# List of top-scoring protein chains for t2k-100-30-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 1v7lA 163 2.61e-01 1zvyA 136 1.84e+00 1aquA 297 2.08e+00 1aquA c.37.1.5 31942 1rerA 391 2.53e+00 b.1.18.4,f.10.1.1 97327,97328 1uv4A 293 3.46e+00 1i21A 159 3.77e+00 1i21A d.108.1.1 61549 1ng4A 390 4.09e+00 c.3.1.2,d.16.1.3 85666,85667 2f2sA 406 4.20e+00 1ryiA 382 4.56e+00 1pguA 615 4.85e+00 b.69.4.1,b.69.4.1 88069,88070 1xmbA 418 5.26e+00 1i12A 160 5.84e+00 1i21A d.108.1.1 61515 1plfA 72 6.41e+00 1tvxA d.9.1.1 37373 1tvxA 75 6.44e+00 1tvxA d.9.1.1 37441 1mh1 186 7.22e+00 1eesA c.37.1.8 32002 1tvxB 75 7.58e+00 1tvxA d.9.1.1 37442 1wyuB 474 7.58e+00 1i1dA 161 7.69e+00 1i21A d.108.1.1 61526 1a5z 319 8.13e+00 1ceqA c.2.1.5,d.162.1.1 30181,42148 1iweA 457 8.44e+00 c.37.1.10 71486 1k8kG 151 8.66e+00 a.118.13.1 68313 1napA 70 9.05e+00 1tvxA d.9.1.1 37445 1iqzA 81 9.78e+00 d.58.1.4 66281 1ckv 141 1.00e+01 1ckv d.137.1.1 41452 1ivyA 452 1.07e+01 1ivyA c.69.1.5 34654 1yfqA 342 1.30e+01 1kqfB 294 1.31e+01 d.58.1.5,f.23.22.1 75900,75901 1b8qA 127 1.45e+01 1qauA b.36.1.1 24781 1il8A 72 1.49e+01 1tvxA d.9.1.1 37365 1t3lA 337 1.51e+01 b.34.2.1,c.37.1.1 106358,106359 3il8 72 1.61e+01 1tvxA d.9.1.1 37356 1mwpA 96 1.62e+01 1mwpA d.170.2.1 42453 1dxy 333 1.66e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1fltY 95 1.67e+01 1fltX b.1.1.4 21766 1u4cA 349 1.70e+01 b.69.4.2 107666 1jilA 420 1.73e+01 c.26.1.1 66745 1pydA 556 1.74e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 3ullA 132 1.82e+01 3ullA b.40.4.3 25282 1qsvA 101 1.90e+01 1fltX b.1.1.4 21771 2gp4A 628 1.98e+01 1eu3A 210 2.00e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1zx8A 136 2.00e+01 1ywnA 316 2.06e+01 1a9xB 379 2.11e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1hilB 220 2.13e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 2c2hA 192 2.16e+01 1ouvA 273 2.17e+01 a.118.18.1 93570 3hsf 92 2.22e+01 2hts a.4.5.22 16182 1ox3A 109 2.23e+01 h.1.17.1 93668 1v0wA 506 2.24e+01 d.136.1.2,d.136.1.2 108220,108221 1zeqX 84 2.26e+01 2hts 88 2.29e+01 2hts a.4.5.22 16174 1oya 400 2.45e+01 1oyc c.1.4.1 28604 1f0iA 504 2.52e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1xovA 326 2.59e+01 1k3sA 113 2.64e+01 d.198.1.1 68120 1pk6A 133 2.67e+01 b.22.1.1 94801 1cs0B 382 2.68e+01 1c3oB c.8.3.1,c.23.16.1 30740,31417 1oyc 400 2.76e+01 1oyc c.1.4.1 28603 4ts1A 319 2.89e+01 2ts1 c.26.1.1 31565 1c3oB 382 2.89e+01 1c3oB c.8.3.1,c.23.16.1 30744,31421 1rkqA 282 2.90e+01 c.108.1.10 97621 1mjc 69 2.90e+01 1mjc b.40.4.5 25319 1c30B 382 2.91e+01 c.8.3.1,c.23.16.1 30736,31413 1tuc 63 2.94e+01 1tuc b.34.2.1 24492 1txyA 104 2.95e+01 1fltX 95 2.99e+01 1fltX b.1.1.4 21765 1nffA 260 3.16e+01 c.2.1.2 80457 1wocA 103 3.23e+01 1h95A 79 3.30e+01 b.40.4.5 65742 3htsB 102 3.32e+01 2hts a.4.5.22 16175 1ireB 228 3.37e+01 b.34.4.4 76770 1icwA 72 3.37e+01 1tvxA d.9.1.1 37357 2auwA 170 3.47e+01 2aebA 322 3.62e+01 2ts1 419 3.68e+01 2ts1 c.26.1.1 31564 2bdwA 362 3.80e+01 1k0hA 117 3.97e+01 b.106.1.2 71975 1ah9 71 4.00e+01 1ah9 b.40.4.5 25330 1lldA 319 4.05e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1qpcA 279 4.22e+01 1fgkA d.144.1.7 41685 1a54A 321 4.24e+01 1ixh c.94.1.1 35763 1s28A 132 4.27e+01 d.198.1.1 105223 1jpaA 312 4.31e+01 d.144.1.7 67011 2alaA 391 4.51e+01 1vqoL 165 4.52e+01 1ugpB 226 4.60e+01 b.34.4.4 107832 1hruA 188 4.63e+01 1hruA d.115.1.1 40926 1e8pA 46 4.69e+01 g.55.1.1 59385 1te7A 103 4.74e+01 1vpjA 192 4.76e+01 1odfA 290 4.76e+01 c.37.1.6 92782 1fvrA 327 4.76e+01 d.144.1.7 60047 1bv4A 118 4.84e+01 1rtm1 d.169.1.1 42380 1qtyT 101 4.93e+01 1fltX b.1.1.4 21769 1a6wH 120 4.93e+01 1mfa b.1.1.1 20253 2ffeA 311 4.98e+01 1rlaA 323 5.00e+01 1d3vA c.42.1.1 32561 2bf5A 98 5.11e+01 1ffkJ 164 5.17e+01 1ffkJ c.12.1.1 30880 1lr0A 129 5.32e+01 d.212.1.1 74213 1c05A 159 5.47e+01 1c05A d.66.1.2 39559 1i18A 97 5.56e+01 b.43.4.3 61520 2gsfA 373 5.57e+01 1adeA 431 5.58e+01 1adeA c.37.1.10 32213 1jscA 630 5.67e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1qpbA 563 5.77e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1l6rA 227 5.77e+01 c.108.1.10 77768 1p7hL 286 5.90e+01 b.1.18.1,b.2.5.3 94271,94272 1zxtA 76 5.94e+01 1pch 88 6.00e+01 1ptf d.94.1.1 40564 1v1qA 134 6.02e+01 1i8lC 126 6.09e+01 1ah1 b.1.1.1 61974 1a40 321 6.15e+01 1ixh c.94.1.1 35767 1amx 180 6.16e+01 1amx b.2.3.1 22410 1s72L 165 6.18e+01 c.12.1.1 105331 1jj2K 164 6.18e+01 1ffkJ c.12.1.1 63096 1hn4A 131 6.21e+01 a.133.1.2 65893 1d3vA 323 6.22e+01 1d3vA c.42.1.1 32559 1a02N 301 6.27e+01 1a02N b.1.18.1,b.2.5.3 21923,22440 1whzA 70 6.29e+01 1bqz 77 6.31e+01 1bqz a.2.3.1 15699 1g3mA 294 6.37e+01 c.37.1.5 83268 3lck 271 6.39e+01 1fmk d.144.1.7 41686 1qauA 112 6.46e+01 1qauA b.36.1.1 24779 1cc1S 283 6.48e+01 2frvA e.19.1.1 43313 1pwt 61 6.54e+01 1tud b.34.2.1 24490 1z1zA 131 6.61e+01 1ixh 321 6.62e+01 1ixh c.94.1.1 35761 1qysA 106 6.63e+01 k.41.1.1 96603 1obfO 335 6.71e+01 c.2.1.3,d.81.1.1 86768,86769 1rdo1 113 6.74e+01 1rtm1 1f39A 101 6.75e+01 1umuA b.87.1.1 28386 1m98A 317 6.78e+01 a.175.1.1,d.17.4.6 78866,78867 1c5cH 215 6.88e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1e5gA 120 6.90e+01 1e5gA g.18.1.1,g.18.1.1 44843,44844 1vypX 364 6.90e+01 c.1.4.1 108905 2cyeA 133 6.97e+01 1oyb 400 7.08e+01 1oyc c.1.4.1 28602 1mgsA 73 7.08e+01 1tvxA d.9.1.1 37389 1r94A 118 7.13e+01 b.124.1.1 97251 1ik6A 369 7.21e+01 c.36.1.7,c.48.1.2 66174,66175 1gkpA 458 7.29e+01 b.92.1.3,c.1.9.6 70231,70232 1w19A 160 7.41e+01 1mp8A 281 7.45e+01 d.144.1.7 91384 1sc6A 404 7.47e+01 1qavB 115 7.58e+01 1qauA b.36.1.1 24780 1rdj1 113 7.63e+01 1rtm1 2cvbA 188 7.68e+01 1sqc 631 7.88e+01 2sqcA a.102.4.2,a.102.4.2 18858,18859 1fca 55 7.92e+01 2fdn d.58.1.1 38945 1b34B 118 7.95e+01 1b34B b.38.1.1 24797 2g6qA 62 8.03e+01 1q1aA 289 8.19e+01 c.31.1.5 95561 1umzA 278 8.27e+01 b.29.1.2 99639 1k28A 584 8.38e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 3mefA 69 8.41e+01 1mjc b.40.4.5 25320 1nqbA 256 8.48e+01 1mfa b.1.1.1,b.1.1.1 20042,20043 1ryp2 233 8.56e+01 1ryp2 1fokA 568 8.62e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 1a8p 258 8.64e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1ehiA 377 8.70e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1tns 76 8.91e+01 1qpmA a.6.1.7 16228 1wzcA 249 8.94e+01 1op3H 225 8.95e+01 b.1.1.1,b.1.1.2 87208,87209