# List of top-scoring protein chains for t04-100-30-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 6.20e-01 c.1.10.1 -5488 1gmmA 133 6.90e-01 b.18.1.10 65314 1uxxX 133 7.67e-01 b.18.1.10 -3107 1q15A 503 1.23e+00 c.26.2.1 -6625 d.153.1.1 -11400 1iwmA 186 1.68e+00 b.125.1.2 83758 1bg6 359 1.76e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1v9kA 228 1.83e+00 1lrzA 426 1.86e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1m65A 245 2.00e+00 c.6.3.1 84847 1v2xA 194 2.17e+00 c.116.1.1 -6704 1fjgB 256 2.28e+00 1fjfB c.23.15.1 31400 1ci4A 89 2.30e+00 1qckA a.60.5.1 17970 1k2xA 177 2.44e+00 d.153.1.5 -11450 7odcA 424 2.50e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1ayfA 105 2.66e+00 1ayfA d.15.4.1 37684 1t2dA 322 2.73e+00 c.2.1.5 -5920 d.162.1.1 -11487 1eyeA 280 3.07e+00 1aj2 c.1.21.1 29672 1ldg 316 3.66e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1d2nA 272 3.76e+00 1d2nA c.37.1.20 32428 1ad4A 266 3.99e+00 1aj2 c.1.21.1 29670 1q77A 138 4.02e+00 c.26.2.4 -6639 1tufA 434 4.05e+00 1nktA 922 4.08e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1r53A 382 4.09e+00 unknown_sccs -11177 1xvaA 292 4.52e+00 1xvaA c.66.1.5 34183 1j6oA 268 4.56e+00 c.1.9.12 77088 1bkzA 135 4.87e+00 1a3k b.29.1.3 24202 1nriA 306 5.04e+00 c.80.1.3 86123 1csh 435 5.90e+00 1csh a.103.1.1 18880 1l6oA 95 6.18e+00 b.36.1.1 84534 1nsf 273 6.25e+00 1d2nA c.37.1.20 32429 1i1wA 303 6.25e+00 c.1.8.3 76732 1i8dA 213 6.37e+00 b.43.4.3 61953 b.43.4.3 61954 1f39A 101 6.48e+00 1umuA b.87.1.1 28386 1earA 147 6.68e+00 b.107.1.1 64875 d.58.38.1 64876 1fxmA 302 6.86e+00 1taxA 1jg5A 83 7.17e+00 d.205.1.1 66666 1jqlB 140 7.55e+00 c.37.1.20 63234 1ad1A 266 7.61e+00 1aj2 c.1.21.1 29668 1m2kA 249 8.08e+00 c.31.1.5 84754 1qcwA 410 8.23e+00 1gox c.1.4.1 28622 1j8yF 297 8.74e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1edg 380 9.72e+00 1edg c.1.8.3 28807 1ri5A 298 1.06e+01 unknown_sccs -8063 1xxaA 78 1.14e+01 1xxaA d.74.2.1 39700 1hf2A 210 1.19e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 2pgd 482 1.19e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1igs 248 1.19e+01 1a53 c.1.2.4 28565 1svy 114 1.22e+01 1svy d.109.1.1 40831 1ne9A 335 1.27e+01 d.108.1.4 -10805 d.108.1.4 -10806 1j3vA 289 1.28e+01 a.100.1.1 -1303 c.2.1.6 -5947 1d3vA 323 1.29e+01 1d3vA c.42.1.1 32559 16pk 415 1.33e+01 16pk c.86.1.1 35454 1lt8A 406 1.34e+01 c.1.26.1 78186 1jvnA 555 1.34e+01 c.1.2.1 67355 c.23.16.1 67356 1peqA 714 1.38e+01 1tk9A 188 1.38e+01 1pii 452 1.46e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1h4vB 421 1.55e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1d2sA 170 1.57e+01 1d2sA b.29.1.4 24221 1sbxA 106 1.58e+01 1ds1A 324 1.62e+01 1drtA b.82.2.2 28127 1pv9A 348 1.76e+01 c.55.2.1 -7610 d.127.1.1 -11000 1im8A 244 1.79e+01 c.66.1.14 66212 1r61A 207 1.80e+01 unknown_sccs -6086 1e1oA 504 1.84e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1vj0A 380 1.86e+01 b.35.1.2 -3697 c.2.1.1 -5721 1hic 51 1.86e+01 4htcI g.3.15.2 44371 1s6tA 285 1.88e+01 c.37.1.5 -7040 1vkjA 285 1.88e+01 1l1zA 274 1.89e+01 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1avmA 201 1.90e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1im5A 180 1.92e+01 unknown_sccs 66211 1hruA 188 1.93e+01 1hruA d.115.1.1 40926 1k7cA 233 2.02e+01 c.23.10.4 68267 1iqvA 218 2.05e+01 1rss a.75.1.1 62661 1mspA 126 2.06e+01 1mspA b.1.11.2 22333 1rl2A 137 2.10e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1nx8A 273 2.11e+01 b.82.2.8 86374 1kbjA 412 2.14e+01 c.1.4.1 72280 4pgaA 337 2.18e+01 4pgaA c.88.1.1 35565 1dbqA 289 2.19e+01 1qpzA c.93.1.1 35666 1a0rP 245 2.21e+01 1b9yC c.47.1.6 33054 1gd7A 109 2.21e+01 b.40.4.4 60441 1a53 247 2.21e+01 1a53 c.1.2.4 28564 1bsmA 201 2.23e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1sxjE 354 2.26e+01 1e0wA 313 2.29e+01 1taxA c.1.8.3 59150 1gmuA 143 2.32e+01 b.107.1.1 65335 d.58.38.1 65336 1js3A 486 2.33e+01 c.67.1.6 67215 1aihA 170 2.34e+01 1aihA d.163.1.1 42149 1h75A 81 2.36e+01 1h75A c.47.1.1 60716 1qc7A 101 2.46e+01 1qc7A a.118.14.1 18456 1iomA 377 2.48e+01 a.103.1.1 83698 1knwA 425 2.55e+01 b.49.2.3 -4274 c.1.6.1 -5229 1ihnA 113 2.56e+01 1ihnA c.103.1.1 62388 1deoA 233 2.60e+01 1deoA c.23.10.4 31345 1q6oA 216 2.64e+01 c.1.2.3 -5162 1aj2 282 2.68e+01 1aj2 c.1.21.1 29665 1m6yA 301 2.71e+01 a.60.13.1 78716 c.66.1.23 78717 1ujnA 348 2.71e+01 e.22.1.1 -11998 1geqA 248 2.75e+01 2tysA c.1.2.4 28589 1kte 105 2.77e+01 1kte c.47.1.1 32771 1njkA 156 2.79e+01 d.38.1.1 85818 1adjA 421 2.81e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1eqcA 394 2.83e+01 1cz1A c.1.8.3 28811 1lfpA 249 2.85e+01 e.39.1.1 73885 1ktgA 138 2.91e+01 d.113.1.1 72972 1g7oA 215 2.92e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1fvuB 125 2.92e+01 1ixxB d.169.1.1 42346 1c0pA 363 2.95e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1umgA 362 2.96e+01 1a99A 344 2.99e+01 1pot c.94.1.1 35812 1qsmA 152 3.01e+01 1qsmA d.108.1.1 40808 1bif 469 3.01e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1od8A 313 3.03e+01 c.1.8.3 86838 1ihoA 283 3.13e+01 1ihoA c.26.1.4 62390 1s72O 116 3.19e+01 1sknP 92 3.20e+01 1sknP a.37.1.1 17127 1g0oA 283 3.21e+01 1ybvA c.2.1.2 60181 1qwgA 251 3.22e+01 unknown_sccs -5678 1lldA 319 3.24e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1iugA 352 3.28e+01 c.67.1.3 -8176 1ou0A 207 3.37e+01 c.23.17.1 -6498 1g60A 260 3.43e+01 c.66.1.11 70151 1p2xA 159 3.52e+01 1r2zA 274 3.54e+01 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1f4qA 165 3.54e+01 1alvA a.39.1.8 17360 1lylA 504 3.54e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1fw9A 164 3.55e+01 1fw9A d.190.1.1 60059 1nv8A 284 3.56e+01 c.66.1.30 86224 1qxoA 388 3.60e+01 unknown_sccs -11161 1ifrA 121 3.61e+01 b.1.16.1 71203 1s1qA 145 3.64e+01 d.20.1.2 -9405 1uuzA 137 3.68e+01 d.233.1.1 -9478 2mspA 126 3.72e+01 1mspA b.1.11.2 22335 1o5oA 221 3.73e+01 c.61.1.1 -7954 1e58A 249 3.75e+01 1qhfA c.60.1.1 59262 1dqpA 230 3.76e+01 1dqnA c.61.1.1 34069 1lw1A 177 3.76e+01 a.152.1.1 74290 1sfsA 240 3.77e+01 c.1.8.8 -5407 1dqnA 230 3.77e+01 1dqnA c.61.1.1 34067 1p9oA 313 3.78e+01 unknown_sccs -8423 1shdA 107 3.84e+01 1fmk d.93.1.1 40440 1vimA 200 3.86e+01 c.80.1.3 -8532 1ng2A 193 3.87e+01 b.34.2.1 85660 b.34.2.1 85661 1qsoA 149 3.87e+01 1qsmA d.108.1.1 40812 1vj1A 363 3.87e+01 b.35.1.2 -3728 c.2.1.1 -5752 1rylA 167 3.88e+01 1nrzA 164 3.90e+01 c.38.1.1 86131 1dbwA 126 3.95e+01 1dbwA c.23.1.1 31095 1h4pA 408 3.98e+01 c.1.8.3 -5314 1xyzA 347 3.99e+01 1taxA c.1.8.3 28804 1g6oA 330 3.99e+01 1g6oA c.37.1.11 32430