# 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 1jgsA 138 8.77e-04 a.4.5.28 66683 1lj9A 144 1.08e-02 a.4.5.28 78035 1j5yA 187 3.12e-02 a.4.5.1 71592 d.94.2.1 71593 1bjaA 95 4.82e-02 1bjaA a.4.5.9 16122 1i1sA 96 7.19e-02 1bjaA a.4.5.9 16124 1okrA 123 1.47e-01 unknown_sccs -235 1lnwA 147 3.44e-01 a.4.5.28 78104 1lea 84 3.89e-01 1lea a.4.5.2 16085 1s3jA 155 5.25e-01 a.4.5.28 -227 1aisB 200 5.61e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1lvaA 258 5.95e-01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1scfA 273 6.96e-01 1exzA a.26.1.2 16873 1on2A 142 8.80e-01 a.4.5.24 87103 a.76.1.1 87104 1jhfA 202 9.46e-01 a.4.5.2 63057 b.87.1.1 63058 1d3uB 201 1.04e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1fmjA 351 1.14e+00 c.37.1.5 59879 1bib 321 1.42e+00 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1ntyA 311 1.53e+00 1vicA 262 1.84e+00 c.68.1.13 -8252 1gheA 177 1.90e+00 d.108.1.1 76222 1f4kA 122 2.03e+00 1bm9A a.4.5.7 59646 1bia 321 2.29e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1ub9A 100 2.36e+00 a.4.5.28 -231 1p2fA 220 2.42e+00 a.4.6.1 87720 c.23.1.1 87721 1q1hA 110 3.26e+00 unknown_sccs -262 1o0iA 138 3.65e+00 d.38.1.5 86532 1volA 204 4.26e+00 1tfb a.74.1.2 18370 a.74.1.2 18371 1p4xA 250 4.75e+00 a.4.5.28 87784 a.4.5.28 87785 1abv 134 4.93e+00 1abv a.70.1.1 18317 1khyA 148 4.96e+00 a.174.1.1 77410 1tbxA 99 6.00e+00 1j75A 67 6.92e+00 a.4.5.19 62673 1rcuA 195 7.22e+00 unknown_sccs -7279 1hjp 203 7.39e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1sxl 97 7.71e+00 1b7fA d.58.7.1 39180 1hlb 158 9.52e+00 1hlb a.1.1.2 15625 1jbgA 109 1.05e+01 a.6.1.3 66480 1fp2A 352 1.07e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1an7A 136 1.13e+01 1seiA d.140.1.1 41465 1regX 122 1.14e+01 1regX d.58.27.1 39406 1mkmA 249 1.15e+01 a.4.5.33 79242 d.110.2.2 79243 1bm9A 122 1.18e+01 1bm9A a.4.5.7 16116 1dpuA 99 1.24e+01 1dpuA a.4.5.16 16150 1dcjA 81 1.26e+01 1dcjA d.68.3.3 59115 1o70A 324 1.29e+01 b.118.1.1 81115 b.118.1.1 81116 1fliA 98 1.31e+01 1awcA a.4.5.21 16160 1cuk 203 1.32e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1r72A 211 1.38e+01 unknown_sccs -215 unknown_sccs -5981 1fpxA 352 1.40e+01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1mmsA 140 1.46e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1b24A 188 1.48e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1iq4A 179 1.50e+01 1iq4A d.77.1.1 62641 1gt6A 269 1.51e+01 c.69.1.17 76342 1hg4A 279 1.62e+01 1lbd a.123.1.1 19333 1nmeA 146 1.86e+01 c.17.1.1 85874 1tib 269 1.91e+01 3tgl c.69.1.17 34738 1gkxA 388 1.99e+01 a.29.5.1 65266 d.122.1.4 65267 487dL 133 2.03e+01 1mmsA i.1.1.2 45839 1s71A 316 2.06e+01 1sgvA 316 2.06e+01 b.122.1.1 -5120 unknown_sccs -10148 1r1uA 106 2.12e+01 1f2tA 149 2.17e+01 1f2tA c.37.1.12 32373 1blr 137 2.18e+01 1hmt b.60.1.2 27208 1gkzA 388 2.19e+01 a.29.5.1 65268 d.122.1.4 65269 2cgpA 210 2.19e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1v8cA 168 2.20e+01 d.15.3.1 -9175 unknown_sccs -11012 1i27A 73 2.21e+01 1i27A a.4.5.30 61555 1uldA 150 2.29e+01 b.29.1.3 -3423 1odd 118 2.31e+01 1opc a.4.6.1 16232 1exzA 141 2.43e+01 1exzA a.26.1.2 16877 1pauA 147 2.45e+01 1pauA c.17.1.1 30994 1hdmA 201 2.60e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1irf 112 2.66e+01 2irfG a.4.5.23 16192 1f80D 81 2.68e+01 1acp a.28.1.1 59686 1hw5A 210 2.69e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1ut0A 190 2.72e+01 1jvr 137 2.75e+01 1jvr a.61.1.2 18132 1b74A 254 2.77e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1eysH 259 2.80e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1r6rA 100 2.83e+01 unknown_sccs -1071 1v9dA 340 2.85e+01 unknown_sccs -1762 1b9mA 265 2.86e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1p9yA 121 2.91e+01 unknown_sccs -8996 1bc8C 93 2.94e+01 1awcA a.4.5.21 16168 2nllB 103 2.97e+01 2nllB g.39.1.2 45115 1tfb 208 2.98e+01 1tfb a.74.1.2 18382 a.74.1.2 18383 1aocA 175 3.01e+01 1aocA g.17.1.5 44817 1kv9A 668 3.02e+01 a.3.1.6 73056 b.70.1.1 73057 1kebA 108 3.03e+01 c.47.1.1 77341 1bpyA 335 3.03e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1paz 123 3.04e+01 1bqk b.6.1.1 22878 1opc 110 3.07e+01 1opc a.4.6.1 16231 1hw1A 239 3.12e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1i5rA 327 3.15e+01 c.2.1.2 83668 1bjz 207 3.16e+01 2tct a.4.1.9 16065 a.121.1.1 19242 1b79A 119 3.18e+01 1b79A a.81.1.1 18451 1s7mA 174 3.19e+01 unknown_sccs -5003 1xdtR 79 3.20e+01 1xdtR g.3.11.1 44296 1je8A 82 3.40e+01 a.4.6.2 77108 1h4xA 117 3.42e+01 1auz c.13.2.1 60626 1d7qA 143 3.43e+01 1d7qA b.40.4.5 25331 2chsA 127 3.46e+01 2chsA d.79.1.2 39764 1f5qB 252 3.54e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1q06A 135 3.56e+01 a.6.1.3 -375 1s72P 149 3.59e+01 1gd8A 118 3.62e+01 d.188.1.1 60445 1jweA 114 3.66e+01 1b79A a.81.1.1 18455 1lk2B 99 3.74e+01 b.1.1.2 -2576 1o7dE 126 3.78e+01 2irfG 113 3.85e+01 2irfG a.4.5.23 16185 1fzkB 99 3.91e+01 1agdB b.1.1.2 60151 1qgpA 77 3.98e+01 1qbjA a.4.5.19 16158