# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1jx7A 117 1.15e-01 c.114.1.1 77195 1ndk 155 2.80e-01 1npk d.58.6.1 39118 1knwA 425 3.36e-01 b.49.2.3 -4274 c.1.6.1 -5229 1npk 154 4.46e-01 1npk d.58.6.1 39099 1f3fA 155 5.77e-01 1npk d.58.6.1 39101 2viuA 328 9.22e-01 1hgeA b.19.1.2 23797 1hgeA 328 9.60e-01 1hgeA b.19.1.2 23816 1r6xA 395 1.18e+00 b.122.1.3 -5125 c.26.1.5 -6620 3hmgA 328 1.19e+00 1hgeA b.19.1.2 23825 1jsmA 325 1.41e+00 b.19.1.2 63264 1m32A 366 1.42e+00 c.67.1.3 78508 1hh1A 143 1.88e+00 1gefA c.52.1.18 61036 1g8fA 511 1.89e+00 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1smlA 269 2.05e+00 1smlA d.157.1.1 42053 1fukA 165 2.24e+00 1fukA c.37.1.19 32409 1uekA 275 2.37e+00 d.14.1.5 88483 d.58.26.5 88484 1bib 321 3.27e+00 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1n83A 270 3.55e+00 a.123.1.1 80276 1bia 321 3.67e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1l1qA 186 3.70e+00 c.61.1.1 77653 1fkj 107 4.00e+00 1fkj d.26.1.1 38384 1fkf 107 4.00e+00 1fkj d.26.1.1 38386 1tk9A 188 4.03e+00 1sjyA 159 4.24e+00 d.113.1.1 -10908 1fkd 107 4.78e+00 1fkj d.26.1.1 38383 1ep3B 262 4.91e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1bkf 107 5.21e+00 1fkj d.26.1.1 38382 1unkA 87 5.32e+00 1cei a.28.2.1 16935 1c4xA 285 5.35e+00 1c4xA c.69.1.10 34684 1umdB 324 5.36e+00 c.36.1.7 -6929 c.48.1.2 -7539 1fhdA 312 5.39e+00 1taxA c.1.8.3 28915 1k4wA 252 5.42e+00 a.123.1.1 72068 1fh9A 312 5.51e+00 1taxA c.1.8.3 28913 1nq7A 244 5.65e+00 a.123.1.1 -1682 2his 312 5.80e+00 1taxA c.1.8.3 28918 1l1sA 113 5.86e+00 c.114.1.1 73484 1ghtA 105 6.35e+00 2rslA c.53.1.1 60526 1ep2B 261 6.61e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 1ffkK 186 6.96e+00 1ffkK c.55.4.1 33731 1rypI 222 6.97e+00 d.153.1.4 41877 1a2vA 655 7.21e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1pdo 135 7.22e+00 1pdo c.54.1.1 33376 1f3yA 165 7.33e+00 d.113.1.1 59635 1g65K 211 7.35e+00 d.153.1.4 41907 1gdtA 183 7.48e+00 2rslA a.4.1.2 16021 c.53.1.1 33348 1ufkA 254 7.50e+00 unknown_sccs -8103 1exrA 148 7.82e+00 1cll a.39.1.5 17299 1g6oA 330 7.92e+00 1g6oA c.37.1.11 32430 2tmdA 729 8.33e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1h0cA 392 8.52e+00 c.67.1.3 83424 1ou0A 207 8.70e+00 c.23.17.1 -6498 1nogA 177 9.13e+00 a.25.2.2 85923 1osa 148 9.19e+00 1cll a.39.1.5 17300 1omiA 248 9.62e+00 a.4.5.4 87079 b.82.3.3 87080 1jsdA 319 9.76e+00 b.19.1.2 63258 1am2 199 9.83e+00 1am2 b.86.1.2 28381 1pwgA 349 9.88e+00 1fjgB 256 1.00e+01 1fjfB c.23.15.1 31400 1vj1A 363 1.05e+01 b.35.1.2 -3728 c.2.1.1 -5752 1mplA 349 1.06e+01 e.3.1.1 79387 1ie5A 107 1.10e+01 b.1.1.4 62312 1dquA 538 1.12e+01 1dquA c.1.12.7 29314 1cei 94 1.19e+01 1cei a.28.2.1 16939 3pte 349 1.22e+01 3pte e.3.1.1 42687 1hvbA 349 1.26e+01 3pte e.3.1.1 42686 1fc4A 401 1.27e+01 1bs0A c.67.1.4 59760 1bftA 101 1.27e+01 1a3qA b.1.18.1 21934 1g4yR 148 1.29e+01 1cll a.39.1.5 60252 1ass 159 1.33e+01 1a6dA c.8.5.2 30818 1jsqA 582 1.34e+01 i.13.1.1 63270 2hgsA 474 1.34e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1dqwA 267 1.36e+01 1dqwA c.1.2.3 28551 1h0bA 256 1.36e+01 b.29.1.11 83422 1asx 159 1.40e+01 1a6dA c.8.5.2 30821 1h6yA 170 1.44e+01 b.18.1.7 70904 1rypL 212 1.51e+01 d.153.1.4 41880 1kc6A 257 1.52e+01 c.52.1.19 68419 1mkyA 439 1.53e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1ggzA 148 1.58e+01 a.39.1.5 70176 1g1cA 99 1.63e+01 b.1.1.4 65078 1uf2A 1019 1.71e+01 unknown_sccs -12036 2mbr 340 1.82e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1ga0A 364 1.88e+01 1gceA e.3.1.1 60410 1m5q1 130 1.93e+01 1gceA 364 1.93e+01 1gceA e.3.1.1 42738 1vkxA 273 1.95e+01 1a3qA b.1.18.1 21941 b.2.5.3 22454 1fdr 248 1.97e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1efcA 393 2.00e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1o57A 291 2.03e+01 unknown_sccs -249 c.61.1.1 -7960 1p41A 291 2.03e+01 1kvlA 358 2.03e+01 e.3.1.1 73062 1onhA 364 2.06e+01 e.3.1.1 -11769 1dqgA 135 2.06e+01 1dqgA b.42.2.2 25579 1rgzA 363 2.19e+01 e.3.1.1 -11771 1d7yA 408 2.27e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1c0pA 363 2.33e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1rj9A 304 2.34e+01 a.24.13.1 -631 c.37.1.10 -7129 1kbqA 273 2.35e+01 c.23.5.3 68391 1s72Y 241 2.35e+01 1fwuA 134 2.36e+01 1dqgA b.42.2.2 25580 1iupA 282 2.39e+01 c.69.1.10 76815 1l0gA 358 2.39e+01 e.3.1.1 73400 1oqjA 97 2.39e+01 d.217.1.1 -9412 1d4aA 273 2.39e+01 1d4aA c.23.5.3 31219 1hkhA 279 2.44e+01 c.69.1.12 -8342 1o7fA 469 2.46e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1vjpA 394 2.47e+01 c.2.1.3 -5897 d.81.1.3 -10480 1j7rA 86 2.49e+01 1j7rA a.39.1.5 62701 1jj2X 240 2.53e+01 1ffkV c.9.2.1 63109 1uxy 340 2.57e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1m45A 148 2.57e+01 a.39.1.5 78598 1pnsB 234 2.58e+01 i.1.1.1 88169 1qr0A 228 2.60e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 2cgpA 210 2.62e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1j5eB 256 2.63e+01 c.23.15.1 71543 1pi4A 358 2.65e+01 e.3.1.1 -11774 1q3oA 109 2.69e+01 b.36.1.1 -3776 1np6A 174 2.71e+01 c.37.1.10 85954 1djnA 729 2.73e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1cll 148 2.80e+01 1cll a.39.1.5 17263 3cln 148 2.80e+01 1cll a.39.1.5 17286 1hzpA 335 2.86e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1ji0A 240 2.86e+01 c.37.1.12 71665 1tffA 234 2.91e+01 1ll1 590 2.99e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.18.3 21864 1c7nA 399 3.01e+01 1d2fA c.67.1.3 34413 1ni4B 341 3.02e+01 c.36.1.7 85729 c.48.1.2 85730 1o69A 394 3.05e+01 c.67.1.4 -8209 1p0hA 318 3.07e+01 d.108.1.1 -10802 1opr 213 3.10e+01 1opr c.61.1.1 34091 1dd3A 128 3.11e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1a8p 258 3.14e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 2bltA 361 3.14e+01 1gceA e.3.1.1 42739 1npyA 271 3.14e+01 c.2.1.7 85995 c.58.1.5 85996 1kas 412 3.18e+01 1dd8A c.95.1.1 35964 c.95.1.1 35965 1i3cA 149 3.19e+01 c.23.1.1 71112 1i0lA 221 3.19e+01 c.61.1.1 71096 1h05A 146 3.21e+01 c.23.13.1 76433 1j8mF 297 3.24e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1fsyA 358 3.31e+01 1gceA e.3.1.1 60016 2frvA 264 3.33e+01 2frvA e.19.1.1 43303 1gq8A 319 3.35e+01 b.80.1.5 70350 2dhqA 146 3.35e+01 2dhqA c.23.13.1 31382 1qzzA 374 3.44e+01 a.4.5.29 -277 c.66.1.12 -8045 2blsA 358 3.52e+01 1gceA e.3.1.1 42747 1my7A 114 3.52e+01 b.1.18.1 79675 1akhB 83 3.55e+01 1akhB a.4.1.1 15985 1lox 662 3.55e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1o94A 729 3.57e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1qdbA 473 3.57e+01 1qdbA a.138.1.3 19688 1whi 122 3.59e+01 1whi b.39.1.1 24810 1hw5A 210 3.68e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1ry6A 360 3.68e+01 c.37.1.9 -7111 1ie9A 259 3.72e+01 1db1A a.123.1.1 62318 1n3bA 216 3.79e+01 c.37.1.1 79959 1aohB 147 3.81e+01 1aohA b.2.2.2 22402 1qyiA 384 3.82e+01 unknown_sccs -6836 1fjrA 195 3.87e+01 1fjrA b.102.1.1 59855 1o5hA 214 3.88e+01 unknown_sccs -1078 1h10A 125 3.89e+01 b.55.1.1 83446 1l8rA 101 3.89e+01 a.6.1.4 73700 1cl2A 395 3.90e+01 1cl2A c.67.1.3 34397 1psrA 100 3.95e+01 1psrA a.39.1.2 17180