# List of top-scoring protein chains for t04-100-30-bys 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 1h2kA 349 2.94e-27 b.82.2.6 76572 1fi2A 201 3.97e-05 1fi2A b.82.1.2 59845 2arcA 164 6.77e-04 2arcA b.82.4.1 28148 1o4tA 133 8.80e-04 b.82.1.9 86622 1plzA 189 6.67e-03 b.82.1.7 88160 1qwrA 319 1.05e-02 b.82.1.3 -4880 1qxrA 189 1.15e-02 b.82.1.7 -4834 1lr5A 163 1.47e-02 b.82.1.2 74215 1j58A 385 1.87e-02 b.82.1.2 71531 1dgwA 178 2.28e-02 1dgwA b.82.1.2 28090 1e5rA 290 5.44e-02 1e5rA b.82.2.4 59276 1od5A 492 1.24e-01 b.82.1.2 86832 b.82.1.2 86833 1nxmA 197 1.83e-01 b.82.1.1 86385 1jm6A 407 2.35e-01 a.29.5.1 66876 d.122.1.4 66877 1dgwY 93 2.80e-01 1caxB 2phlA 397 4.37e-01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1ofnA 205 8.15e-01 b.82.1.1 -4830 1oi6A 205 8.39e-01 1igs 248 8.69e-01 1a53 c.1.2.4 28565 1knwA 425 1.09e+00 b.49.2.3 -4274 c.1.6.1 -5229 1a8s 273 1.10e+00 1brt c.69.1.12 34710 1a53 247 1.11e+00 1a53 c.1.2.4 28564 1nrfA 262 1.41e+00 e.3.1.1 -11780 1qhoA 686 1.83e+00 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1byqA 228 1.89e+00 1yer d.122.1.1 41100 1sv6A 269 1.89e+00 1mrzA 293 1.95e+00 b.43.5.1 -4048 c.26.1.3 -6616 1d2nA 272 2.03e+00 1d2nA c.37.1.20 32428 1kjvA 284 2.05e+00 b.1.1.2 77421 d.19.1.1 77422 1ut7A 171 2.21e+00 unknown_sccs -4724 1htqA 477 2.62e+00 d.15.9.1 71035 d.128.1.1 71036 1v7nV 163 2.72e+00 a.26.1.2 -715 1ptmA 329 2.77e+00 unknown_sccs -8456 1adt 356 2.78e+00 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1ep0A 185 2.85e+00 1dzrA b.82.1.1 28080 1o5uA 101 3.36e+00 b.82.1.8 -4845 1o1yA 239 3.38e+00 c.23.16.1 86554 1m2kA 249 3.60e+00 c.31.1.5 84754 1euwA 152 3.87e+00 1dupA b.85.4.1 28349 1dgwX 79 4.09e+00 1caxB b.82.1.2 28091 1vpt 348 4.14e+00 3mag c.66.1.25 34207 1dar 691 4.20e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1js8A 394 4.74e+00 a.86.1.1 67219 b.112.1.1 67220 1uok 558 4.78e+00 1uok b.71.1.1 27801 c.1.8.1 28788 1d2eA 397 5.84e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1vp9 322 5.96e+00 3mag c.66.1.25 34210 3mag 307 6.13e+00 3mag c.66.1.25 34205 1dhr 241 6.33e+00 1dhr c.2.1.2 29832 1su4A 994 6.56e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1ly1A 181 6.59e+00 c.37.1.1 74334 1iupA 282 6.76e+00 c.69.1.10 76815 1uyrA 737 6.79e+00 c.14.1.4 -6258 c.14.1.4 -6259 1v39 322 6.85e+00 3mag c.66.1.25 34206 1ne9A 335 7.05e+00 d.108.1.4 -10805 d.108.1.4 -10806 1uylA 236 7.60e+00 1mkeA 152 7.71e+00 b.55.1.4 79231 1jqnA 883 8.24e+00 c.1.12.3 77159 1yacA 208 8.34e+00 1yacA unknown_sccs 31757 1tf4A 605 8.65e+00 1tf4A a.102.1.2 18827 b.2.2.2 22393 1jmsA 381 8.68e+00 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1n5dA 288 8.77e+00 c.2.1.2 80030 1nsf 273 8.79e+00 1d2nA c.37.1.20 32429 1j5sA 463 9.39e+00 c.1.9.8 71580 1p4cA 380 9.97e+00 c.1.4.1 -5201 1hu4A 288 1.00e+01 1hu4A 1bqk 124 1.02e+01 1bqk b.6.1.1 22889 1g5aA 628 1.05e+01 b.71.1.1 65152 c.1.8.1 65153 1paz 123 1.06e+01 1bqk b.6.1.1 22878 1id2A 106 1.07e+01 1aac b.6.1.1 62288 1mdbA 539 1.09e+01 e.23.1.1 79008 1m1nB 522 1.10e+01 c.92.2.3 78418 1kyqA 274 1.12e+01 c.2.1.11 73281 e.37.1.1 73282 1squA 155 1.13e+01 unknown_sccs -10229 1aohA 147 1.13e+01 1aohA b.2.2.2 22401 1xo1A 291 1.14e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1g2bA 62 1.23e+01 1tud b.34.2.1 24488 7odcA 424 1.24e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1ktbA 405 1.30e+01 b.71.1.1 72960 c.1.8.1 72961 1upiA 225 1.33e+01 b.82.1.1 -4823 1fiy 883 1.36e+01 1fiy c.1.12.3 29307 2ng1 293 1.37e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1vj2A 126 1.39e+01 unknown_sccs -4850 1n6aA 259 1.39e+01 b.76.2.1 80121 b.85.7.1 80122 1mh1 186 1.40e+01 1eesA c.37.1.8 32002 1d3cA 686 1.41e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1exmA 405 1.52e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1cruA 454 1.53e+01 1c9uA b.68.2.1 27617 1ht6A 405 1.56e+01 b.71.1.1 83629 c.1.8.1 83630 1gsa 316 1.57e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1g291 372 1.60e+01 1g291 1s8iA 121 1.66e+01 a.133.1.2 -1968 1p9bA 442 1.75e+01 c.37.1.10 -7115 1uumA 372 1.77e+01 c.1.4.1 -5193 1tuc 63 1.78e+01 1tuc b.34.2.1 24492 1gntA 553 1.80e+01 e.26.1.1 70290 1bjwA 382 1.81e+01 1bjwA c.67.1.1 34349 1iirA 415 1.81e+01 1iirA c.87.1.5 62453 1e2uA 553 1.82e+01 1e1dA e.26.1.1 43362 1b5pA 385 1.85e+01 c.67.1.1 -8133 1rcf 169 1.87e+01 1rcf c.23.5.1 31170 1vhcA 224 1.94e+01 c.1.10.1 -5488 1mzjA 339 1.98e+01 c.95.1.1 79700 c.95.1.1 79701 1anv 356 1.98e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1it2A 146 1.99e+01 a.1.1.2 66365 1ut8A 291 2.03e+01 a.60.7.1 -1036 c.120.1.2 -6675 1juhA 350 2.09e+01 b.82.1.5 71884 1ui0A 205 2.16e+01 c.18.1.2 -6328 1j8fA 323 2.16e+01 1j8fA c.31.1.5 62738 1pht 85 2.17e+01 1ckaA b.34.2.1 24483 1rc6A 261 2.18e+01 unknown_sccs -4868 1g8sA 230 2.23e+01 c.66.1.3 -8047 1qo2A 241 2.25e+01 1qo2A c.1.2.1 28533 1qgtA 149 2.28e+01 1qgtA a.62.1.1 18135 1d2fA 390 2.31e+01 1d2fA c.67.1.3 34411 1hdr 244 2.33e+01 1dhr c.2.1.2 29837 1kgsA 225 2.33e+01 a.4.6.1 68596 c.23.1.1 68597 1pvvA 315 2.39e+01 c.78.1.1 -8495 c.78.1.1 -8496 1e8gA 560 2.46e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1aoeA 192 2.49e+01 1aoeA c.71.1.1 34923 1cznA 169 2.54e+01 1rcf c.23.5.1 31181 1iv8A 720 2.55e+01 b.71.1.1 76842 c.1.8.1 76843 1enp 312 2.62e+01 1enp c.2.1.2 29906 1hfoA 113 2.67e+01 d.80.1.3 61006 1gpuA 680 2.74e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1ad3A 452 2.75e+01 1ad3A c.82.1.1 35335 1m7bA 184 2.76e+01 c.37.1.8 74572 1ha3A 405 2.85e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1ra9 159 2.92e+01 1vdrA c.71.1.1 34820 1d7oA 297 2.95e+01 1enp c.2.1.2 29907 1o7tA 309 3.00e+01 c.94.1.1 86645 1ojxA 263 3.02e+01 c.1.10.1 -5445 1ifrA 121 3.06e+01 b.1.16.1 71203 1ko3A 230 3.09e+01 d.157.1.1 -11454 1d3gA 367 3.11e+01 1d3gA c.1.4.1 28600 1pgl2 370 3.14e+01 1ifqA 138 3.21e+01 1ifqA d.110.4.1 62350 1lwjA 441 3.25e+01 b.71.1.1 74303 c.1.8.1 74304 1amy 403 3.26e+01 1jdc b.71.1.1 27799 c.1.8.1 28786 1cb8A 678 3.32e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1dcs 311 3.36e+01 1dcs b.82.2.1 28124 1ds1A 324 3.40e+01 1drtA b.82.2.2 28127 1ls1A 295 3.49e+01 a.24.13.1 78170 c.37.1.10 78171 1an9A 340 3.53e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1j1lA 290 3.54e+01 unknown_sccs -4877 1bn7A 294 3.63e+01 1bn6A c.69.1.8 34677 1v5lA 103 3.67e+01 1orvA 728 3.69e+01 b.70.3.1 87354 c.69.1.24 87355 1gx3A 284 3.88e+01 d.3.1.5 70678 1d8dB 437 3.90e+01 1ft1B a.102.4.3 18866 1ppa 121 3.92e+01 1poa a.133.1.2 19550 1avaA 403 3.96e+01 1jdc b.71.1.1 27797 c.1.8.1 28784