# 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 2au5A 139 9.33e-02 1pyaB 228 2.76e-01 1pyaB 1ibvB 229 3.20e-01 2vhbB 146 8.73e-01 2vhbA a.1.1.2 15630 2vhbA 146 8.87e-01 2vhbA a.1.1.2 15629 1bw6A 56 1.20e+00 1bw6A a.4.1.7 16052 2f4eA 180 2.58e+00 1c3d 294 3.26e+00 1c3d a.102.4.4 18874 1w2yA 229 3.53e+00 a.204.1.1 109140 1rkbA 173 3.54e+00 1faaA 124 4.80e+00 1erv c.47.1.1 32738 1s69A 124 5.13e+00 a.1.1.1 105305 1gcvB 136 6.04e+00 1cg5B a.1.1.2 15589 1vljA 407 6.49e+00 e.22.1.2 108832 1zq1C 633 7.22e+00 2fexA 188 7.30e+00 1f9mA 112 7.67e+00 1erv c.47.1.1 32736 1tv8A 340 7.67e+00 c.1.28.3 107352 1rktA 205 7.94e+00 a.4.1.9,a.121.1.1 97623,97624 3sxlA 184 8.21e+00 1b7fA d.58.7.1,d.58.7.1 39173,39174 1rtxA 123 8.34e+00 a.1.1.1 97827 1nnvA 110 8.40e+00 d.17.7.1 92012 1hlvA 131 9.20e+00 a.4.1.7,a.4.1.7 65854,65855 1bsmA 201 9.31e+00 1avmA a.2.11.1,d.44.1.1 15780,38743 1gv3A 248 9.71e+00 a.2.11.1,d.44.1.1 70585,70586 1u9lA 70 1.02e+01 a.60.4.2 107751 1ukxA 137 1.08e+01 d.20.1.3 107919 1w85A 368 1.09e+01 2bsjA 133 1.09e+01 1qqfA 277 1.14e+01 1c3d a.102.4.4 18875 1zljA 78 1.15e+01 1v96A 149 1.26e+01 1qjaA 245 1.32e+01 1qjaA a.118.7.1 19204 1ydnA 295 1.32e+01 2bshA 125 1.32e+01 1t17A 148 1.38e+01 1avmA 201 1.44e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1pveA 72 1.48e+01 a.189.1.1 104322 1b48A 221 1.56e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1s7zA 117 1.58e+01 a.159.3.1 98715 1wviA 257 1.59e+01 1dnpA 471 1.65e+01 1qnf a.99.1.1,c.28.1.1 18775,31630 2eucA 130 1.74e+01 1kdgA 546 1.76e+01 c.3.1.2,d.16.1.1 77337,77338 1sd4A 126 1.79e+01 a.4.5.39 105428 1u14A 172 1.87e+01 c.51.4.3 107579 1t00A 112 1.87e+01 1pmi 440 1.92e+01 1pmi b.82.1.3 28114 1q33A 292 1.93e+01 d.113.1.1 95657 1yg2A 179 1.93e+01 1d4xA 375 1.98e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1xreA 217 2.01e+01 1h67A 108 2.04e+01 a.40.1.1 65643 1mku 123 2.10e+01 1poa a.133.1.2 19590 2aalA 131 2.15e+01 1qvjA 292 2.18e+01 d.113.1.1 96431 1sfxA 109 2.36e+01 a.4.5.50 105505 1t56A 216 2.46e+01 a.4.1.9,a.121.1.1 106428,106429 1u7kA 131 2.52e+01 1roaA 122 2.57e+01 d.17.1.2 105024 1mvcA 240 2.58e+01 a.123.1.1 79499 1s6cA 183 2.61e+01 a.39.1.5 98594 2dafA 118 2.67e+01 2avyM 117 2.68e+01 1keaA 221 2.78e+01 a.96.1.2 68491 1vr4A 103 2.78e+01 1gumA 222 2.79e+01 1pgtA a.45.1.1,c.47.1.5 17683,32977 1z54A 132 2.80e+01 1sxl 97 2.82e+01 1b7fA d.58.7.1 39180 1lw6E 281 2.98e+01 c.41.1.1 74293 1r0rE 274 3.06e+01 c.41.1.1 96735 2fm9A 215 3.07e+01 1avt 274 3.11e+01 1gci c.41.1.1 32488 1c4zA 358 3.22e+01 1c4zA d.148.1.1 41766 1gulA 222 3.29e+01 1pgtA a.45.1.1,c.47.1.5 17675,32969 1o5xA 248 3.40e+01 c.1.1.1 92528 1t0yA 122 3.40e+01 d.15.1.1 99066 1te5A 257 3.42e+01 d.153.1.1 106795 2fx0A 201 3.43e+01 1y10A 407 3.50e+01 1cseE 274 3.58e+01 1gci c.41.1.1 32481 2bh1X 96 3.59e+01 1d8cA 723 3.60e+01 1d8cA c.1.13.1 29325 2g7gA 213 3.60e+01 1mznA 240 3.65e+01 a.123.1.1 79704 1umdA 367 3.65e+01 c.36.1.11 99599 1my6A 199 3.66e+01 a.2.11.1,d.44.1.1 85232,85233 1g5yA 238 3.81e+01 1lbd a.123.1.1 60294 1tkeA 224 3.84e+01 1yu6A 275 3.84e+01 1sup 275 3.85e+01 1gci c.41.1.1 32510 1aocA 175 3.88e+01 1aocA g.17.1.5 44817 1apa 266 3.88e+01 1qi7A d.165.1.1 42205 1pgjA 478 3.89e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 2cfaA 217 3.90e+01 1z0xA 220 3.93e+01 1oj7A 408 3.96e+01 e.22.1.2 103971 1to2E 281 4.05e+01 1ldg 316 4.08e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1wveC 80 4.10e+01 1eq6A 189 4.12e+01 1eq6A d.107.1.1 40796 2bmjA 178 4.19e+01 1xdwA 331 4.20e+01 1ykuA 136 4.29e+01 1hcb 260 4.30e+01 2cba b.74.1.1 27814 1r2rA 248 4.30e+01 c.1.1.1 96875 1vkeA 133 4.35e+01 a.152.1.2 108650 2esnA 310 4.41e+01 2foyA 260 4.43e+01 1y1pA 342 4.43e+01 2ccmA 191 4.49e+01 1jt6A 188 4.54e+01 a.4.1.9,a.121.1.1 67247,67248 1sedA 117 4.56e+01 a.219.1.1 105449 2cab 261 4.56e+01 2cba b.74.1.1 27906 1b7fA 168 4.60e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1p9kA 79 4.62e+01 d.66.1.6 94392 1l0wA 580 4.63e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2a6cA 83 4.63e+01 1ej6D 418 4.76e+01 i.7.1.1 45970 1fcdC 174 4.76e+01 1fcdC a.3.1.4,a.3.1.4 15966,15967 1jgtA 513 4.79e+01 c.26.2.1,d.153.1.1 66684,66685 2lh2 153 4.83e+01 2gdm a.1.1.2 15220 1t2dA 322 4.85e+01 c.2.1.5,d.162.1.1 99084,99085 1lh1 153 4.85e+01 2gdm a.1.1.2 15222 1l9gA 192 4.87e+01 c.18.1.2 84568 1v8bA 479 4.90e+01 1focA 132 4.92e+01 1c52 a.3.1.1 15812 1bhjA 292 5.00e+01 1xvaA c.66.1.5 34189 1ujmA 342 5.00e+01 1xvaA 292 5.01e+01 1xvaA c.66.1.5 34183 1mdc 133 5.08e+01 1hmt b.60.1.2 27198 1p7tA 731 5.13e+01 c.1.13.1 94319 2fpnA 216 5.17e+01 1k3lA 221 5.19e+01 a.45.1.1,c.47.1.5 77229,77230 2aaxA 275 5.20e+01 2d4pA 141 5.20e+01 1t7rA 269 5.21e+01 a.123.1.1 106635 1xa3A 437 5.21e+01 1lct 333 5.21e+01 1cb6A c.94.1.2 35836 4tmkA 213 5.26e+01 5tmpA c.37.1.1 31930 1yzbA 182 5.30e+01 1yemA 179 5.33e+01 2cmd 312 5.37e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1fmaD 81 5.38e+01 1fmaD d.15.3.1 37643 1ggqA 174 5.38e+01 1ggqA a.24.12.1 60486 1ugjA 141 5.45e+01 b.41.1.3 107826 1ok8A 394 5.53e+01 b.1.18.4,f.10.1.1 93236,93237 1z21A 112 5.53e+01 1k3yA 221 5.59e+01 a.45.1.1,c.47.1.5 77245,77246 1p5hA 428 5.60e+01 c.123.1.1 87802 1jhsA 188 5.60e+01 d.107.1.1 84172 1bq0 103 5.64e+01 1bqz a.2.3.1 15698 1lxa 262 5.70e+01 1lxa b.81.1.1 28052 2gcfA 73 5.72e+01 1une 123 5.72e+01 1poa a.133.1.2 19583 1pu1A 94 5.73e+01 d.266.1.1 104307 2cb5A 453 5.75e+01 3gcb d.3.1.1 37035 1d2gA 292 5.77e+01 1xvaA c.66.1.5 34187 2a6zA 222 5.79e+01 1xk7A 408 5.82e+01 1z77A 200 5.84e+01 1diiC 80 5.87e+01 1diiC a.3.1.1 15925 1k30A 368 5.90e+01 c.112.1.1 68067 1zybA 232 5.95e+01 1qf6A 642 5.97e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 2b5dX 528 5.99e+01 2f4mB 61 6.03e+01 1idsA 207 6.09e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1vi0A 206 6.18e+01 a.4.1.9,a.121.1.1 100720,100721 1ui0A 205 6.18e+01 c.18.1.2 99411 1ufwA 95 6.20e+01 d.58.7.1 99358 1csp 67 6.23e+01 1mjc b.40.4.5 25321 1v7nV 163 6.25e+01 a.26.1.2 100476 1jroA 462 6.45e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1n46A 258 6.45e+01 a.123.1.1 85315 1mldA 314 6.45e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1tiqA 180 6.62e+01 d.108.1.1 107010 1ne2A 200 6.73e+01 c.66.1.32 85586 1iuqA 367 6.79e+01 c.112.1.1 90703 1xbl 107 6.84e+01 1bqz a.2.3.1 15697 5pal 109 6.85e+01 1a75A a.39.1.4 17215 1ukz 203 6.86e+01 1zin c.37.1.1 31840 1clqA 903 6.92e+01 1clqA c.55.3.5,e.8.1.1 33717,43006 2ax8A 256 6.94e+01 1kanA 253 7.03e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 1vj7A 393 7.03e+01 a.211.1.1,d.218.1.8 100801,100802 2ax6A 256 7.04e+01 1wudA 89 7.07e+01 1je8A 82 7.12e+01 a.4.6.2 77108 1bqz 77 7.32e+01 1bqz a.2.3.1 15699 1wy9A 147 7.38e+01 1m55A 197 7.38e+01 d.89.1.3 74469 1y82A 157 7.42e+01 2gdm 153 7.50e+01 2gdm a.1.1.2 15212 1u04A 771 7.59e+01 b.34.14.1,c.55.3.10 107539,107540 1f3aA 222 7.65e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1dax 64 7.66e+01 1fxd d.58.1.4 38996 1dcs 311 7.71e+01 1dcs b.82.2.1 28124 1fz1C 389 7.73e+01 1mtyB a.25.1.2 16746 1gdj 153 7.81e+01 2gdm a.1.1.2 15213 1zk8A 183 7.81e+01 1or4A 178 7.84e+01 a.1.1.2 93447 1dsbA 189 7.90e+01 1fvkA c.47.1.13 90347 2g7lA 243 7.95e+01 1vhtA 218 7.98e+01 c.37.1.1 100700 1kafA 108 8.00e+01 d.199.1.1 68372 1bh6A 274 8.00e+01 1gci c.41.1.1 32487 1p8cA 145 8.00e+01 a.152.1.2 94354 1mtyB 384 8.02e+01 1mtyB a.25.1.2 16740 1d9uA 154 8.04e+01 1am7A d.2.1.4 59111 1m6nA 802 8.08e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 2ax9A 256 8.15e+01 1t3qA 168 8.21e+01 a.56.1.1,d.15.4.2 106367,106368 2fbqA 235 8.22e+01 1zd0A 150 8.29e+01 1ecd 136 8.29e+01 1flp a.1.1.2 15211 1dfd 64 8.30e+01 1fxd d.58.1.4 38995 1dlyA 164 8.33e+01 1dlyA a.1.1.1 14983 1kebA 108 8.36e+01 c.47.1.1 77341 1gseA 221 8.41e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1e7aA 585 8.42e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19360,19361,19362 1eco 136 8.43e+01 1flp a.1.1.2 15208 1nktA 922 8.45e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1gvnB 287 8.52e+01 c.37.1.21 76354 1fjgM 126 8.57e+01 1fjfM a.156.1.1 16293 1vjtA 483 8.57e+01 c.2.1.5,d.162.1.2 100833,100834 1fvkA 189 8.66e+01 1fvkA c.47.1.13 90351 1rybA 212 8.66e+01 c.56.3.1 98098 1yn4A 99 8.67e+01 1sh0A 510 8.69e+01 e.8.1.4 98876 2cu3A 64 8.70e+01 1bebA 162 8.79e+01 1bebA b.60.1.1 27115 5tmpA 213 8.80e+01 5tmpA c.37.1.1 31931 1lnsA 763 8.85e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2napA 723 8.91e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1b8eA 162 8.92e+01 1bebA b.60.1.1 59077