# 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 1vhcA 224 4.81e-02 c.1.10.1 -5488 1f5xA 208 2.34e-01 1f5xA a.87.1.1 18516 1bif 469 2.73e-01 1bif c.37.1.7 31961 c.60.1.4 34003 2bifA 469 8.34e-01 1bif c.37.1.7 31963 c.60.1.4 34009 1d2nA 272 8.44e-01 1d2nA c.37.1.20 32428 1d7kA 421 9.14e-01 7odcA b.49.2.3 26486 c.1.6.1 28648 3bifA 468 1.00e+00 1bif c.37.1.7 31962 c.60.1.4 34008 1knwA 425 1.03e+00 b.49.2.3 -4274 c.1.6.1 -5229 1a6dA 545 1.16e+00 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1m65A 245 1.18e+00 c.6.3.1 84847 1nsf 273 1.20e+00 1d2nA c.37.1.20 32429 7odcA 424 1.49e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1q77A 138 1.71e+00 c.26.2.4 -6639 1k9vF 201 2.00e+00 c.23.16.1 68365 1xvaA 292 2.58e+00 1xvaA c.66.1.5 34183 1svy 114 2.76e+00 1svy d.109.1.1 40831 1d2gA 292 2.87e+00 1xvaA c.66.1.5 34187 1hcxA 127 3.03e+00 b.109.1.1 65800 1jr3D 343 3.08e+00 a.80.1.1 63251 c.37.1.20 63252 1tk9A 188 3.27e+00 1j6oA 268 3.39e+00 c.1.9.12 77088 1gmmA 133 3.48e+00 b.18.1.10 65314 1jqlB 140 3.52e+00 c.37.1.20 63234 1gvmA 136 3.81e+00 b.109.1.1 70612 1caxB 184 4.01e+00 1caxB b.82.1.2 28105 2pia 321 4.39e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1tufA 434 4.44e+00 1qvcA 145 4.60e+00 3ullA b.40.4.3 25284 1e58A 249 4.70e+00 1qhfA c.60.1.1 59262 1jqjC 343 4.71e+00 a.80.1.1 67097 c.37.1.20 67098 1cauB 184 4.89e+00 1caxB b.82.1.2 28103 1uxxX 133 4.93e+00 b.18.1.10 -3107 1t0hB 224 5.24e+00 1pnsB 234 6.10e+00 i.1.1.1 88169 1pq4A 291 6.13e+00 c.92.2.2 -8633 1kppA 145 6.40e+00 d.20.1.2 72846 1fjgB 256 6.66e+00 1fjfB c.23.15.1 31400 1gqoY 143 6.73e+00 c.23.13.1 76318 1iqvA 218 6.78e+00 1rss a.75.1.1 62661 1j5eB 256 6.80e+00 c.23.15.1 71543 1eyeA 280 7.10e+00 1aj2 c.1.21.1 29672 1kagA 173 7.14e+00 c.37.1.2 72249 1gqoK 143 7.27e+00 c.23.13.1 76305 1bhjA 292 7.74e+00 1xvaA c.66.1.5 34189 1gqoX 143 7.91e+00 c.23.13.1 76317 1gqoP 143 8.15e+00 c.23.13.1 76310 1qfjA 232 8.30e+00 1qfjA b.43.4.2 25655 c.25.1.1 31545 1oi7A 288 8.62e+00 c.2.1.8 87049 c.23.4.1 87050 1tfpA 130 8.72e+00 1etb1 b.3.4.1 22623 1jq5A 370 8.93e+00 e.22.1.2 67084 1gqoF 143 9.11e+00 c.23.13.1 76300 2tpsA 227 9.58e+00 2tpsA c.1.3.1 28591 1gqoH 143 1.01e+01 c.23.13.1 76302 1s1qA 145 1.01e+01 d.20.1.2 -9405 1gqoT 143 1.04e+01 c.23.13.1 76314 1f2dA 341 1.05e+01 1f2dA c.79.1.1 35298 1gqoU 143 1.06e+01 c.23.13.1 76315 1df7A 159 1.12e+01 3dfr c.71.1.1 34885 1drtA 324 1.14e+01 1drtA b.82.2.2 28130 1gqoI 143 1.18e+01 c.23.13.1 76303 1nriA 306 1.19e+01 c.80.1.3 86123 1o5oA 221 1.19e+01 c.61.1.1 -7954 1gpwB 201 1.21e+01 c.23.16.1 65461 1gqoS 143 1.21e+01 c.23.13.1 76313 1ds1A 324 1.23e+01 1drtA b.82.2.2 28127 1h5pA 95 1.26e+01 1h5pA d.217.1.1 60642 1cawB 184 1.29e+01 1caxB b.82.1.2 28113 1gqoB 143 1.31e+01 c.23.13.1 76296 1fcbA 511 1.31e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1b8pA 329 1.38e+01 1bmdA c.2.1.5 30147 d.162.1.1 42114 1dryA 324 1.39e+01 1drtA b.82.2.2 28128 1gqoC 143 1.39e+01 c.23.13.1 76297 1ffkI 194 1.42e+01 1ffkI d.12.1.2 37494 1gqoR 143 1.42e+01 c.23.13.1 76312 1nx8A 273 1.42e+01 b.82.2.8 86374 4pgaA 337 1.42e+01 4pgaA c.88.1.1 35565 1gqoV 143 1.44e+01 c.23.13.1 76316 1bkzA 135 1.46e+01 1a3k b.29.1.3 24202 1gqoD 143 1.47e+01 c.23.13.1 76298 1on2A 142 1.51e+01 a.4.5.24 87103 a.76.1.1 87104 1d4xA 375 1.54e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1f9vA 347 1.54e+01 1bg2 c.37.1.9 59745 1is8K 84 1.55e+01 d.205.1.1 66331 1gqoN 143 1.55e+01 c.23.13.1 76308 1yasA 257 1.58e+01 1qj4A c.69.1.20 34801 1bypA 99 1.59e+01 1plc b.6.1.1 22858 1kutA 230 1.59e+01 d.143.1.1 73017 1mv8A 436 1.59e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1hkbA 917 1.62e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1jg5A 83 1.63e+01 d.205.1.1 66666 1p5fA 189 1.65e+01 c.23.16.2 -6508 1gqoE 143 1.66e+01 c.23.13.1 76299 1dmr 823 1.66e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1tia 279 1.67e+01 3tgl c.69.1.17 34737 1gqoG 143 1.69e+01 c.23.13.1 76301 1gqoM 143 1.72e+01 c.23.13.1 76307 1gqoO 143 1.77e+01 c.23.13.1 76309 1jr2A 286 1.78e+01 c.113.1.1 67111 1jp4A 308 1.78e+01 1jp4A e.7.1.1 63223 1l6uA 128 1.79e+01 d.15.4.1 73630 1ou0A 207 1.81e+01 c.23.17.1 -6498 1f6dA 376 1.81e+01 1f6dA c.87.1.3 35467 1gqoJ 143 1.83e+01 c.23.13.1 76304 1nktA 922 1.85e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1ohvA 472 1.88e+01 c.67.1.4 -8181 1j0hA 588 1.89e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 2pcy 99 1.90e+01 1plc b.6.1.1 22849 1o7xD 377 1.91e+01 a.103.1.1 81174 1plc 99 1.91e+01 1plc b.6.1.1 22846 1o7xC 377 1.92e+01 a.103.1.1 81173 1ltdA 506 1.94e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1qhaA 917 1.98e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1e3dA 266 1.99e+01 2frvA e.19.1.1 59188 2frvA 264 2.01e+01 2frvA e.19.1.1 43303 1ayfA 105 2.03e+01 1ayfA d.15.4.1 37684 1qckA 89 2.10e+01 1qckA a.60.5.1 17976 1rkd 309 2.11e+01 1rkd c.72.1.1 34928 1svr 114 2.18e+01 1svy d.109.1.1 40833 1bg6 359 2.25e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ltlA 279 2.26e+01 b.40.4.11 84701 1qj4A 257 2.33e+01 1qj4A c.69.1.20 34796 1rj9A 304 2.36e+01 a.24.13.1 -631 c.37.1.10 -7129 16pk 415 2.43e+01 16pk c.86.1.1 35454 1q7bA 244 2.48e+01 c.2.1.2 -5826 1ffkD 176 2.49e+01 1ffkD d.77.1.1 39750 1iwmA 186 2.49e+01 b.125.1.2 83758 1vgvA 384 2.49e+01 c.87.1.3 -8575 1epuA 591 2.50e+01 1dn1A e.25.1.1 43358 1pe0A 197 2.51e+01 c.23.16.2 88045 1j4nA 271 2.55e+01 f.19.1.1 71510 1l1zA 274 2.58e+01 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1f2tA 149 2.61e+01 1f2tA c.37.1.12 32373 1e4yA 214 2.65e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1p57A 114 2.65e+01 unknown_sccs -11657 2cbp 96 2.66e+01 2cbp b.6.1.1 22895 1itwA 741 2.67e+01 c.77.1.2 76793 1hkcA 917 2.70e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1grvB 182 2.75e+01 c.61.1.1 76322 1a99A 344 2.76e+01 1pot c.94.1.1 35812 1phnA 162 2.78e+01 1cpcA a.1.1.3 15641 1nrzA 164 2.79e+01 c.38.1.1 86131 1k0mA 241 2.80e+01 a.45.1.1 67949 c.47.1.5 67950 1dnlA 199 2.95e+01 1ci0A b.45.1.1 25753 1lt8A 406 3.02e+01 c.1.26.1 78186 3tgl 269 3.07e+01 3tgl c.69.1.17 34733 1dxrM 323 3.07e+01 6prcM f.26.1.1 43432 1qoxN 449 3.09e+01 1qoxN c.1.8.4 28978 1gqoQ 143 3.10e+01 c.23.13.1 76311 6prcM 323 3.12e+01 6prcM f.26.1.1 43435 1d1gA 168 3.12e+01 1d1gA c.71.1.1 34889 1od8A 313 3.13e+01 c.1.8.3 86838 1sbxA 106 3.15e+01 1qxoA 388 3.16e+01 unknown_sccs -11161 1h8gA 95 3.16e+01 b.109.1.1 65735 1ayfB 105 3.22e+01 1ayfA d.15.4.1 37685 1gqoL 143 3.23e+01 c.23.13.1 76306 1lldA 319 3.31e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1eu1A 780 3.32e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1o5iA 249 3.34e+01 c.2.1.2 -5833 1jjoC 261 3.36e+01 1o7xB 377 3.42e+01 a.103.1.1 81172 1ci4A 89 3.43e+01 1qckA a.60.5.1 17970 1cklA 126 3.45e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1mb4A 370 3.48e+01 c.2.1.3 78908 d.81.1.1 78909 1bu5A 147 3.51e+01 5nul c.23.5.1 31155 1o57A 291 3.57e+01 unknown_sccs -249 c.61.1.1 -7960 1p41A 291 3.57e+01 1aozA 552 3.60e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1iqqA 200 3.63e+01 d.124.1.1 66274 1kk9A 221 3.65e+01 d.115.1.1 77432 1se8A 301 3.65e+01 1sluA 142 3.67e+01 1sluA b.16.1.1 23685 1ir6A 424 3.71e+01 c.107.1.2 71342 1g60A 260 3.77e+01 c.66.1.11 70151 1go3F 107 3.80e+01 a.60.8.2 65407 1fa0B 537 3.81e+01 1fa0B a.160.1.1 75839 d.218.1.3 75840 d.58.16.1 39336 1kcqA 104 3.84e+01 d.109.1.1 68449 1ag6 99 3.90e+01 1plc b.6.1.1 22857 1p99A 295 3.99e+01 c.94.1.1 -8697