# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1zn8A 180 1.80e-01 1yhfA 115 2.09e-01 1ok0A 74 4.14e-01 b.5.1.1 93191 1hoe 74 4.44e-01 1hoe b.5.1.1 22833 2ait 74 4.96e-01 1hoe b.5.1.1 22837 1d2eA 397 6.46e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2fs2A 151 9.13e-01 1psuA 140 1.08e+00 d.38.1.5 88285 1uebA 184 1.26e+00 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 3ait 74 1.33e+00 1hoe b.5.1.1 22835 1ifrA 121 1.72e+00 b.1.16.1 71203 1suwA 249 1.76e+00 e.52.1.1 106027 1z0sA 278 1.83e+00 1ofdA 1520 1.92e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2fhxA 246 2.14e+00 1llwA 1520 2.23e+00 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1cd8 114 2.66e+00 1cd8 b.1.1.1 19714 1a6vL 110 2.87e+00 1mfa b.1.1.1 20256 1oaqL 120 3.19e+00 b.1.1.1 92708 1jjeA 222 3.64e+00 1a7tA d.157.1.1 63117 1euoA 180 3.64e+00 1np1A b.60.1.1 27163 1x8mA 288 4.30e+00 b.82.1.13 109516 1akjD 120 4.86e+00 1cd8 b.1.1.1 19712 1h6yA 170 5.38e+00 b.18.1.7 70904 1efcA 393 5.60e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 2aw2A 120 5.72e+00 1ao5A 237 5.85e+00 5ptp b.47.1.2 26334 1efuA 385 6.50e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1vhzA 198 6.55e+00 d.113.1.1 100718 1khbA 625 6.71e+00 c.91.1.1,c.109.1.1 68606,68607 1tbuA 118 6.77e+00 1vkyA 347 6.97e+00 e.53.1.1 108696 1yhpA 212 7.43e+00 1jjtA 228 7.78e+00 1a7tA d.157.1.1 63139 1pm1X 180 7.93e+00 b.60.1.1 104189 1cqxA 403 8.26e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1faoA 126 8.37e+00 1faoA b.55.1.1 26974 2d1eA 248 8.47e+00 1aqt 138 8.49e+00 1aqt a.2.10.1,b.93.1.1 15718,28435 1quqB 121 1.00e+01 1quqB b.40.4.3 25305 1peeA 180 1.01e+01 b.60.1.1 104126 1who 96 1.02e+01 1who b.7.3.1 23215 1pz4A 116 1.02e+01 d.106.1.1 95400 1o9wA 177 1.03e+01 b.2.3.5 86713 1v70A 105 1.07e+01 1c0aA 585 1.09e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1neu 124 1.13e+01 1neu b.1.1.1 19704 1bqk 124 1.15e+01 1bqk b.6.1.1 22889 1wapA 75 1.18e+01 1wapA b.82.5.1 28153 1csp 67 1.25e+01 1mjc b.40.4.5 25321 1lu4A 136 1.26e+01 c.47.1.10 91124 1gpwB 201 1.28e+01 c.23.16.1 65461 1yruA 364 1.46e+01 1z9lA 128 1.46e+01 1de4C 640 1.47e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1v88A 130 1.52e+01 b.55.1.1 108423 1tu7A 208 1.54e+01 1e8pA 46 1.67e+01 g.55.1.1 59385 2ck3D 482 1.67e+01 1e79D 482 1.68e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1uaiA 224 1.69e+01 b.29.1.18 107761 1zkiA 133 1.72e+01 1zkkA 167 1.75e+01 1h8eD 482 1.91e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1bmc 221 2.01e+01 1a7tA d.157.1.1 42038 1h6qA 168 2.05e+01 1h6qA b.88.1.2 60692 1icwA 72 2.09e+01 1tvxA d.9.1.1 37357 1z6bA 154 2.10e+01 1k9vF 201 2.11e+01 c.23.16.1 68365 1x8hA 228 2.12e+01 1v6fA 151 2.18e+01 d.109.1.2 108395 1yrtA 364 2.21e+01 1qcsA 211 2.27e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1wwcA 118 2.35e+01 1wwcA b.1.1.4 21778 1o4tA 133 2.37e+01 b.82.1.9 86622 2a7yA 83 2.40e+01 1wh0A 134 2.49e+01 1ihvA 52 2.59e+01 1ihvA b.34.7.1 24629 1m8aA 70 2.63e+01 d.9.1.1 74579 1pnkB 557 2.66e+01 1ajqB 1kl9A 182 2.68e+01 b.40.4.5 72681 1eajA 126 2.71e+01 1f5wA b.1.1.1 59401 1f5wA 126 2.71e+01 1f5wA b.1.1.1 19705 1skyB 502 2.74e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1m7vA 363 2.93e+01 d.174.1.1 78748 1azzA 226 2.96e+01 5ptp b.47.1.2 26072 1xn5A 146 2.97e+01 1cgt 684 3.06e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 1vj2A 126 3.11e+01 b.82.1.10 100796 1wzaA 488 3.16e+01 1hnjA 317 3.19e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2pcy 99 3.20e+01 1plc b.6.1.1 22849 1plc 99 3.21e+01 1plc b.6.1.1 22846 1eblB 317 3.25e+01 1hn9A c.95.1.2,c.95.1.2 35975,35976 1hn9A 317 3.29e+01 1hn9A c.95.1.2,c.95.1.2 35977,35978 1eblA 317 3.31e+01 1hn9A c.95.1.2,c.95.1.2 35973,35974 1g0sA 209 3.37e+01 1g0sA d.113.1.1 60187 1ji6A 589 3.43e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1pfl 139 3.46e+01 1pne d.110.1.1 40877 1mfa 247 3.48e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 1x0tA 120 3.51e+01 1e8oA 85 3.52e+01 1914 d.49.1.1 38773 1c9oA 66 3.55e+01 1mjc b.40.4.5 25325 1awiA 138 3.62e+01 1pne d.110.1.1 40871 1tiu 98 3.67e+01 1tit b.1.1.4 21715 1o9yA 84 3.67e+01 b.139.1.1 92692 1yz1A 174 3.70e+01 2gvaA 87 3.71e+01 1gvp b.40.4.7 25389 1ygtA 111 3.72e+01 1dq3A 454 3.73e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1a6uL 108 3.74e+01 1mfa b.1.1.1 20254 1iq6A 134 3.76e+01 d.38.1.4 76755 1xe1A 116 3.77e+01 b.43.3.1 109571 1xruA 282 3.80e+01 1erxA 184 3.81e+01 1np1A b.60.1.1 27164 1owxA 121 3.97e+01 d.58.7.1 87494 1eft 405 3.97e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1ed7A 45 4.07e+01 1ed7A b.72.2.1 27809 1xx0A 127 4.12e+01 1f60A 458 4.13e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1c0pA 363 4.25e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1e3aB 560 4.34e+01 1ajqB 1aw7A 194 4.35e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1ha3A 405 4.36e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1gk9B 557 4.37e+01 1ryiA 382 4.39e+01 1gm9B 557 4.42e+01 1dyoA 160 4.42e+01 1dyoA b.18.1.7 23771 1ajqB 557 4.44e+01 1ajqB 1gkfB 557 4.45e+01 1gm7B 557 4.45e+01 1kte 105 4.46e+01 1kte c.47.1.1 32771 1umhA 184 4.62e+01 b.18.1.21 99605 1c05A 159 4.63e+01 1c05A d.66.1.2 39559 1yy5B 513 4.63e+01 2g1lA 104 4.77e+01 1i88A 389 4.77e+01 c.95.1.2,c.95.1.2 66070,66071 2cw8A 537 4.83e+01 1a6wL 109 4.88e+01 1mfa b.1.1.1 20252 1q8iA 783 4.98e+01 c.55.3.5,e.8.1.1 96208,96209 1cx8B 639 5.08e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17783,30764,33852 1kk1A 410 5.19e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2nmbA 160 5.25e+01 2nmbA b.55.1.2 26994 1ao7B 100 5.27e+01 1agdB b.1.1.2 20697 1wruA 379 5.28e+01 1z54A 132 5.36e+01 1r94A 118 5.37e+01 b.124.1.1 97251 1koiA 184 5.38e+01 b.60.1.1 68725 1y7rA 133 5.39e+01 1gv9A 260 5.44e+01 b.29.1.13 70596 1njkA 156 5.56e+01 d.38.1.1 85818 1cx8A 639 5.59e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17782,30763,33851 2c78A 405 5.64e+01 1l1jA 239 5.64e+01 b.47.1.1 84516 1adqL 213 5.64e+01 8fabA b.1.1.1,b.1.1.2 20272,21272 1o97C 264 5.65e+01 c.26.2.3 81232 1aipE 405 5.69e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1fs0E 138 5.69e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1zk5A 176 5.79e+01 1z47A 355 5.80e+01 2bwkA 121 5.82e+01 2bsyA 278 5.92e+01 1c01A 76 5.93e+01 1c01A b.11.1.5 23633 1fnd 314 5.98e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1n99A 166 6.01e+01 b.36.1.1,b.36.1.1 85459,85460 1rlzA 369 6.04e+01 c.31.1.1 104989 2g8yA 385 6.04e+01 1fnb 314 6.06e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1n7fA 97 6.10e+01 b.36.1.1 91692 1dd6A 228 6.17e+01 1a7tA d.157.1.1 42054 1o4yA 288 6.23e+01 b.29.1.2 92473 2d4qA 257 6.25e+01 1w0pA 781 6.38e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1bx1A 314 6.45e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1m2xA 223 6.46e+01 d.157.1.1 84764 1ng4A 390 6.59e+01 c.3.1.2,d.16.1.3 85666,85667 1flrH 219 6.60e+01 1igtB b.1.1.1,b.1.1.2 19905,20999 1dqsA 393 6.73e+01 1dqsA e.22.1.1 43347 1kliH 254 6.73e+01 b.47.1.2 77435 1vjqA 79 6.74e+01 k.43.1.1 100830 1pe9A 361 6.75e+01 b.80.1.1 94595 1avyA 74 6.75e+01 1avyB h.1.17.1 45656 1dhs 344 6.75e+01 1dhs c.31.1.1 31727 1e1hA 287 6.78e+01 d.92.1.7 83167 1zotA 358 6.79e+01 1914 232 6.83e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1avyB 74 6.94e+01 1avyB h.1.17.1 45657 1sg6A 393 6.94e+01 e.22.1.1 105522 1vk3A 615 6.94e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2bz6H 254 7.02e+01 1danH 254 7.05e+01 5ptp b.47.1.2 26292 1jtaA 361 7.08e+01 b.80.1.1 71859 1tltA 319 7.13e+01 c.2.1.3,d.81.1.5 107135,107136 1bmw 96 7.20e+01 1who b.7.3.1 23217 1avyC 74 7.22e+01 1avyB h.1.17.1 45658 1onxA 390 7.34e+01 b.92.1.7,c.1.9.13 87176,87177 1aa0 113 7.39e+01 1aa0 h.1.17.1 45659 1gio 125 7.40e+01 7rsa d.5.1.1 37304 1bvqA 141 7.45e+01 1bvqA d.38.1.1 38542 2crvA 120 7.51e+01 1fnc 314 7.60e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1yukA 103 7.60e+01 1fvuB 125 7.65e+01 1ixxB d.169.1.1 42346 2evbA 74 7.69e+01 2fvgA 340 7.71e+01 1lmrA 35 7.71e+01 g.3.6.3 91081 1tfi 50 7.82e+01 1tfi g.41.3.1 45204 1kb0A 677 7.84e+01 a.3.1.6,b.70.1.1 68378,68379 1ojqA 212 7.91e+01 d.166.1.1 93146 1bshA 138 7.93e+01 1aqt a.2.10.1,b.93.1.1 15720,28437 1jbuH 254 7.98e+01 5ptp b.47.1.2 62856 1hniB 427 7.98e+01 1rthA e.8.1.2 43045 2aynA 404 8.12e+01 1ecfA 504 8.19e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ox3A 109 8.25e+01 h.1.17.1 93668 1tvxB 75 8.29e+01 1tvxA d.9.1.1 37442 1pc0A 61 8.47e+01 b.137.1.1 94426 1dv2A 452 8.50e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1dv1A 449 8.53e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1fr3A 67 8.57e+01 1fr3A b.40.6.1 25436 1c8uA 285 8.69e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1napA 70 8.88e+01 1tvxA d.9.1.1 37445 1bncB 449 8.94e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28237,31644,41489 1f3yA 165 8.95e+01 d.113.1.1 59635 1mjc 69 8.98e+01 1mjc b.40.4.5 25319 1fil 139 8.98e+01 1pne d.110.1.1 40869 1jh2A 99 8.98e+01