# 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 1xv2A 237 1.94e-05 1vdxA 184 1.54e+00 1wrvA 308 1.67e+00 2dcnA 311 2.53e+00 1z4rA 168 2.57e+00 1gs5A 258 4.60e+00 c.73.1.2 70395 1i1kA 309 4.66e+00 1daaA e.17.1.1 61533 1vgjA 184 4.69e+00 1i8dA 213 5.21e+00 b.43.4.3,b.43.4.3 61953,61954 2al3A 90 5.85e+00 1ys7A 233 6.37e+00 1vkmA 297 6.47e+00 c.138.1.1 108670 1r6fA 310 6.52e+00 e.46.1.1 97149 1iyeA 309 6.64e+00 e.17.1.1 83786 1fukA 165 7.14e+00 1fukA c.37.1.19 32409 2f96A 224 7.61e+00 1xriA 151 7.83e+00 1ub0A 258 8.49e+00 c.72.1.2 88394 1hqkA 154 8.99e+00 c.16.1.1 65902 1vphA 149 1.00e+01 1xngA 268 1.01e+01 1ua4A 455 1.04e+01 c.72.1.3 99128 2gnxA 365 1.04e+01 1j6oA 268 1.13e+01 c.1.9.12 77088 1n1bA 549 1.25e+01 a.102.4.1,a.128.1.3 79799,79800 1fsyA 358 1.41e+01 1gceA e.3.1.1 60016 1nwbA 124 1.42e+01 b.124.1.1 86296 1xklA 273 1.53e+01 1sffA 426 1.62e+01 c.67.1.4 105482 1rkuA 206 1.62e+01 c.108.1.11 97627 1mgpA 313 1.83e+01 c.119.1.1 79098 1v6fA 151 1.87e+01 d.109.1.2 108395 1p5tA 127 1.91e+01 b.55.1.2 94148 1qstA 160 1.95e+01 1yghA d.108.1.1 40804 2a8lA 420 1.97e+01 2b99A 156 2.01e+01 1pi4A 358 2.02e+01 e.3.1.1 94700 1u0jA 267 2.08e+01 c.37.1.20 107546 2boqA 331 2.11e+01 1chmA 401 2.17e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1vcoA 550 2.23e+01 c.23.16.1,c.37.1.10 108508,108509 1krs 120 2.45e+01 1krs b.40.4.1 25256 3sdhA 146 2.47e+01 3sdhA a.1.1.2 14984 1f89A 291 2.49e+01 d.160.1.1 64988 1h7mA 102 2.50e+01 d.79.3.1 83485 2pgd 482 2.57e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1l0gA 358 2.67e+01 e.3.1.1 73400 1wzoA 246 2.68e+01 1y4tA 322 2.70e+01 2b8lA 405 2.79e+01 2f06A 144 2.83e+01 1pfzA 380 2.94e+01 1smrA b.50.1.2 26881 2abwA 227 2.95e+01 2dhqA 146 2.96e+01 2dhqA c.23.13.1 31382 1u9cA 224 3.03e+01 1v6tA 255 3.09e+01 1vqrA 297 3.18e+01 1vmfA 145 3.19e+01 1w50A 411 3.26e+01 b.50.1.2 109173 1nrwA 288 3.40e+01 c.108.1.10 86128 1cs1A 386 3.44e+01 1ibjA c.67.1.3 34399 1h05A 146 3.54e+01 c.23.13.1 76433 1e1oA 504 3.58e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1kdgA 546 3.67e+01 c.3.1.2,d.16.1.1 77337,77338 1it2A 146 3.73e+01 a.1.1.2 66365 1hl9A 449 3.77e+01 b.71.1.3,c.1.8.11 90650,90651 1vmjA 151 3.81e+01 1fonA 240 3.83e+01 5ptp b.47.1.2 26231 1aru 344 3.83e+01 1arv a.93.1.1 18589 1c3mA 147 4.02e+01 1jotA b.77.3.1 27983 1lxjA 104 4.04e+01 d.58.48.1 84736 1g61A 228 4.11e+01 1g61A d.126.1.1 41126 1w36D 608 4.15e+01 2cpl 165 4.17e+01 2cpl b.62.1.1 27420 1ug8A 87 4.22e+01 d.68.7.1 107825 3daaA 277 4.24e+01 1daaA e.17.1.1 43272 1sgzA 389 4.28e+01 b.50.1.2 98872 1pt6A 213 4.34e+01 c.62.1.1 95091 1auiB 169 4.48e+01 1auiB a.39.1.5 17325 1kzfA 230 4.50e+01 d.108.1.3 73354 1gxjA 186 4.57e+01 d.215.1.1 70707 8rucI 123 4.63e+01 1rboC d.73.1.1 39629 1c1yB 77 4.76e+01 1c1yB d.15.1.5 37618 1qgdA 662 4.82e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 2bitX 165 4.84e+01 1wn2A 121 4.84e+01 2ffyA 358 5.03e+01 1vkcA 158 5.03e+01 1j5wA 298 5.04e+01 d.104.1.1 71589 1rj9A 304 5.08e+01 a.24.13.1,c.37.1.10 97553,97554 2cvjA 180 5.10e+01 2f71A 298 5.19e+01 2flsA 132 5.20e+01 1yndA 165 5.39e+01 1wfyA 104 5.40e+01 1zkjA 359 5.47e+01 1pujA 282 5.48e+01 c.37.1.8 88294 1lylA 504 5.50e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 2ac4A 309 5.51e+01 1wdaA 670 5.56e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 1lycA 343 5.58e+01 a.93.1.1 74344 2cxxA 190 5.60e+01 1j1lA 290 5.73e+01 b.82.1.12 90766 1zcxA 178 5.83e+01 2liv 344 5.86e+01 2liv c.93.1.1 35708 1kicA 339 5.86e+01 c.70.1.1 72510 1h8vA 218 5.86e+01 2nlrA b.29.1.11 60795 1e43A 483 5.87e+01 1bli b.71.1.1,c.1.8.1 59217,59218 2f1rA 171 5.88e+01 1zwxA 301 5.91e+01 2dexX 671 5.93e+01 1u8sA 192 5.95e+01 d.58.18.5,d.58.18.5 107737,107738 1b00A 127 5.99e+01 3chy c.23.1.1 31122 1ekqA 272 6.03e+01 1c3qA c.72.1.2 34941 1fknA 391 6.05e+01 1fknA b.50.1.2 26879 1nm1G 125 6.26e+01 d.109.1.1 80653 1z2lA 423 6.28e+01 1v33A 366 6.30e+01 d.264.1.1 100278 1gskA 513 6.34e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 2ex5A 207 6.36e+01 1w41A 101 6.36e+01 1vjqA 79 6.41e+01 k.43.1.1 100830 1z15A 344 6.44e+01 1qc5A 192 6.44e+01 1aoxA c.62.1.1 34147 1td2A 287 6.47e+01 c.72.1.5 106765 1va0A 239 6.48e+01 1ydmA 187 6.52e+01 1kgsA 225 6.53e+01 a.4.6.1,c.23.1.1 68596,68597 1ohvA 472 6.69e+01 c.67.1.4 93031 1nv8A 284 6.69e+01 c.66.1.30 86224 1moq 368 7.00e+01 1moq c.80.1.1 35302 1uv7A 110 7.02e+01 d.67.4.1 100040 1l2lA 457 7.11e+01 c.72.1.3 77656 1pq7A 224 7.19e+01 b.47.1.2 95002 1fn8A 224 7.19e+01 5ptp b.47.1.2 26012 1m6sA 347 7.24e+01 c.67.1.1 78701 2aqwA 332 7.34e+01 1wgmA 98 7.34e+01 1try 224 7.36e+01 5ptp b.47.1.2 26017 1kqpA 271 7.38e+01 c.26.2.1 72883 1rlmB 271 7.39e+01 1vl4A 447 7.46e+01 d.283.1.1 108718 1d5rA 324 7.70e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1qr0A 228 7.77e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1nbfA 353 7.83e+01 d.3.1.9 80387 1xcrA 316 7.91e+01 1vjzA 341 7.91e+01 c.1.8.3 100838 1y9wA 140 8.00e+01 2a8mA 420 8.04e+01 1g7fA 298 8.05e+01 1pty c.45.1.2 60330 1k66A 149 8.35e+01 c.23.1.1 90941 1lm6A 215 8.41e+01 d.167.1.1 84628 1jg8A 347 8.65e+01 1jg8A c.67.1.1 62946 1vljA 407 8.67e+01 e.22.1.2 108832 1ni9A 338 8.72e+01 e.7.1.2 85739 1cr1A 296 8.72e+01 1cr1A c.37.1.11 32286 2axwA 134 8.76e+01 1sr2A 116 8.79e+01 1xbsA 149 8.80e+01 1ih8A 271 8.83e+01 2nsyA c.26.2.1 62377 1i60A 278 8.84e+01 c.1.15.4 71118 2fiqA 420 8.88e+01 1yioA 208 8.88e+01 1xjcA 169 8.91e+01