# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1vhcA 224 4.44e-01 c.1.10.1 -5488 1gmmA 133 5.59e-01 b.18.1.10 65314 1uxxX 133 7.33e-01 b.18.1.10 -3107 1q15A 503 1.06e+00 c.26.2.1 -6625 d.153.1.1 -11400 1iwmA 186 1.07e+00 b.125.1.2 83758 1v9kA 228 1.16e+00 7odcA 424 1.38e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1ci4A 89 1.45e+00 1qckA a.60.5.1 17970 1ayfB 105 1.59e+00 1ayfA d.15.4.1 37685 1m65A 245 1.74e+00 c.6.3.1 84847 1bg6 359 1.77e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 2ezxA 89 1.82e+00 1qckA a.60.5.1 17978 1qckA 89 1.89e+00 1qckA a.60.5.1 17976 1d7kA 421 1.97e+00 7odcA b.49.2.3 26486 c.1.6.1 28648 1ayfA 105 2.20e+00 1ayfA d.15.4.1 37684 1tufA 434 2.58e+00 1rhi3 236 2.95e+00 1aym3 1kagA 173 2.97e+00 c.37.1.2 72249 1j8yF 297 3.01e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1fjgB 256 3.07e+00 1fjfB c.23.15.1 31400 1cauB 184 3.32e+00 1caxB b.82.1.2 28103 1r53A 382 3.64e+00 unknown_sccs -11177 1d2gA 292 3.64e+00 1xvaA c.66.1.5 34187 1bhjA 292 3.92e+00 1xvaA c.66.1.5 34189 1eyeA 280 3.97e+00 1aj2 c.1.21.1 29672 1q77A 138 4.16e+00 c.26.2.4 -6639 1k2xA 177 4.29e+00 d.153.1.5 -11450 1nriA 306 4.34e+00 c.80.1.3 86123 1nktA 922 4.48e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1v2xA 194 4.80e+00 c.116.1.1 -6704 1amz 435 5.12e+00 1csh a.103.1.1 18884 1csh 435 5.36e+00 1csh a.103.1.1 18880 1xvaA 292 5.55e+00 1xvaA c.66.1.5 34183 1a6dA 545 5.89e+00 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1l6oA 95 6.07e+00 b.36.1.1 84534 1d2nA 272 6.19e+00 1d2nA c.37.1.20 32428 1l6uA 128 6.27e+00 d.15.4.1 73630 1i1wA 303 6.42e+00 c.1.8.3 76732 6cts 433 6.57e+00 1csh a.103.1.1 18891 1k6aA 303 6.62e+00 c.1.8.3 72081 1fxmA 302 6.63e+00 1taxA 1m1hA 248 6.72e+00 b.114.1.1 78415 d.58.42.1 78416 1i8dA 213 6.79e+00 b.43.4.3 61953 b.43.4.3 61954 1pnsB 234 6.89e+00 i.1.1.1 88169 1xxbA 78 7.02e+00 1xxaA d.74.2.1 39706 1tpt 440 7.54e+00 1brwA a.46.2.1 17763 c.27.1.1 31627 d.41.3.1 38625 1j5eB 256 7.63e+00 c.23.15.1 71543 1j3vA 289 7.76e+00 a.100.1.1 -1303 c.2.1.6 -5947 1j6oA 268 8.01e+00 c.1.9.12 77088 1sbxA 106 8.02e+00 1tux 301 8.13e+00 1taxA c.1.8.3 28907 1caxB 184 8.55e+00 1caxB b.82.1.2 28105 1edg 380 8.60e+00 1edg c.1.8.3 28807 1xxcA 78 8.62e+00 1xxaA d.74.2.1 39712 1qcwA 410 8.65e+00 1gox c.1.4.1 28622 1ad1A 266 8.70e+00 1aj2 c.1.21.1 29668 1gokA 303 8.80e+00 c.1.8.3 65420 1cawB 184 8.98e+00 1caxB b.82.1.2 28113 1gmwA 143 9.18e+00 b.107.1.1 65347 d.58.38.1 65348 1i18A 97 9.21e+00 b.43.4.3 61520 1csc 433 9.35e+00 1csh a.103.1.1 18886 1tk9A 188 9.77e+00 1peqA 714 1.01e+01 1mspA 126 1.01e+01 1mspA b.1.11.2 22333 1xxaA 78 1.03e+01 1xxaA d.74.2.1 39700 1o7xD 377 1.04e+01 a.103.1.1 81174 1jqaA 370 1.04e+01 e.22.1.2 67085 2cbp 96 1.05e+01 2cbp b.6.1.1 22895 1o7xB 377 1.05e+01 a.103.1.1 81172 1nsf 273 1.07e+01 1d2nA c.37.1.20 32429 1hf2A 210 1.10e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1lt8A 406 1.16e+01 c.1.26.1 78186 1ddcA 247 1.18e+01 1ddcA 1sxjE 354 1.23e+01 1ltdA 506 1.23e+01 1gox c.1.4.1 28618 d.120.1.1 41086 2pcy 99 1.27e+01 1plc b.6.1.1 22849 1gd7A 109 1.28e+01 b.40.4.4 60441 1plc 99 1.32e+01 1plc b.6.1.1 22846 1r30A 369 1.40e+01 unknown_sccs -5683 1svy 114 1.41e+01 1svy d.109.1.1 40831 1iciA 256 1.42e+01 1iciA c.31.1.5 62266 1o7xC 377 1.46e+01 a.103.1.1 81173 1m2kA 249 1.50e+01 c.31.1.5 84754 1ri5A 298 1.53e+01 unknown_sccs -8063 1jvnA 555 1.57e+01 c.1.2.1 67355 c.23.16.1 67356 1hruA 188 1.62e+01 1hruA d.115.1.1 40926 1wer 334 1.62e+01 1wer a.116.1.2 19108 1jqjC 343 1.63e+01 a.80.1.1 67097 c.37.1.20 67098 1qpzA 340 1.66e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1ceqA 316 1.75e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1vj0A 380 1.76e+01 b.35.1.2 -3697 c.2.1.1 -5721 1dbqA 289 1.83e+01 1qpzA c.93.1.1 35666 1nx8A 273 1.85e+01 b.82.2.8 86374 4rhv3 236 1.85e+01 1aym3 2ifeA 100 1.88e+01 1tig d.68.1.1 39567 1fcbA 511 1.90e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1im8A 244 1.91e+01 c.66.1.14 66212 1j5wA 298 1.91e+01 d.104.1.1 71589 1rl2A 137 1.91e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1l8rA 101 1.94e+01 a.6.1.4 73700 2mspA 126 1.94e+01 1mspA b.1.11.2 22335 1wetA 340 1.95e+01 1qpzA a.35.1.5 17093 c.93.1.1 35670 1uquA 482 1.95e+01 c.87.1.6 -8591 1uqtA 482 1.96e+01 c.87.1.6 -8593 1d3vA 323 2.03e+01 1d3vA c.42.1.1 32559 1gqoK 143 2.03e+01 c.23.13.1 76305 1uaaA 673 2.06e+01 1pjr c.37.1.19 32401 c.37.1.19 32402 1gqoU 143 2.06e+01 c.23.13.1 76315 1f39A 101 2.07e+01 1umuA b.87.1.1 28386 1qwgA 251 2.09e+01 unknown_sccs -5678 1e1oA 504 2.12e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1hic 51 2.13e+01 4htcI g.3.15.2 44371 1vpwA 340 2.14e+01 1qpzA a.35.1.5 17087 c.93.1.1 35680 1gvmA 136 2.16e+01 b.109.1.1 70612 1lci 550 2.16e+01 1lci e.23.1.1 43349 1kt9A 138 2.20e+01 d.113.1.1 72959 2pgd 482 2.20e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 4pgaA 337 2.22e+01 4pgaA c.88.1.1 35565 1bkzA 135 2.22e+01 1a3k b.29.1.3 24202 1kppA 145 2.23e+01 d.20.1.2 72846 1bypA 99 2.24e+01 1plc b.6.1.1 22858 1i4nA 251 2.26e+01 c.1.2.4 71114 5gcnA 166 2.28e+01 1yghA d.108.1.1 40807 1gz5A 456 2.29e+01 c.87.1.6 76406 1ybvA 283 2.29e+01 1ybvA c.2.1.2 29948 1avmA 201 2.29e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1r61A 207 2.34e+01 unknown_sccs -6086 1t2dA 322 2.35e+01 c.2.1.5 -5920 d.162.1.1 -11487 1fjgQ 105 2.38e+01 1fjfQ b.40.4.5 25352 1ew4A 106 2.38e+01 1ew4A d.82.2.1 40023 1ujnA 348 2.45e+01 e.22.1.1 -11998 1v8cA 168 2.45e+01 d.15.3.1 -9175 unknown_sccs -11012 1uslA 170 2.47e+01 c.121.1.1 -6682 1q6oA 216 2.50e+01 c.1.2.3 -5162 1gqoC 143 2.50e+01 c.23.13.1 76297 1gqoI 143 2.51e+01 c.23.13.1 76303 1bh9B 89 2.54e+01 1bh9B a.22.1.3 16485 1k7cA 233 2.54e+01 c.23.10.4 68267 1im5A 180 2.55e+01 unknown_sccs 66211 1e0wA 313 2.59e+01 1taxA c.1.8.3 59150 1knwA 425 2.59e+01 b.49.2.3 -4274 c.1.6.1 -5229 1dryA 324 2.62e+01 1drtA b.82.2.2 28128 1ur1A 378 2.63e+01 c.1.8.3 -5311 1hkvA 453 2.64e+01 b.49.2.3 83559 c.1.6.1 83560 1bsmA 201 2.65e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1m6yA 301 2.74e+01 a.60.13.1 78716 c.66.1.23 78717 1eqcA 394 2.77e+01 1cz1A c.1.8.3 28811 1ou0A 207 2.78e+01 c.23.17.1 -6498 1p4dA 330 2.81e+01 unknown_sccs -10522 1e58A 249 2.82e+01 1qhfA c.60.1.1 59262 1gqoY 143 2.82e+01 c.23.13.1 76318 1ds1A 324 2.84e+01 1drtA b.82.2.2 28127 1qwkA 317 2.84e+01 c.1.7.1 -5237 1nrwA 288 2.85e+01 c.108.1.10 86128 1p2xA 159 2.89e+01 1gqoG 143 2.89e+01 c.23.13.1 76301 1jqlB 140 2.91e+01 c.37.1.20 63234 1ll0A 339 2.92e+01 c.68.1.14 73995 1a0rP 245 2.93e+01 1b9yC c.47.1.6 33054 1lrzA 426 2.97e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1cz1A 394 3.02e+01 1cz1A c.1.8.3 28839 1gqoJ 143 3.03e+01 c.23.13.1 76304 1p5sA 203 3.04e+01 a.40.1.1 -900 1gqoO 143 3.04e+01 c.23.13.1 76309 1oakA 196 3.06e+01 1auq c.62.1.1 34138 1f3z 161 3.07e+01 1gpr b.84.3.1 28273 1gqoF 143 3.08e+01 c.23.13.1 76300 1kbjA 412 3.12e+01 c.1.4.1 72280 1go3F 107 3.13e+01 a.60.8.2 65407 2hir 65 3.14e+01 4htcI g.3.15.2 44372 1nrzA 164 3.16e+01 c.38.1.1 86131 1ble 163 3.20e+01 1ble c.38.1.1 32475 1auq 208 3.21e+01 1auq c.62.1.1 34137 1iomA 377 3.22e+01 a.103.1.1 83698 2mbr 340 3.27e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1g0oA 283 3.33e+01 1ybvA c.2.1.2 60181 1v9mA 323 3.35e+01 unknown_sccs -12292 1deoA 233 3.37e+01 1deoA c.23.10.4 31345 1vjqA 79 3.37e+01 unknown_sccs -13478 1glaF 168 3.39e+01 1gpr b.84.3.1 28274 1iuz 98 3.39e+01 1plc b.6.1.1 22861 1ggrA 168 3.43e+01 1gpr b.84.3.1 28279 1gmuA 143 3.43e+01 b.107.1.1 65335 d.58.38.1 65336 1aj2 282 3.47e+01 1aj2 c.1.21.1 29665 1rkqA 282 3.53e+01 c.108.1.10 -6847 6hir 65 3.56e+01 4htcI g.3.15.2 44375 1geqA 248 3.58e+01 2tysA c.1.2.4 28589 1od8A 313 3.61e+01 c.1.8.3 86838 1fvuB 125 3.62e+01 1ixxB d.169.1.1 42346 1ldg 316 3.63e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1iqvA 218 3.64e+01 1rss a.75.1.1 62661 1shuX 182 3.66e+01 c.62.1.1 -7982 1h75A 81 3.66e+01 1h75A c.47.1.1 60716 1gqoD 143 3.74e+01 c.23.13.1 76298 1drtA 324 3.75e+01 1drtA b.82.2.2 28130 1vimA 200 3.75e+01 c.80.1.3 -8532 1uxy 340 3.78e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1gqoT 143 3.78e+01 c.23.13.1 76314 1gqoR 143 3.80e+01 c.23.13.1 76312 1rylA 167 3.80e+01 1hcxA 127 3.85e+01 b.109.1.1 65800 1bebA 162 3.85e+01 1bebA b.60.1.1 27115 1gqoX 143 3.85e+01 c.23.13.1 76317 1oz2A 331 3.90e+01 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1gqoP 143 3.93e+01 c.23.13.1 76310 1gqoM 143 3.98e+01 c.23.13.1 76307