# List of top-scoring protein chains for t2k-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.soe.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 2arzA 247 3.33e-33 b.45.1.1 127225 1xhnA 184 6.88e-24 b.45.1.1 122007 1vl7A 157 1.72e-12 b.45.1.1 108732 1rfeA 162 3.90e-09 b.45.1.1 111796 2aq6A 147 6.63e-08 b.45.1.1 127156 1w9aA 147 8.52e-08 b.45.1.1 114408 2hq9A 149 2.98e-04 b.45.1.1 136659 1t9mA 214 4.53e-04 b.45.1.1 112364 2fhqA 141 6.94e-04 b.45.1.1 133497 2htiA 185 3.65e-03 b.45.1.1 136744 1dnlA 199 5.94e-03 1ci0A b.45.1.1 25753 1g79A 218 9.57e-03 1ci0A b.45.1.1 25752 1ty9A 222 9.58e-03 b.45.1.1 112827 2ig6A 150 1.14e-02 1w3oA 216 1.81e-02 b.45.1.1 114142 2hq7A 146 2.56e-02 b.45.1.1 136657 1nrgA 261 2.77e-02 b.45.1.1 80694 2i02A 148 2.23e-01 b.45.1.1 136936 2hhzA 150 2.34e-01 1j1nA 492 2.45e-01 c.94.1.1 83978 3cjnA 162 3.43e-01 2iabA 155 3.78e-01 2fg9A 178 4.04e-01 b.45.1.1 133426 2htdA 140 6.68e-01 2h1nA 567 1.57e+00 2asfA 137 1.68e+00 b.45.1.1 127253 1nvtA 287 1.81e+00 c.2.1.7,c.58.1.5 86270,86271 2re7A 134 1.96e+00 1y3nA 490 2.18e+00 c.94.1.1 122597 1taq 832 2.21e+00 1taq 2zatA 260 2.37e+00 2qziA 103 3.28e+00 2p2vA 288 3.45e+00 2a2jA 246 3.59e+00 b.45.1.1 126033 1xsm 390 4.04e+00 1xsm 1ef1A 294 4.11e+00 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1w36C 1122 4.13e+00 c.37.1.19,c.37.1.19,c.52.1.25 114125,114126,114127 2ebuA 112 4.43e+00 1nar 290 4.52e+00 1nar 1narA 290 4.52e+00 c.1.8.5 28988 1w68A 390 4.56e+00 a.25.1.2 109216 2bdpA 580 4.64e+00 1xwl c.55.3.5,e.8.1.1 33709,43002 2hhvA 580 4.77e+00 c.55.3.5,e.8.1.1 136514,136515 3bgyA 237 4.83e+00 3cp3A 148 4.86e+00 1l3sA 580 5.17e+00 c.55.3.5,e.8.1.1 84521,84522 1nk4A 580 5.38e+00 c.55.3.5,e.8.1.1 91923,91924 1u4bA 580 5.38e+00 c.55.3.5,e.8.1.1 107664,107665 1xwl 580 5.51e+00 1xwl 2ptfA 233 5.59e+00 1b43A 340 6.27e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 1diwA 441 6.40e+00 1a8d b.29.1.6,b.42.4.2 24264,25609 1h4rA 314 6.46e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2ou5A 175 6.66e+00 1lrzA 426 6.70e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2r79A 283 6.88e+00 1jk0A 419 7.05e+00 a.25.1.2 63142 1mw9X 592 7.16e+00 e.10.1.1 91480 1a8d 452 7.25e+00 1a8d 1x8dA 104 7.25e+00 2bg5A 324 7.28e+00 1a8dA 452 7.30e+00 b.29.1.6,b.42.4.2 24262,25607 1kamA 194 7.42e+00 c.26.1.3 72254 2nrrA 159 7.49e+00 2hufA 393 7.51e+00 1vb5A 276 7.58e+00 c.124.1.5 113604 2ux0A 143 7.91e+00 1z57A 339 8.48e+00 2qzjA 136 8.56e+00 3bwwA 307 9.39e+00 3b5mA 205 9.56e+00 1ecl 597 1.01e+01 1ecl 1l8rA 101 1.04e+01 a.6.1.4 73700 1l8aA 886 1.07e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1d0hA 469 1.13e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1jfuA 186 1.17e+01 c.47.1.10 62940 2qenA 350 1.17e+01 2qtcA 886 1.17e+01 1ffkI 194 1.20e+01 1ffkI d.12.1.2 37494 3bomA 142 1.21e+01 1ybhA 590 1.24e+01 c.31.1.3,c.36.1.5,c.36.1.9 122891,122892,122893 1m85A 484 1.24e+01 e.5.1.1 74578 1d2zB 153 1.25e+01 1d2zB a.77.1.2 18439 2ozbB 260 1.32e+01 2ieaA 886 1.38e+01 c.36.1.6,c.36.1.10,c.48.1.1 137294,137295,137296 1ko3A 230 1.40e+01 d.157.1.1 90974 1xvwA 160 1.43e+01 c.47.1.10 122387 1cg5A 141 1.63e+01 1abwA a.1.1.2 15406 2inpC 328 1.69e+01 1x89A 178 1.70e+01 b.60.1.1 121799 1f74A 293 1.70e+01 1nal3 c.1.10.1 29079 2vc7A 314 1.73e+01 2b0vA 153 1.80e+01 d.113.1.1 127650 3bs4A 260 1.81e+01 2z3hA 130 2.00e+01 2fb1A 226 2.05e+01 a.4.5.68,d.113.1.6 133225,133226 1mkmA 249 2.05e+01 a.4.5.33,d.110.2.2 79242,79243 2jheA 190 2.05e+01 1zzkA 82 2.11e+01 d.51.1.1 125909 2nnwA 376 2.18e+01 2uyoA 310 2.18e+01 1i9zA 347 2.18e+01 1i9yA d.151.1.2 62102 2o99A 182 2.20e+01 d.110.2.2 138952 1k5nA 276 2.25e+01 b.1.1.2,d.19.1.1 77266,77267 1gehA 444 2.31e+01 c.1.14.1,d.58.9.1 65181,65182 1gcvA 140 2.31e+01 1cg5B a.1.1.2 15410 2j66A 428 2.39e+01 2g3mA 693 2.40e+01 1w3iA 293 2.47e+01 c.1.10.1 109152 1fqgA 263 2.48e+01 1btl e.3.1.1 42699 2ej9A 237 2.53e+01 1xx6A 191 2.61e+01 c.37.1.24,g.39.1.14 116139,116140 3ba3A 145 2.63e+01 2z0tA 109 2.67e+01 2nsqA 155 2.67e+01 1uocA 289 2.68e+01 c.55.3.9 99686 1cnoA 87 2.69e+01 a.3.1.1 15814 1m40A 263 2.80e+01 e.3.1.1 74437 1j5kA 89 2.86e+01 d.51.1.1 71565 3b4tA 262 2.88e+01 3byiA 214 2.93e+01 1i9yA 347 2.97e+01 1i9yA d.151.1.2 62101 1qqsA 174 2.98e+01 1nglA b.60.1.1 27143 1h12A 405 2.98e+01 a.102.1.2 83447 1hu3A 260 3.06e+01 1hu3A a.118.1.14 19137 1no5A 114 3.07e+01 d.218.1.5 92014 2f1sA 186 3.11e+01 1wueA 386 3.13e+01 c.1.11.2,d.54.1.1 114892,114893 1ro7A 259 3.13e+01 c.130.1.1 97667 1wy0A 342 3.14e+01 2qe6A 274 3.29e+01 2ef5A 290 3.35e+01 2nn6B 249 3.36e+01 1wn5A 130 3.37e+01 c.97.1.1 121082 1iqyA 638 3.38e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 2ox1A 196 3.44e+01 1m6nA 802 3.45e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 1cc1S 283 3.46e+01 2frvA e.19.1.1 43313 2ywrA 216 3.55e+01 1ermA 263 3.58e+01 1btl e.3.1.1 42690 2z1dA 372 3.63e+01 2bbrA 195 3.64e+01 3b9oA 440 3.73e+01 1xw2A 405 3.81e+01 a.102.1.2 122389 2furA 209 3.84e+01 b.45.1.1 134185 1xwtA 405 3.89e+01 a.102.1.2 122410 1ps9A 671 3.91e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1m70A 190 3.94e+01 a.3.1.4,a.3.1.4 91200,91201 1oj7A 408 3.97e+01 e.22.1.2 103971 2qguA 211 4.04e+01 1wmuA 141 4.08e+01 a.1.1.2 109416 2gar 212 4.09e+01 2gar 2dcfA 392 4.13e+01 1q2lA 939 4.21e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 2qorA 204 4.24e+01 1og6A 298 4.28e+01 c.1.7.1 86984 1ojrA 274 4.32e+01 c.74.1.1 93147 1tlk 154 4.34e+01 1tlk 1u9cA 224 4.35e+01 c.23.16.2 113234 1zw8A 64 4.37e+01 1unfX 238 4.39e+01 a.2.11.1,d.44.1.1 113314,113315 1td5A 202 4.41e+01 d.110.2.2 106767 1je0A 236 4.42e+01 c.56.2.1 66581 2b34A 199 4.45e+01 1rjoA 646 4.53e+01 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 1mzyA 333 4.55e+01 b.6.1.3,b.6.1.3 103848,103849 1ui7A 638 4.55e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 2vfkA 205 4.56e+01 2gzmA 267 4.64e+01 2ghaA 382 4.64e+01 2ovjA 201 4.67e+01 1s1fA 406 4.73e+01 a.104.1.1 112008 1u5fA 148 4.76e+01 b.55.1.1 119542 1f3yA 165 4.93e+01 d.113.1.1 59635 1zwyA 185 4.94e+01 c.51.4.3 125753 1flmA 122 4.95e+01 1axj b.45.1.1 25747 1lqyA 184 4.99e+01 d.167.1.1 74212 2cdqA 510 5.02e+01 c.73.1.3,d.58.18.10,d.58.18.10 130290,130291,130292 1btl 263 5.02e+01 1btl 1wybA 392 5.08e+01 1wycA 392 5.09e+01 3czqA 304 5.09e+01 1w6gA 646 5.18e+01 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 1gt7A 274 5.23e+01 c.74.1.1 70398 1ur3M 319 5.26e+01 c.1.7.1 99806 1hl9A 449 5.27e+01 b.71.1.3,c.1.8.11 90650,90651 1oa4A 222 5.30e+01 b.29.1.11 86731 2bd0A 244 5.32e+01 c.2.1.2 128321 2gm5A 139 5.38e+01 2on5A 206 5.40e+01 2vl6A 268 5.51e+01 3c5mA 396 5.52e+01 1g8aA 227 5.56e+01 c.66.1.3 90506 1fmcA 255 5.57e+01 1cydA c.2.1.2 29856 2vd8A 391 5.58e+01 2r91A 286 5.67e+01 1kolA 398 5.70e+01 b.35.1.2,c.2.1.1 77474,77475 2bgsA 344 5.70e+01 1kxrA 339 5.74e+01 d.3.1.3 73175 2id0A 644 5.79e+01 2h9bA 312 5.83e+01 1x1gA 129 5.87e+01 b.55.1.1 121580 2elcA 329 6.03e+01 2jvgA 72 6.06e+01 3dbaA 180 6.09e+01 2b8tA 223 6.18e+01 c.37.1.24,g.39.1.14 128109,128110 2v9lA 274 6.23e+01 2dc4A 165 6.26e+01 2z99A 219 6.28e+01 1tl9A 339 6.30e+01 d.3.1.3 112505 1a8y 367 6.34e+01 1a8y 1a8yA 367 6.34e+01 c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1oe1A 336 6.35e+01 b.6.1.3,b.6.1.3 86891,86892 3bofA 566 6.38e+01 451cA 82 6.44e+01 a.3.1.1 15904 2d09A 407 6.54e+01 2obxA 157 6.59e+01 1eupA 403 6.65e+01 1rom a.104.1.1 18967 1wdiA 345 6.71e+01 e.53.1.1 114535 1iruK 201 6.83e+01 d.153.1.4 71362 1x0vA 354 6.84e+01 1efcA 393 6.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 2pzzA 147 6.89e+01 1a79A 171 6.89e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1tf3A 92 6.93e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45057,45058,45059 2osaA 202 6.93e+01 2nw0A 189 6.97e+01 2d0eA 407 6.98e+01 1tf5A 844 7.06e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2d7dB 40 7.15e+01 2qm1A 326 7.17e+01 1t7vA 278 7.17e+01 b.1.1.2,d.19.1.1 112302,112303 1v4xB 146 7.20e+01 a.1.1.2 108364 1r9dA 787 7.21e+01 c.7.1.1 104865 2d1wA 638 7.24e+01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 2g8jA 339 7.28e+01 d.3.1.3 134773 1t0tV 248 7.30e+01 d.58.4.10 106229 1pnoA 180 7.36e+01 c.31.1.4 94953 1htjF 210 7.40e+01 1htjF a.91.1.1 61254 1fhgA 154 7.40e+01 1tlk b.1.1.4 21706 2fa8A 105 7.48e+01 c.47.1.23 133185 1g61A 228 7.50e+01 1g61A d.126.1.1 41126 2gmfA 127 7.51e+01 2gmfA a.26.1.2 16849 2bbeA 108 7.52e+01 2hjgA 436 7.52e+01 1vs0A 310 7.58e+01 2ra8A 362 7.65e+01 2bvfA 459 7.72e+01 1ev7A 317 7.79e+01 1ev7B c.52.1.9 33315 2ppeA 343 7.88e+01 2ehjA 208 7.89e+01 1otjA 283 7.90e+01 b.82.2.5 93517 1snrA 341 7.91e+01 b.6.1.3,b.6.1.3 105823,105824 2gjgA 248 7.96e+01