# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1dbuA 158 7.23e-24 1dbuA d.116.1.1 40930 1dbxA 158 1.00e-23 1dbuA d.116.1.1 40928 1vkiA 181 7.35e-16 1vjfA 180 4.77e-15 d.116.1.1 -10941 3grx 82 1.37e-01 1aba c.47.1.1 32769 1j0fA 100 3.69e-01 unknown_sccs -7483 1t1vA 93 4.92e-01 3eipA 84 6.87e-01 3eipA d.26.2.1 38434 1e44A 85 8.35e-01 3eipA d.26.2.1 59219 1rxyA 253 1.12e+00 c.56.2.1 -7834 1l7mA 211 1.37e+00 c.108.1.4 73664 1frvB 536 1.39e+00 1h2rL e.18.1.1 43296 1j97A 211 1.46e+00 1f5sA c.108.1.4 62753 1f5sA 211 1.83e+00 1f5sA c.108.1.4 59656 1k3fA 253 1.96e+00 c.56.2.1 68105 1aba 87 2.23e+00 1aba c.47.1.1 32760 1apmE 350 3.02e+00 1cdkA d.144.1.7 41628 1o6uA 403 3.25e+00 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1du6A 64 3.77e+00 1akhA a.4.1.1 16002 1pamA 686 4.12e+00 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1n97A 389 4.54e+00 a.104.1.1 80335 1eikA 77 4.63e+00 1eikA d.78.1.1 39751 2frvB 536 4.83e+00 1h2rL e.18.1.1 43291 1cmkE 350 5.13e+00 1cdkA d.144.1.7 41623 1cdkA 350 5.24e+00 1cdkA d.144.1.7 41620 1jpzA 473 6.23e+00 a.104.1.1 67069 1d2mA 665 6.31e+00 1d2mA c.37.1.19 32417 c.37.1.19 32418 1qf6A 642 6.64e+00 1qf6A c.51.1.1 33210 d.15.10.1 39551 d.67.1.1 39562 d.104.1.1 40759 1lx7A 253 6.93e+00 c.56.2.1 74329 1rdqE 350 7.94e+00 d.144.1.7 -11336 1pytA 94 8.07e+00 1pytA d.58.3.1 39064 1vjqA 79 8.41e+00 unknown_sccs -13478 1nmeA 146 9.19e+00 c.17.1.1 85874 1ng4A 390 9.52e+00 c.3.1.2 85666 d.16.1.3 85667 1pufB 73 1.01e+01 a.4.1.1 -192 1evlA 401 1.21e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1r8iA 213 1.21e+01 unknown_sccs -411 1fw9A 164 1.30e+01 1fw9A d.190.1.1 60059 1h75A 81 1.38e+01 1h75A c.47.1.1 60716 1bu7A 455 1.39e+01 1bu7A a.104.1.1 18937 1q8uA 350 1.41e+01 d.144.1.7 -11331 1d3cA 686 1.43e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1ot1A 686 1.46e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1epxA 370 1.48e+01 1fbaA c.1.10.1 29150 1b25A 619 1.51e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1cxlA 686 1.51e+01 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1whi 122 1.55e+01 1whi b.39.1.1 24810 1vddA 228 1.76e+01 1itwA 741 1.78e+01 c.77.1.2 76793 1k82A 268 1.89e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1pauA 147 1.90e+01 1pauA c.17.1.1 30994 2bmhA 455 1.95e+01 1bu7A a.104.1.1 18941 1q1gA 276 1.99e+01 c.56.2.1 -7846 1c4oA 664 1.99e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1nrkA 328 2.01e+01 unknown_sccs -4071 unknown_sccs -10176 1o4vA 183 2.11e+01 c.23.8.1 86628 1pueE 89 2.12e+01 1awcA a.4.5.21 16165 1vgyA 393 2.12e+01 c.56.5.4 -7882 d.58.19.1 -10106 1m5tA 124 2.14e+01 c.23.1.1 78660 3tgl 269 2.18e+01 3tgl c.69.1.17 34733 1n5dA 288 2.27e+01 c.2.1.2 80030 1hu4A 288 2.32e+01 1hu4A 1vhwA 253 2.33e+01 c.56.2.1 -7765 1fyvA 161 2.34e+01 1fyvA c.23.2.1 31127 1at1A 310 2.36e+01 3csuA c.78.1.1 35168 c.78.1.1 35169 1n28A 124 2.41e+01 a.133.1.2 -1995 1rktA 205 2.44e+01 a.4.1.9 -210 a.121.1.1 -1663 1jy1A 464 2.52e+01 d.136.1.3 67438 d.136.1.3 67439 1qbjA 81 2.57e+01 1qbjA a.4.5.19 16155 1pieA 419 2.60e+01 d.14.1.5 -9075 unknown_sccs -10120 1dc1A 323 2.64e+01 1dc1A c.52.1.11 33321 1ekxA 311 2.69e+01 3csuA c.78.1.1 35088 c.78.1.1 35089 1kvoA 124 2.72e+01 1poa a.133.1.2 19564 1b72B 87 2.76e+01 1akhA a.4.1.1 16001 1cl8A 276 2.83e+01 1ckqA c.52.1.1 33230 1fjlA 81 2.84e+01 2hddA a.4.1.1 16017 1eriA 276 3.00e+01 1ckqA c.52.1.1 33231 1ryjA 70 3.01e+01 d.15.3.2 -9179 1fuxA 166 3.08e+01 1fjjA b.17.1.2 60034 1jqaA 370 3.14e+01 e.22.1.2 67085 1jc4A 148 3.22e+01 1jc4A d.32.1.4 62863 1q44A 326 3.36e+01 c.37.1.5 -7037 1jwhA 337 3.40e+01 d.144.1.7 71913 1qgpA 77 3.45e+01 1qbjA a.4.5.19 16158 1i50F 155 3.50e+01 d.78.1.2 61760 1mqoA 227 3.65e+01 1ex2A 189 3.65e+01 1ex2A c.51.4.2 33225 1o1zA 234 3.72e+01 c.1.18.3 86555 1eqnA 321 3.77e+01 1dd9A e.13.1.1 43256 1ub0A 258 3.88e+01 c.72.1.2 88394 1vj1A 363 3.91e+01 b.35.1.2 -3728 c.2.1.1 -5752