# List of top-scoring protein chains for t04-100-40-40-str2+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 1e42A 258 1.74e-01 1e42A b.1.10.1 22316 d.105.1.1 40792 1dyoA 160 3.85e-01 1dyoA b.18.1.7 23771 1sluA 142 4.12e-01 1sluA b.16.1.1 23685 1ci3M 249 4.12e-01 1hcz b.2.6.1 22480 b.84.2.2 28266 1g1cA 99 6.26e-01 b.1.1.4 65078 1jeyA 609 8.48e-01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1vheA 373 8.91e-01 unknown_sccs -4280 c.56.5.4 -7890 1szwA 379 9.19e-01 unknown_sccs -10164 1n3oA 252 1.27e+00 b.29.1.1 79967 1lwdA 413 1.28e+00 c.77.1.1 78265 1lqtA 456 1.30e+00 c.3.1.1 74198 c.4.1.1 74199 1ukgA 252 1.36e+00 b.29.1.1 -3390 1i40A 175 1.50e+00 b.40.5.1 66024 1s0uA 408 1.53e+00 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1kyfA 247 1.58e+00 b.1.10.1 73220 d.105.1.1 73221 1f15A 218 1.65e+00 1f15B b.121.4.5 23320 1qtsA 247 1.73e+00 1qtsA b.1.10.1 22313 d.105.1.1 40789 1p35A 299 1.78e+00 1p35A b.28.1.1 23925 1ov3A 138 1.80e+00 b.34.2.1 87451 b.34.2.1 87452 1ltlA 279 1.85e+00 b.40.4.11 84701 1kjkA 64 1.92e+00 d.10.1.4 72613 2prd 174 1.94e+00 2prd b.40.5.1 25435 1bquA 215 2.06e+00 1bquA b.1.2.1 22066 b.1.2.1 22067 1i8aA 189 2.19e+00 1i82A b.1.9.2 61951 1q0bA 367 2.20e+00 c.37.1.9 -7105 1nh1A 330 2.43e+00 unknown_sccs -11798 1jyhA 157 2.52e+00 d.60.1.3 71956 1jhfA 202 2.55e+00 a.4.5.2 63057 b.87.1.1 63058 1v8cA 168 2.59e+00 d.15.3.1 -9175 unknown_sccs -11012 1k8wA 327 2.67e+00 b.122.1.1 83094 unknown_sccs -10143 1isiA 265 2.68e+00 e.4.1.1 71394 1nijA 318 2.72e+00 c.37.1.10 85741 d.237.1.1 85742 1guiA 155 2.74e+00 b.18.1.14 76351 1kk1A 410 2.86e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 2cblA 305 3.12e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1fnoA 417 3.20e+00 c.56.5.4 75841 d.58.19.1 70145 1rsy 152 3.41e+00 1rsy b.7.1.2 23192 1dpgA 485 3.44e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1ux6A 350 3.65e+00 unknown_sccs -3451 unknown_sccs -12886 1aszB 490 3.79e+00 1b8aA b.40.4.1 25241 d.104.1.1 40762 3cms 323 4.00e+00 1smrA b.50.1.2 26865 1fhgA 154 4.11e+00 1tlk b.1.1.4 21706 1m6iA 493 4.29e+00 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1giqA 413 4.37e+00 d.166.1.1 76224 d.166.1.1 76225 1o9wA 177 4.87e+00 b.2.3.5 86713 1qs1A 462 4.91e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 1kewA 361 4.92e+00 c.2.1.2 68544 1r0kA 388 4.95e+00 1cyw 205 5.11e+00 1cyx b.6.1.2 23024 2if1 126 5.13e+00 2if1 d.64.1.1 39547 1e4fT 419 5.22e+00 1e4fT c.55.1.1 33453 c.55.1.1 33454 1s2kA 206 5.36e+00 unknown_sccs -3494 1fo0A 116 5.39e+00 1tvdA b.1.1.1 20610 1r4xA 275 5.39e+00 unknown_sccs -2846 unknown_sccs -10776 1ca1 370 5.43e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1k7hA 476 5.51e+00 c.76.1.1 72101 1o8bA 219 5.52e+00 unknown_sccs 81180 d.58.40.1 81181 1g99A 408 5.58e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1rz2A 254 5.59e+00 1ha3A 405 5.71e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1cqmA 101 5.73e+00 1ris d.58.14.1 39321 1vddA 228 5.84e+00 1c96A 753 5.97e+00 1amj c.8.2.1 30727 c.83.1.1 35403 8acn 754 6.03e+00 1amj c.8.2.1 30724 c.83.1.1 35400 1lcl 142 6.07e+00 1lcl b.29.1.3 24216 1tlk 154 6.12e+00 1tlk b.1.1.4 21707 1hulA 108 6.46e+00 1hulA a.26.1.2 16865 1hdkA 141 6.97e+00 b.29.1.3 65807 1do6A 124 6.97e+00 1do6A b.1.13.1 22361 1n4qB 377 7.01e+00 a.102.4.3 -1424 1ri5A 298 7.13e+00 unknown_sccs -8063 1gmuA 143 7.44e+00 b.107.1.1 65335 d.58.38.1 65336 1mi8A 158 7.60e+00 b.86.1.2 -5061 1obwA 175 7.75e+00 2prd b.40.5.1 25416 1lktA 104 7.87e+00 1lktA b.90.1.1 28398 1jhsA 188 7.99e+00 d.107.1.1 84172 1aw7A 194 8.01e+00 1aw7A b.40.2.2 25164 d.15.6.1 37753 1e6wA 260 8.19e+00 1e6wA c.2.1.2 59326 1mrzA 293 8.38e+00 b.43.5.1 -4048 c.26.1.3 -6616 1exmA 405 8.62e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1aohA 147 8.64e+00 1aohA b.2.2.2 22401 1o13A 136 8.65e+00 c.55.5.1 80762 1e0tA 470 8.87e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1dkzA 219 8.91e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1a49A 530 9.20e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1louA 101 9.54e+00 1ris d.58.14.1 39323 1bxkA 355 9.66e+00 1bxkA c.2.1.2 29803 1n13B 113 9.80e+00 1pyaB 228 9.86e+00 1pyaB 1qj4A 257 1.01e+01 1qj4A c.69.1.20 34796 1sj1A 66 1.02e+01 1hw5A 210 1.03e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1fo1A 271 1.03e+01 1fo1A c.10.2.3 30869 d.58.7.2 39213 1an9A 340 1.04e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1dx5I 118 1.04e+01 1dx5I g.3.11.1 44302 g.3.11.1 44303 g.3.11.1 44304 1cyx 205 1.07e+01 1cyx b.6.1.2 23023 1fs1B 141 1.08e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1xbrA 184 1.10e+01 1xbrA b.2.5.4 22458 1zin 217 1.12e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1j9lA 247 1.19e+01 c.106.1.1 62762 1o7zA 77 1.20e+01 d.9.1.1 86660 1jpyA 137 1.23e+01 g.17.1.6 67065 1h03P 125 1.29e+01 g.18.1.1 83411 g.18.1.1 83412 1e2wA 251 1.30e+01 1hcz b.2.6.1 22466 b.84.2.2 28252 1yasA 257 1.35e+01 1qj4A c.69.1.20 34801 1vavA 222 1.36e+01 1l5aA 436 1.40e+01 c.43.1.2 75923 c.43.1.2 75924 1kzqA 289 1.42e+01 b.6.2.1 73374 b.6.2.1 73375 1tif 78 1.42e+01 1tif d.15.8.1 37836 1qwzA 235 1.46e+01 b.100.1.1 -4543 1th8A 145 1.47e+01 1ra9 159 1.50e+01 1vdrA c.71.1.1 34820 1p3jA 217 1.53e+01 c.37.1.1 -6996 g.41.2.1 -12769 1bjt 793 1.59e+01 1bjt e.11.1.1 43249 1j8yF 297 1.61e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1avgI 142 1.61e+01 1avgI b.60.1.3 27229 1oo0A 147 1.64e+01 d.232.1.1 87182 1mkfA 382 1.67e+01 b.116.1.1 79232 1mgtA 174 1.67e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1nb9A 147 1.68e+01 b.43.5.1 85515 1q4rA 112 1.72e+01 d.58.4.4 -9943 1q9uA 130 1.72e+01 unknown_sccs -11025 1j8rA 196 1.72e+01 1j8rA b.2.3.3 62745 1gpl 432 1.74e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1p5tA 127 1.78e+01 b.55.1.2 -4368 1l5xA 280 1.79e+01 c.106.1.1 77718 1q0qA 406 1.80e+01 1l8aA 886 1.82e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1gl4B 98 1.85e+01 b.1.1.4 65288 1npuA 117 1.86e+01 b.1.1.1 -2339 1xo1A 291 1.88e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1dqiA 124 1.89e+01 1do6A b.1.13.1 22357 1vjqA 79 1.89e+01 unknown_sccs -13478 1uwwA 191 1.91e+01 1musA 477 1.91e+01 c.55.3.4 79494 1f2dA 341 1.95e+01 1f2dA c.79.1.1 35298 1q7sA 117 1.95e+01 unknown_sccs -7522 1mqkH 127 2.00e+01 b.1.1.1 85053 1evuA 731 2.02e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1ptmA 329 2.07e+01 unknown_sccs -8456 1s5pA 235 2.08e+01 c.31.1.5 -6774 1whtB 153 2.09e+01 1whtB 1hnuA 280 2.09e+01 1hnoA c.14.1.3 61096 1aboA 62 2.10e+01 1bbzA b.34.2.1 24474 1ru8A 232 2.12e+01 c.26.2.1 -6635 1r12A 258 2.12e+01 e.4.1.1 -11807 1cm9A 74 2.12e+01 1b3aA d.9.1.1 37405 1eq6A 189 2.14e+01 1eq6A d.107.1.1 40796 1qgvA 142 2.14e+01 1qgvA c.47.1.8 33056 1c7sA 858 2.18e+01 1qba b.1.18.2 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1oacA 727 2.18e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1nkqA 259 2.19e+01 1rg9A 383 2.19e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1mh9A 197 2.24e+01 c.108.1.8 79118 1neiA 60 2.25e+01 unknown_sccs -10324 1rlkA 117 2.25e+01 unknown_sccs -7526 1j8mF 297 2.25e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1q92A 197 2.26e+01 c.108.1.8 -6819 1ol0A 121 2.27e+01 b.1.1.1 -2311 1cr5A 189 2.28e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1s72H 171 2.29e+01 1f2tA 149 2.39e+01 1f2tA c.37.1.12 32373 1qg7A 67 2.44e+01 1a15A d.9.1.1 37449 1jj2H 167 2.48e+01 1ffkF d.41.4.1 63093 1szoA 257 2.51e+01 1iicA 422 2.53e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1o8uA 257 2.53e+01 c.14.1.3 81194 1iz0A 302 2.54e+01 b.35.1.2 83821 c.2.1.1 83822 3tss 194 2.66e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1s72Q 96 2.69e+01 1of4A 179 2.78e+01 b.18.1.18 86932 1bbzA 58 2.80e+01 1bbzA b.34.2.1 24477 1e5xA 486 2.80e+01 c.79.1.1 59283 1gw5S 142 2.81e+01 d.110.4.2 70633 1bvoA 175 2.89e+01 1a3qA b.2.5.3 22457 1uspA 139 2.93e+01 d.227.1.1 -11179 1stmA 157 2.95e+01 1stmA b.121.7.1 23281 1o97C 264 2.98e+01 c.26.2.3 81232 1e4yA 214 3.06e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1kdj 102 3.06e+01 1plc b.6.1.1 22864 1i6pA 220 3.07e+01 1ddzA c.53.2.1 61848 1c7qA 445 3.07e+01 2pgi c.80.1.2 35307 1ex0A 731 3.08e+01 b.1.18.9 -2754 b.1.5.1 -2778 b.1.5.1 -2779 d.3.1.4 -8889 1i50A 1733 3.14e+01 e.29.1.2 61754 1f9vA 347 3.17e+01 1bg2 c.37.1.9 59745 1fu1A 203 3.20e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1amx 180 3.23e+01 1amx b.2.3.1 22410 1jvsA 400 3.30e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1bt0A 76 3.32e+01 1ubi d.15.1.1 37607 1lbeA 258 3.36e+01 1lbeA e.4.1.1 42773 1f7dA 136 3.42e+01 1dun b.85.4.1 28353 1r0pA 312 3.42e+01 d.144.1.7 -11377 1g0xA 197 3.43e+01 1nkr b.1.1.4 21805 b.1.1.4 21806 1j1uA 306 3.44e+01 c.26.1.1 83980 8dfr 189 3.56e+01 1aoeA c.71.1.1 34895 1uacH 114 3.56e+01 b.1.1.1 -2285 1whsB 153 3.56e+01 1whtB 1p9kA 79 3.57e+01 unknown_sccs -10238 1a8y 367 3.58e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1mvuB 121 3.61e+01 b.1.1.1 -2250 1my7A 114 3.66e+01 b.1.18.1 79675 1ngvA 534 3.67e+01 c.111.1.2 85698 1g5aA 628 3.69e+01 b.71.1.1 65152 c.1.8.1 65153 2mcm 112 3.70e+01 2mcm b.1.7.1 22207 1omwA 689 3.86e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1r62A 160 3.90e+01 1m9xC 146 3.91e+01 a.73.1.1 84907 1fi8A 228 3.91e+01 5ptp b.47.1.2 26374 1ve9A 347 3.91e+01 c.4.1.2 -6056 d.16.1.3 -9214 1e5pA 151 3.93e+01 1bj7 b.60.1.1 59272 1oh4A 179 3.94e+01 b.18.1.18 -3123 1i52A 236 3.96e+01 1i52A c.68.1.13 61767 1edg 380 3.98e+01 1edg c.1.8.3 28807 1utcA 363 3.98e+01 a.118.1.4 -1568 b.69.6.1 -4612