# 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 1fjgM 126 1.55e-01 1fjfM a.156.1.1 16293 2bgu 351 1.98e-01 1c3jA c.87.1.1 35460 1c3jA 351 2.01e-01 1c3jA c.87.1.1 35459 1foeA 377 3.09e-01 1foeA a.87.1.1 18517 b.55.1.1 26969 1jg7A 351 8.13e-01 1c3jA c.87.1.1 62945 1jixA 351 8.72e-01 1c3jA c.87.1.1 63081 1eluB 390 1.24e+00 1elqA c.67.1.3 34435 1mu5A 471 1.48e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1f5nA 592 1.79e+00 1dg3A a.114.1.1 19077 c.37.1.8 32152 1dg3A 592 1.83e+00 1dg3A a.114.1.1 19078 c.37.1.8 32153 1dbhA 354 1.90e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1vk3A 615 2.00e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1eluA 390 2.22e+00 1elqA c.67.1.3 34434 1lrzA 426 2.51e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1aihA 170 2.59e+00 1aihA d.163.1.1 42149 1elqA 390 2.94e+00 1elqA c.67.1.3 34436 1jztA 246 2.96e+00 c.104.1.1 63319 1f5xA 208 3.01e+00 1f5xA a.87.1.1 18516 1quuA 250 3.09e+00 1quuA a.7.1.1 16320 a.7.1.1 16321 1lox 662 3.16e+00 1lox a.119.1.2 19238 b.12.1.1 23638 1l8dA 112 3.44e+00 h.4.12.1 73687 1l8wA 348 3.82e+00 a.154.1.1 73704 1id3B 102 4.09e+00 a.22.1.1 66113 1j7nA 776 4.25e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1j7nB 776 4.25e+00 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1aisA 182 4.26e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1o1yA 239 4.44e+00 c.23.16.1 86554 5eau 548 4.48e+00 5eat a.102.4.1 18851 a.128.1.3 19443 1t7pA 698 4.85e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 9apiA 347 5.32e+00 1ovaA e.1.1.1 42630 1lxtA 561 5.41e+00 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1eijA 80 5.44e+00 1eijA a.5.6.1 16298 1mijA 152 5.52e+00 a.4.1.1 79150 1qs1A 462 5.67e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 3pmgA 561 6.79e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1jyoE 105 6.85e+00 d.184.1.2 67487 1gnc 178 7.76e+00 1bgc a.26.1.1 16821 1ffkT 154 8.72e+00 1ffkT d.59.1.1 39527 5eat 548 9.40e+00 5eat a.102.4.1 18853 a.128.1.3 19445 1bg1A 722 9.55e+00 1bg1A a.47.1.1 17767 b.2.5.5 22461 d.93.1.1 40527 1kqfB 294 9.57e+00 d.58.1.5 75900 f.23.22.1 75901 1cmiA 85 9.78e+00 1cmiA d.39.1.1 38551 1qlpA 394 1.02e+01 1ovaA e.1.1.1 42628 1hx1B 114 1.03e+01 1hx1B a.7.7.1 61350 1rfmA 344 1.06e+01 c.122.1.1 -8032 1mr3F 181 1.14e+01 c.37.1.8 79422 1k8kF 168 1.25e+01 d.198.2.1 68312 1dn1B 267 1.27e+01 1dn1B a.47.2.1 17771 1hy0A 466 1.27e+01 1auwA a.127.1.1 61392 1ggqA 174 1.31e+01 1ggqA a.24.12.1 60486 1dxtB 147 1.31e+01 1abwA a.1.1.2 15450 1jytA 163 1.36e+01 b.94.1.1 67489 1ni4A 365 1.38e+01 c.36.1.7 85728 1nk4A 580 1.44e+01 c.55.3.5 -7625 e.8.1.1 -11875 1orjA 130 1.44e+01 unknown_sccs -611 1vj1A 363 1.45e+01 b.35.1.2 -3728 c.2.1.1 -5752 1evsA 187 1.46e+01 1evsA a.26.1.1 16845 1s5lO 246 1.47e+01 1cd31 152 1.53e+01 1cd31 1e3oC 160 1.57e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1gp6A 356 1.58e+01 b.82.2.1 65441 1fmjA 351 1.61e+01 c.37.1.5 59879 1b68A 191 1.72e+01 1nfn a.24.1.1 59076 1dkxA 219 1.74e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1ez3A 127 1.79e+01 1dn1B a.47.2.1 17768 1c1lA 136 1.80e+01 1c1lA b.29.1.3 24219 1d2zB 153 1.81e+01 1d2zB a.77.1.2 18439 2bdpA 580 1.82e+01 1xwl c.55.3.5 33709 e.8.1.1 43002 1al01 152 1.83e+01 1cd31 4hb1 108 1.86e+01 4hb1 k.8.1.1 46414 1ig5A 75 1.90e+01 4icb a.39.1.1 62363 1fhjB 146 1.90e+01 1abwA a.1.1.2 59838 1octC 156 1.92e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1q1aA 289 1.93e+01 c.31.1.5 -6781 1v4xA 144 1.96e+01 1l7mA 211 2.05e+01 c.108.1.4 73664 1jfmA 174 2.07e+01 d.19.1.1 66640 1gp4A 356 2.09e+01 b.82.2.1 65439 1fc2C 58 2.17e+01 1fc2C a.8.1.1 16345 1babB 146 2.17e+01 1abwA a.1.1.2 15414 1ml4A 308 2.18e+01 c.78.1.1 79255 c.78.1.1 79256 1gy7A 125 2.21e+01 d.17.4.2 70738 1or3A 165 2.22e+01 1nfn a.24.1.1 16522 1dgfA 497 2.31e+01 1cf9A e.5.1.1 42782 1l3sA 580 2.37e+01 c.55.3.5 84521 e.8.1.1 84522 2ay1A 394 2.44e+01 1ajsA c.67.1.1 34357 1dkzA 219 2.45e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1jpnA 296 2.46e+01 a.24.13.1 67039 c.37.1.10 67040 1g55A 343 2.52e+01 1g55A c.66.1.26 34247 2ohxA 374 2.59e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1hq3D 103 2.60e+01 1aoiB a.22.1.1 16464 8adh 374 2.60e+01 2ohxA b.35.1.2 24690 c.2.1.1 29706 1jfiB 179 2.62e+01 1jfiB a.22.1.3 62937 1lngA 87 2.62e+01 d.201.1.1 74045 1imvA 398 2.65e+01 e.1.1.1 62591 1cor 82 2.69e+01 451c a.3.1.1 15903 1a04A 215 2.70e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1add 349 2.72e+01 1a4mA c.1.9.1 29020 1kgnA 329 2.75e+01 a.25.1.2 68584 1dghB 498 2.77e+01 1cf9A e.5.1.1 42791 1seiA 130 2.78e+01 1seiA d.140.1.1 41463 1c1kA 217 2.78e+01 1c1kA a.120.1.1 19239 1rhcA 330 2.81e+01 c.1.16.3 -5606 1ls1A 295 2.83e+01 a.24.13.1 78170 c.37.1.10 78171 1i0aA 466 2.84e+01 1auwA a.127.1.1 61479 1heuA 374 2.85e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1j55A 95 2.87e+01 a.39.1.2 77078 1ass 159 2.88e+01 1a6dA c.8.5.2 30818 1l3aA 228 2.88e+01 d.18.1.2 73531 1duzA 275 2.91e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1pq1A 196 3.04e+01 f.1.4.1 -12055 1jy3O 56 3.10e+01 h.1.8.1 67447 1ng6A 148 3.17e+01 a.182.1.1 85670 1af5 126 3.22e+01 1bp7A d.95.2.1 40572 1nksA 194 3.25e+01 1nksA c.37.1.1 31886 1mwwA 128 3.25e+01 unknown_sccs -10451 2fua 215 3.27e+01 2fua c.74.1.1 34977 7catA 506 3.31e+01 1cf9A e.5.1.1 42781 1irdB 146 3.35e+01 a.1.1.2 66287 1fs0G 230 3.38e+01 1fs0G c.49.2.1 59999 1iygA 133 3.41e+01 a.118.8.1 76947 1eblB 317 3.42e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 2ng1 293 3.42e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1gcyA 527 3.42e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1d9cA 121 3.42e+01 1d9cA a.26.1.3 16901 1a4mA 349 3.43e+01 1a4mA c.1.9.1 29014 1a32 88 3.49e+01 1a32 a.16.1.2 16384 1hnjA 317 3.52e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1iwhB 146 3.56e+01 a.1.1.2 76883 1i4fA 275 3.57e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1mhlC 466 3.59e+01 1mhlC 1i4mA 108 3.65e+01 d.6.1.1 66025 1hn9A 317 3.67e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1k7wA 468 3.69e+01 a.127.1.1 72130 1di1A 300 3.71e+01 1di1A a.128.1.4 19446 1tsm 316 3.75e+01 1bkpA d.117.1.1 41024 1iyrA 111 3.80e+01 a.164.1.1 76973 1ng1 294 3.81e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 3bdpA 580 3.81e+01 1xwl c.55.3.5 33711 e.8.1.1 43004 1deeG 54 3.84e+01 1fc2C a.8.1.1 16343 1n8kA 374 3.85e+01 b.35.1.2 80298 c.2.1.1 80299 1n87A 56 3.87e+01 g.44.1.2 85390 1m6nA 802 3.88e+01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1lpe 144 3.89e+01 1nfn a.24.1.1 16524 1dcuA 357 3.92e+01 1frpA e.7.1.1 42943 1agrE 205 3.94e+01 1agrE a.91.1.1 18538 1nh1A 330 3.95e+01 unknown_sccs -11798 1fkx 349 3.97e+01 1a4mA c.1.9.1 29018 1bdc 60 3.99e+01 1fc2C a.8.1.1 16350