# List of top-scoring protein chains for t2k-100-30-str2 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 1vaoA 560 1.08e-01 1qltA d.58.32.1 39461 d.145.1.1 41724 1w1kA 560 1.57e-01 1e8gA 560 2.16e-01 1qltA d.58.32.1 39455 d.145.1.1 41718 1q8bA 105 2.55e-01 unknown_sccs -9958 1ap8 213 5.64e-01 1ap8 d.86.1.1 40151 1qltA 560 7.34e-01 1qltA d.58.32.1 39457 d.145.1.1 41720 1m5sA 297 1.31e+00 d.58.33.1 74511 d.58.33.1 74512 1hfc 169 1.37e+00 1hfc d.92.1.11 40335 1ftrA 296 2.35e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1sk4A 163 2.49e+00 1b0pA 1231 3.62e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1o12A 376 3.69e+00 b.92.1.5 80758 c.1.9.10 80759 1r89A 437 4.08e+00 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1e1dA 553 4.13e+00 1e1dA e.26.1.1 43363 1kekA 1231 4.37e+00 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1uj2A 252 4.93e+00 c.37.1.6 -7061 1o6jA 150 5.07e+00 c.47.1.10 81089 1souA 194 5.68e+00 1j6wA 175 5.85e+00 1j98A d.185.1.2 62663 1mai 131 6.55e+00 1mai b.55.1.1 26951 1i5gA 144 6.91e+00 1ewxA c.47.1.10 61784 1vixA 420 7.06e+00 c.56.5.4 -7866 d.58.19.1 -10090 1hi9A 274 7.23e+00 1hi9A c.99.1.1 61063 1d2eA 397 8.08e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ffkS 70 8.61e+00 1ffkS a.2.2.1 15692 1kutA 230 8.75e+00 d.143.1.1 73017 1ii7A 333 9.27e+00 1ii7A d.159.1.4 62415 1bb9 115 1.03e+01 1bb9 b.34.2.1 24554 1gnlA 544 1.03e+01 e.26.1.1 70287 1fiqC 763 1.10e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1tk9A 188 1.11e+01 1oj4A 283 1.13e+01 d.14.1.5 -9088 d.58.26.5 -10133 1np7A 489 1.23e+01 a.99.1.1 80677 c.28.1.1 80678 1v97A 1332 1.25e+01 1s72V 71 1.25e+01 1j0lA 98 1.33e+01 unknown_sccs -9789 1jj2U 70 1.34e+01 1ffkS a.2.2.1 63106 1fo4A 1332 1.42e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1afi 72 1.44e+01 1aw0 d.58.17.1 39339 1m5yA 408 1.46e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1o5oA 221 1.48e+01 c.61.1.1 -7954 1b8zA 90 1.52e+01 1huuA a.55.1.1 17902 1fvuA 133 1.52e+01 1ixxB d.169.1.1 42345 1rlr 761 1.56e+01 1rlr a.98.1.1 18753 c.7.1.2 30679 1j5xA 342 1.59e+01 c.80.1.1 71591 1qu9A 128 1.64e+01 1qu9A d.79.1.1 39755 1qu9C 128 1.64e+01 1qu9A d.79.1.1 39757 1nykA 165 1.66e+01 b.33.1.1 86408 1m55A 197 1.66e+01 d.89.1.3 74469 2olbA 517 1.69e+01 1jevA c.94.1.1 35721 1jk3A 158 1.70e+01 d.92.1.11 66790 1mmq 170 1.79e+01 1hfc d.92.1.11 40396 1b4eA 323 1.80e+01 1b4kA c.1.10.3 29186 1ml4A 308 1.80e+01 c.78.1.1 79255 c.78.1.1 79256 1kanA 253 1.88e+01 1knyA a.24.16.1 75878 d.218.1.1 75879 1jl0A 334 1.90e+01 1jenA d.156.1.1 63155 1rpl 251 2.00e+01 1bpyA a.60.12.1 75933 d.218.1.2 75934 1gz2A 142 2.04e+01 d.169.1.1 83392 1m4jA 142 2.06e+01 d.109.1.2 78602 1vk3A 615 2.25e+01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1qs1A 462 2.28e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1ipcA 217 2.29e+01 d.86.1.1 71257 1jmsA 381 2.33e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1e2uA 553 2.36e+01 1e1dA e.26.1.1 43362 1gntA 553 2.42e+01 e.26.1.1 70290 1m2oA 768 2.45e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1veaA 148 2.47e+01 1amf 233 2.55e+01 1wod c.94.1.1 35833 1j5pA 253 2.57e+01 c.2.1.3 83092 d.81.1.3 71577 1knyA 253 2.60e+01 1knyA a.24.16.1 75896 d.218.1.1 75897 1ck7A 631 2.60e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1umsA 174 2.67e+01 1hfc d.92.1.11 40368 1hy7A 173 2.75e+01 d.92.1.11 65957 1uuqA 440 2.78e+01 c.1.8.3 -5321 1jsmB 176 2.80e+01 h.3.1.1 63265 1p65A 73 2.88e+01 unknown_sccs -10331 1o5kA 306 2.88e+01 c.1.10.1 -5482 1msk 331 2.94e+01 1msk d.173.1.1 42495 1p27B 106 2.95e+01 d.58.7.1 -10020 1hfs 160 3.01e+01 1hfc d.92.1.11 40370 1hl6A 165 3.08e+01 d.58.7.1 83609 1o1xA 155 3.11e+01 c.121.1.1 86553 1ljrA 244 3.16e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1dgqA 188 3.24e+01 1ido c.62.1.1 34131 1nom 248 3.26e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1oo0B 110 3.39e+01 d.58.7.1 87183 1mv3A 213 3.42e+01 b.34.2.1 -3555 1bpb 248 3.49e+01 1bpyA a.60.12.1 75811 d.218.1.2 75812 1jqjC 343 3.51e+01 a.80.1.1 67097 c.37.1.20 67098 1qs2A 401 3.53e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1ee8A 266 3.54e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1bzsA 165 3.61e+01 1hfc d.92.1.11 40348 1i76A 163 3.61e+01 1hfc d.92.1.11 61877 1jysA 242 3.70e+01 c.56.2.1 77216 1oe4A 247 3.71e+01 c.18.1.3 86895 2hqi 72 3.79e+01 1aw0 d.58.17.1 39340 1iqrA 420 3.94e+01 a.99.1.1 66275 c.28.1.1 66276 1fnoA 417 3.95e+01 c.56.5.4 75841 d.58.19.1 70145