# List of top-scoring protein chains for t2k-100-30-str2 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 1g9gA 629 3.60e-01 a.102.1.2 83279 1faeA 629 3.67e-01 1fce a.102.1.2 18837 1fce 629 4.27e-01 1fce a.102.1.2 18836 1anf 370 5.48e-01 4mbp c.94.1.1 35776 1g6oA 330 5.58e-01 1g6oA c.37.1.11 32430 1ao0A 459 5.81e-01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1spuB 727 6.84e-01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1mh3A 421 8.30e-01 a.4.1.1 79112 c.94.1.1 79113 1d6zA 727 8.71e-01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1gwmA 153 9.93e-01 b.18.1.19 83348 1oacA 727 1.06e+00 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1qaxA 428 1.13e+00 1qaxA d.58.20.1 39376 d.179.1.1 42597 1nnhA 294 1.33e+00 d.104.1.1 -10772 1qayA 428 1.41e+00 1qaxA d.58.20.1 39378 d.179.1.1 42599 1ckqA 276 1.66e+00 1ckqA c.52.1.1 33229 1r31A 428 1.67e+00 d.58.20.1 -10108 d.179.1.1 -11716 1rgxA 114 1.99e+00 1d8vA 263 2.13e+00 1mrj d.165.1.1 42193 1eriA 276 2.24e+00 1ckqA c.52.1.1 33231 1cl8A 276 2.24e+00 1ckqA c.52.1.1 33230 1yer 228 2.71e+00 1yer d.122.1.1 41101 1ep0A 185 2.80e+00 1dzrA b.82.1.1 28080 1qftA 175 2.97e+00 1qftA b.60.1.1 27151 1ds4A 292 3.04e+00 1ryc a.93.1.1 59129 1dseA 292 3.85e+00 1ryc a.93.1.1 59130 1qpsA 261 3.85e+00 1ckqA c.52.1.1 33234 1omp 370 4.10e+00 4mbp c.94.1.1 35778 1ryc 294 4.15e+00 1ryc a.93.1.1 18601 2cyp 294 4.18e+00 1ryc a.93.1.1 18600 1ivwA 638 4.30e+00 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 1qy5A 269 4.52e+00 d.122.1.1 -10958 1cs8A 316 4.67e+00 1cs8A d.3.1.1 37065 1dctA 324 4.84e+00 6mhtA c.66.1.26 34244 1nscA 390 5.05e+00 2qwc b.68.1.1 27591 1o0pA 104 5.14e+00 d.58.7.1 86535 1faoA 126 5.16e+00 1faoA b.55.1.1 26974 1ui8A 638 5.20e+00 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1m2tA 254 5.48e+00 d.165.1.1 84761 1byqA 228 5.49e+00 1yer d.122.1.1 41100 1ccg 291 5.53e+00 1ryc a.93.1.1 18627 1ln1A 214 5.60e+00 d.129.3.2 74038 1ui7A 638 5.70e+00 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 9ldtA 332 5.87e+00 3ldh c.2.1.5 30154 d.162.1.1 42121 1phk 298 5.96e+00 1cdkA d.144.1.7 41635 1nnjA 271 6.19e+00 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1uq5A 263 6.62e+00 d.165.1.1 -11555 1qc9A 276 6.90e+00 1ckqA c.52.1.1 33235 1e87A 118 6.95e+00 1b6e d.169.1.1 42327 1od5A 492 7.32e+00 b.82.1.2 86832 b.82.1.2 86833 1p3dA 475 7.42e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1ift 263 7.66e+00 1mrj d.165.1.1 42211 1st0A 337 8.21e+00 unknown_sccs -9014 unknown_sccs -9474 1miuA 738 8.55e+00 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1dj0A 264 8.56e+00 1dj0A unknown_sccs -10141 1repC 251 8.74e+00 1repC a.4.5.10 16125 a.4.5.10 16126 1kutA 230 8.76e+00 d.143.1.1 73017 1gtmA 419 9.28e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1pjjA 271 9.52e+00 1jdrA 294 9.78e+00 1ryc a.93.1.1 62908 1gmiA 136 1.00e+01 b.7.1.1 65309 1v4sA 455 1.00e+01 c.55.1.3 -7604 c.55.1.3 -7605 1t62A 166 1.01e+01 1g3p 217 1.01e+01 1g3p b.37.1.1 24788 b.37.1.1 24789 1ejhA 190 1.03e+01 1ejhA d.86.1.1 40147 1hyeA 313 1.03e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1mai 131 1.06e+01 1mai b.55.1.1 26951 1eaxA 241 1.07e+01 b.47.1.2 64889 1enfA 212 1.09e+01 3seb b.40.2.2 25198 d.15.6.1 37787 1ewcA 214 1.10e+01 3seb b.40.2.2 25199 d.15.6.1 37788 1mwsA 646 1.11e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1eg2A 319 1.12e+01 1eg2A c.66.1.11 34249 1gqyA 475 1.14e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 4mbp 370 1.19e+01 4mbp c.94.1.1 35777 1avk 638 1.21e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1v7oA 165 1.23e+01 unknown_sccs -10249 1eejA 216 1.35e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1d5mB 192 1.37e+01 1iakB b.1.1.2 21618 d.19.1.1 38192 1o13A 136 1.44e+01 c.55.5.1 80762 1khbA 625 1.46e+01 c.91.1.1 68606 c.109.1.1 68607 1hqz1 141 1.47e+01 1jc7A 131 1.48e+01 1jc7A b.40.3.2 62873 1qnoA 344 1.54e+01 1qnoA c.1.8.3 28838 1qnrA 344 1.54e+01 1qnoA c.1.8.3 28834 1jhdA 396 1.56e+01 b.122.1.3 66712 c.26.1.5 66713 1lea 84 1.57e+01 1lea a.4.5.2 16085 1sv6A 269 1.58e+01 1g5vA 88 1.63e+01 1g5vA b.34.9.1 60292 2tbs 222 1.67e+01 5ptp b.47.1.2 26009 1n6eA 1071 1.72e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1mpb 370 1.78e+01 4mbp c.94.1.1 35780 1mpp 361 1.93e+01 2rmpA b.50.1.2 26856 1dzaA 129 1.93e+01 7rsa d.5.1.1 37275 1l0oC 243 1.97e+01 a.4.13.2 73405 1gikA 261 2.00e+01 d.165.1.1 -11545 1bkjA 240 2.00e+01 1bkjA d.90.1.1 40243 1ezoA 370 2.01e+01 4mbp c.94.1.1 59539 1hj8A 222 2.04e+01 b.47.1.2 65844 1fm5A 199 2.08e+01 1fm5A d.169.1.1 42330 1yghA 164 2.09e+01 1yghA d.108.1.1 40802 1g97A 459 2.14e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1ax4A 467 2.15e+01 1ax4A c.67.1.2 34391 1q8iA 783 2.17e+01 c.55.3.5 -7635 e.8.1.1 -11885 1i7kA 179 2.18e+01 1u9aA d.20.1.1 61889 1fgjA 546 2.23e+01 1fgjA a.138.1.3 19679 1j8rA 196 2.25e+01 1j8rA b.2.3.3 62745 1pvmA 184 2.26e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1j09A 468 2.27e+01 a.97.1.1 77025 c.26.1.1 77026 1g1eB 89 2.29e+01 1g1eB a.59.1.1 17931 1ne8A 117 2.32e+01 b.34.6.2 80424 1k32A 1045 2.33e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1gq2A 555 2.37e+01 c.2.1.7 70308 c.58.1.3 70309 1nw8A 319 2.45e+01 c.66.1.11 86292 1hqz9 141 2.53e+01 1ic2A 81 2.56e+01 h.1.5.1 62247 1g7eA 122 2.58e+01 1g7eA c.47.1.7 33055 1bb9 115 2.59e+01 1bb9 b.34.2.1 24554 1gvhA 396 2.59e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1qq2A 199 2.61e+01 1qq2A c.47.1.10 33064 1o5zA 442 2.63e+01 c.59.1.2 -7939 c.72.2.2 -8418 1fxjA 331 2.69e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1ew4A 106 2.70e+01 1ew4A d.82.2.1 40023 1cxc 124 2.78e+01 1ycc a.3.1.1 15890 1aly 146 2.79e+01 1aly b.22.1.1 23856 1j5eE 161 2.80e+01 d.14.1.1 71547 d.50.1.2 71548 1add 349 2.87e+01 1a4mA c.1.9.1 29020 1hr6B 443 2.88e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1b0nB 57 2.91e+01 1b0nB a.34.1.1 17002 1qf8A 182 2.93e+01 1qf8A g.41.4.1 45212 1caxB 184 2.96e+01 1caxB b.82.1.2 28105 2e2c 156 2.99e+01 1u9aA d.20.1.1 38336 1ivg 388 3.00e+01 2qwc b.68.1.1 27578 1a4mA 349 3.02e+01 1a4mA c.1.9.1 29014 1sty 150 3.02e+01 1snc b.40.1.1 24812 1e2tA 284 3.03e+01 1e2tA d.3.1.5 37121 1azsA 220 3.07e+01 1azsA d.58.29.1 39416 1vhxA 150 3.10e+01 unknown_sccs -7663 1gv3A 248 3.13e+01 a.2.11.1 70585 d.44.1.1 70586 1t1dA 100 3.14e+01 1t1dA d.42.1.2 38637 1shwA 138 3.19e+01 1fnoA 417 3.22e+01 c.56.5.4 75841 d.58.19.1 70145 1sczA 233 3.24e+01 c.43.1.1 -7326 1bglA 1023 3.31e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1e2o 233 3.40e+01 1eaf c.43.1.1 32631 1eq9A 222 3.40e+01 5ptp b.47.1.2 26068 1kzlA 208 3.48e+01 b.43.4.3 77635 b.43.4.3 77636 1nv8A 284 3.53e+01 c.66.1.30 86224 1v04A 355 3.54e+01 unknown_sccs -4592 1h2aL 567 3.56e+01 1h2rL e.18.1.1 43299 1f82A 424 3.59e+01 1f82A d.92.1.7 40307 1qmvA 197 3.62e+01 1qq2A c.47.1.10 33066 1ihrA 76 3.64e+01 1ihrA d.212.1.2 62392 1bl3A 160 3.68e+01 1b9dA c.55.3.2 33655 1cnuA 137 3.71e+01 1cof d.109.1.2 40862 2cxbA 124 3.78e+01 1ycc a.3.1.1 15891 1gln 468 3.87e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1hm9A 468 3.88e+01 b.81.1.4 65866 c.68.1.5 65867 1qjvA 342 3.89e+01 1qjvA b.80.1.5 28035 1nziA 159 3.98e+01 b.23.1.1 86449 g.3.11.1 86450 1fmaD 81 3.99e+01 1fmaD d.15.3.1 37643 1i8dA 213 3.99e+01 b.43.4.3 61953 b.43.4.3 61954