# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 4.66e-16 1g9oA 91 1.79e-15 1pdr b.36.1.1 60400 2fcfA 103 2.35e-15 1qavA 90 2.92e-15 1qauA b.36.1.1 24777 1tp5A 119 3.42e-15 1be9A 119 7.93e-15 1pdr b.36.1.1 24774 1n7eA 97 3.14e-14 b.36.1.1 91691 1n7fA 97 7.02e-14 b.36.1.1 91692 1q3oA 109 7.85e-14 b.36.1.1 95700 1ihjA 98 1.40e-13 1pdr b.36.1.1 62382 1l6oA 95 7.88e-13 b.36.1.1 84534 1mfgA 95 1.57e-12 b.36.1.1 79043 1kwaA 88 1.61e-12 1kwaA b.36.1.1 24772 1qauA 112 2.48e-12 1qauA b.36.1.1 24779 1nf3C 128 3.44e-12 b.36.1.1 85596 2f0aA 98 5.50e-12 1wf7A 103 7.96e-12 1v5lA 103 2.33e-11 b.36.1.1 108378 1nteA 82 3.40e-11 b.36.1.1 86163 2f5yA 91 3.78e-11 1r6jA 82 5.96e-11 b.36.1.1 97151 1fc6A 388 4.14e-07 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 2.10e-06 1lcyA 325 7.60e-06 b.36.1.4,b.47.1.1 73834,73835 1y8tA 324 1.20e-04 1sotA 320 3.71e-03 b.36.1.4,b.47.1.1 105852,105853 1zn8A 180 1.90e-02 1yg9A 330 4.84e-01 1qb7A 236 5.76e-01 1qb7A c.61.1.1 34087 1n6aA 259 7.24e-01 b.76.2.1,b.85.7.1 80121,80122 1fxlA 167 8.18e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1g2qA 187 8.85e-01 c.61.1.1 65117 2f69A 261 1.16e+00 1db3A 372 1.17e+00 1db3A c.2.1.2 29813 1ad3A 452 1.62e+00 1ad3A c.82.1.1 35335 1x3mA 415 2.04e+00 1t6t1 118 2.09e+00 1cliA 345 2.36e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2fvgA 340 3.26e+00 1q52A 314 3.28e+00 c.14.1.3 95846 2f4wA 187 3.57e+00 1vpqA 273 3.64e+00 2bsyA 278 3.93e+00 1yjmA 110 4.11e+00 1mkmA 249 5.42e+00 a.4.5.33,d.110.2.2 79242,79243 1xx6A 191 5.67e+00 1w30A 201 5.80e+00 2brfA 110 5.82e+00 1fwkA 296 6.13e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1fm0E 150 6.16e+00 1fmaE d.41.5.1 38629 1h72C 296 6.32e+00 d.14.1.5,d.58.26.1 60712,60713 1ecfA 504 6.74e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1r13A 148 6.76e+00 d.169.1.1,h.1.1.1 96782,96783 2c5qA 240 6.79e+00 1o6dA 163 7.06e+00 c.116.1.3 92567 1l1qA 186 7.11e+00 c.61.1.1 77653 1h3gA 601 7.23e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1zsyA 357 7.75e+00 1uc2A 481 7.96e+00 d.261.1.1 99161 2affA 120 8.39e+00 1rutX 188 8.49e+00 1opr 213 8.55e+00 1opr c.61.1.1 34091 1zh5A 195 8.64e+00 1xdnA 277 8.70e+00 1y0bA 197 8.79e+00 1cq3A 233 8.87e+00 1cq3A b.27.1.1 23923 2aamA 309 9.17e+00 2d4pA 141 9.26e+00 1koe 172 9.36e+00 1koe d.169.1.5 42448 1u9yA 284 9.42e+00 1lh0A 213 9.99e+00 c.61.1.1 73896 2cw8A 537 1.00e+01 2ptd 298 1.10e+01 2plc c.1.18.2 29605 1rl2A 137 1.10e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1xmrA 243 1.13e+01 1o57A 291 1.13e+01 a.4.5.40,c.61.1.1 92483,92484 2bsjA 133 1.22e+01 1rwrA 301 1.23e+01 b.80.1.11 97990 1fsgA 233 1.27e+01 1qk3A c.61.1.1 34029 1id2A 106 1.28e+01 1aac b.6.1.1 62288 2f9dA 125 1.30e+01 1vchA 175 1.32e+01 2bhoA 130 1.34e+01 1dmgA 225 1.37e+01 1dmgA c.22.1.1 31036 1se8A 301 1.39e+01 b.40.4.3 105448 1vdmA 153 1.41e+01 2bw3A 534 1.42e+01 1xv5A 401 1.42e+01 1xtlA 175 1.49e+01 2agcA 162 1.49e+01 1vraB 215 1.51e+01 1rypH 205 1.51e+01 d.153.1.4 41876 2bkfA 87 1.52e+01 1wlsA 328 1.53e+01 2az4A 429 1.57e+01 1sfdA 105 1.59e+01 b.6.1.1 105480 1l0bA 229 1.59e+01 c.15.1.3,c.15.1.3 73391,73392 1bxaA 105 1.59e+01 1aac b.6.1.1 22839 2b8tA 223 1.60e+01 2bnjA 303 1.60e+01 1un8A 552 1.61e+01 c.119.1.2,a.208.1.1 103806,99661 1wnfA 328 1.63e+01 1hw7A 255 1.68e+01 1i7fA d.193.1.1 61297 1xtmA 175 1.70e+01 1j58A 385 1.79e+01 b.82.1.2 71531 2f7fA 494 1.79e+01 2ghpA 292 1.80e+01 1jnyA 435 1.81e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1tif 78 1.82e+01 1tif d.15.8.1 37836 1jmuB 666 1.83e+01 1aac 105 1.84e+01 1aac b.6.1.1 22838 1bx4A 345 1.88e+01 1bx4A c.72.1.1 34935 1z47A 355 1.89e+01 1g57A 217 1.93e+01 1g57A d.115.1.2 60253 1y96A 86 1.98e+01 2f51A 118 2.00e+01 2c9wA 169 2.02e+01 1hzdA 272 2.02e+01 c.14.1.3 65969 2bshA 125 2.04e+01 1js8A 394 2.06e+01 a.86.1.1,b.112.1.1 67219,67220 1e9xA 455 2.08e+01 1ea1A a.104.1.1 18969 1g7sA 594 2.08e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1uh5A 329 2.09e+01 c.2.1.2 107840 1dq3A 454 2.10e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1r62A 160 2.13e+01 d.122.1.3 104816 1hgxA 183 2.14e+01 1tc1A c.61.1.1 34027 1kw4A 89 2.16e+01 a.60.1.2 73077 1fxrA 64 2.20e+01 1fxd d.58.1.4 38993 1u13A 455 2.22e+01 a.104.1.1 107578 1gg6B 131 2.27e+01 5ptp 1x8vA 455 2.30e+01 1o7fA 469 2.35e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1h5zA 455 2.36e+01 a.104.1.1 90622 1eyqA 222 2.39e+01 1eypA d.36.1.1 38534 1fr3A 67 2.39e+01 1fr3A b.40.6.1 25436 2adcA 229 2.47e+01 1ukvG 453 2.53e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1zkkA 167 2.54e+01 1ftkA 279 2.54e+01 1gr2A c.94.1.1 35819 1r31A 428 2.55e+01 d.58.20.1,d.179.1.1 96897,96898 1wrvA 308 2.59e+01 1jalA 363 2.63e+01 c.37.1.8,d.15.10.2 84138,84139 1yfuA 174 2.66e+01 1zq1C 633 2.71e+01 1s4iA 175 2.74e+01 1x6vA 630 2.78e+01 2g8oA 264 2.81e+01 2g8mA 264 2.82e+01 1vj0A 380 2.82e+01 b.35.1.2,c.2.1.1 100786,100787 1ti6A 875 2.84e+01 b.52.2.2,c.81.1.1 106974,106975 1a6wL 109 2.85e+01 1mfa b.1.1.1 20252 1mvwB 145 2.90e+01 i.15.1.1 79524 1vqqA 646 2.90e+01 1gmuA 143 2.90e+01 b.107.1.1,d.58.38.1 65335,65336 1i52A 236 2.94e+01 1i52A c.68.1.13 61767 1iscA 192 2.94e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1evfA 264 2.95e+01 1bkpA d.117.1.1 40932 2arcA 164 2.96e+01 2arcA b.82.4.1 28148 1lw6I 64 2.96e+01 d.40.1.1 74294 1yb3A 175 2.96e+01 1qqqA 264 3.02e+01 1bkpA d.117.1.1 40931 1rypB 250 3.03e+01 1rypB d.153.1.4 41933 1to2I 64 3.08e+01 1vheA 373 3.12e+01 b.49.3.1,c.56.5.4 100669,100670 1oi7A 288 3.14e+01 c.2.1.8,c.23.4.1 87049,87050 1wvqA 167 3.16e+01 1e4iA 447 3.19e+01 1e70M c.1.8.4 59225 1mqiA 263 3.25e+01 c.94.1.1 91398 1earA 147 3.32e+01 b.107.1.1,d.58.38.1 64875,64876 2ampA 304 3.36e+01 1ugmA 125 3.42e+01 d.15.1.3 107827 1qgdA 662 3.44e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1a8y 367 3.47e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1r7lA 110 3.48e+01 d.277.1.1 104837 1bg4 302 3.50e+01 1taxA c.1.8.3 28806 1t7vA 278 3.50e+01 1iwlA 182 3.57e+01 b.125.1.1 83757 1jv2B 692 3.57e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1h70A 255 3.61e+01 1h70A d.126.1.3 60711 1cl1A 395 3.62e+01 1cl2A c.67.1.3 34395 1i1wA 303 3.68e+01 c.1.8.3 76732 1zm8A 259 3.68e+01 2aefA 234 3.72e+01 2anuA 255 3.73e+01 1vkmA 297 3.76e+01 c.138.1.1 108670 1scuA 288 3.81e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1dgwA 178 3.81e+01 1dgwA b.82.1.2 28090 1a44 185 3.82e+01 1a44 b.17.1.1 23704 1lvoA 302 3.93e+01 b.47.1.4 74284 1w99A 558 3.96e+01 1w94A 156 3.97e+01 1q3iA 214 4.00e+01 d.220.1.1 104524 1vm7A 311 4.08e+01 c.72.1.1 108884 1ta3B 303 4.11e+01 c.1.8.3 106732 1ifyA 49 4.21e+01 a.5.2.1 71207 2f6uA 234 4.24e+01 1zkpA 268 4.26e+01 1uzcA 71 4.27e+01 a.159.2.1 100222 1kk1A 410 4.27e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1od5A 492 4.28e+01 b.82.1.2,b.82.1.2 86832,86833 1o50A 157 4.29e+01 d.37.1.1,d.37.1.1 92478,92479 2cc0A 195 4.31e+01 1h65A 270 4.32e+01 c.37.1.8 65640 1xznA 179 4.33e+01 2bcgG 453 4.34e+01 1cjbA 231 4.38e+01 1qk3A c.61.1.1 34079 2b4aA 138 4.40e+01 1nm1G 125 4.42e+01 d.109.1.1 80653 1dljA 402 4.44e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1m65A 245 4.51e+01 c.6.3.1 84847 1s29A 92 4.51e+01 a.4.5.46 98373 1zybA 232 4.51e+01 1dg6A 191 4.71e+01 1d4vB b.22.1.1 23883 1g8aA 227 4.73e+01 c.66.1.3 90506 1oaqL 120 4.78e+01 b.1.1.1 92708 1ako 268 4.79e+01 1ako d.151.1.1 41779 1nkqA 259 4.82e+01 d.177.1.1 103862 1nonA 179 4.85e+01 c.61.1.1 103868 1korA 400 4.88e+01 c.26.2.1,d.210.1.1 72824,72825 1vzoA 355 4.89e+01 d.144.1.7 108971 1v93A 296 4.92e+01 c.1.23.1 100532 1vazA 88 4.94e+01 d.245.1.1 100554 1d4xG 126 5.03e+01 1d0nA d.109.1.1 59109 2fnjA 226 5.08e+01 1wd5A 208 5.09e+01 1ef8A 261 5.10e+01 1ef8A c.14.1.3 30921 1dk0A 188 5.10e+01 1b2vA d.35.1.1 38530 1t9fA 187 5.14e+01 b.42.6.1 106710 1o12A 376 5.20e+01 b.92.1.5,c.1.9.10 80758,80759 1tllA 688 5.22e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1nthA 458 5.24e+01 c.1.25.1 80730 1f20A 435 5.28e+01 b.43.4.1,c.25.1.4 64932,64933 1rurH 218 5.29e+01 b.1.1.1,b.1.1.2 97879,97880 2cyjA 118 5.30e+01 1yloA 348 5.31e+01 1hrkA 359 5.31e+01 1hrkA c.92.1.1 61228 1tmxA 293 5.35e+01 1tzfA 259 5.38e+01 c.68.1.13 107476 1mzhA 225 5.45e+01 c.1.10.1 79698 2bb3A 221 5.48e+01 2cq2A 114 5.48e+01 1qmeA 702 5.50e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1pk6A 133 5.50e+01 b.22.1.1 94801 1b25A 619 5.55e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1gg4A 452 5.59e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1iw7C 1119 5.61e+01 e.29.1.1 71474 1pmmA 466 5.63e+01 c.67.1.6 94901 1w78A 422 5.70e+01 1eceA 358 5.73e+01 1eceA c.1.8.3 28813 1bxvA 91 5.74e+01 1aac b.6.1.1 22875 1hvyA 288 5.76e+01 1bkpA d.117.1.1 41049 1s1iG 119 5.80e+01 i.1.1.1 105181 1x92A 199 5.82e+01 1yioA 208 5.89e+01 1ojhA 65 5.90e+01 a.214.1.1 103976 1ucyH 150 5.91e+01 1ucyH 1odkA 235 5.91e+01 c.56.2.1 86863 2bh8A 101 6.03e+01 1sflA 238 6.04e+01 1xm7A 195 6.05e+01 1rpxA 230 6.05e+01 1rpxA c.1.2.2 28536 1siqA 392 6.17e+01 a.29.3.1,e.6.1.1 105585,105586 1w9gA 104 6.22e+01 2ahqA 76 6.23e+01 1j9qA 341 6.32e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1npuA 117 6.32e+01 b.1.1.1 92038 1cozA 129 6.33e+01 1cozA c.26.1.2 31598 1nqjA 119 6.34e+01 b.23.2.1 86031 1sv6A 269 6.36e+01 d.177.1.1 106043 1x65A 89 6.39e+01 1qfjA 232 6.43e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1txvB 440 6.45e+01 1u3oA 82 6.47e+01 1g31A 111 6.48e+01 1g31A b.35.1.1 24656 1l7bA 92 6.51e+01 c.15.1.2 91053 2bepA 159 6.52e+01 1zuoA 186 6.54e+01 1xfoA 357 6.56e+01 1o5oA 221 6.58e+01 c.61.1.1 92509 1wexA 104 6.61e+01 1voqa 90 6.64e+01 1igs 248 6.64e+01 1a53 c.1.2.4 28565 1nif 340 6.66e+01 1nif b.6.1.3,b.6.1.3 23048,23049 2c3zA 222 6.68e+01 1rypL 212 6.68e+01 d.153.1.4 41880 2cwaA 263 6.69e+01 1t5hX 504 6.71e+01 e.23.1.1 106449 6paxA 133 6.73e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 2bw4A 340 6.74e+01 1ltlA 279 6.74e+01 b.40.4.11 84701 1uscA 178 6.75e+01 b.45.1.2 99860 1wxxA 382 6.82e+01 2bs3A 656 6.91e+01 1mkkA 96 6.92e+01 g.17.1.1 79240 1qlaA 656 6.94e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1yqfA 203 6.95e+01 1qqrA 138 6.97e+01 1bmlC d.15.5.1 37721 2atrA 138 7.04e+01 1ypcI 64 7.13e+01 2sniI d.40.1.1 38570 1kuuA 202 7.16e+01 d.153.2.1 73019 1a53 247 7.20e+01 1a53 c.1.2.4 28564 1kcbA 340 7.23e+01 b.6.1.3,b.6.1.3 90951,90952 1h9oA 112 7.30e+01 1qadA d.93.1.1 60837 1wz7A 111 7.45e+01 1y0yA 353 7.46e+01 1o8bA 219 7.47e+01 c.124.1.4,d.58.40.1 81180,81181 2exnA 136 7.49e+01 1o63A 219 7.50e+01 c.94.1.1 92540 2d00A 109 7.55e+01 2aeeA 211 7.59e+01 1sfjA 238 7.63e+01 1yphC 131 7.68e+01 1iieA 75 7.70e+01 1iieA a.109.1.1 19039 1oroA 213 7.74e+01 1opr c.61.1.1 34093 1viuA 203 7.76e+01 d.113.1.1 100771 1n3gA 113 7.76e+01 d.204.1.1 79962 1ten 90 7.78e+01 1ten b.1.2.1 21990 2cdcA 366 7.81e+01 2cu5A 129 7.86e+01 1dekA 241 7.91e+01 1dekA c.37.1.1 31842 2ffmA 91 7.94e+01 1y7lA 316 8.01e+01 1vplA 256 8.10e+01 1lvaA 258 8.16e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1i4fB 100 8.20e+01 1agdB b.1.1.2 61689 1qzzA 374 8.34e+01 a.4.5.29,c.66.1.12 96719,96720 1c3pA 375 8.36e+01 1c3pA c.42.1.2 32606 1mfmA 153 8.38e+01 1mfmA b.1.8.1 22246 1zq9A 285 8.39e+01 1v6tA 255 8.43e+01 1f6fB 210 8.47e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1kdj 102 8.49e+01 1plc b.6.1.1 22864 1h6kZ 98 8.51e+01 d.58.7.1 60686 1h8dH 260 8.55e+01 5ptp 1l7yA 94 8.57e+01 d.15.1.6 73676 2c1lA 358 8.64e+01 1zthA 258 8.70e+01 1sftA 388 8.73e+01 1bd0A b.49.2.2,c.1.6.1 26482,28644 1pz7A 204 8.74e+01 b.29.1.4 95405 1vzqH 250 8.77e+01 2f6rA 281 8.77e+01 3aprE 325 8.78e+01 2er7E b.50.1.2 26820 1u7eB 154 8.83e+01 1qwgA 251 8.88e+01 c.1.27.1 96473 1z96A 40 8.95e+01 1vqoH 171 8.97e+01