# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2bcoA 350 3.43e-33 1yw4A 341 3.51e-30 1h8lA 380 2.50e-06 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 6.82e-06 1qmuA b.3.2.1,c.56.5.1 22534,33827 1jqgA 433 3.09e-02 c.56.5.1,d.58.3.1 71791,71792 2c1cA 312 3.58e-02 2bo9A 308 1.06e-01 2ctb 307 3.13e-01 1aye c.56.5.1 33803 1xovA 326 3.49e-01 1m4lA 307 3.61e-01 c.56.5.1 78604 1yme 309 3.86e-01 1aye c.56.5.1 33804 2ctc 307 4.00e-01 1aye c.56.5.1 33802 1hh2P 344 5.19e-01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1bavA 309 6.58e-01 1aye c.56.5.1 33806 6cpa 307 6.58e-01 1aye c.56.5.1 33816 1aye 401 7.10e-01 1aye c.56.5.1,d.58.3.1 33824,39065 1dtdA 303 7.93e-01 1aye c.56.5.1 33823 1z5rA 306 1.24e+00 1jv1A 505 1.73e+00 c.68.1.5 71892 1d0nA 729 1.96e+00 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1kwmA 402 2.21e+00 c.56.5.1,d.58.3.1 73079,73080 1pkm 530 2.41e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1o0wA 252 2.71e+00 a.149.1.1,d.50.1.1 80751,80752 1pkn 530 3.04e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1jwqA 179 3.81e+00 c.56.5.6 90921 1vm8A 534 3.90e+00 1qm4A 396 4.37e+00 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 1onxA 390 4.46e+00 b.92.1.7,c.1.9.13 87176,87177 1z9hA 290 4.85e+00 1ja1A 622 5.61e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1jvbA 347 7.84e+00 b.35.1.2,c.2.1.1 77181,77182 1xwiA 322 8.58e+00 2aujD 309 1.02e+01 3hmgA 328 1.02e+01 1hgeA b.19.1.2 23825 1t2wA 145 1.06e+01 b.100.1.1 106289 1bl3A 160 1.29e+01 1b9dA c.55.3.2 33655 1lpuA 332 1.35e+01 d.144.1.7 74177 1csp 67 1.39e+01 1mjc b.40.4.5 25321 1gsoA 431 1.39e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1om1A 332 1.49e+01 d.144.1.7 93347 1ttuA 477 1.49e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1ijaA 148 1.49e+01 1ijaA b.100.1.1 62484 1m2rA 327 1.63e+01 d.144.1.7 84760 1h4pA 408 1.64e+01 c.1.8.3 90617 1jsmA 325 1.65e+01 b.19.1.2 63264 1d5yA 292 1.69e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1lp4A 332 1.74e+01 d.144.1.7 74170 1yqfA 203 1.74e+01 1laxA 370 1.76e+01 c.94.1.1 84576 1cz1A 394 1.78e+01 1cz1A c.1.8.3 28839 1x7vA 99 1.83e+01 d.58.4.11 109501 2viuA 328 1.85e+01 1hgeA b.19.1.2 23797 1vajA 214 1.86e+01 1yhtA 367 1.86e+01 1yp5A 58 1.89e+01 1g01A 364 1.89e+01 7a3hA c.1.8.3 60161 1c9oA 66 1.92e+01 1mjc b.40.4.5 25325 1eqcA 394 1.93e+01 1cz1A c.1.8.3 28811 1s0uA 408 1.93e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1a6o 332 1.97e+01 1a6o 1hgeA 328 1.98e+01 1hgeA b.19.1.2 23816 1uanA 227 2.13e+01 c.134.1.1 99135 1ytvA 366 2.13e+01 1a49A 530 2.13e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 2aqjA 538 2.15e+01 1anf 370 2.16e+01 4mbp c.94.1.1 35776 1qd1A 325 2.23e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1hdcA 253 2.28e+01 1e6wA c.2.1.2 29862 1vp4A 425 2.30e+01 2hsdA 253 2.31e+01 1e6wA c.2.1.2 29866 2g50A 530 2.35e+01 2govA 195 2.36e+01 1ub4A 110 2.38e+01 b.34.6.2 88399 1mpb 370 2.39e+01 4mbp c.94.1.1 35780 1cbg 490 2.40e+01 1e70M c.1.8.4 28933 1g8lA 411 2.40e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1pmi 440 2.53e+01 1pmi b.82.1.3 28114 1uyjA 296 2.55e+01 f.8.1.2 108143 1h2aL 567 2.58e+01 1h2rL e.18.1.1 43299 1j7nA 776 2.64e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 2eueA 279 2.72e+01 1ycsB 239 2.81e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1g0cA 364 2.85e+01 7a3hA c.1.8.3 60165 1h7eA 245 3.06e+01 c.68.1.13 60717 1a7lA 389 3.16e+01 4mbp c.94.1.1 35787 1h2rL 534 3.47e+01 1h2rL e.18.1.1 43298 1ew4A 106 3.54e+01 1ew4A d.82.2.1 40023 1wuiL 534 3.59e+01 1ubkL 534 3.59e+01 e.18.1.1 88422 2b25A 336 3.63e+01 1ypxA 375 3.66e+01 1jh2A 99 3.69e+01 2ac5A 316 3.80e+01 1hjzA 192 3.93e+01 c.50.1.2 83520 1xx1A 285 3.97e+01 1bg0 356 3.99e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 1hyvA 166 4.02e+01 1b9dA c.55.3.2 61424 1b9dA 163 4.03e+01 1b9dA c.55.3.2 33649 1hm9A 468 4.05e+01 b.81.1.4,c.68.1.5 65866,65867 1kyqA 274 4.08e+01 c.2.1.11,e.37.1.1 73281,73282 1vns 609 4.12e+01 1vns a.111.1.3 19061 1vhuA 211 4.19e+01 c.50.1.2 100703 1zbxB 141 4.28e+01 1ruwA 69 4.32e+01 1x47A 98 4.34e+01 1nt4A 391 4.39e+01 c.60.1.2 92102 1vnc 609 4.42e+01 1vns a.111.1.3 19065 2rveA 244 4.42e+01 1rvaA c.52.1.2 33283 1f1sA 814 4.55e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1g5rA 196 4.57e+01 1g5rA c.37.1.11 32367 1g5tA 196 4.57e+01 1g5rA c.37.1.11 32366 1vliA 385 4.60e+01 b.85.1.1,c.1.10.6 108830,108831 2fokA 579 4.67e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1hlcA 129 4.69e+01 1c1lA b.29.1.3 24208 1j7nB 776 4.71e+01 d.92.1.14,d.92.1.14,d.166.1.1 66412,66413,66414 1s48A 609 4.71e+01 e.8.1.4 98475 1brwA 433 4.86e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1m15A 357 4.91e+01 a.83.1.1,d.128.1.2 78368,78369 1jobA 162 5.07e+01 1f35A b.94.1.1 63207 1is3A 135 5.08e+01 b.29.1.3 76773 1semA 58 5.28e+01 1ckaA b.34.2.1 24544 1y13A 181 5.33e+01 1m2kA 249 5.34e+01 c.31.1.5 84754 1xmbA 418 5.39e+01 1yloA 348 5.48e+01 1f35A 162 5.51e+01 1f35A b.94.1.1 59628 1mfgA 95 5.72e+01 b.36.1.1 79043 1lqtA 456 5.76e+01 c.3.1.1,c.4.1.1 74198,74199 1gu7A 364 5.79e+01 b.35.1.2,c.2.1.1 83321,83322 1bynA 128 5.87e+01 1rsy b.7.1.2 23193 1u1hA 765 5.87e+01 c.1.22.2,c.1.22.2 107580,107581 1k3sA 113 6.04e+01 d.198.1.1 68120 1gl4A 285 6.17e+01 d.22.1.2,g.3.11.5 65286,65287 4mbp 370 6.19e+01 4mbp c.94.1.1 35777 1g97A 459 6.20e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1ra6A 461 6.25e+01 e.8.1.4 104879 1ystH 260 6.26e+01 6prcH b.41.1.1,f.23.10.1 25482,43511 1sdjA 310 6.28e+01 d.21.1.2,d.21.1.2 98807,98808 1wcgA 464 6.42e+01 1rsy 152 6.95e+01 1rsy b.7.1.2 23192 1sqjA 789 6.97e+01 b.69.13.1,b.69.13.1 105918,105919 1rpxA 230 6.98e+01 1rpxA c.1.2.2 28536 1r6lA 239 6.99e+01 d.14.1.4,d.101.1.1 97153,97154 1gdhA 320 7.02e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1wapA 75 7.08e+01 1wapA b.82.5.1 28153 1s5uA 138 7.21e+01 d.38.1.1 98573 1v54B 227 7.22e+01 b.6.1.2,f.17.2.1 100322,100323 1w5fA 353 7.22e+01 1hfi 62 7.22e+01 1hfh g.18.1.1 44819 1sx5A 244 7.24e+01 c.52.1.2 99023 1wr7A 41 7.24e+01 8dfr 189 7.25e+01 1aoeA c.71.1.1 34895 2fpeA 62 7.29e+01 1rdr 461 7.37e+01 1rdr e.8.1.4 43116 2axpA 173 7.37e+01 1w3jA 468 7.50e+01 c.1.8.4 109156 1dseA 292 7.66e+01 1ryc a.93.1.1 59130 1exmA 405 7.66e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2gkpA 167 7.67e+01 1gw5M 435 7.73e+01 b.2.7.1,d.110.4.2 70631,70632 1bqg 451 7.78e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1onwA 390 7.80e+01 b.92.1.7,c.1.9.13 87172,87173 1f48A 589 7.82e+01 1f48A c.37.1.10,c.37.1.10 32280,32281 1mh3A 421 7.98e+01 a.4.1.1,c.94.1.1 79112,79113 2c78A 405 8.08e+01 1pg6A 243 8.12e+01 b.82.5.2 94673 1jnyA 435 8.15e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ykfA 352 8.17e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1h4uA 265 8.17e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1gpeA 587 8.23e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1xfjA 261 8.27e+01 d.194.1.2 109585 1kczA 413 8.30e+01 c.1.11.2,d.54.1.1 68451,68452 1iyu 79 8.34e+01 1iyu b.84.1.1 28227 1qyaA 307 8.38e+01 d.21.1.2,d.21.1.2 104653,104654 1z1zA 131 8.41e+01 1ymiA 334 8.41e+01 2f9cA 334 8.42e+01 1omp 370 8.53e+01 4mbp c.94.1.1 35778 1ihuA 589 8.64e+01 c.37.1.10,c.37.1.10 62394,62395 1bb9 115 8.65e+01 1bb9 b.34.2.1 24554 1tqjA 230 8.79e+01 c.1.2.2 107228 1uqrA 154 8.82e+01 c.23.13.1 99779 1usgA 346 8.86e+01 c.93.1.1 99864 2fkcA 247 8.88e+01 1rvaA 244 8.89e+01 1rvaA c.52.1.2 33240 1w9hA 427 8.95e+01 1g8jB 133 8.95e+01 1g8jB b.33.1.1 24439