# 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 1a12A 413 1.59e-01 1a12A b.69.5.1 27663 1i4jA 110 1.70e-01 d.55.1.1 76734 1twiA 434 1.70e-01 b.49.2.3,c.1.6.1 107399,107400 1rlzA 369 3.73e-01 c.31.1.1 104989 1uwkA 557 3.90e-01 e.51.1.1 108065 1g26A 31 3.90e-01 1g26A g.3.16.1 44381 1s14A 194 7.82e-01 d.122.1.2 98329 1wyuB 474 9.13e-01 1sjdA 368 9.48e-01 c.1.11.2,d.54.1.1 105632,105633 1mgtA 174 9.93e-01 1mgtA a.4.2.1,c.55.7.1 16078,33753 2d4rA 147 1.18e+00 1xnkA 196 1.20e+00 1neiA 60 1.22e+00 d.253.1.1 91843 1womA 271 1.37e+00 2au5A 139 1.65e+00 2bhoA 130 1.66e+00 1s7iA 124 1.91e+00 d.58.4.9 105353 1p4oA 322 1.93e+00 d.144.1.7 87775 2bkyA 97 2.27e+00 1nm8A 616 2.28e+00 c.43.1.3,c.43.1.3 85872,85873 1fc6A 388 3.45e+00 1fc6A b.36.1.3,c.14.1.2 64738,64739 1to2I 64 3.51e+00 1s7zA 117 3.57e+00 a.159.3.1 98715 1ew6A 137 3.77e+00 1ewaA a.1.1.2 15637 1mugA 168 3.86e+00 1mugA c.18.1.2 31030 1axn 323 3.88e+00 1avc a.65.1.1 18149 1guqA 348 4.27e+00 1guqA d.13.1.2,d.13.1.2 37522,37523 1c7qA 445 4.30e+00 2pgi c.80.1.2 35307 1wxrA 1048 4.96e+00 1to6A 371 5.28e+00 c.141.1.1 107170 2gcuA 245 5.53e+00 1ekgA 127 5.59e+00 1dlxA d.82.2.1 40021 1h6kZ 98 6.06e+00 d.58.7.1 60686 1xpjA 126 6.10e+00 1k1vA 41 6.28e+00 a.37.1.1 71999 1r9kA 172 6.39e+00 a.168.1.1 104869 1s3eA 520 6.52e+00 c.3.1.2,d.16.1.5 98426,98427 1ybzA 91 6.53e+00 1gegA 256 6.72e+00 1ybvA c.2.1.2 29888 2b1yA 104 6.91e+00 1xuqA 212 7.14e+00 1iuqA 367 7.46e+00 c.112.1.1 90703 1y60A 169 7.56e+00 1nmeA 146 7.62e+00 c.17.1.1 85874 1xqoA 256 8.48e+00 1wwiA 148 8.72e+00 1li5A 461 9.36e+00 a.27.1.1,c.26.1.1 73912,73913 2axwA 134 9.40e+00 1wy6A 172 9.48e+00 2cu3A 64 9.50e+00 1pk1B 89 9.62e+00 1u8vA 490 9.67e+00 1p2hA 571 1.02e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1bco 327 1.06e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1r9cA 139 1.07e+01 d.32.1.2 97255 1n8vA 112 1.07e+01 a.118.21.1 85457 1k24A 253 1.13e+01 f.4.4.2 72002 2bsjA 133 1.13e+01 2gmyA 153 1.13e+01 1mp1A 111 1.14e+01 a.188.1.1 91382 1ec7A 446 1.15e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1jtdB 273 1.19e+01 b.69.5.2 67265 1hm6A 346 1.24e+01 1avc a.65.1.1 18147 2au3A 407 1.25e+01 1u2eA 289 1.25e+01 1eu1A 780 1.25e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1ewnA 219 1.27e+01 1bnkA b.46.1.2 25762 1k7cA 233 1.28e+01 c.23.10.4 68267 1v54G 85 1.29e+01 f.23.2.1 100328 2bcqA 335 1.29e+01 1s0pA 176 1.31e+01 a.192.1.1 98300 1rwrA 301 1.32e+01 b.80.1.11 97990 2acaA 189 1.33e+01 1id0A 152 1.35e+01 d.122.1.3 66111 1xhkA 187 1.40e+01 2abqA 306 1.44e+01 1flcB 175 1.52e+01 1flcB h.3.1.1 45716 1yeyA 444 1.53e+01 1sg4A 260 1.53e+01 1n7eA 97 1.63e+01 b.36.1.1 91691 2ghjA 118 1.68e+01 1j8bA 112 1.80e+01 d.222.1.1 77101 1u14A 172 1.81e+01 c.51.4.3 107579 1t15A 214 1.84e+01 c.15.1.3,c.15.1.3 99067,99068 2f46A 156 1.84e+01 1pyaB 228 1.85e+01 1pyaB 1p0fA 373 1.86e+01 b.35.1.2,c.2.1.1 87642,87643 1d0qA 103 1.89e+01 1d0qA g.41.3.2 45208 1lnsA 763 1.91e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1xe1A 116 1.92e+01 b.43.3.1 109571 1dm5A 315 1.94e+01 1avc a.65.1.1 18186 1fh9A 312 1.95e+01 1taxA c.1.8.3 28913 2ch7A 309 1.95e+01 1yn8A 59 1.96e+01 1tp5A 119 2.03e+01 1wzlA 585 2.03e+01 1s1fA 406 2.03e+01 1viaA 175 2.05e+01 c.37.1.2 100754 1kaeA 434 2.05e+01 c.82.1.2 72247 1uayA 242 2.09e+01 c.2.1.2 88390 1p0hA 318 2.14e+01 d.108.1.1 93866 1k66A 149 2.17e+01 c.23.1.1 90941 1ti6A 875 2.28e+01 b.52.2.2,c.81.1.1 106974,106975 1b0nA 111 2.30e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1g55A 343 2.31e+01 1g55A c.66.1.26 34247 1x3lA 440 2.37e+01 1edqA 540 2.42e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2c2nA 339 2.48e+01 1wmwA 330 2.53e+01 2al6A 375 2.57e+01 2a5lA 200 2.59e+01 1n7fA 97 2.60e+01 b.36.1.1 91692 2b1xA 470 2.62e+01 1rwzA 245 2.66e+01 d.131.1.2,d.131.1.2 98005,98006 1t4aA 84 2.66e+01 d.284.1.1 106404 1xrxA 50 2.68e+01 1e12A 253 2.73e+01 1c3wA f.13.1.1 43428 1csn 298 2.77e+01 1csn d.144.1.7 41664 1u5tB 169 2.79e+01 a.4.5.54,a.4.5.54 107686,107687 1v9tA 166 2.83e+01 b.62.1.1 108451 2arpF 152 2.84e+01 1xmxA 385 2.87e+01 1mtyD 512 2.94e+01 1mhyD a.25.1.2 16742 2a40B 260 2.94e+01 1yarO 237 2.95e+01 1v30A 124 2.96e+01 1qpcA 279 3.01e+01 1fgkA d.144.1.7 41685 1bdmA 327 3.08e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1cpcA 162 3.09e+01 1cpcA a.1.1.3 15643 1r7jA 95 3.18e+01 a.4.5.49 104836 1zvnA 99 3.23e+01 1wozA 177 3.25e+01 2govA 195 3.31e+01 1hpcA 131 3.31e+01 1htp b.84.1.1 28221 1a8y 367 3.35e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1vjkA 98 3.37e+01 d.15.3.1 108631 1gzsB 165 3.37e+01 a.168.1.1 76425 1paqA 189 3.37e+01 a.118.1.14 94413 1qnrA 344 3.51e+01 1qnoA c.1.8.3 28834 1xv2A 237 3.52e+01 1el5A 389 3.53e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 2g9zA 348 3.55e+01 2f2gA 221 3.59e+01 1qwrA 319 3.62e+01 b.82.1.3 96491 1s12A 94 3.73e+01 1xzoA 174 3.76e+01 2bv2A 83 3.78e+01 1mrj 247 3.80e+01 1mrj d.165.1.1 42177 2amxA 376 3.82e+01 1bouA 139 3.82e+01 1bouA a.88.1.1 18521 1pp7U 131 3.82e+01 a.4.5.44 94973 1sknP 92 3.86e+01 1sknP a.37.1.1 17127 2cvjA 180 3.95e+01 1x9iA 302 3.98e+01 1nogA 177 4.10e+01 a.25.2.2 85923 1sgoA 139 4.11e+01 d.82.3.1 98857 1u55A 188 4.27e+01 d.278.1.1 107677 1ukkA 142 4.34e+01 d.227.1.1 99491 2bkyX 89 4.37e+01 1eyqA 222 4.38e+01 1eypA d.36.1.1 38534 1pfvA 551 4.40e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1i6lA 328 4.50e+01 c.26.1.1 66041 1h4pA 408 4.58e+01 c.1.8.3 90617 1qtnA 164 4.60e+01 1pauA c.17.1.1 30999 1hxiA 121 4.65e+01 1hxiA a.118.8.1 61366 1quuA 250 4.66e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1o17A 345 4.67e+01 a.46.2.1,c.27.1.1 80765,80766 1hyeA 313 4.70e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1tzfA 259 4.74e+01 c.68.1.13 107476 1l7yA 94 4.89e+01 d.15.1.6 73676 1xxaA 78 4.93e+01 1xxaA d.74.2.1 39700 1gl2B 65 4.95e+01 h.1.15.1 65279 1dgnA 89 4.95e+01 1dgnA a.77.1.3 18436 2bzvA 181 5.04e+01 1qopA 268 5.05e+01 2tysA c.1.2.4 28570 1v9nA 360 5.05e+01 2ajgA 196 5.07e+01 1zud2 66 5.07e+01 1qi9A 556 5.08e+01 1qhbA a.111.1.2 19053 2c8mA 262 5.11e+01 1uxjA 309 5.12e+01 c.2.1.5,d.162.1.1 108112,108113 2d4pA 141 5.14e+01 1ysrA 150 5.15e+01 2gtsA 86 5.16e+01 1zkiA 133 5.29e+01 2c27A 315 5.29e+01 2fd4A 122 5.30e+01 1gz8A 299 5.31e+01 d.144.1.7 83405 1iscA 192 5.34e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2f9dA 125 5.34e+01 1i2tA 61 5.59e+01 1i2tA a.144.1.1 61582 1h03P 125 5.62e+01 g.18.1.1,g.18.1.1 83411,83412 1nkzB 41 5.67e+01 f.3.1.1 80612 1o12A 376 5.68e+01 b.92.1.5,c.1.9.10 80758,80759 1kte 105 5.71e+01 1kte c.47.1.1 32771 1bbzA 58 5.76e+01 1bbzA b.34.2.1 24477 1zkkA 167 5.81e+01 1xd8A 289 5.83e+01 1wr2A 238 5.89e+01 1w2lA 99 5.96e+01 1k82A 268 5.96e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1fus 106 6.16e+01 9rnt d.1.1.4 36050 1v7rA 186 6.28e+01 c.51.4.1 100482 1ok0A 74 6.29e+01 b.5.1.1 93191 1egpA 45 6.32e+01 1egpA d.40.1.1 38561 1pmmA 466 6.36e+01 c.67.1.6 94901 1sbzA 197 6.36e+01 1ijtA 128 6.41e+01 1bfg b.42.1.1 62510 1j7gA 144 6.46e+01 c.110.1.1 84130 1c8cA 64 6.53e+01 1azpA b.34.13.1 59084 1x0oA 119 6.55e+01 2cwcA 303 6.60e+01 1ew4A 106 6.66e+01 1ew4A d.82.2.1 40023 2brqA 97 6.73e+01 1o04A 500 6.73e+01 c.82.1.1 86508 1s6wA 21 6.78e+01 1rk6A 496 6.82e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1v58A 241 6.84e+01 c.47.1.9,d.17.3.1 108371,108372 1nrwA 288 6.87e+01 c.108.1.10 86128 1l6pA 125 6.95e+01 b.1.17.1 73626 1fgkA 310 6.96e+01 1fgkA d.144.1.7 41693 1wvqA 167 7.02e+01 1stzA 338 7.07e+01 a.4.5.51,d.110.2.3 106009,106010 1osyA 115 7.10e+01 b.1.21.1 93502 1syyA 346 7.11e+01 a.25.1.2 106126 1sx5A 244 7.11e+01 c.52.1.2 99023 2ddrA 306 7.11e+01 1pdo 135 7.19e+01 1pdo c.54.1.1 33376 2fdsA 352 7.23e+01 1vb3A 428 7.24e+01 1na6A 404 7.25e+01 b.142.1.1,c.52.1.22 91748,91749 1tx2A 297 7.33e+01 c.1.21.1 107420 1tu5A 746 7.33e+01 2b5aA 77 7.34e+01 1n12A 138 7.39e+01 b.2.3.2 79779 1uozA 315 7.46e+01 1dqaA 467 7.48e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1g6uA 48 7.54e+01 1g6uA k.9.1.1 46425 1b43A 340 7.64e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1y43A 39 7.67e+01 1fuiA 591 7.75e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1cqtI 44 7.83e+01 2gj0A 31 7.89e+01 1zavU 30 7.92e+01 1q3eA 207 7.95e+01 b.82.3.2 95669 1i19A 561 8.07e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1vhxA 150 8.12e+01 c.55.3.8 100712 1a8l 226 8.17e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 2gshA 414 8.24e+01 1zo0A 126 8.25e+01 1idpA 172 8.28e+01 d.17.4.1 83685 1qhfA 240 8.32e+01 1qhfA c.60.1.1 33960 2bw8A 227 8.34e+01 1lb3A 182 8.38e+01 a.25.1.1 77873 1npsA 88 8.52e+01 1prs b.11.1.1 23622 2fneA 117 8.59e+01 1xd3A 230 8.65e+01 2dcyA 185 8.66e+01 1udh 244 8.66e+01 3eugA c.18.1.1 31015 1wqwA 235 8.83e+01 1e19A 314 8.88e+01 1b7bA c.73.1.1 34967 1xreA 217 8.93e+01 1vk8A 106 8.95e+01 d.58.48.1 108636 1gvjA 146 8.95e+01 a.4.5.21 90525 1kllA 130 8.96e+01 d.32.1.2 72720 1wdvA 152 8.96e+01