# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1ihrA 76 1.44e-09 1ihrA d.212.1.2 62392 1lr0A 129 9.09e-05 d.212.1.1 74213 1m1hA 248 2.11e+00 b.114.1.1 78415 d.58.42.1 78416 1cy9A 264 4.63e+00 1ecl e.10.1.1 43236 1o0uA 429 5.82e+00 c.118.1.1 80743 1gt1A 159 7.01e+00 b.60.1.1 -4436 1hn2A 159 7.54e+00 b.60.1.1 65890 1obpA 159 8.66e+00 1obpA b.60.1.1 27092 1iwmA 186 8.67e+00 b.125.1.2 83758 1o0xA 262 8.70e+00 d.127.1.1 80755 1gwmA 153 9.83e+00 b.18.1.19 83348 1fzoA 274 1.05e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1aisA 182 1.06e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1mwwA 128 1.07e+01 unknown_sccs -10451 1fzkA 274 1.08e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1ospO 257 1.09e+01 1ospO b.76.1.1 27971 1hkbA 917 1.12e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1qgdA 662 1.15e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1ltsD 103 1.16e+01 3chbD b.40.2.1 24900 1g7pA 274 1.23e+01 b.1.1.2 70153 d.19.1.1 70154 3chbD 104 1.25e+01 3chbD b.40.2.1 24970 1lk2A 274 1.25e+01 b.1.1.2 -2610 d.19.1.1 -9365 1js3A 486 1.34e+01 c.67.1.6 67215 1p9vA 310 1.38e+01 1sdjA 310 1.38e+01 d.21.1.2 -9420 d.21.1.2 -9421 1efiD 103 1.41e+01 3chbD b.40.2.1 24870 1ofcX 304 1.57e+01 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1mjoA 104 1.62e+01 1cmbA unknown_sccs 17466 1xgsA 295 1.66e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1djrD 103 1.78e+01 3chbD b.40.2.1 24865 1qhaA 917 1.80e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1bh9B 89 1.80e+01 1bh9B a.22.1.3 16485 1kpuA 274 1.86e+01 b.1.1.2 84456 d.19.1.1 84457 1q48A 134 1.86e+01 unknown_sccs -9776 1bpr 191 1.98e+01 1dkzA unknown_sccs 43319 1hkcA 917 2.00e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1czaN 917 2.09e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1dkxA 219 2.11e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1dkzA 219 2.15e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1anf 370 2.18e+01 4mbp c.94.1.1 35776 1ffkF 157 2.31e+01 1ffkF d.41.4.1 38628 1mwqA 101 2.39e+01 unknown_sccs -9962 1hi9A 274 2.42e+01 1hi9A c.99.1.1 61063 1mh3A 421 2.45e+01 a.4.1.1 79112 c.94.1.1 79113 1icxA 155 2.45e+01 d.129.3.1 71191 1dgkN 917 2.48e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1ub0A 258 2.62e+01 c.72.1.2 88394 1o9wA 177 2.65e+01 b.2.3.5 86713 1qwzA 235 2.66e+01 b.100.1.1 -4543 1iufA 144 2.82e+01 a.4.1.7 71439 a.4.1.7 71440 1qyaA 307 2.90e+01 1ffkI 194 2.92e+01 1ffkI d.12.1.2 37494 1e2wA 251 2.93e+01 1hcz b.2.6.1 22466 b.84.2.2 28252 1mp9A 198 2.94e+01 a.74.1.2 -1127 a.74.1.2 -1128 1copD 66 2.99e+01 1orc a.35.1.2 17058 1dvpA 220 3.09e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1fchA 368 3.15e+01 1fchA a.118.8.1 19212 1a6dA 545 3.42e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1n6zA 105 3.47e+01 unknown_sccs 85369 1lngA 87 3.67e+01 d.201.1.1 74045 1uz5A 402 3.78e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1mwmA 320 3.93e+01 c.55.1.1 79580 c.55.1.1 79581 5croA 66 3.94e+01 1orc a.35.1.2 17044 1j75A 67 3.99e+01 a.4.5.19 62673