# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1dbxA 158 1.79e-15 1dbuA d.116.1.1 40928 1vjfA 180 6.57e-12 d.116.1.1 -10941 1vkiA 181 2.02e-11 1nnlA 225 7.30e-01 c.108.1.4 85906 1o4vA 183 1.56e+00 c.23.8.1 86628 1nv8A 284 2.04e+00 c.66.1.30 86224 1pyoA 167 2.08e+00 c.17.1.1 -7932 7odcA 424 2.23e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1rpjA 288 2.48e+00 2dri c.93.1.1 35656 1np6A 174 2.53e+00 c.37.1.10 85954 1n97A 389 2.74e+00 a.104.1.1 80335 1j0fA 100 2.85e+00 unknown_sccs -7483 1bmqA 167 3.23e+00 1pauA c.17.1.1 30998 1l1qA 186 3.39e+00 c.61.1.1 77653 1oniA 137 3.58e+00 d.79.1.1 87144 1o5oA 221 3.67e+00 c.61.1.1 -7954 1hu4A 288 3.69e+00 1hu4A 1n5dA 288 3.72e+00 c.2.1.2 80030 1gudA 288 3.83e+00 c.93.1.1 83326 1qu9A 128 3.88e+00 1qu9A d.79.1.1 39755 1qahA 136 3.89e+00 d.79.1.1 -10377 1dekA 241 4.11e+00 1dekA c.37.1.1 31842 1lt5D 103 4.42e+00 3chbD b.40.2.1 24875 1djrD 103 4.56e+00 3chbD b.40.2.1 24865 1uroA 367 4.71e+00 1uroA c.1.22.1 29675 1dkuA 317 4.99e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1vicA 262 5.12e+00 c.68.1.13 -8252 1efvB 255 5.39e+00 1efvB c.26.2.3 31634 1kngA 156 5.45e+00 c.47.1.10 72777 1dc1A 323 5.50e+00 1dc1A c.52.1.11 33321 1i2aA 219 5.65e+00 e.24.1.1 -12012 1ktgA 138 6.03e+00 d.113.1.1 72972 1b7gO 340 6.71e+00 1b7gO c.2.1.3 29992 d.81.1.1 39907 1nd7A 374 6.85e+00 d.148.1.1 -11394 1914 232 7.02e+00 1914 d.49.1.1 83028 d.49.1.1 83029 1p57B 255 7.45e+00 b.47.1.2 -4248 3kvt 115 7.47e+00 1t1dA d.42.1.2 38642 1h2kA 349 7.84e+00 b.82.2.6 76572 1bif 469 8.30e+00 1bif c.37.1.7 31961 c.60.1.4 34003 1i5pA 633 8.76e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1pbe 394 9.51e+00 1pbe c.3.1.2 30338 d.16.1.2 37869 1o6dA 163 9.52e+00 c.116.1.3 -6689 1t1vA 93 9.69e+00 1d4oA 184 9.85e+00 1d4oA c.31.1.4 31748 1g99A 408 9.90e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1h75A 81 9.91e+00 1h75A c.47.1.1 60716 1izcA 339 9.96e+00 c.1.12.5 83838 1k0iA 394 1.02e+01 c.3.1.2 67942 d.16.1.2 67943 1aba 87 1.02e+01 1aba c.47.1.1 32760 1i74A 309 1.02e+01 1i74A c.107.1.1 61867 1ogwA 76 1.03e+01 d.15.1.1 87001 1ubi 76 1.04e+01 1ubi d.15.1.1 37584 9gafA 295 1.07e+01 1apyA d.153.1.5 42008 1p4kA 295 1.08e+01 d.153.1.5 87772 1k6dA 220 1.09e+01 unknown_sccs 72082 1r3sA 367 1.30e+01 c.1.22.1 -5648 1iv3A 152 1.32e+01 d.79.5.1 76828 1v84A 253 1.38e+01 2tpsA 227 1.44e+01 2tpsA c.1.3.1 28591 1nddA 76 1.46e+01 1ubi d.15.1.1 37599 1qtrA 317 1.46e+01 1qtrA c.69.1.7 34660 1regX 122 1.49e+01 1regX d.58.27.1 39406 1jg8A 347 1.49e+01 1jg8A c.67.1.1 62946 1m6sA 347 1.49e+01 c.67.1.1 78701 1r6dA 337 1.53e+01 c.2.1.2 -5757 1t5jA 313 1.53e+01 unknown_sccs -1951 1l7mA 211 1.54e+01 c.108.1.4 73664 1jykA 254 1.58e+01 c.68.1.13 67458 1em8B 112 1.59e+01 unknown_sccs -6364 1ijgA 309 1.60e+01 1fouA e.27.1.1 62493 1nq6A 302 1.63e+01 c.1.8.3 -5332 1qczA 169 1.66e+01 1qczA c.23.8.1 31276 1hcl 298 1.67e+01 1hcl d.144.1.7 41593 1a8rA 221 1.73e+01 1a8rA d.96.1.1 40587 1axdA 209 1.77e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1jd1A 129 1.77e+01 1qu9A d.79.1.1 62890 1vhsA 175 1.79e+01 d.108.1.1 -10794 1m2oA 768 1.83e+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 1bi5A 389 1.83e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1f3aA 222 1.86e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1hnjA 317 1.89e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1a2vA 655 1.90e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1vkfA 188 1.92e+01 1mb3A 124 1.93e+01 c.23.1.1 78907 1gtvA 214 1.94e+01 c.37.1.1 70537 1qd9A 124 1.94e+01 1qu9A d.79.1.1 39758 1dabA 539 2.01e+01 1dabA b.80.1.7 28049 1h7nA 342 2.02e+01 1b4kA c.1.10.3 60726 1i58A 189 2.04e+01 1b3qA d.122.1.3 61773 1oaa 259 2.06e+01 1oaa c.2.1.2 29829 1ejgA 46 2.08e+01 1cbn g.13.1.1 44618 1st9A 143 2.08e+01 c.47.1.10 -7503 1j97A 211 2.13e+01 1f5sA c.108.1.4 62753 1whsB 153 2.17e+01 1whtB 1ru8A 232 2.19e+01 c.26.2.1 -6635 2hlcA 230 2.20e+01 5ptp b.47.1.2 26074 1ohlA 342 2.21e+01 c.1.10.3 87035 1q5yA 85 2.23e+01 unknown_sccs -10081 1ku3A 73 2.30e+01 a.4.13.2 73000 1vhvA 268 2.30e+01 c.90.1.1 -8619 1vi2A 300 2.34e+01 c.2.1.7 -5960 c.58.1.5 -6366 1gdhA 320 2.35e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1nrjA 158 2.35e+01 d.110.4.4 86124 1huxA 270 2.35e+01 1huxA c.55.1.5 61278 1dbgA 506 2.36e+01 1dbgA b.80.1.4 28033 1dboA 506 2.38e+01 1dbgA b.80.1.4 28034 1ahxA 396 2.40e+01 1ajsA c.67.1.1 34293 1whtB 153 2.41e+01 1whtB 1iloA 77 2.41e+01 c.47.1.1 66205 1j6pA 418 2.47e+01 b.92.1.4 77089 c.1.9.9 77090 1rwyA 109 2.53e+01 a.39.1.4 -825 1p1mA 406 2.57e+01 b.92.1.4 87696 c.1.9.9 87697 1pz1A 333 2.60e+01 c.1.7.1 -5255 1qisA 396 2.60e+01 1ajsA c.67.1.1 34284 1rthA 560 2.63e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1hv9A 456 2.64e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1n8nA 212 2.66e+01 unknown_sccs -6830 1s9uA 207 2.67e+01 1fs7A 485 2.69e+01 1qdbA a.138.1.3 19691 1sh0A 510 2.69e+01 e.8.1.4 -11949 1oc2A 348 2.70e+01 c.2.1.2 -5753 1m7bA 184 2.71e+01 c.37.1.8 74572 1gveA 327 2.71e+01 c.1.7.1 70597 1kepA 348 2.71e+01 c.2.1.2 68536 1f6bA 198 2.72e+01 c.37.1.8 64986 1cr5A 189 2.73e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1vgyA 393 2.74e+01 c.56.5.4 -7882 d.58.19.1 -10106 1gd0A 122 2.76e+01 1dptA d.80.1.3 39834 2sas 185 2.77e+01 2sas a.39.1.5 17258 1rlkA 117 2.79e+01 unknown_sccs -7526 1a7s 221 2.80e+01 1a7s b.47.1.2 26284 1gewA 356 2.81e+01 1gewA c.67.1.1 60470 1bebA 162 2.82e+01 1bebA b.60.1.1 27115 1fukA 165 2.84e+01 1fukA c.37.1.19 32409 1omwA 689 2.85e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1eziA 228 2.85e+01 1eyrA c.68.1.13 34512 5pal 109 2.86e+01 1a75A a.39.1.4 17215 1sesA 421 2.89e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1s6yA 450 2.89e+01 1nnwA 252 2.90e+01 d.159.1.5 80674 1v32A 101 2.97e+01 a.42.1.1 -912 1v02A 565 3.10e+01 1j8mF 297 3.16e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ako 268 3.19e+01 1ako d.151.1.1 41779 1rg9A 383 3.25e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1a0cA 438 3.29e+01 1a0cA c.1.15.3 29529 1pufB 73 3.30e+01 a.4.1.1 -192 1j9iA 68 3.32e+01 a.6.1.5 71619 1q1hA 110 3.34e+01 unknown_sccs -262 1kqwA 134 3.39e+01 b.60.1.2 72887 3chbD 104 3.40e+01 3chbD b.40.2.1 24970 1n7hA 381 3.41e+01 c.2.1.2 80250 1eemA 241 3.42e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1srrA 124 3.44e+01 1dz3A c.23.1.1 31110 1bf6A 291 3.45e+01 1pscA c.1.9.3 29065 1k3yA 221 3.45e+01 a.45.1.1 77245 c.47.1.5 77246 1o0wA 252 3.45e+01 a.149.1.1 80751 d.50.1.1 80752 1d2mA 665 3.48e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1whi 122 3.53e+01 1whi b.39.1.1 24810 1ev0A 58 3.55e+01 1ev0A d.71.1.1 39594 1gtmA 419 3.55e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1dpgA 485 3.59e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1b72B 87 3.71e+01 1akhA a.4.1.1 16001 1bt0A 76 3.71e+01 1ubi d.15.1.1 37607 1ars 396 3.77e+01 1ajsA c.67.1.1 34287 1o6zA 303 3.77e+01 c.2.1.5 81107 d.162.1.1 81108 1f4lA 551 3.84e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1rhcA 330 3.86e+01 c.1.16.3 -5606 1jr2A 286 3.88e+01 c.113.1.1 67111 1nbwB 117 3.88e+01 c.51.3.2 80396 1mx3A 347 3.88e+01 c.2.1.4 79638 c.23.12.1 79639 1noyA 388 3.89e+01 1clqA c.55.3.5 33713 1qlmA 316 3.89e+01 1qlmA d.147.1.1 41765 1id1A 153 3.91e+01 1id1A c.2.1.9 62286 1t2aA 375 3.92e+01 c.2.1.2 -5764 1q6oA 216 3.95e+01 c.1.2.3 -5162 1cozA 129 3.96e+01 1cozA c.26.1.2 31598 1jlyA 304 3.97e+01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1qcwA 410 3.99e+01 1gox c.1.4.1 28622