# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1b7yB 785 6.64e-02 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1xngA 268 2.69e-01 1g5cA 170 6.04e-01 1g5cA c.53.2.1 60264 1dceB 331 9.04e-01 1dceB a.102.4.3 18872 1po5A 476 1.17e+00 a.104.1.1 94963 1theA 260 1.27e+00 1theB d.3.1.1 37056 1gmyA 261 1.34e+00 d.3.1.1 76236 1el5A 389 1.37e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1tif 78 1.50e+00 1tif d.15.8.1 37836 1cxqA 162 1.58e+00 1cxqA c.55.3.2 33621 2d13A 227 1.59e+00 1iq4A 179 1.81e+00 1iq4A d.77.1.1 62641 1snnA 227 1.89e+00 d.115.1.2 105821 1pvyA 227 2.13e+00 d.115.1.2 95195 1j8yF 297 2.19e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1i2aA 219 2.54e+00 e.24.1.1 90660 1gof 639 2.69e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1b43A 340 2.97e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 2f9lA 199 3.02e+00 1k3iA 656 3.31e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1lbvA 252 3.37e+00 e.7.1.1 73813 1j8mF 297 3.43e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 2cokA 113 3.44e+00 1p5hA 428 3.57e+00 c.123.1.1 87802 1ru8A 232 3.77e+00 c.26.2.1 97849 1pvdA 537 4.21e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1vlmA 219 4.47e+00 c.66.1.41 108836 1vsd 152 4.47e+00 1cxqA c.55.3.2 33625 1dq3A 454 4.72e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1yovA 537 4.88e+00 1ykjA 394 5.19e+00 1mkeA 152 5.50e+00 b.55.1.4 79231 1k0iA 394 5.89e+00 c.3.1.2,d.16.1.2 67942,67943 1pbe 394 5.91e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 1aop 497 5.94e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1bkf 107 6.09e+00 1fkj d.26.1.1 38382 2cxaA 256 6.20e+00 1q4mA 221 6.68e+00 a.132.1.3 95805 1pzgA 331 6.71e+00 c.2.1.5,d.162.1.1 95425,95426 1h05A 146 6.82e+00 c.23.13.1 76433 2dhqA 146 6.97e+00 2dhqA c.23.13.1 31382 1hlvA 131 7.06e+00 a.4.1.7,a.4.1.7 65854,65855 1vckA 115 7.14e+00 1j83A 180 7.21e+00 b.18.1.12 66430 1mszA 86 7.42e+00 d.68.7.1 79428 1mvwB 145 8.00e+00 i.15.1.1 79524 1wi6A 88 8.90e+00 1a8vA 121 9.36e+00 1a62 a.140.3.1,b.40.4.5 64712,64713 2f2gA 221 9.46e+00 1cqqA 180 9.49e+00 1cqqA b.47.1.4 26422 1a62 130 9.63e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 2azqA 311 9.99e+00 1qzzA 374 1.01e+01 a.4.5.29,c.66.1.12 96719,96720 1at3A 247 1.06e+01 1at3A b.57.1.1 27021 1ps1A 337 1.07e+01 1ps1A a.128.1.4 19450 1qxoA 388 1.07e+01 d.258.1.1 96539 2fyxA 143 1.13e+01 1mxrA 375 1.19e+01 a.25.1.2 85197 1qsgA 265 1.21e+01 1eny c.2.1.2 29935 1odkA 235 1.23e+01 c.56.2.1 86863 1tzyD 103 1.24e+01 a.22.1.1 107533 1lgpA 116 1.31e+01 b.26.1.2 73890 2g76A 335 1.32e+01 1ewkA 490 1.40e+01 1ewkA c.93.1.1 35712 1v52A 133 1.41e+01 2a7yA 83 1.45e+01 1ok0A 74 1.47e+01 b.5.1.1 93191 1oaqL 120 1.55e+01 b.1.1.1 92708 1vhqA 232 1.57e+01 c.23.16.2 100696 1hoe 74 1.59e+01 1hoe b.5.1.1 22833 1f5aA 513 1.68e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 2cmd 312 1.68e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1oivA 191 1.68e+01 c.37.1.8 93076 1oixA 191 1.70e+01 1kx5B 102 1.71e+01 a.22.1.1 77594 1pqhA 143 1.73e+01 b.52.2.1 95017 1gxuA 91 1.81e+01 d.58.10.1 76378 1m32A 366 1.86e+01 c.67.1.3 78508 1wcwA 261 1.86e+01 1hq3D 103 1.90e+01 1aoiB a.22.1.1 16464 1a76 326 1.90e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 2sas 185 1.93e+01 2sas a.39.1.5 17258 1k4iA 233 1.98e+01 d.115.1.2 72056 1iw7C 1119 1.99e+01 e.29.1.1 71474 1xikA 375 2.01e+01 1xikA a.25.1.2 16784 2pii 112 2.03e+01 2pii d.58.5.1 39071 1q7hA 153 2.05e+01 b.122.1.1,d.17.6.2 96042,96043 1q79A 514 2.08e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1y96A 86 2.10e+01 1bymA 97 2.12e+01 1bi0 b.34.1.2 24458 2g6bA 180 2.13e+01 3chy 128 2.17e+01 3chy c.23.1.1 31038 1rypI 222 2.22e+01 d.153.1.4 41877 1jbeA 128 2.39e+01 3chy c.23.1.1 62845 2a6hC 1119 2.41e+01 1vp4A 425 2.41e+01 1vgwA 231 2.45e+01 c.68.1.13 100612 1zczA 464 2.53e+01 1t5iA 172 2.54e+01 c.37.1.19 106450 1cc1L 498 2.60e+01 1h2rL e.18.1.1 43301 2aq8A 269 2.61e+01 2djkA 133 2.67e+01 1louA 101 2.86e+01 1ris d.58.14.1 39323 1gzsB 165 3.07e+01 a.168.1.1 76425 1ee6A 197 3.09e+01 1ee6A b.80.1.1 28024 1v6tA 255 3.09e+01 1ut9A 609 3.20e+01 a.102.1.2,b.1.18.2 99912,99913 1lb2B 84 3.29e+01 a.60.3.1 77871 1tocR 120 3.34e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1cjwA 166 3.34e+01 1cjwA d.108.1.1 40818 1wh5A 80 3.46e+01 2gjgA 248 3.50e+01 1jqeA 292 3.50e+01 c.66.1.19 71789 2f5gA 133 3.55e+01 1souA 194 3.65e+01 c.124.1.6 105858 1ew0A 130 3.73e+01 1drmA d.110.3.2 40905 2a9mL 110 3.84e+01 1a6wL 109 3.88e+01 1mfa b.1.1.1 20252 2bcmA 165 3.89e+01 1fdr 248 3.93e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1aw8B 91 4.06e+01 1aw8B 1wd7A 261 4.07e+01 1gefA 123 4.07e+01 1gefA c.52.1.18 60465 1o0wA 252 4.07e+01 a.149.1.1,d.50.1.1 80751,80752 2fkbA 180 4.08e+01 1uz5A 402 4.09e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1rznA 205 4.09e+01 1no1A 126 4.11e+01 a.179.1.1 85913 3rabA 169 4.13e+01 1ctqA c.37.1.8 32018 1lmmA 40 4.18e+01 g.3.6.2 91080 1eziA 228 4.25e+01 1eyrA c.68.1.13 34512 1h97A 147 4.25e+01 1h97A a.1.1.2 60812 1ta0A 197 4.31e+01 c.108.1.16 106729 1w85I 49 4.36e+01 1mp1A 111 4.36e+01 a.188.1.1 91382 1qtnA 164 4.40e+01 1pauA c.17.1.1 30999 1ek0A 170 4.45e+01 1ctqA c.37.1.8 32076 1dz3A 130 4.49e+01 1dz3A c.23.1.1 31105 1o9wA 177 4.60e+01 b.2.3.5 86713 1fmtA 314 4.66e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1zeeA 403 4.66e+01 1xwyA 264 4.67e+01 2g9iA 249 4.67e+01 1nycA 111 4.83e+01 b.61.2.2 92336 1wy7A 207 4.89e+01 1h6kZ 98 5.04e+01 d.58.7.1 60686 1ybiA 288 5.04e+01 1vj2A 126 5.10e+01 b.82.1.10 100796 1z3eB 73 5.15e+01 1zk5A 176 5.16e+01 2pvbA 107 5.18e+01 1a75A a.39.1.4 17205 2d4qA 257 5.23e+01 1l6rA 227 5.25e+01 c.108.1.10 77768 1uv4A 293 5.28e+01 1vr0A 247 5.28e+01 1eny 268 5.36e+01 1eny c.2.1.2 29910 1wy5A 317 5.40e+01 1lba 146 5.45e+01 1lba d.118.1.1 41062 1t13A 158 5.56e+01 1k4mA 213 5.68e+01 c.26.1.3 77258 1jk3A 158 5.71e+01 d.92.1.11 66790 1eo9A 209 5.72e+01 3pchA b.3.6.1 22731 1qw1A 121 5.74e+01 1yioA 208 5.78e+01 1yz1A 174 5.94e+01 1s1hC 192 5.96e+01 i.1.1.1 105156 1yb2A 275 6.07e+01 1j2gA 319 6.07e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1zrjA 50 6.12e+01 1h5uA 842 6.18e+01 1a8i c.87.1.4 60655 2gtrA 261 6.21e+01 1hcuA 503 6.23e+01 a.102.2.1 65796 1ebdC 41 6.27e+01 1ebdC a.9.1.1 16355 1kb9D 246 6.32e+01 a.3.1.3,f.23.11.1 77317,77318 1fnd 314 6.35e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 2ffcA 353 6.35e+01 1r5jA 337 6.42e+01 c.77.1.5 97097 1jalA 363 6.47e+01 c.37.1.8,d.15.10.2 84138,84139 1z2lA 423 6.56e+01 1tuzA 118 6.68e+01 1ru4A 400 6.74e+01 b.80.1.9 97836 1fnc 314 6.87e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1jssA 224 6.96e+01 d.129.3.2 71844 1zin 217 6.99e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1rwiA 270 7.03e+01 b.68.9.1 97987 1q1vA 70 7.06e+01 a.159.4.1 104479 1vjgA 218 7.09e+01 c.23.10.6 100810 1dzaA 129 7.23e+01 7rsa d.5.1.1 37275 1qmpA 130 7.30e+01 1dz3A c.23.1.1 31106 1vcoA 550 7.30e+01 c.23.16.1,c.37.1.10 108508,108509 1bqhG 129 7.40e+01 1cd8 b.1.1.1 19715 1gydB 315 7.47e+01 b.67.2.1 70751 2absA 383 7.52e+01 2aotA 292 7.53e+01 1jmvA 141 7.54e+01 c.26.2.4 66897 1nciA 110 7.58e+01 1edhA b.1.6.1 22191 1rzfL 213 7.60e+01 b.1.1.1,b.1.1.2 98152,98153 1qmeA 702 7.66e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1ezvD 245 7.72e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1cfr 285 7.74e+01 1cfr c.52.1.7 33312 1o4wA 147 7.78e+01 c.120.1.1 86629 1p7tA 731 7.86e+01 c.1.13.1 94319 1xj4A 119 7.86e+01 1kskA 234 7.95e+01 d.66.1.5,d.265.1.3 72920,90389 1ekgA 127 7.96e+01 1dlxA d.82.2.1 40021 1tafB 70 7.99e+01 1tafB a.22.1.3 16482 1y9wA 140 8.00e+01 1v74B 87 8.02e+01 a.24.20.1 100443 1usuA 260 8.08e+01 d.14.1.8 99885 1bx1A 314 8.11e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1zx2A 147 8.12e+01 1b63A 333 8.13e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 2av9A 147 8.13e+01 1dkiA 371 8.19e+01 1dkiA d.3.1.1 37090 1qi7A 253 8.38e+01 1qi7A d.165.1.1 42210 1chmA 401 8.40e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1i58A 189 8.51e+01 1b3qA d.122.1.3 61773 1rsy 152 8.62e+01 1rsy b.7.1.2 23192 1keaA 221 8.65e+01 a.96.1.2 68491 1jmmA 377 8.76e+01 b.30.6.1 71749 1s6cA 183 8.88e+01 a.39.1.5 98594 1iu1A 146 8.92e+01 b.1.10.2 71428 1gyhA 318 8.93e+01 b.67.2.1 70757 1a4pA 96 8.96e+01 1b4cA a.39.1.2 17176 2gf9A 189 9.00e+01