# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 2fe5A 94 1.15e-13 2fcfA 103 1.46e-13 1qavA 90 3.20e-13 1qauA b.36.1.1 24777 1tp5A 119 3.55e-13 1g9oA 91 4.48e-13 1pdr b.36.1.1 60400 1be9A 119 5.84e-13 1pdr b.36.1.1 24774 1n7eA 97 4.13e-12 b.36.1.1 91691 1n7fA 97 6.14e-12 b.36.1.1 91692 1q3oA 109 6.52e-12 b.36.1.1 95700 1ihjA 98 8.59e-12 1pdr b.36.1.1 62382 1l6oA 95 1.45e-11 b.36.1.1 84534 2f0aA 98 4.52e-11 1mfgA 95 9.50e-11 b.36.1.1 79043 1kwaA 88 1.60e-10 1kwaA b.36.1.1 24772 1wf7A 103 1.73e-10 1qauA 112 1.76e-10 1qauA b.36.1.1 24779 1nf3C 128 3.90e-10 b.36.1.1 85596 1v5lA 103 5.68e-10 b.36.1.1 108378 2f5yA 91 1.54e-09 1nteA 82 2.08e-09 b.36.1.1 86163 1r6jA 82 2.08e-09 b.36.1.1 97151 1fc6A 388 3.11e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 1.39e-04 1lcyA 325 2.47e-04 b.36.1.4,b.47.1.1 73834,73835 1y8tA 324 1.09e-02 1sotA 320 1.18e-02 b.36.1.4,b.47.1.1 105852,105853 1zn8A 180 5.69e-02 1fxlA 167 9.07e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1qb7A 236 1.38e+00 1qb7A c.61.1.1 34087 1fwkA 296 2.38e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1yg9A 330 2.38e+00 1h72C 296 2.99e+00 d.14.1.5,d.58.26.1 60712,60713 1ad3A 452 3.79e+00 1ad3A c.82.1.1 35335 1x3mA 415 4.42e+00 1cliA 345 4.95e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1db3A 372 5.75e+00 1db3A c.2.1.2 29813 1q52A 314 8.14e+00 c.14.1.3 95846 1n6aA 259 8.55e+00 b.76.2.1,b.85.7.1 80121,80122 1g2qA 187 8.58e+00 c.61.1.1 65117 2bsyA 278 8.59e+00 2fvgA 340 8.64e+00 1o63A 219 8.68e+00 c.94.1.1 92540 1zm8A 259 9.15e+00 1un8A 552 1.12e+01 c.119.1.2,a.208.1.1 103806,99661 1xx6A 191 1.12e+01 1o6dA 163 1.14e+01 c.116.1.3 92567 1xv5A 401 1.16e+01 2d4pA 141 1.18e+01 2f69A 261 1.21e+01 1uh5A 329 1.25e+01 c.2.1.2 107840 1rypB 250 1.26e+01 1rypB d.153.1.4 41933 1vpqA 273 1.28e+01 2az4A 429 1.33e+01 1lnzA 342 1.43e+01 b.117.1.1,c.37.1.8 78112,78113 1bx4A 345 1.45e+01 1bx4A c.72.1.1 34935 1rxxA 421 1.49e+01 d.126.1.4 98061 1eu1A 780 1.53e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1htrB 329 1.57e+01 1smrA 2bhoA 130 1.66e+01 1opr 213 1.69e+01 1opr c.61.1.1 34091 1uc2A 481 1.77e+01 d.261.1.1 99161 1zxxA 319 1.82e+01 1a44 185 1.90e+01 1a44 b.17.1.1 23704 2f4wA 187 1.95e+01 2bsjA 133 1.95e+01 2agcA 162 1.97e+01 1u9yA 284 1.98e+01 1mkmA 249 2.01e+01 a.4.5.33,d.110.2.2 79242,79243 2fvtA 135 2.07e+01 1y96A 86 2.08e+01 2bshA 125 2.25e+01 1lh0A 213 2.27e+01 c.61.1.1 73896 1xmrA 243 2.31e+01 1csh 435 2.32e+01 1csh a.103.1.1 18880 2brfA 110 2.34e+01 1xdnA 277 2.45e+01 1yjmA 110 2.50e+01 1wnfA 328 2.55e+01 1wlsA 328 2.56e+01 1evfA 264 2.59e+01 1bkpA d.117.1.1 40932 1w30A 201 2.59e+01 1jalA 363 2.63e+01 c.37.1.8,d.15.10.2 84138,84139 1se8A 301 2.69e+01 b.40.4.3 105448 1qqqA 264 2.72e+01 1bkpA d.117.1.1 40931 1qfjA 232 2.72e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2g8mA 264 2.73e+01 2g8oA 264 2.75e+01 1rwrA 301 2.78e+01 b.80.1.11 97990 1w78A 422 2.82e+01 1cq3A 233 2.95e+01 1cq3A b.27.1.1 23923 1o7fA 469 3.02e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1vraB 215 3.02e+01 1hw7A 255 3.10e+01 1i7fA d.193.1.1 61297 1r31A 428 3.12e+01 d.58.20.1,d.179.1.1 96897,96898 1jmuB 666 3.17e+01 1vdmA 153 3.17e+01 1fdr 248 3.35e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1t6t1 118 3.53e+01 2aamA 309 3.53e+01 2b8tA 223 3.62e+01 1r62A 160 3.70e+01 d.122.1.3 104816 1l1qA 186 3.76e+01 c.61.1.1 77653 1koe 172 4.04e+01 1koe d.169.1.5 42448 1ftkA 279 4.09e+01 1gr2A c.94.1.1 35819 1h3gA 601 4.17e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1fsgA 233 4.23e+01 1qk3A c.61.1.1 34029 2affA 120 4.30e+01 1o12A 376 4.31e+01 b.92.1.5,c.1.9.10 80758,80759 1vchA 175 4.38e+01 1cruA 454 4.48e+01 1c9uA b.68.2.1 27617 1vqqA 646 4.50e+01 2ptd 298 4.61e+01 2plc c.1.18.2 29605 2bw3A 534 4.65e+01 2ghpA 292 4.75e+01 1q3iA 214 4.75e+01 d.220.1.1 104524 1qgdA 662 4.76e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1uthA 315 4.84e+01 c.94.1.1 108032 1x6vA 630 5.04e+01 1hvyA 288 5.21e+01 1bkpA d.117.1.1 41049 1v6fA 151 5.47e+01 d.109.1.2 108395 1vcaA 202 5.48e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1ecfA 504 5.53e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1j08A 226 5.56e+01 c.47.1.2,c.47.1.2 83855,83856 1vkpA 383 5.56e+01 d.126.1.6 108686 2bb3A 221 5.66e+01 2adcA 229 5.74e+01 1fm0E 150 5.79e+01 1fmaE d.41.5.1 38629 1j24A 143 5.82e+01 c.52.1.20 84008 1rypL 212 5.85e+01 d.153.1.4 41880 1dmgA 225 6.04e+01 1dmgA c.22.1.1 31036 2aynA 404 6.13e+01 1to2I 64 6.27e+01 1rpxA 230 6.29e+01 1rpxA c.1.2.2 28536 2bw4A 340 6.55e+01 2bnjA 303 6.58e+01 1a4yA 460 6.64e+01 1a4yA c.10.1.1 30852 1y0bA 197 6.66e+01 1f28A 297 6.70e+01 1bkpA d.117.1.1 59608 1fr3A 67 6.81e+01 1fr3A b.40.6.1 25436 1o57A 291 6.83e+01 a.4.5.40,c.61.1.1 92483,92484 2cw8A 537 6.85e+01 1tzfA 259 6.98e+01 c.68.1.13 107476 2exnA 136 7.01e+01 1lw6I 64 7.05e+01 d.40.1.1 74294 1g57A 217 7.09e+01 1g57A d.115.1.2 60253 1bu6O 501 7.10e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 2arcA 164 7.15e+01 2arcA b.82.4.1 28148 1thqA 170 7.18e+01 f.4.1.2 106920 2f9dA 125 7.31e+01 1owqA 361 7.33e+01 c.1.8.5,d.26.3.1 104041,104042 1cjbA 231 7.38e+01 1qk3A c.61.1.1 34079 1h3qA 140 7.39e+01 d.110.4.3 76652 1mq7A 154 7.47e+01 b.85.4.1 79404 1wvqA 167 7.49e+01 1wrvA 308 7.49e+01 1ko7A 314 7.54e+01 c.98.2.1,c.91.1.2 72797,72798 1h65A 270 7.62e+01 c.37.1.8 65640 1mo1A 87 7.76e+01 d.94.1.1 91363 1gv9A 260 7.81e+01 b.29.1.13 70596 1earA 147 7.82e+01 b.107.1.1,d.58.38.1 64875,64876 1t3qB 788 7.84e+01 d.41.1.1,d.133.1.1 106369,106370 1xtlA 175 7.87e+01 1rypH 205 7.91e+01 d.153.1.4 41876 1sw5A 275 8.05e+01 c.94.1.1 106069 2ffmA 91 8.10e+01 1lmeA 176 8.10e+01 d.167.1.1 84629 1ueoA 63 8.15e+01 j.107.1.1 99269 1vzoA 355 8.17e+01 d.144.1.7 108971 1i4fB 100 8.29e+01 1agdB b.1.1.2 61689 1k5nB 100 8.29e+01 b.1.1.2 77268 1fjrA 195 8.36e+01 1fjrA b.102.1.1 59855 1voqa 90 8.39e+01 1zkkA 167 8.46e+01 1js8A 394 8.50e+01 a.86.1.1,b.112.1.1 67219,67220 1kk1A 410 8.56e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1f9zA 135 8.60e+01 1qipA d.32.1.1 38484 1xtmA 175 8.65e+01 1i6pA 220 8.66e+01 1ddzA c.53.2.1 61848 1nif 340 8.67e+01 1nif b.6.1.3,b.6.1.3 23048,23049 1kcbA 340 8.76e+01 b.6.1.3,b.6.1.3 90951,90952 1fxrA 64 8.80e+01 1fxd d.58.1.4 38993 1p7tA 731 8.87e+01 c.1.13.1 94319 1zpwX 90 8.91e+01 1tif 78 8.96e+01 1tif d.15.8.1 37836