6A 452 1.06e+01 a.138.1.3 70575 1gxsA 270 1.12e+01 c.69.1.5 76375 1x4nA 92 1.41e+01 2fauA 341 1.41e+01 1gt7A 274 1.77e+01 c.74.1.1 70398 1cr5A 189 1.86e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1regX 122 1.95e+01 1regX d.58.27.1 39406 1o07A 358 2.07e+01 e.3.1.1 92390 1ojrA 274 2.09e+01 c.74.1.1 93147 1fybA 111 2.18e+01 4sgbI g.69.1.1,g.69.1.1 44726,44727 1pse 69 2.53e+01 1pse b.34.4.2 24595 1qrrA 394 2.60e+01 1qrrA c.2.1.2 29824 1i24A 404 2.68e+01 c.2.1.2 83663 1a87 321 2.74e+01 1a87 f.1.1.1 43380 1ovt 686 2.97e+01 1nnt c.94.1.2,c.94.1.2 35882,35883 1o54A 277 2.97e+01 c.66.1.13 92482 2ae0X 345 3.24e+01 1jdpA 441 3.27e+01 c.93.1.1 62906 2gaeA 346 3.30e+01 1yk1A 479 3.40e+01 1yk0A 480 3.41e+01 2b3nA 159 3.61e+01 1culA 217 3.68e+01 1azsA d.58.29.1 39417 1azsA 220 3.74e+01 1azsA d.58.29.1 39416 1cs4A 225 3.75e+01 1azsA d.58.29.1 39418 2d3iA 686 3.86e+01 2gj8A 172 3.87e+01 2fukA 220 3.92e+01 2ffyA 358 4.00e+01 1rflA 172 4.04e+01 c.37.1.8 97384 2bgiA 272 4.10e+01 1xksA 450 4.10e+01 1hqmC 1119 4.10e+01 i.8.1.1 45974 1ynjC 1119 4.10e+01 1gmwD 143 4.12e+01 b.107.1.1,d.58.38.1 65353,65354 1cc1L 498 4.14e+01 1h2rL e.18.1.1 43301 1h41A 708 4.20e+01 c.1.8.10,d.92.2.2 83472,83473 2gs8A 317 4.41e+01 1gmuA 143 4.60e+01 b.107.1.1,d.58.38.1 65335,65336 1zyeA 220 4.66e+01 1u4bA 580 4.72e+01 c.55.3.5,e.8.1.1 107664,107665 1nk4A 580 4.72e+01 c.55.3.5,e.8.1.1 91923,91924 1l0eA 358 4.80e+01 e.3.1.1 73396 2bdpA 580 4.82e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 1fsyA 358 4.83e+01 1gceA e.3.1.1 60016 1my8A 358 4.83e+01 e.3.1.1 85236 1nnt 328 4.83e+01 1nnt c.94.1.2 35884 1j5kA 89 4.84e+01 d.51.1.1 71565 1l0gA 358 5.06e+01 e.3.1.1 73400 1kfuL 699 5.07e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1l0dA 358 5.07e+01 e.3.1.1 73394 1x5rA 112 5.11e+01 1gxiE 73 5.15e+01 b.34.4.2 83373 1l0qA 391 5.25e+01 b.1.3.1,b.69.2.3 77644,77645 1k8kD 300 5.26e+01 d.198.2.1,d.198.2.1 68309,68310 2a6hC 1119 5.28e+01 1mo7A 213 5.32e+01 d.220.1.1 85028 1gy5A 127 5.82e+01 d.17.4.2 70734 1iejA 332 5.94e+01 1nnt c.94.1.2 62328 1ioaA 240 6.21e+01 1led b.29.1.1 24168 1ku1A 230 6.24e+01 a.118.3.1 72996 1gqiA 708 6.36e+01 c.1.8.10,d.92.2.2 76279,76280 1g19A 350 6.40e+01 2reb c.37.1.11,d.48.1.1 32284,38770 1tfaA 329 6.43e+01 1nnt c.94.1.2 35880 1zzkA 82 6.61e+01 1khmA 89 6.63e+01 1dt4A d.51.1.1 38809 1u5iA 700 6.91e+01 1df0A 700 6.92e+01 1dkvA a.39.1.8,b.14.1.1,d.3.1.3 17375,23674,37106 1b47A 304 7.22e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1q6hA 224 7.67e+01 d.26.1.1 95975 1vrbA 342 7.77e+01 1u5oA 127 7.86e+01 2c4nA 250 7.88e+01 1un7A 400 7.94e+01 b.92.1.5,c.1.9.10 99657,99658 1gmvA 143 8.03e+01 b.107.1.1,d.58.38.1 65343,65344 1q6uA 245 8.04e+01 d.26.1.1 95998 1vj1A 363 8.17e+01 b.35.1.2,c.2.1.1 100794,100795 2greA 349 8.40e+01 1j2vA 102 8.42e+01 d.58.5.2 90804 1pg4A 652 8.48e+01 e.23.1.1 88067 2fpbA 322 8.58e+01 1i14A 221 8.61e+01 c.61.1.1 71100 1t57A 206 8.70e+01 c.49.1.2 106430 1ukuA 102 8.71e+01 d.58.5.2 99533 1w4zA 281 8.86e+01 1jdqA 98 8.92e+01 d.68.3.3 66559