# List of top-scoring protein chains for t06-100-30-bys-scores 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 2c46A 241 3.49e-01 1ysrA 150 6.25e-01 2cohA 202 9.12e-01 1r6xA 395 9.74e-01 b.122.1.3,c.26.1.5 97167,97168 1s6cA 183 1.47e+00 a.39.1.5 98594 1ifqA 138 1.67e+00 1ifqA d.110.4.1 62350 1dmhA 311 1.81e+00 1dmhA b.3.6.1 22633 1ym3A 215 1.85e+00 1zbsA 291 3.00e+00 1zejA 293 3.12e+00 1ylmA 144 3.32e+00 2d0sA 79 3.96e+00 1uf2A 1019 4.72e+00 e.28.1.2 99289 1vr5A 547 6.81e+00 1irdA 141 6.98e+00 a.1.1.2 66286 2a1xA 308 7.34e+00 1sfkA 76 7.46e+00 a.190.1.1 105488 1i7hA 111 8.12e+00 d.15.4.1 71122 1r9kA 172 8.47e+00 a.168.1.1 104869 2clbA 188 8.79e+00 2herA 368 9.91e+00 2a7kA 250 9.92e+00 1elvA 333 1.07e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1amuA 563 1.09e+01 1amuA e.23.1.1 43351 1m2dA 110 1.13e+01 c.47.1.11 78476 1kqfC 217 1.14e+01 f.21.1.1 72874 1d3gA 367 1.15e+01 1d3gA c.1.4.1 28600 1ofcX 304 1.23e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1gr0A 367 1.26e+01 c.2.1.3,d.81.1.3 70379,70380 2drwA 363 1.32e+01 2d83A 363 1.32e+01 1t1vA 93 1.40e+01 c.47.1.14 106278 1bxvA 91 1.44e+01 1aac b.6.1.1 22875 2g0qA 173 1.44e+01 1e0eA 55 1.51e+01 1wjcA a.4.10.1 59147 1zd7A 159 1.52e+01 1sumB 235 1.56e+01 a.7.12.1 106025 1cmcA 104 1.57e+01 1cmbA a.43.1.5 17462 1t0qC 86 1.78e+01 d.15.12.1 106222 1oohA 126 1.80e+01 a.39.2.1 93383 1ztsA 139 1.87e+01 1jsuC 84 2.04e+01 1jsuC j.55.1.1 46339 1ofzA 312 2.08e+01 b.68.8.1 86978 1djtA 64 2.11e+01 1aho g.3.7.1 44132 1uok 558 2.11e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1s8nA 205 2.12e+01 c.23.1.1 105374 1nmoA 247 2.15e+01 c.135.1.1 91980 1eexA 554 2.16e+01 1dioA c.1.19.3 29650 2d2yA 145 2.19e+01 1gzsB 165 2.29e+01 a.168.1.1 76425 1sqhA 312 2.30e+01 d.108.1.5 98966 1d4aA 273 2.34e+01 1d4aA c.23.5.3 31219 1hx1B 114 2.37e+01 1hx1B a.7.7.1 61350 1gvdA 52 2.51e+01 a.4.1.3 83338 1gmlA 178 2.53e+01 c.8.5.2 70273 1vp7A 100 2.53e+01 1l5oA 356 2.58e+01 c.39.1.1 77711 2h79A 269 2.58e+01 1zz1A 369 2.61e+01 1whsA 255 2.64e+01 1ivyA c.69.1.5 34649 1jvr 137 2.67e+01 1jvr a.61.1.2 18132 1zkiA 133 2.67e+01 1bdb 277 2.75e+01 1bdb c.2.1.2 29874 1ow4A 129 2.79e+01 a.39.2.1 93628 1kv0A 66 2.83e+01 g.3.7.1 91040 1zm7A 230 2.88e+01 2f4mB 61 2.99e+01 1wl8A 189 3.10e+01 1pinA 163 3.10e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1itbB 315 3.15e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1r29A 127 3.17e+01 d.42.1.1 96856 1q4uA 151 3.23e+01 d.38.1.5 95828 1bqbA 301 3.23e+01 1hyt d.92.1.2 58962 1w0uA 55 3.34e+01 2d9bA 109 3.36e+01 2d5xA 141 3.48e+01 1eueA 86 3.59e+01 1cyo d.120.1.1 59504 1x8gA 227 3.59e+01 1n00A 321 3.60e+01 a.65.1.1 85241 7taa 478 3.77e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1ojrA 274 3.78e+01 c.74.1.1 93147 1ojhA 65 3.83e+01 a.214.1.1 103976 1u7gA 385 4.10e+01 f.44.1.1 107723 1gw5S 142 4.15e+01 d.110.4.2 70633 2fueA 262 4.26e+01 1r0pA 312 4.44e+01 d.144.1.7 96734 1plc 99 4.47e+01 1plc b.6.1.1 22846 1x3xA 82 4.54e+01 1qsgA 265 4.95e+01 1eny c.2.1.2 29935 1u5uA 374 5.12e+01 2d0oA 610 5.13e+01 1q1aA 289 5.16e+01 c.31.1.5 95561 1l7vA 326 5.21e+01 f.22.1.1 73672 1gox 370 5.30e+01 1gox c.1.4.1 28607 1hm6A 346 5.44e+01 1avc a.65.1.1 18147 2dkaA 544 5.48e+01 2gk9A 426 5.52e+01 1zcjA 463 5.55e+01 1dbqA 289 5.55e+01 1qpzA c.93.1.1 35666 1wmuA 141 5.65e+01 a.1.1.2 109416 1xmpA 170 5.66e+01 1orvA 728 5.75e+01 b.70.3.1,c.69.1.24 87354,87355 1q35A 320 5.78e+01 c.94.1.1 95661 2pspA 106 5.88e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1kblA 873 5.88e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ypqA 135 5.91e+01 1sv6A 269 5.94e+01 d.177.1.1 106043 1cxzB 86 6.00e+01 1cxzB a.2.6.1 15705 2ddfA 257 6.01e+01 2f1rA 171 6.03e+01 1q0uA 219 6.06e+01 c.37.1.19 95512 1j6wA 175 6.11e+01 1j98A d.185.1.2 62663 2cw5A 255 6.17e+01 1suuA 312 6.18e+01 b.68.10.1 99006 1dd9A 338 6.49e+01 1dd9A e.13.1.1 43254 1qw9A 502 6.59e+01 b.71.1.2,c.1.8.3 96466,96467 1reqA 727 6.70e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1lldA 319 6.84e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2fbqA 235 6.86e+01 1rwzA 245 6.88e+01 d.131.1.2,d.131.1.2 98005,98006 1j75A 67 6.95e+01 a.4.5.19 62673 1im8A 244 7.00e+01 c.66.1.14 66212 1ii5A 233 7.01e+01 c.94.1.1 62412 1ykiA 217 7.13e+01 1jf3A 147 7.21e+01 a.1.1.2 71642 1qwgA 251 7.23e+01 c.1.27.1 96473 2c5rA 67 7.24e+01 2f9dA 125 7.27e+01 1hyp 80 7.38e+01 1hyp a.52.1.1 17806 2g8lA 299 7.42e+01 1ew4A 106 7.55e+01 1ew4A d.82.2.1 40023 1uwmA 106 7.63e+01 1odzA 386 7.72e+01 c.1.8.3 86889 1i8oA 114 7.76e+01 1ycc a.3.1.1 61979 1o63A 219 7.80e+01 c.94.1.1 92540 1pvdA 537 7.85e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1i3zA 103 8.05e+01 d.93.1.1 83667 2es7A 142 8.16e+01 1bbzA 58 8.27e+01 1bbzA b.34.2.1 24477 2gncA 60 8.29e+01 1zp4A 304 8.34e+01 1ddjA 247 8.36e+01 5ptp b.47.1.2 26362 1dozA 309 8.37e+01 1ak1 c.92.1.1 35592 1h5wA 309 8.53e+01 e.27.1.1 65635 1olmA 403 8.53e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1r6fA 310 8.66e+01 e.46.1.1 97149 1wjgA 137 8.66e+01 1woyA 500 8.70e+01 2c4jA 218 8.74e+01 1o2dA 371 8.82e+01 e.22.1.2 86591 2bhoA 130 8.88e+01 1heiA 451 8.92e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1g73C 121 8.95e+01 1g3fA g.52.1.1 45375