# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2fe5A 94 2.37e-17 2fneA 117 4.55e-17 2fcfA 103 5.98e-17 1tp5A 119 6.23e-17 1bfeA 119 8.95e-17 1pdr b.36.1.1 24775 1be9A 119 1.18e-16 1pdr b.36.1.1 24774 1g9oA 91 2.04e-16 1pdr b.36.1.1 60400 1pdr 99 2.31e-16 1pdr b.36.1.1 24771 1i92A 91 3.95e-16 1pdr b.36.1.1 61990 1qavA 90 7.55e-16 1qauA b.36.1.1 24777 1q3oA 109 1.18e-15 b.36.1.1 95700 1n7eA 97 1.75e-15 b.36.1.1 91691 1n7fA 97 2.66e-15 b.36.1.1 91692 2h2bA 107 1.45e-14 1l6oA 95 1.67e-14 b.36.1.1 84534 1qavB 115 1.85e-14 1qauA b.36.1.1 24780 1i16 130 2.02e-14 1i16 b.36.1.2 24787 1ihjA 98 2.48e-14 1pdr b.36.1.1 62382 1qauA 112 5.09e-14 1qauA b.36.1.1 24779 2f0aA 98 5.55e-14 1b8qA 127 8.74e-14 1qauA b.36.1.1 24781 1kwaB 88 1.19e-13 1kwaA b.36.1.1 24773 1wf7A 103 1.56e-13 2h3lA 103 2.29e-13 1kwaA 88 2.63e-13 1kwaA b.36.1.1 24772 1n99A 166 3.03e-13 b.36.1.1,b.36.1.1 85459,85460 1mfgA 95 3.31e-13 b.36.1.1 79043 1nf3C 128 8.51e-13 b.36.1.1 85596 1v5lA 103 1.16e-12 b.36.1.1 108378 2f5yA 91 1.24e-11 1m5zA 91 4.79e-11 b.36.1.1 78676 1nteA 82 3.96e-10 b.36.1.1 86163 1r6jA 82 3.96e-10 b.36.1.1 97151 1fc6A 388 2.30e-09 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 1.50e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.34e-05 1ky9B 448 8.91e-05 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1y8tA 324 3.77e-04 1sotA 320 4.32e-04 b.36.1.4,b.47.1.1 105852,105853 1ky9A 448 2.39e-03 b.36.1.4,b.47.1.1 73198,73199 1zn8A 180 5.32e-02 1gph1 465 1.91e-01 1ecfB 1ao0A 459 1.93e-01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1bx4A 345 9.13e-01 1bx4A c.72.1.1 34935 1vqqA 646 1.32e+00 1db3A 372 1.36e+00 1db3A c.2.1.2 29813 1x3mA 415 1.47e+00 1mwrA 646 1.63e+00 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1fxlA 167 1.89e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1qb7A 236 2.19e+00 1qb7A c.61.1.1 34087 1mwsA 646 3.20e+00 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1yg9A 330 3.43e+00 1lnzA 342 3.56e+00 b.117.1.1,c.37.1.8 78112,78113 1t6t1 118 4.24e+00 1uc2A 481 5.71e+00 d.261.1.1 99161 2d4pA 141 5.76e+00 1fwkA 296 5.77e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1ecfA 504 6.67e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ecfB 504 6.70e+00 1ecfB c.61.1.1,d.153.1.1 34054,41821 2gwnA 452 7.75e+00 1h72C 296 9.43e+00 d.14.1.5,d.58.26.1 60712,60713 1uh5A 329 9.60e+00 c.2.1.2 107840 1eb0A 147 1.14e+01 b.107.1.1,d.58.38.1 64890,64891 1ciqA 40 1.19e+01 2sniI d.40.1.1 38576 1vpqA 273 1.24e+01 1fr3A 67 1.34e+01 1fr3A b.40.6.1 25436 1l1dA 152 1.41e+01 b.88.1.3 73452 1rypB 250 1.44e+01 1rypB d.153.1.4 41933 1a44 185 1.46e+01 1a44 b.17.1.1 23704 1b7aA 186 1.48e+01 1a44 b.17.1.1 23705 1n6aA 259 1.50e+01 b.76.2.1,b.85.7.1 80121,80122 1mt6A 280 1.57e+01 b.76.2.1,b.85.7.1 79446,79447 1h3iA 293 1.60e+01 b.76.2.1,b.85.7.1 76635,76636 1g2qA 187 1.61e+01 c.61.1.1 65117 1ad3A 452 1.73e+01 1ad3A c.82.1.1 35335 2f69A 261 1.74e+01 1earA 147 1.74e+01 b.107.1.1,d.58.38.1 64875,64876 1zm8A 259 1.78e+01 1y0bA 197 1.80e+01 1se8A 301 1.88e+01 b.40.4.3 105448 1opr 213 1.88e+01 1opr c.61.1.1 34091 1lh0A 213 1.94e+01 c.61.1.1 73896 1w30A 201 2.05e+01 1jnyA 435 2.06e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1coaI 64 2.11e+01 2sniI d.40.1.1 38574 1g7rA 594 2.17e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 2bh8A 101 2.20e+01 2g8oA 264 2.29e+01 1koe 172 2.31e+01 1koe d.169.1.5 42448 1qqqA 264 2.31e+01 1bkpA d.117.1.1 40931 1evfA 264 2.31e+01 1bkpA d.117.1.1 40932 1w78A 422 2.38e+01 1yy6A 155 2.39e+01 1wkyA 464 2.41e+01 2g8mA 264 2.44e+01 1iezA 217 2.47e+01 d.115.1.2 66129 1xx6A 191 2.49e+01 1bu6O 501 2.50e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1fm0E 150 2.50e+01 1fmaE d.41.5.1 38629 1eu1A 780 2.51e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1fmaE 150 2.56e+01 1fmaE d.41.5.1 38630 2sxl 88 2.60e+01 1b7fA d.58.7.1 39179 1ojhA 65 2.60e+01 a.214.1.1 103976 1aiqA 264 2.70e+01 1bkpA d.117.1.1 40967 1mkmA 249 2.70e+01 a.4.5.33,d.110.2.2 79242,79243 1t3qB 788 2.76e+01 d.41.1.1,d.133.1.1 106369,106370 1g7tA 594 2.82e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 2abwA 227 2.83e+01 2fa1A 160 2.95e+01 1fxrA 64 3.03e+01 1fxd d.58.1.4 38993 1r13A 148 3.03e+01 d.169.1.1,h.1.1.1 96782,96783 1sw5A 275 3.07e+01 c.94.1.1 106069 1cis 66 3.17e+01 2sniI k.1.1.1 46375 1o63A 219 3.18e+01 c.94.1.1 92540 2fojA 155 3.18e+01 1g7sA 594 3.19e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1b6cB 342 3.19e+01 1b6cB d.144.1.7 41673 2bsyA 278 3.23e+01 1whmA 92 3.34e+01 1to2I 64 3.53e+01 1ueoA 63 3.53e+01 j.107.1.1 99269 1j08A 226 3.54e+01 c.47.1.2,c.47.1.2 83855,83856 1hcz 252 3.62e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 2sniI 83 3.64e+01 2sniI d.40.1.1 38573 1jalA 363 3.71e+01 c.37.1.8,d.15.10.2 84138,84139 1cliA 345 3.77e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1lw6I 64 3.81e+01 d.40.1.1 74294 2ckiA 262 3.96e+01 1poiA 317 4.03e+01 1poiA c.124.1.2 34153 1ih8A 271 4.16e+01 2nsyA c.26.2.1 62377 2nsyA 271 4.16e+01 2nsyA c.26.2.1 31612 1nsyA 271 4.16e+01 2nsyA c.26.2.1 31614 1kqpA 271 4.17e+01 c.26.2.1 72883 1axwA 265 4.24e+01 1bkpA d.117.1.1 40938 1rypL 212 4.26e+01 d.153.1.4 41880 1g65K 211 4.27e+01 d.153.1.4 41907 1tys 265 4.29e+01 1bkpA d.117.1.1 40937 1reqD 637 4.32e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1xv5A 401 4.34e+01 1g57A 217 4.37e+01 1g57A d.115.1.2 60253 1amz 435 4.38e+01 1csh a.103.1.1 18884 7reqB 637 4.52e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1q52A 314 4.55e+01 c.14.1.3 95846 1reqB 637 4.67e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1vkmA 297 4.75e+01 c.138.1.1 108670 1wnfA 328 4.78e+01 1uisA 231 4.89e+01 d.22.1.1 99431 1zq9A 285 4.89e+01 1wlsA 328 4.89e+01 1o57A 291 5.12e+01 a.4.5.40,c.61.1.1 92483,92484 1m5eA 263 5.15e+01 c.94.1.1 78642 1ffkF 157 5.17e+01 1ffkF d.41.4.1 38628 2bb3A 221 5.19e+01 1m5dA 263 5.24e+01 c.94.1.1 78641 1vjyA 303 5.25e+01 d.144.1.7 108633 1mqdA 261 5.30e+01 c.94.1.1 85049 1gceA 364 5.31e+01 1gceA e.3.1.1 42738 3mefA 69 5.32e+01 1mjc b.40.4.5 25320 2cc0A 195 5.34e+01 1py5A 326 5.35e+01 d.144.1.7 104389 1xdnA 277 5.36e+01 1csh 435 5.46e+01 1csh a.103.1.1 18880 1al6 437 5.48e+01 1csh a.103.1.1 18885 1mqiA 263 5.60e+01 c.94.1.1 91398 1vheA 373 5.68e+01 b.49.3.1,c.56.5.4 100669,100670 1n0qA 93 5.78e+01 k.37.1.1 79754 1ti6A 875 5.86e+01 b.52.2.2,c.81.1.1 106974,106975 1tsm 316 5.98e+01 1bkpA d.117.1.1 41024 2bs3A 656 6.00e+01 1csp 67 6.07e+01 1mjc b.40.4.5 25321 1gky 187 6.11e+01 1gky c.37.1.1 31839 1oi7A 288 6.15e+01 c.2.1.8,c.23.4.1 87049,87050 1dfd 64 6.16e+01 1fxd d.58.1.4 38995 1jzxK 205 6.17e+01 i.1.1.2 67885 1wywA 230 6.18e+01 1sw5B 275 6.27e+01 c.94.1.1 106070 1qlaA 656 6.31e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1lvoA 302 6.33e+01 b.47.1.4 74284 1olmA 403 6.35e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1p9uA 302 6.36e+01 b.47.1.4 88001 2pcfB 250 6.41e+01 1hcz i.4.1.1 45911 2b18A 164 6.50e+01 1o6uA 403 6.61e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1xewY 172 6.67e+01 1lcjA 109 6.76e+01 1qadA d.93.1.1 40414 1dax 64 6.81e+01 1fxd d.58.1.4 38996 3sxlA 184 6.84e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1u9yA 284 6.84e+01 1lkkA 105 6.92e+01 1lckA d.93.1.1 40412 1zsyA 357 6.94e+01 1a97A 148 7.00e+01 1nulA c.61.1.1 34023 1shwA 138 7.16e+01 b.6.1.5 105562 1oroA 213 7.17e+01 1opr c.61.1.1 34093 1behA 187 7.23e+01 1a44 b.17.1.1 23700 1dpuA 99 7.24e+01 1dpuA a.4.5.16 16150 2fvgA 340 7.34e+01 1r62A 160 7.37e+01 d.122.1.3 104816 1iyu 79 7.40e+01 1iyu b.84.1.1 28227 2f1wA 158 7.44e+01 1oihA 301 7.52e+01 b.82.2.5 93051 1z1dA 103 7.52e+01 2ampA 304 7.60e+01 1y791 680 7.62e+01 2tscA 264 7.62e+01 1bkpA d.117.1.1 40952 1mjc 69 7.86e+01 1mjc b.40.4.5 25319 1jmuB 666 7.90e+01 2cwaA 263 8.05e+01 1fsgA 233 8.10e+01 1qk3A c.61.1.1 34029 1xtmA 175 8.17e+01 1s50A 259 8.29e+01 1yh2A 175 8.36e+01 2cu5A 129 8.39e+01 1eno 312 8.41e+01 1enp c.2.1.2 29905 1viuA 203 8.43e+01 d.113.1.1 100771 1kw4A 89 8.50e+01 a.60.1.2 73077 1enp 312 8.52e+01 1enp c.2.1.2 29906 1shxA 138 8.63e+01 1shaA 104 8.66e+01 1fmk d.93.1.1 40424 1shbA 104 8.68e+01 1fmk d.93.1.1 40425 2gm5A 139 8.96e+01 1vdmA 153 8.96e+01