# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1.79e-09 d.32.1.2 72720 1fa8A 135 9.94e-07 1qipA d.32.1.1 38486 1f9zA 135 1.41e-06 1qipA d.32.1.1 38484 1ecsA 126 2.12e-05 1ecsA d.32.1.2 59407 1lqpA 135 2.93e-05 d.32.1.2 78151 1nkiA 135 3.03e-05 d.32.1.2 -9544 1f1uA 323 7.21e-04 d.32.1.3 83200 d.32.1.3 83201 1kw3B 292 7.88e-04 d.32.1.3 77549 d.32.1.3 77550 1qipA 183 1.21e-03 1qipA d.32.1.1 38470 1lkdA 297 3.34e-03 d.32.1.3 78059 d.32.1.3 78060 1han 297 3.94e-03 1han d.32.1.3 38506 d.32.1.3 38507 1r9cA 139 6.98e-03 d.32.1.2 -9557 1jc4A 148 7.18e-03 1jc4A d.32.1.4 62863 1f1xA 322 9.71e-03 d.32.1.3 83208 d.32.1.3 83209 1bylA 125 1.07e-01 1bylA d.32.1.2 38495 1qtoA 122 1.28e-01 1bylA d.32.1.2 38494 1cjxA 357 1.61e-01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1dynA 125 8.92e-01 1dynA b.55.1.1 26955 1j5pA 253 1.79e+00 c.2.1.3 83092 d.81.1.3 71577 1k0eA 453 2.62e+00 d.161.1.1 67938 1i9gA 280 2.92e+00 c.66.1.13 62090 1g9zA 152 3.03e+00 1bp7A d.95.2.1 60408 1oywA 523 3.32e+00 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1j5yA 187 3.66e+00 a.4.5.1 71592 d.94.2.1 71593 1v61A 132 3.73e+00 1hskA 326 3.98e+00 2mbr d.145.1.2 61241 d.146.1.1 61242 1ckv 141 4.09e+00 1ckv d.137.1.1 41452 1r72A 211 4.29e+00 unknown_sccs -215 unknown_sccs -5981 1o04A 500 4.61e+00 c.82.1.1 86508 1aisA 182 4.68e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1uz5A 402 4.69e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1pvmA 184 4.70e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1tl2A 236 5.09e+00 1tl2A b.67.1.1 27541 1o54A 277 5.13e+00 c.66.1.13 -8095 1ftrA 296 5.34e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1mu5A 471 5.48e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 3proC 166 6.37e+00 3proC d.52.1.1 38812 d.52.1.1 38813 1oe8A 211 6.79e+00 a.45.1.1 86905 c.47.1.5 86906 1vhyA 257 6.96e+00 b.122.1.2 -5129 c.116.1.5 -6705 1ht6A 405 7.34e+00 b.71.1.1 83629 c.1.8.1 83630 1lvaA 258 7.56e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1o0uA 429 8.27e+00 c.118.1.1 80743 1mkeA 152 8.51e+00 b.55.1.4 79231 1pg4A 652 8.73e+00 e.23.1.1 88067 1nxzA 246 8.85e+00 b.122.1.2 86391 c.116.1.5 86392 1jkeA 145 9.29e+00 c.110.1.1 66791 1j3vA 289 9.36e+00 a.100.1.1 -1303 c.2.1.6 -5947 1ne7A 289 9.44e+00 unknown_sccs -6858 1d9tA 289 9.45e+00 1deaA 1fviA 297 9.55e+00 1fviA b.40.4.6 25364 d.142.2.1 41578 1f0iA 504 9.58e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1v0wA 506 9.88e+00 1mkiA 330 9.98e+00 e.3.1.2 84994 1rcf 169 1.02e+01 1rcf c.23.5.1 31170 1eazA 125 1.05e+01 b.55.1.1 70113 1p1lA 102 1.09e+01 d.58.5.2 87695 1dxeA 256 1.13e+01 1dxeA c.1.12.5 29310 1fukA 165 1.14e+01 1fukA c.37.1.19 32409 1qqgA 264 1.16e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1nb8A 353 1.20e+01 d.3.1.9 80385 1ej1A 190 1.24e+01 1ejhA d.86.1.1 40144 1heiA 451 1.42e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1vknA 351 1.42e+01 1b4bA 71 1.44e+01 1b4aA d.74.2.1 39718 1k3bA 119 1.46e+01 b.61.5.1 72016 1fg7A 356 1.52e+01 1gewA c.67.1.1 59819 1drw 273 1.53e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1pba 81 1.60e+01 1pytA d.58.3.1 39067 1oboA 169 1.71e+01 c.23.5.1 86776 1fiqC 763 1.74e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1fxoA 293 1.74e+01 1g0rA c.68.1.6 34524 1l8bA 190 1.88e+01 d.86.1.1 73683 1o3yA 166 1.94e+01 c.37.1.8 86618 1mkaA 171 1.96e+01 1mkaA d.38.1.2 38543 1ezm 301 2.01e+01 1hyt d.92.1.2 58980 1d4xA 375 2.02e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1mp9A 198 2.04e+01 a.74.1.2 -1127 a.74.1.2 -1128 1gsoA 431 2.08e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 2btfA 375 2.20e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1dp4A 435 2.25e+01 1dp4A c.93.1.1 35710 1faoA 126 2.25e+01 1faoA b.55.1.1 26974 1vioA 243 2.29e+01 unknown_sccs -10154 d.66.1.5 -10240 1howA 373 2.30e+01 1hcl d.144.1.7 41679 1uc2A 481 2.33e+01 unknown_sccs -11725 1pieA 419 2.35e+01 d.14.1.5 -9075 unknown_sccs -10120 1spxA 278 2.44e+01 c.2.1.2 -5870 1abrA 251 2.47e+01 1mrj d.165.1.1 42196 1khdA 345 2.48e+01 a.46.2.1 77400 c.27.1.1 77401 1j7gA 144 2.54e+01 c.110.1.1 84130 1gh9A 71 2.57e+01 1gh9A g.41.6.1 45266 1i52A 236 2.63e+01 1i52A c.68.1.13 61767 1ezwA 349 2.66e+01 1ezwA c.1.16.3 29558 2ran 316 2.67e+01 1avc a.65.1.1 18170 1oj4A 283 2.73e+01 d.14.1.5 -9088 d.58.26.5 -10133 1kao 167 2.75e+01 1ctqA c.37.1.8 32014 1mi1A 414 2.75e+01 a.169.1.1 79137 b.55.1.6 79138 1a8b 318 2.82e+01 1avc a.65.1.1 18171 1v9kA 228 2.88e+01 1kyqA 274 2.88e+01 c.2.1.11 73281 e.37.1.1 73282 1k20A 310 2.94e+01 c.107.1.1 68027 1hyhA 309 2.95e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1hdkA 141 2.97e+01 b.29.1.3 65807 1btn 106 2.98e+01 1btn b.55.1.1 26952 1lcl 142 3.23e+01 1lcl b.29.1.3 24216 1qoyA 318 3.30e+01 1qoyA h.4.4.1 45788 1l6rA 227 3.35e+01 c.108.1.10 77768 1ll2A 333 3.43e+01 c.68.1.14 74005 1a8d 452 3.51e+01 1a8d b.29.1.6 24262 b.42.4.2 25607 1dpgA 485 3.54e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1fp2A 352 3.59e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1jfuA 186 3.70e+01 c.47.1.10 62940 1riqA 465 3.70e+01 unknown_sccs -1295 d.104.1.1 -10769 1q1oA 98 3.72e+01 d.15.2.2 -9172 1vicA 262 3.95e+01 c.68.1.13 -8252