# 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 1y0uA 96 6.76e-01 1p90A 145 1.06e+00 c.55.5.2 94377 1spgA 144 1.12e+00 1abwA a.1.1.2 15409 1e8yA 966 1.16e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1zxfA 155 1.37e+00 2bt2A 161 1.44e+00 1g291 372 1.72e+00 1g291 1oj7A 408 2.02e+00 e.22.1.2 103971 2d00A 109 2.74e+00 1ofuX 119 3.85e+00 c.37.1.22 86976 1xb4A 202 3.87e+00 1kid 203 4.22e+00 1derA c.8.5.1 30771 3cla 213 4.34e+00 3cla c.43.1.1 32610 1ckaA 57 4.70e+00 1ckaA b.34.2.1 24459 1ckv 141 5.50e+00 1ckv d.137.1.1 41452 1kjkA 64 5.57e+00 d.10.1.4 72613 1wt4A 73 5.65e+00 2avpA 70 5.74e+00 1zkrA 153 6.14e+00 1u5tC 202 6.15e+00 a.4.5.54,a.4.5.54 107688,107689 1lba 146 6.15e+00 1lba d.118.1.1 41062 1cy5A 97 6.18e+00 1cy5A a.77.1.3 18430 1y74A 57 6.18e+00 1m5yA 408 6.27e+00 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1om2A 95 6.97e+00 1om2A a.23.4.1 16520 1v54E 109 7.05e+00 a.118.11.1 100326 1e7uA 961 7.43e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1ujrA 110 8.03e+00 1zxuA 217 8.03e+00 1qwtA 255 8.04e+00 b.26.1.3 96501 1na3A 91 8.39e+00 k.38.1.1 85481 1gc5A 467 8.52e+00 1gc5A c.72.1.3 60429 1t0iA 191 8.95e+00 c.23.5.4 106209 1zeeA 403 9.04e+00 1tuaA 191 9.14e+00 d.51.1.1,d.51.1.1 107321,107322 1uptA 171 9.39e+00 c.37.1.8 99767 1jx4A 352 1.00e+01 d.240.1.1,e.8.1.7 90378,90379 1r4aA 165 1.00e+01 c.37.1.8 96986 1yb0A 159 1.00e+01 1gg1A 350 1.05e+01 1qr7A c.1.10.4 29187 1ytqA 204 1.07e+01 1dk8A 147 1.09e+01 1agrE a.91.1.1 18548 1n8fA 350 1.10e+01 c.1.10.4 85397 1mqeA 207 1.17e+01 d.113.1.1 91394 1pch 88 1.19e+01 1ptf d.94.1.1 40564 1k8kC 372 1.19e+01 b.69.4.1 68308 1puoA 170 1.22e+01 a.101.1.1,a.101.1.1 95134,95135 1tffA 234 1.22e+01 d.3.1.11 106854 2fn0A 437 1.23e+01 1jhgA 101 1.24e+01 1jhgA a.4.12.1 19009 1f53A 84 1.26e+01 1f53A b.11.1.4 23632 1h2kA 349 1.32e+01 b.82.2.6 76572 2occE 109 1.40e+01 2occE a.118.11.1 19224 2c0cA 362 1.40e+01 1irsA 112 1.42e+01 1qqgA b.55.1.2 26991 1hq0A 295 1.43e+01 1hzgA d.194.1.1 61122 1q8yA 373 1.48e+01 d.144.1.7 96234 1ad4A 266 1.49e+01 1aj2 c.1.21.1 29670 1o17A 345 1.54e+01 a.46.2.1,c.27.1.1 80765,80766 256bA 106 1.57e+01 256bA a.24.3.1 16539 1rec 201 1.58e+01 1rec a.39.1.5 17326 1qo3C 137 1.59e+01 1qo3C d.169.1.1 42350 1ux8A 132 1.60e+01 1k07A 263 1.61e+01 d.157.1.1 77218 1dkzA 219 1.64e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1xbsA 149 1.74e+01 1v3rA 116 1.79e+01 1rz3A 201 1.81e+01 c.37.1.6 98132 1p57A 114 1.82e+01 d.170.1.2 94125 1eudA 311 1.82e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1orjA 130 1.83e+01 a.24.19.1 93456 1smtA 122 1.84e+01 1smtA a.4.5.5 16109 1icrA 217 1.88e+01 1vfrA d.90.1.1 62274 1vkjA 285 1.97e+01 c.37.1.5 108666 1ukz 203 1.99e+01 1zin c.37.1.1 31840 1w8iA 156 1.99e+01 1cuk 203 2.00e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1em8A 147 2.06e+01 c.128.1.1 90457 1howA 373 2.06e+01 1hcl d.144.1.7 41679 1z83A 196 2.09e+01 2aioA 269 2.11e+01 2ahmA 88 2.14e+01 1qc7A 101 2.16e+01 1qc7A a.118.14.1 18456 3pviA 157 2.21e+01 3pviA c.52.1.6 33300 2eu9A 355 2.26e+01 1qghA 156 2.30e+01 1qghA a.25.1.1 16728 1ua4A 455 2.37e+01 c.72.1.3 99128 1ykiA 217 2.38e+01 1mdwA 328 2.40e+01 d.3.1.3 84934 1dfoA 417 2.46e+01 1bj4A c.67.1.4 34480 2aieP 203 2.47e+01 2b05A 246 2.50e+01 2br9A 234 2.55e+01 1w6vA 141 2.56e+01 1mpxA 615 2.57e+01 b.18.1.13,c.69.1.21 85041,85042 1wkbA 810 2.59e+01 1wz8A 264 2.60e+01 2es9A 115 2.62e+01 2pviA 157 2.68e+01 3pviA c.52.1.6 33302 1zvdA 380 2.75e+01 1lldA 319 2.79e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1z57A 339 2.80e+01 1yz7A 188 2.85e+01 2a7kA 250 2.87e+01 1huuA 90 2.87e+01 1huuA a.55.1.1 17897 2f22A 144 2.92e+01 1w2qA 127 2.94e+01 1s72B 338 2.98e+01 b.43.3.2 105320 1dyoA 160 3.00e+01 1dyoA b.18.1.7 23771 1smlA 269 3.03e+01 1smlA d.157.1.1 42053 1kp8A 547 3.04e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1u9lA 70 3.07e+01 a.60.4.2 107751 1uptC 170 3.14e+01 c.37.1.8 99769 1i0cA 60 3.17e+01 1aojA b.34.2.1 61485 1e3mA 800 3.17e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1gd0A 122 3.24e+01 1dptA d.80.1.3 39834 1ug8A 87 3.27e+01 d.68.7.1 107825 1jj2B 337 3.28e+01 1ffkB b.43.3.2 63086 1tueA 212 3.32e+01 c.37.1.20 107323 2a10A 125 3.33e+01 1kkhA 317 3.35e+01 d.14.1.5,d.58.26.3 72645,72646 1gw5S 142 3.36e+01 d.110.4.2 70633 1z9zA 60 3.53e+01 1iyxA 432 3.54e+01 c.1.11.1,d.54.1.1 83815,83816 1p5sA 203 3.55e+01 a.40.1.1 94147 1zdnA 158 3.74e+01 2agtA 319 3.77e+01 1wad 112 3.77e+01 3cyr a.138.1.1 19658 1jbkA 195 3.81e+01 c.37.1.20 71631 1ail 73 3.87e+01 1ail a.16.1.1 16381 1f75A 249 3.91e+01 1f75A c.101.1.1 59662 1omrA 201 4.02e+01 a.39.1.5 93349 1pwmA 316 4.05e+01 c.1.7.1 95231 1zpyA 95 4.17e+01 1hssA 124 4.22e+01 1bea a.52.1.2 17819 1ig8A 486 4.31e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1vqoB 338 4.32e+01 1h8gA 95 4.35e+01 b.109.1.1 65735 1us0A 316 4.35e+01 c.1.7.1 99850 1ohzB 60 4.41e+01 a.139.1.1 93044 1a8y 367 4.45e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1lm6A 215 4.47e+01 d.167.1.1 84628 1g03A 134 4.52e+01 1qrjB a.73.1.1 60162 1xd5A 112 4.54e+01 2a7mA 250 4.54e+01 1yvoA 172 4.57e+01 1r1tA 122 4.63e+01 a.4.5.5 104769 1ad1A 266 4.70e+01 1aj2 c.1.21.1 29668 1gvjA 146 4.73e+01 a.4.5.21 90525 1lfpA 249 4.83e+01 e.39.1.1 73885 2gtrA 261 4.94e+01 1p7gA 222 4.97e+01 a.2.11.1,d.44.1.1 94223,94224 1f1zA 273 5.04e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1c8cA 64 5.04e+01 1azpA b.34.13.1 59084 1f3mC 297 5.05e+01 1hcl d.144.1.7 41677 1eueA 86 5.06e+01 1cyo d.120.1.1 59504 1ds1A 324 5.09e+01 1drtA b.82.2.2 28127 1srvA 145 5.25e+01 1derA c.8.5.1 30817 1evhA 112 5.30e+01 1evhA b.55.1.4 26997 1wb9A 800 5.31e+01 2bl1A 172 5.32e+01 1r4xA 275 5.35e+01 b.1.10.3,d.105.1.2 97054,97055 1qbjA 81 5.43e+01 1qbjA a.4.5.19 16155 1b71A 191 5.59e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1yw5A 177 5.62e+01 3fapB 94 5.64e+01 1nsgB a.24.7.1 16612 1ayoA 130 5.65e+01 1ayoA b.2.4.1 22431 2fpeA 62 5.76e+01 1r7cA 31 5.80e+01 j.35.1.1 104831 1svmA 377 5.94e+01 1zmeC 70 5.96e+01 1zmeC g.38.1.1,h.1.3.1 45081,45514 1vicA 262 5.97e+01 c.68.1.13 100756 1txoA 237 5.99e+01 1vl4A 447 6.05e+01 d.283.1.1 108718 1ep3B 262 6.06e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1sqlA 146 6.15e+01 d.96.1.3 105925 2bibA 547 6.21e+01 1aa7A 158 6.29e+01 1aa7A a.95.1.1 18741 1ps9A 671 6.43e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1b7dA 61 6.43e+01 1aho g.3.7.1 44139 1dugA 234 6.49e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 4enl 436 6.56e+01 4enl c.1.11.1,d.54.1.1 29202,38846 2ex3B 264 6.59e+01 1npiA 61 6.61e+01 g.3.7.1 80685 2ax8A 256 6.62e+01 1bm4A 32 6.64e+01 1bm4A j.47.1.1 46325 1hulA 108 6.76e+01 1hulA a.26.1.2 16865 1k3yA 221 6.76e+01 a.45.1.1,c.47.1.5 77245,77246 1y1xA 191 6.77e+01 2ax9A 256 6.78e+01 1o8vA 134 6.80e+01 b.60.1.2 86680 1lf7A 182 6.83e+01 b.60.1.1 73878 1z2cB 383 6.86e+01 2gi3A 476 6.88e+01 3fruA 269 6.92e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1fj2A 232 6.98e+01 1auoA c.69.1.14 34720 1yqhA 109 7.01e+01 1lj9A 144 7.03e+01 a.4.5.28 78035 1qjbA 245 7.09e+01 1qjaA a.118.7.1 19202 1eyqA 222 7.14e+01 1eypA d.36.1.1 38534 3pmgA 561 7.16e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1pinA 163 7.24e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1z72A 225 7.25e+01 1zvaA 77 7.28e+01 1n25A 368 7.30e+01 c.37.1.20 85264 1tg0A 68 7.33e+01 1hw6A 278 7.36e+01 1frb c.1.7.1 61296 1yx4A 132 7.36e+01 1gz6A 319 7.42e+01 c.2.1.2 76410 1nh8A 304 7.54e+01 c.94.1.1,d.58.5.3 80507,80508 1k4mA 213 7.55e+01 c.26.1.3 77258 1s2oA 244 7.56e+01 1bjt 793 7.56e+01 1bjt e.11.1.1 43249 2cvjA 180 7.57e+01 1azpA 66 7.58e+01 1azpA b.34.13.1 37467 1fqiA 147 7.67e+01 1agrE a.91.1.1 18542 1rylA 167 7.69e+01 d.276.1.1 105124 1z5bA 469 7.76e+01 1t4gA 322 7.77e+01 a.60.4.1,c.37.1.11 106418,106419 1c1dA 355 7.84e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1nm8A 616 7.88e+01 c.43.1.3,c.43.1.3 85872,85873 1uj0A 62 7.92e+01 b.34.2.1 99449 1zgyA 272 7.99e+01 1tmxA 293 8.10e+01 1vqwA 457 8.11e+01 1ka2A 499 8.12e+01 d.92.1.5 77305 1wovA 250 8.16e+01 1f0iA 504 8.18e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1w66A 232 8.24e+01 1vqoR 155 8.37e+01 1cskA 71 8.42e+01 1ckaA b.34.2.1 24513 1qjtA 99 8.53e+01 1eh2 a.39.1.6 17335 2al2A 436 8.53e+01 1v0wA 506 8.58e+01 d.136.1.2,d.136.1.2 108220,108221 1mw5A 187 8.59e+01 d.259.1.1 91477 2b0jA 358 8.61e+01 1pbwA 216 8.61e+01 1pbwA a.116.1.1 19103 1djqA 729 8.65e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1i07A 60 8.69e+01 1aojA b.34.2.1 61477 1yemA 179 8.71e+01 1ia8A 289 8.75e+01 1ia8A d.144.1.7 62112 1yhtA 367 8.79e+01 1kc6A 257 8.85e+01 c.52.1.19 68419 1lki 180 8.88e+01 1lki a.26.1.1 16829 1o94A 729 8.91e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1wgwA 99 8.91e+01