# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1z7lA 276 6.74e-01 1gqoM 143 1.44e+00 c.23.13.1 76307 1gqoQ 143 1.45e+00 c.23.13.1 76311 1gqoY 143 1.80e+00 c.23.13.1 76318 1gqoI 143 2.08e+00 c.23.13.1 76303 1gqoO 143 2.22e+00 c.23.13.1 76309 1gqoF 143 2.23e+00 c.23.13.1 76300 1gqoS 143 2.25e+00 c.23.13.1 76313 1gqoB 143 2.31e+00 c.23.13.1 76296 1ylxA 103 2.40e+00 d.82.5.1 123677 1gqoL 143 2.47e+00 c.23.13.1 76306 1gqoU 143 2.53e+00 c.23.13.1 76315 1gqoG 143 2.88e+00 c.23.13.1 76301 1gqoE 143 2.88e+00 c.23.13.1 76299 1gqoT 143 2.92e+00 c.23.13.1 76314 1gqoP 143 3.04e+00 c.23.13.1 76310 1gqoD 143 3.04e+00 c.23.13.1 76298 1gqoC 143 3.06e+00 c.23.13.1 76297 1v5mA 136 3.12e+00 b.55.1.1 108379 1gqoJ 143 3.38e+00 c.23.13.1 76304 1gqoR 143 3.70e+00 c.23.13.1 76312 1aqcA 172 4.74e+00 1x11A b.55.1.2 26983 1rpl 251 4.92e+00 1bpyA 1u96A 69 5.14e+00 a.17.1.2 113232 1ka6A 128 5.61e+00 d.93.1.1 68370 1gqoH 143 5.72e+00 c.23.13.1 76302 1f1sA 814 5.88e+00 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1gqoX 143 6.47e+00 c.23.13.1 76317 1gqoV 143 6.67e+00 c.23.13.1 76316 1mjhB 162 7.12e+00 1mjhA c.26.2.4 31640 1mjhA 162 7.57e+00 1mjhA c.26.2.4 31639 1wpbA 172 7.64e+00 a.233.1.1 114783 1e6eB 128 7.73e+00 1ayfA d.15.4.1 59300 1pvgA 418 8.33e+00 d.14.1.3,d.122.1.2 95161,95162 1gqoK 143 8.37e+00 c.23.13.1 76305 1tjlA 151 8.45e+00 a.2.14.1,g.39.1.13 107027,107028 1uqrA 154 9.01e+00 c.23.13.1 99779 1b8eA 162 9.43e+00 1bebA b.60.1.1 59077 1bxdA 161 9.56e+00 1bxdA d.122.1.3 41111 1nwmX 142 9.67e+00 a.7.8.1 86301 1z5sD 83 9.76e+00 1bpb 248 1.00e+01 1bpyA 1v5xA 203 1.02e+01 c.1.2.4 100377 1gqoN 143 1.16e+01 c.23.13.1 76308 1nom 248 1.35e+01 1bpyA 1k2xA 177 1.40e+01 d.153.1.5 90929 1joyA 67 1.40e+01 1joyA a.30.2.1 16991 1n91A 108 1.43e+01 d.206.1.1 80326 1np8A 159 1.43e+01 a.39.1.8 92022 5csmA 256 1.50e+01 5csmA a.130.1.2 19494 1ffh 294 1.50e+01 1ng1 1qqp3 220 1.67e+01 1qqp3 1go3F 107 1.69e+01 a.60.8.2 65407 1ld8B 437 1.75e+01 a.102.4.3 73839 1sap 66 1.76e+01 1azpA 1vg5A 73 1.76e+01 a.5.2.1 113640 1vr6A 350 1.80e+01 c.1.10.4 120439 1tn6B 437 1.82e+01 a.102.4.3 112528 2bj7A 138 1.87e+01 a.43.1.3,d.58.18.4 128608,128609 1jcrB 437 1.89e+01 a.102.4.3 66507 1bebA 162 1.92e+01 1bebA b.60.1.1 27115 1e50B 134 2.00e+01 2jhbA b.54.1.1 59245 1bbt3 220 2.01e+01 1qqp3 1th5A 74 2.16e+01 d.52.8.1 119263 1ufzA 83 2.19e+01 a.5.9.1 107821 1b4cA 92 2.21e+01 1b4cA a.39.1.2 17169 1sw6A 327 2.22e+01 1sw6A d.211.1.1 19176 1d8dB 437 2.23e+01 1ft1B a.102.4.3 18866 1bbxC 63 2.26e+01 1azpA b.34.13.1 37465 1t95A 240 2.27e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1xw3A 110 2.33e+01 1ls1A 295 2.35e+01 a.24.13.1,c.37.1.10 78170,78171 1c1lA 136 2.39e+01 1c1lA b.29.1.3 24219 1jlvA 209 2.40e+01 a.45.1.1,c.47.1.5 71729,71730 1jwhA 337 2.42e+01 d.144.1.7 71913 1wt6A 81 2.43e+01 2d9kA 75 2.55e+01 1htmB 138 2.58e+01 1htmB h.3.1.1 45677 1dfd 64 2.72e+01 1fxd 1xn5A 146 2.75e+01 d.129.3.5 115574 1iv0A 98 2.75e+01 c.55.3.8 90706 1a5v 162 2.81e+01 1cxqA 1bf4A 63 2.89e+01 1azpA b.34.13.1 37461 1k0rA 366 3.02e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1g9uA 454 3.03e+01 c.10.2.6 65172 1x4rA 99 3.13e+01 1yz7A 188 3.29e+01 1u84A 90 3.33e+01 a.230.1.1 113114 1oa8A 133 3.46e+01 b.145.1.1 92698 1s6cA 183 3.49e+01 a.39.1.5 98594 1xw4X 110 3.56e+01 1vqoQ 96 3.61e+01 b.34.5.1 120378 1pujA 282 3.63e+01 c.37.1.8 88294 1ospO 257 3.67e+01 1ospO b.76.1.1 27971 1p9qC 256 3.75e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1s72Q 96 3.77e+01 b.34.5.1 105336 2ng1 293 3.87e+01 1ng1 1dax 64 3.91e+01 1fxd 1xyiA 66 4.07e+01 1j1jA 240 4.08e+01 a.118.16.1 90762 1rzmA 338 4.12e+01 c.1.10.4 105137 1c8cA 64 4.19e+01 1azpA b.34.13.1 59084 1zvaA 77 4.20e+01 h.3.3.1 125701 1i27A 73 4.30e+01 1i27A a.4.5.30 61555 1tv9A 335 4.35e+01 a.60.6.1,a.60.12.1,d.218.1.2 112675,112676,112677 1bnzA 64 4.54e+01 1azpA b.34.13.1 37468 2fmpA 335 4.54e+01 a.60.6.1,a.60.12.1,d.218.1.2 133786,133787,133788 1w4tA 299 4.63e+01 d.3.1.5 120639 1klqA 197 4.65e+01 d.135.1.1 68689 1fxrA 64 4.74e+01 1fxd d.58.1.4 38993 1jj2P 95 4.75e+01 1ffkN b.34.5.1 63101 1wp8A 89 4.78e+01 1avwB 171 4.83e+01 1wba b.42.4.1 25599 1j6qA 136 4.87e+01 b.40.9.1 77091 2lfb 100 4.94e+01 1lfb 2bwfA 77 5.00e+01 d.15.1.1 129363 1jnyA 435 5.05e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1w6sB 74 5.06e+01 a.137.2.1 114285 1eiyB 785 5.11e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,b.153.1.1 16305,16306,25314,39313,40782,41458 1iuhA 198 5.19e+01 d.61.1.2 83711 5eat 548 5.20e+01 5eat 1gtdA 85 5.22e+01 d.284.1.1 76344 1kpuA 274 5.23e+01 b.1.1.2,d.19.1.1 84456,84457 1u0jA 267 5.27e+01 c.37.1.20 107546 1g7pA 274 5.28e+01 b.1.1.2,d.19.1.1 70153,70154 1hbkA 94 5.37e+01 1aca a.11.1.1 60887 1b7yB 785 5.47e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,b.153.1.1 16301,16302,25312,39311,40780,41456 1vlaA 150 5.54e+01 d.227.1.2 108735 1bpyA 335 5.55e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1sseB 86 5.65e+01 1ilyA 90 5.70e+01 c.55.4.1 71245 1jpnA 296 5.88e+01 a.24.13.1,c.37.1.10 67039,67040 1vor1 73 5.88e+01 1xg0C 177 5.98e+01 a.1.1.3 115275 1dq3A 454 6.03e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1u5tA 233 6.14e+01 a.4.5.54,a.4.5.54 107684,107685 1jmuB 666 6.36e+01 1vsd 152 6.37e+01 1cxqA 1yduA 170 6.40e+01 b.162.1.1 123003 1n6zA 105 6.46e+01 d.263.1.1 85369 2itg 163 6.49e+01 1b9dA 1k52A 72 6.49e+01 d.15.7.1 68148 1xkpA 246 6.51e+01 a.243.1.3 122086 1at0 145 6.52e+01 1at0 1m1hA 248 6.60e+01 b.114.1.1,d.58.42.1 78415,78416 1dqtA 117 6.67e+01 1ah1 b.1.1.1 20653 2gkpA 167 6.68e+01 1gr5A 547 6.72e+01 i.16.1.1 65478 1agjA 242 6.73e+01 1agjA b.47.1.1 25827 1azqA 66 6.74e+01 1azpA b.34.13.1 37469 1qu1A 155 6.89e+01 1qu1A h.3.1.1 45670 1ariA 396 6.98e+01 1ajsA c.67.1.1 34331 4gr1 478 7.01e+01 3grs 1o58A 303 7.17e+01 c.79.1.1 92491 1go4A 205 7.23e+01 d.135.1.1 70292 1ehxA 94 7.29e+01 1ehxA b.1.18.13 21950 1keyA 235 7.40e+01 a.118.16.1 72389 1wh5A 80 7.45e+01 a.4.1.1 114633 1zd8A 227 7.51e+01 1qwzA 235 7.69e+01 b.100.1.1 96510 2c4wA 176 7.70e+01 2b9wA 424 7.77e+01 1t6sA 162 7.84e+01 a.4.5.60,a.4.5.60 112271,112272 1a3qA 285 7.84e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1cdb 105 7.92e+01 1qa9A 1rlkA 117 7.94e+01 c.131.1.1 97651 1yg2A 179 8.08e+01 a.4.5.61 116681 1tr0A 108 8.10e+01 d.58.4.4 107261 1ng1 294 8.13e+01 1ng1 1csmA 256 8.25e+01 5csmA a.130.1.2 19495 1vr4A 103 8.26e+01 d.230.5.1 120432 1fzkA 274 8.29e+01 1agdA b.1.1.2,d.19.1.1 60149,60150 1jovA 270 8.30e+01 b.30.5.7 84192 2aqjA 538 8.32e+01 1tyjA 170 8.43e+01 b.2.2.2 119390 1n2aA 201 8.43e+01 a.45.1.1,c.47.1.5 91553,91554 1auiA 521 8.46e+01 1auiA d.159.1.3 42085 1qysA 106 8.65e+01 k.41.1.1 96603 1ueoA 63 8.66e+01 j.107.1.1 99269 1hnf 182 8.82e+01 1qa9A 3grs 478 8.88e+01 3grs