# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1kllA 130 1.73e-10 d.32.1.2 72720 1f9zA 135 2.78e-08 1qipA d.32.1.1 38484 1fa8A 135 2.88e-08 1qipA d.32.1.1 38486 1ecsA 126 1.73e-06 1ecsA d.32.1.2 59407 1lqpA 135 3.26e-06 d.32.1.2 78151 1nkiA 135 3.26e-06 d.32.1.2 -9544 1kw3B 292 3.39e-05 d.32.1.3 77549 d.32.1.3 77550 1qipA 183 5.79e-05 1qipA d.32.1.1 38470 1han 297 1.17e-04 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 1.83e-04 d.32.1.3 78059 d.32.1.3 78060 1f1uA 323 2.66e-04 d.32.1.3 83200 d.32.1.3 83201 1jc4A 148 1.55e-03 1jc4A d.32.1.4 62863 1f1xA 322 4.52e-03 d.32.1.3 83208 d.32.1.3 83209 1qtoA 122 5.25e-03 1bylA d.32.1.2 38494 1r9cA 139 7.92e-03 d.32.1.2 -9557 1bylA 125 8.42e-03 1bylA d.32.1.2 38495 1cjxA 357 1.31e-01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1j5pA 253 3.23e-01 c.2.1.3 83092 d.81.1.3 71577 1r72A 211 5.35e-01 unknown_sccs -215 unknown_sccs -5981 1i9gA 280 7.93e-01 c.66.1.13 62090 1o54A 277 8.07e-01 c.66.1.13 -8095 1fviA 297 8.32e-01 1fviA b.40.4.6 25364 d.142.2.1 41578 1dynA 125 8.54e-01 1dynA b.55.1.1 26955 1g9zA 152 9.90e-01 1bp7A d.95.2.1 60408 1hskA 326 1.39e+00 2mbr d.145.1.2 61241 d.146.1.1 61242 1tl2A 236 1.46e+00 1tl2A b.67.1.1 27541 1ht6A 405 1.52e+00 b.71.1.1 83629 c.1.8.1 83630 1j5yA 187 1.67e+00 a.4.5.1 71592 d.94.2.1 71593 1uz5A 402 2.07e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1uxy 340 2.08e+00 2mbr d.145.1.2 41748 d.146.1.1 41761 1ftrA 296 2.21e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1oywA 523 2.35e+00 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1v61A 132 2.50e+00 1eazA 125 2.61e+00 b.55.1.1 70113 1kao 167 2.83e+00 1ctqA c.37.1.8 32014 1dxeA 256 2.84e+00 1dxeA c.1.12.5 29310 7aatA 401 3.02e+00 1ajsA c.67.1.1 34250 1pg4A 652 3.07e+00 e.23.1.1 88067 1mkeA 152 3.37e+00 b.55.1.4 79231 1p1lA 102 3.83e+00 d.58.5.2 87695 1pvmA 184 3.92e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1qlpA 394 3.96e+00 1ovaA e.1.1.1 42628 3proC 166 4.38e+00 3proC d.52.1.1 38812 d.52.1.1 38813 1vhyA 257 4.54e+00 b.122.1.2 -5129 c.116.1.5 -6705 1khdA 345 4.80e+00 a.46.2.1 77400 c.27.1.1 77401 1o04A 500 5.10e+00 c.82.1.1 86508 1v9kA 228 5.10e+00 1heiA 451 5.10e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1d9tA 289 5.46e+00 1deaA 1nxzA 246 5.53e+00 b.122.1.2 86391 c.116.1.5 86392 1k20A 310 5.59e+00 c.107.1.1 68027 1qqgA 264 5.80e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1b4bA 71 6.02e+00 1b4aA d.74.2.1 39718 1vicA 262 6.10e+00 c.68.1.13 -8252 1ne7A 289 6.22e+00 unknown_sccs -6858 1i52A 236 6.28e+00 1i52A c.68.1.13 61767 1kyqA 274 6.45e+00 c.2.1.11 73281 e.37.1.1 73282 1aisA 182 6.52e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1pba 81 6.63e+00 1pytA d.58.3.1 39067 1lvaA 258 6.65e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1k0eA 453 7.11e+00 d.161.1.1 67938 1j3vA 289 7.48e+00 a.100.1.1 -1303 c.2.1.6 -5947 1o0uA 429 7.70e+00 c.118.1.1 80743 1ej1A 190 7.76e+00 1ejhA d.86.1.1 40144 1ckv 141 8.17e+00 1ckv d.137.1.1 41452 1mr3F 181 8.28e+00 c.37.1.8 79422 1chd 203 8.38e+00 1chd c.40.1.1 32478 1f0iA 504 9.29e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1kb0A 677 9.57e+00 a.3.1.6 68378 b.70.1.1 68379 1jkeA 145 9.69e+00 c.110.1.1 66791 1fsgA 233 9.83e+00 1qk3A c.61.1.1 34029 1v0wA 506 9.88e+00 1i9zA 347 9.99e+00 1i9yA d.151.1.2 62102 1mkaA 171 1.03e+01 1mkaA d.38.1.2 38543 1mkiA 330 1.07e+01 e.3.1.2 84994 1gkpA 458 1.11e+01 b.92.1.3 70231 c.1.9.6 70232 1k3bA 119 1.14e+01 b.61.5.1 72016 1ue1A 164 1.15e+01 b.40.4.3 -3905 1fukA 165 1.15e+01 1fukA c.37.1.19 32409 1bykA 255 1.20e+01 1bykA c.93.1.1 35706 1j7gA 144 1.24e+01 c.110.1.1 84130 1fg7A 356 1.25e+01 1gewA c.67.1.1 59819 1rcf 169 1.25e+01 1rcf c.23.5.1 31170 1jfuA 186 1.29e+01 c.47.1.10 62940 1spxA 278 1.37e+01 c.2.1.2 -5870 1ll2A 333 1.39e+01 c.68.1.14 74005 2ran 316 1.40e+01 1avc a.65.1.1 18170 2btfA 375 1.42e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1btn 106 1.46e+01 1btn b.55.1.1 26952 1a8b 318 1.48e+01 1avc a.65.1.1 18171 1fxlA 167 1.53e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1mngA 203 1.55e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1fiqC 763 1.56e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1hkeA 137 1.57e+01 1mai 131 1.59e+01 1mai b.55.1.1 26951 1em8A 147 1.62e+01 unknown_sccs -7272 1mu5A 471 1.62e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1n6zA 105 1.62e+01 unknown_sccs 85369 1n8jA 186 1.65e+01 c.47.1.10 85401 1fxoA 293 1.67e+01 1g0rA c.68.1.6 34524 2fcr 173 1.71e+01 1rcf c.23.5.1 31151 1l8bA 190 1.71e+01 d.86.1.1 73683 1o0wA 252 1.73e+01 a.149.1.1 80751 d.50.1.1 80752 1apyA 162 1.76e+01 1apyA d.153.1.5 42004 1drw 273 1.82e+01 1drw c.2.1.3 30057 d.81.1.3 39972 2fmr 65 1.89e+01 2fmr d.51.1.1 38808 1lfwA 470 1.89e+01 c.56.5.4 77942 d.58.19.1 77943 1l6rA 227 1.90e+01 c.108.1.10 77768 1lc0A 294 1.90e+01 c.2.1.3 73823 d.81.1.4 73824 1vf7A 369 1.92e+01 1mp9A 198 1.99e+01 a.74.1.2 -1127 a.74.1.2 -1128 1ovlA 271 2.05e+01 a.123.1.1 87455 1p0hA 318 2.13e+01 d.108.1.1 -10802 1obpA 159 2.14e+01 1obpA b.60.1.1 27092 1aua 296 2.15e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1in0A 163 2.19e+01 d.58.49.1 83694 d.58.49.1 83695 1o3yA 166 2.26e+01 c.37.1.8 86618 1l3kA 196 2.27e+01 d.58.7.1 73539 d.58.7.1 73540 1d4xA 375 2.32e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 2rslA 140 2.32e+01 2rslA c.53.1.1 33345 2gcc 70 2.33e+01 2gcc d.10.1.2 37484 1ryp2 233 2.37e+01 1ryp2 1h3nA 878 2.39e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1qyaA 307 2.41e+01 1q8yA 373 2.42e+01 d.144.1.7 -11319 1jwiB 125 2.44e+01 d.169.1.1 67384 3fruA 269 2.44e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1dp4A 435 2.46e+01 1dp4A c.93.1.1 35710 1f7lA 121 2.47e+01 1f7lA d.150.1.2 59666 1jvnA 555 2.60e+01 c.1.2.1 67355 c.23.16.1 67356 1fqtA 112 2.60e+01 1fqtA b.33.1.1 24441 1jj2Q 154 2.64e+01 1ffkO d.55.1.1 63102 1tml 286 2.67e+01 1tml c.6.1.1 30656 1r8sA 164 2.68e+01 c.37.1.8 -7082 1q7bA 244 2.73e+01 c.2.1.2 -5826 1s72R 155 2.83e+01 1hdkA 141 2.85e+01 b.29.1.3 65807 1lcl 142 2.85e+01 1lcl b.29.1.3 24216 1oboA 169 2.89e+01 c.23.5.1 86776 1gcuA 295 2.91e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1m7bA 184 2.91e+01 c.37.1.8 74572 1ttzA 87 2.94e+01 1kxlA 199 2.95e+01 b.40.4.3 73155 1np6A 174 3.00e+01 c.37.1.10 85954 1pieA 419 3.00e+01 d.14.1.5 -9075 unknown_sccs -10120 1top 162 3.05e+01 1ncx a.39.1.5 17223 1ezm 301 3.07e+01 1hyt d.92.1.2 58980 1s72H 171 3.10e+01 1na3A 91 3.10e+01 k.38.1.1 85481 1eiwA 111 3.11e+01 1eiwA c.23.3.1 31130 1j3wA 163 3.15e+01 unknown_sccs -10870 1ezwA 349 3.20e+01 1ezwA c.1.16.3 29558 1na6A 404 3.20e+01 unknown_sccs -4715 unknown_sccs -7564 1ja1A 622 3.32e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1qmvA 197 3.40e+01 1qq2A c.47.1.10 33066 1hn2A 159 3.48e+01 b.60.1.1 65890 1gt1A 159 3.48e+01 b.60.1.1 -4436 1jenA 267 3.55e+01 1jenA 1qlaA 656 3.58e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1q0bA 367 3.59e+01 c.37.1.9 -7105 1pt7A 437 3.60e+01 c.123.1.1 -8762 1uc2A 481 3.61e+01 unknown_sccs -11725 1rrpB 134 3.70e+01 1rrpB b.55.1.3 26995 1q1gA 276 3.74e+01 c.56.2.1 -7846 1f6bA 198 3.77e+01 c.37.1.8 64986 1howA 373 3.79e+01 1hcl d.144.1.7 41679 1brwA 433 3.80e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1a8p 258 3.86e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1iujA 106 3.92e+01 unknown_sccs -9953 1oe8A 211 3.94e+01 a.45.1.1 86905 c.47.1.5 86906 1iq4A 179 3.94e+01 1iq4A d.77.1.1 62641 1kr4A 125 3.98e+01 d.58.5.2 72889