# 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 1rlhA 173 5.38e-26 unknown_sccs -10786 1ttzA 87 4.21e-01 1jclA 260 2.01e+00 c.1.10.1 66501 1p1xA 260 2.02e+00 1jcjA 260 2.03e+00 c.1.10.1 66499 1vheA 373 2.23e+00 unknown_sccs -4280 c.56.5.4 -7890 1gp6A 356 2.26e+00 b.82.2.1 65441 1i8jA 323 2.53e+00 1b4kA c.1.10.3 61968 1gp4A 356 2.54e+00 b.82.2.1 65439 1sgoA 139 2.64e+00 unknown_sccs -10487 1lx7A 253 2.67e+00 c.56.2.1 74329 1efvA 315 2.68e+00 1efvA c.26.2.3 31633 c.31.1.2 31728 1l6sA 323 2.79e+00 c.1.10.3 73627 1m3uA 264 2.91e+00 c.1.12.8 84784 1rj9A 304 3.11e+00 a.24.13.1 -631 c.37.1.10 -7129 2cmd 312 3.55e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1g38A 393 3.60e+00 2admA c.66.1.27 60235 1lvwA 295 3.75e+00 c.68.1.6 84723 1b4eA 323 4.19e+00 1b4kA c.1.10.3 29186 1vhmA 195 4.59e+00 d.110.2.1 -10828 1nf5B 286 5.50e+00 c.68.1.2 80454 1pztA 286 5.62e+00 c.68.1.2 -8213 1nmmB 286 5.68e+00 c.68.1.2 80662 1fc4A 401 5.98e+00 1bs0A c.67.1.4 59760 1jn8B 273 6.63e+00 1g97A 459 6.65e+00 1fwyA b.81.1.4 60394 c.68.1.5 60395 1rfmA 344 6.66e+00 c.122.1.1 -8032 1fgxA 288 6.70e+00 1fgxA c.68.1.2 34508 1twdA 256 6.78e+00 1hm9A 468 6.95e+00 b.81.1.4 65866 c.68.1.5 65867 1pyfA 312 6.97e+00 c.1.7.1 -5251 1j8wB 273 7.18e+00 1va4A 279 7.24e+00 1l6wA 220 7.33e+00 c.1.10.1 73632 1j79A 347 7.42e+00 1j79A c.1.9.4 62675 1osdA 72 7.81e+00 1hyeA 313 8.04e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1uz5A 402 8.55e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1rxyA 253 8.84e+00 c.56.2.1 -7834 1gntA 553 8.86e+00 e.26.1.1 70290 1e2uA 553 8.89e+00 1e1dA e.26.1.1 43362 1fxqA 267 8.89e+00 1d9eA c.1.10.4 60108 1lroA 267 8.91e+00 c.1.10.4 78161 1fxpA 267 9.02e+00 1d9eA c.1.10.4 60106 1fwsA 267 9.10e+00 1d9eA c.1.10.4 60063 1jcxA 267 9.25e+00 c.1.10.4 66510 2bc2B 227 9.46e+00 1a7tA d.157.1.1 42032 1b43A 340 9.64e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 1skyB 502 1.00e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1pe1A 267 1.03e+01 c.1.10.4 -5553 1qfeA 252 1.04e+01 1qfeA c.1.10.1 29167 1ddgA 374 1.09e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1vkfA 188 1.11e+01 1gqnA 252 1.14e+01 c.1.10.1 -5494 1zid 268 1.17e+01 1eny c.2.1.2 29911 1vkmA 297 1.17e+01 1mzhA 225 1.17e+01 c.1.10.1 79698 1k3fA 253 1.18e+01 c.56.2.1 68105 1cvrA 435 1.19e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 1kqzA 273 1.24e+01 c.1.8.5 68844 1ej6A 1289 1.27e+01 i.7.1.1 45967 1o60A 292 1.29e+01 c.1.10.4 -5549 1e55A 512 1.30e+01 1e70M c.1.8.4 28934 1id0A 152 1.34e+01 d.122.1.3 66111 1h49A 512 1.38e+01 c.1.8.4 83477 1e1dA 553 1.38e+01 1e1dA e.26.1.1 43363 1ub3A 220 1.38e+01 c.1.10.1 88395 1gdoB 240 1.40e+01 1gdoA d.153.1.1 41805 2bc2A 227 1.40e+01 1a7tA d.157.1.1 42031 2admA 421 1.46e+01 2admA c.66.1.27 34238 1f2vA 219 1.50e+01 1f2vA c.23.17.1 59627 1l9wA 252 1.60e+01 c.1.10.1 84570 1o4vA 183 1.62e+01 c.23.8.1 86628 1qr7A 350 1.63e+01 1qr7A c.1.10.4 29191 1fc6A 388 1.64e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1ir6A 424 1.66e+01 c.107.1.2 71342 1gg1A 350 1.66e+01 1qr7A c.1.10.4 29187 1jflA 228 1.70e+01 c.78.2.1 71656 c.78.2.1 71657 1e8cA 498 1.75e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1mqoA 227 1.77e+01 1gt91 357 1.87e+01 1gdoA 240 1.88e+01 1gdoA d.153.1.1 41804 1uayA 242 1.89e+01 c.2.1.2 88390 1j5pA 253 1.90e+01 c.2.1.3 83092 d.81.1.3 71577 1h6kZ 98 1.90e+01 d.58.7.1 60686 1n8fA 350 1.94e+01 c.1.10.4 85397 1d2eA 397 1.96e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1qwgA 251 1.98e+01 unknown_sccs -5678 1aqjA 421 1.98e+01 2admA c.66.1.27 34242 1h6kX 97 2.01e+01 d.58.7.1 60684 1jg1A 235 2.01e+01 c.66.1.7 66661 1qlmA 316 2.05e+01 1qlmA d.147.1.1 41765 1o1zA 234 2.07e+01 c.1.18.3 86555 1atg 231 2.08e+01 1atg c.94.1.1 35834 1ea0A 1479 2.09e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1brlA 355 2.11e+01 1lucA c.1.16.1 29553 1e9iA 431 2.11e+01 c.1.11.1 64818 d.54.1.1 64819 1jpnA 296 2.12e+01 a.24.13.1 67039 c.37.1.10 67040 1ujnA 348 2.12e+01 e.22.1.1 -11998 1qdlA 422 2.17e+01 1qdlA d.161.1.1 42088 1ej0A 180 2.21e+01 1ej0A c.66.1.2 34179 1oeyJ 107 2.22e+01 d.15.2.2 -9168 1oi7A 288 2.23e+01 c.2.1.8 87049 c.23.4.1 87050 1og6A 298 2.24e+01 c.1.7.1 86984 1mjfA 281 2.27e+01 c.66.1.17 79198 1odkA 235 2.30e+01 c.56.2.1 86863 1ls1A 295 2.32e+01 a.24.13.1 78170 c.37.1.10 78171 1ejjA 511 2.38e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1g2qA 187 2.39e+01 c.61.1.1 65117 1egr 85 2.40e+01 1kte c.47.1.1 32765 1nj4A 363 2.52e+01 b.105.1.1 80545 e.3.1.1 80546 1tfr 305 2.56e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 2ng1 293 2.56e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1un8A 552 2.59e+01 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401 1kwmA 402 2.66e+01 c.56.5.1 73079 d.58.3.1 73080 1a7aA 432 2.67e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1ccwA 137 2.72e+01 1be1 c.23.6.1 31238 1tvfA 369 2.73e+01 1eqjA 511 2.76e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1i52A 236 2.83e+01 1i52A c.68.1.13 61767 1lucA 355 2.86e+01 1lucA c.1.16.1 29547 1f8yA 157 2.88e+01 1f8xA c.23.14.1 31395 1dik 874 2.90e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ng1 294 2.90e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1l0qA 391 2.95e+01 b.1.3.1 77644 b.69.2.3 77645 1ej2A 181 2.98e+01 1f9aA c.26.1.3 59414 1yagA 375 3.06e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1cjsA 219 3.08e+01 1cjsA e.24.1.1 43354 1d2sA 170 3.11e+01 1d2sA b.29.1.4 24221 1o98A 511 3.12e+01 c.105.1.1 86684 c.76.1.3 86685 1exnB 290 3.12e+01 1exnA a.60.7.1 18089 c.120.1.2 33359 1o2dA 371 3.13e+01 e.22.1.2 86591 1kbjA 412 3.14e+01 c.1.4.1 72280 1qycA 308 3.19e+01 c.2.1.2 -5782 1kdkA 177 3.19e+01 b.29.1.4 72351 1f8xA 157 3.20e+01 1f8xA c.23.14.1 31397 1pa2A 306 3.21e+01 1bgp a.93.1.1 18693 1e6qM 501 3.21e+01 1e70M c.1.8.4 28920 1nvmA 345 3.28e+01 a.5.7.1 86249 c.1.10.5 86250 1e70M 501 3.30e+01 1e70M c.1.8.4 28926 1gthA 1025 3.31e+01 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1e4mM 501 3.32e+01 1e70M c.1.8.4 59226 1ne9A 335 3.32e+01 d.108.1.4 -10805 d.108.1.4 -10806 2hvm 273 3.33e+01 1cnv c.1.8.5 28985 1gqyA 475 3.35e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1rlaA 323 3.36e+01 1d3vA c.42.1.1 32561 1qpbA 563 3.37e+01 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1jksA 294 3.38e+01 d.144.1.7 71710 1i2aA 219 3.39e+01 e.24.1.1 -12012 1bxsA 501 3.41e+01 1bpwA c.82.1.1 35357 1kekA 1231 3.44e+01 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 1m1nB 522 3.44e+01 c.92.2.3 78418 1h7wA 1025 3.50e+01 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1de6A 426 3.50e+01 1de5A c.1.15.2 29398 1eny 268 3.52e+01 1eny c.2.1.2 29910 1qcwA 410 3.53e+01 1gox c.1.4.1 28622 1h7wB 1025 3.53e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1v95A 130 3.59e+01 1i6wA 181 3.61e+01 1i6wA c.69.1.18 61859 1q1lA 401 3.61e+01 unknown_sccs -11166 1l2uA 245 3.67e+01 c.1.2.3 73516 1f5fA 205 3.72e+01 1d2sA b.29.1.4 24222 1ltdA 506 3.73e+01 1gox c.1.4.1 28618 d.120.1.1 41086 3minB 522 3.73e+01 1qguB c.92.2.3 35606 1b0pA 1231 3.74e+01 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 2minB 522 3.77e+01 1qguB c.92.2.3 35610 1rxwA 336 3.78e+01 a.60.7.1 -1041 c.120.1.2 -6680 1ispA 181 3.78e+01 c.69.1.18 76778 1v1rA 400 3.79e+01 1nzoA 363 3.80e+01 b.105.1.1 -2933 e.3.1.1 -11784 1eu8A 409 3.81e+01 1eu8A c.94.1.1 59502 1es4A 262 3.86e+01 1skf e.3.1.1 42683 1h7wD 1025 3.91e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1gteD 1025 3.91e+01 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1r64A 481 3.92e+01 b.18.1.20 -3151 c.41.1.1 -7297 1p3dA 475 3.96e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1scuA 288 3.99e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1k8eA 345 3.99e+01 1o17A 345 3.99e+01 a.46.2.1 80765 c.27.1.1 80766 1qydA 313 3.99e+01 c.2.1.2 -5786