# 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 1zpwX 90 1.26e-12 1uw1A 80 2.42e-01 k.42.1.1 100069 1oz9A 150 1.11e+00 d.92.1.15 93808 1vl4A 447 2.60e+00 d.283.1.1 108718 1z08A 170 4.73e+00 1m7bA 184 4.80e+00 c.37.1.8 74572 1dmgA 225 5.23e+00 1dmgA c.22.1.1 31036 1cx4A 305 5.41e+00 b.82.3.2,b.82.3.2 59099,59100 1ta9A 450 6.67e+00 1nhkL 144 6.75e+00 1npk d.58.6.1 39142 1gtxA 472 6.93e+00 1gtxA 3rabA 169 8.87e+00 1ctqA c.37.1.8 32018 1kafA 108 9.04e+00 d.199.1.1 68372 1ohvA 472 9.95e+00 c.67.1.4 93031 1td5A 202 1.01e+01 d.110.2.2 106767 1huqA 164 1.03e+01 1byuA c.37.1.8 32020 1h4vB 421 1.09e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1abmA 198 1.14e+01 1avmA 1r2qA 170 1.15e+01 c.37.1.8 96874 1cczA 171 1.17e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 2mspA 126 1.24e+01 1mspA b.1.11.2 22335 1n6hA 170 1.42e+01 c.37.1.8 80197 1mngA 203 1.47e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1tkaA 678 1.63e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31815,31816,33096 1adjA 421 1.68e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1vkmA 297 1.70e+01 c.138.1.1 108670 2ae2A 260 1.76e+01 1bdb c.2.1.2 29945 1trkA 680 1.77e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1n0nA 199 1.84e+01 a.2.11.1,d.44.1.1 79750,79751 3mspA 126 1.86e+01 1mspA b.1.11.2 22343 1v8fA 276 1.91e+01 c.26.1.4 100503 1m5wA 243 1.94e+01 c.1.24.1 84836 1go3F 107 1.96e+01 a.60.8.2 65407 1pczA 191 1.98e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1ny1A 240 1.98e+01 c.6.2.3 86395 1ap6A 198 1.98e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1k8rB 110 2.05e+01 d.15.1.5 72180 1z0jA 170 2.06e+01 1vgjA 184 2.09e+01 1fmcA 255 2.13e+01 1cydA c.2.1.2 29856 1vdxA 184 2.25e+01 1aisA 182 2.27e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1grwA 126 2.28e+01 b.1.11.2 70391 1seiA 130 2.33e+01 1seiA d.140.1.1 41463 1pl4A 198 2.38e+01 a.2.11.1,d.44.1.1 94854,94855 1o4sA 389 2.48e+01 c.67.1.1 86620 1vmbA 140 2.48e+01 1v30A 124 2.50e+01 1z9lA 128 2.62e+01 1apa 266 2.66e+01 1qi7A d.165.1.1 42205 1tvdA 116 2.70e+01 1tvdA b.1.1.1 20650 1ho1A 242 2.75e+01 1ho1A c.1.24.1 61097 1mhlC 466 2.76e+01 1mhlC 1gpuA 680 2.77e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1rjdA 334 2.82e+01 c.66.1.37 97558 1ju5A 109 2.93e+01 d.93.1.1 77173 1ytqA 204 2.99e+01 1d3uA 181 3.07e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1mspA 126 3.09e+01 1mspA b.1.11.2 22333 1kq3A 376 3.09e+01 e.22.1.2 68790 1zclA 180 3.10e+01 2bb2 181 3.11e+01 2bb2 b.11.1.1,b.11.1.1 23604,23605 1cxpC 466 3.24e+01 1mhlC 1g5pA 289 3.27e+01 1cp2A c.37.1.10 32253 1x24A 180 3.44e+01 1zzkA 82 3.45e+01 2eiaB 206 3.48e+01 1eia a.28.3.1,a.73.1.1 16950,18330 2a5jA 191 3.50e+01 2gf9A 189 3.50e+01 1han 297 3.51e+01 1han d.32.1.3,d.32.1.3 38506,38507 1d2vC 466 3.75e+01 1mhlC 1xe0A 114 3.78e+01 1up7A 417 3.95e+01 1dvoA 152 3.98e+01 1dvoA a.136.1.1 19623 1va0A 239 4.14e+01 2b9eA 303 4.22e+01 1jmsA 381 4.32e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1i7kA 179 4.52e+01 1u9aA d.20.1.1 61889 1n12A 138 4.69e+01 b.2.3.2 79779 1j3kA 280 4.70e+01 c.71.1.1 84070 2bs6A 90 4.75e+01 1sqgA 429 4.82e+01 a.79.1.3,c.66.1.38 105912,105913 2fafA 608 4.99e+01 1d5cA 162 5.07e+01 1ctqA c.37.1.8 32021 1k2eA 156 5.13e+01 d.113.1.1 72010 1qgpA 77 5.16e+01 1qbjA a.4.5.19 16158 1n2eA 300 5.22e+01 c.26.1.4 85268 2bt9A 90 5.25e+01 1vljA 407 5.25e+01 e.22.1.2 108832 1i35A 95 5.26e+01 d.15.1.5 66017 1up6A 416 5.33e+01 c.2.1.5,d.162.1.2 107976,107977 1lkdA 297 5.36e+01 d.32.1.3,d.32.1.3 78059,78060 1lgtA 297 5.37e+01 d.32.1.3,d.32.1.3 77956,77957 1j5kA 89 5.40e+01 d.51.1.1 71565 1hg4A 279 5.41e+01 1lbd a.123.1.1 19333 1t5hX 504 5.41e+01 e.23.1.1 106449 1fp6A 289 5.57e+01 1cp2A c.37.1.10 32243 1urvA 190 5.65e+01 1ut0A 190 5.65e+01 a.1.1.2 108012 2fq3A 104 5.83e+01 1b0wA 108 5.88e+01 8fabA b.1.1.1 20532 1ay0A 680 5.89e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31823,31824,33100 1k26A 156 5.92e+01 d.113.1.1 72003 1xd8A 289 6.04e+01 2bmeA 186 6.11e+01 2d8rA 99 6.19e+01 1b1bA 140 6.31e+01 1bi0 a.4.5.24,a.76.1.1 16215,18421 2a84A 300 6.51e+01 1v2zA 111 6.53e+01 a.186.1.1 108300 1zckA 154 6.62e+01 1jqaA 370 6.77e+01 e.22.1.2 67085 1eia 207 6.87e+01 1eia a.28.3.1,a.73.1.1 16951,18331 1omoA 322 6.88e+01 c.2.1.13 104017 1sixA 174 7.01e+01 b.85.4.1 98892 1s9rA 410 7.07e+01 d.126.1.4 98758 1jrkA 156 7.13e+01 d.113.1.1 71827 1yppA 286 7.39e+01 1wgjA b.40.5.1 25407 1an7A 136 7.42e+01 1seiA d.140.1.1 41465 2bo4A 397 7.42e+01 2aexA 346 7.54e+01 1wb4A 297 7.79e+01 1wj7A 104 7.81e+01 2tmkA 216 7.92e+01 3tmkA c.37.1.1 31928 1nwbA 124 7.97e+01 b.124.1.1 86296 2avuE 192 8.12e+01 1d1gA 168 8.14e+01 1d1gA c.71.1.1 34889 1k5oA 86 8.23e+01 a.165.1.1 77269 1xo5A 183 8.32e+01 2cq2A 114 8.37e+01 1bksA 268 8.45e+01 2tysA c.1.2.4 28585 1ukxA 137 8.46e+01 d.20.1.3 107919 1gkkA 297 8.48e+01 c.69.1.2 65248 1nipA 289 8.50e+01 1cp2A c.37.1.10 32263 1dqnA 230 8.52e+01 1dqnA c.61.1.1 34067 1ihoA 283 8.60e+01 1ihoA c.26.1.4 62390 2furA 209 8.66e+01 1y5iB 512 8.71e+01 1wgjA 286 8.73e+01 1wgjA b.40.5.1 25397 2c1xA 456 8.79e+01 1y1xA 191 8.79e+01 8prkA 287 8.91e+01 1wgjA b.40.5.1 25395