# 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 1yr0A 175 4.22e-20 1yvoA 172 1.82e-19 2ge3A 170 4.03e-19 2bl1A 172 5.75e-19 1vhsA 175 9.07e-19 d.108.1.1 100698 2ae6A 166 2.31e-17 1tiqA 180 3.79e-17 d.108.1.1 107010 2fe7A 166 1.01e-16 2beiA 170 8.77e-16 1nslA 184 1.11e-15 d.108.1.1 86137 2cy2A 174 1.87e-15 1wwzA 159 1.25e-14 1z4eA 153 1.34e-14 2b5gA 171 1.76e-14 1s7kA 182 8.50e-14 1u6mA 199 1.20e-13 1s3zA 165 1.55e-13 d.108.1.1 105250 2fckA 181 2.10e-13 1qsmA 152 3.54e-13 1qsmA d.108.1.1 40808 1qsoA 149 6.91e-13 1qsmA d.108.1.1 40812 1gheA 177 6.96e-13 d.108.1.1 76222 2fl4A 149 7.65e-13 1on0A 158 2.15e-12 d.108.1.1 87095 1yreA 197 3.01e-12 1i1dA 161 3.47e-12 1i21A d.108.1.1 61526 1y9kA 157 3.61e-12 1i12A 160 5.22e-12 1i21A d.108.1.1 61515 1mk4A 157 4.28e-11 d.108.1.1 84979 1vkcA 158 4.50e-11 1yvkA 163 1.39e-10 2a4nA 182 2.33e-10 1b87A 181 2.96e-10 1b87A d.108.1.1 40797 1n71A 180 3.00e-10 d.108.1.1 85370 1cjwA 166 6.99e-10 1cjwA d.108.1.1 40818 1yx0A 159 7.96e-10 2atrA 138 1.91e-09 2fsrA 195 2.83e-09 2bswA 146 2.94e-09 1y9wA 140 3.20e-09 1q2yA 140 5.91e-09 d.108.1.1 95655 1qstA 160 6.36e-09 1yghA d.108.1.1 40804 2c27A 315 6.68e-09 1z4rA 168 7.55e-09 1p0hA 318 8.19e-09 d.108.1.1 93866 2g3aA 152 1.27e-08 1y7rA 133 1.27e-08 1bo4A 168 2.15e-08 1bo4A d.108.1.1 40798 2ganA 190 2.57e-08 1yghA 164 7.52e-08 1yghA d.108.1.1 40802 1sqhA 312 1.68e-07 d.108.1.5 98966 1yk3A 210 3.50e-07 2aj6A 159 4.41e-07 1xebA 150 5.27e-07 1m4iA 181 8.87e-07 d.108.1.1 74457 1bob 320 8.65e-05 1bob d.108.1.1 40816 2d4pA 141 1.02e-04 1yleA 342 2.56e-03 1fy7A 278 1.03e-02 1fy7A d.108.1.1 40817 1iicA 422 2.37e-02 1nmtA d.108.1.2,d.108.1.2 62422,62423 2givA 295 3.09e-02 1xmtA 103 9.06e-02 1kzfA 230 9.22e-02 d.108.1.3 73354 1y81A 138 4.04e-01 1svjA 156 4.11e-01 d.220.1.1 106049 1pe1A 267 1.08e+00 c.1.10.4 94591 1t8xA 267 1.11e+00 1fwsA 267 1.20e+00 1d9eA c.1.10.4 60063 1zhaA 267 1.27e+00 1ne9A 335 1.33e+00 d.108.1.4,d.108.1.4 91839,91840 1o50A 157 1.43e+00 d.37.1.1,d.37.1.1 92478,92479 1han 297 1.52e+00 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 1.52e+00 d.32.1.3,d.32.1.3 78059,78060 1xbfA 140 1.85e+00 d.273.1.1 109538 1o0sA 605 1.90e+00 c.2.1.7,c.58.1.3 86540,86541 1jcxA 267 2.32e+00 c.1.10.4 66510 1fjgK 129 2.36e+00 1fjfK c.55.4.1 33733 2arhA 203 2.43e+00 1lfwA 470 2.55e+00 c.56.5.4,d.58.19.1 77942,77943 1fxqA 267 2.66e+00 1d9eA c.1.10.4 60108 1pbjA 125 2.78e+00 d.37.1.1,d.37.1.1 94414,94415 1rfmA 344 2.95e+00 c.122.1.1 97385 1afwA 393 2.98e+00 1afwA c.95.1.1,c.95.1.1 35900,35901 1shdA 107 3.03e+00 1fmk d.93.1.1 40440 1y0bA 197 3.10e+00 1tljA 213 3.26e+00 d.282.1.1 107126 1rypH 205 3.56e+00 d.153.1.4 41876 1y1uA 585 3.90e+00 1p5dX 463 4.12e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1rypI 222 4.18e+00 d.153.1.4 41877 1pvmA 184 4.19e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1zh5A 195 4.48e+00 1f1uA 323 4.59e+00 d.32.1.3,d.32.1.3 83200,83201 1zejA 293 4.71e+00 1v2xA 194 4.89e+00 c.116.1.1 100274 1ztuA 341 5.08e+00 1kw3B 292 5.41e+00 d.32.1.3,d.32.1.3 77549,77550 2d5cA 263 5.93e+00 1v5vA 401 6.05e+00 1zfjA 491 6.07e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1f1xA 322 6.08e+00 d.32.1.3,d.32.1.3 83208,83209 1k2yX 463 6.19e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1wxdA 263 6.37e+00 1l3kA 196 6.68e+00 d.58.7.1,d.58.7.1 73539,73540 2cy0A 263 6.75e+00 1oltA 457 6.94e+00 c.1.28.2 93334 1i0rA 169 7.21e+00 1i0rA b.45.1.2 61489 1i0sA 169 7.21e+00 1i0rA b.45.1.2 61491 1g2qA 187 7.28e+00 c.61.1.1 65117 1ojrA 274 7.31e+00 c.74.1.1 93147 1vmhA 144 7.31e+00 1iznB 277 8.13e+00 e.43.1.2 83848 1gd0A 122 8.25e+00 1dptA d.80.1.3 39834 1m6kA 251 8.81e+00 e.3.1.1 78695 1lrzA 426 8.83e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1kpf 126 8.85e+00 1kpf d.13.1.1 37507 1opr 213 9.20e+00 1opr c.61.1.1 34091 1s4iA 175 9.51e+00 1rzmA 338 9.75e+00 c.1.10.4 105137 1m6yA 301 9.86e+00 a.60.13.1,c.66.1.23 78716,78717 1pixA 587 9.90e+00 c.14.1.4 94708 1x7dA 350 1.00e+01 1f9mA 112 1.01e+01 1erv c.47.1.1 32736 1xsnA 335 1.03e+01 1xtmA 175 1.08e+01 1lqpA 135 1.09e+01 d.32.1.2 78151 1nkiA 135 1.09e+01 d.32.1.2 91941 1ro5A 201 1.10e+01 d.108.1.3 105023 1dmtA 696 1.13e+01 1dmtA d.92.1.4 40296 1qr6A 584 1.14e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1ss4A 153 1.15e+01 d.32.1.6 105976 1xtlA 175 1.17e+01 1vmfA 145 1.18e+01 1vk9A 151 1.18e+01 c.139.1.1 108640 1faaA 124 1.20e+01 1erv c.47.1.1 32738 1qysA 106 1.21e+01 k.41.1.1 96603 1pot 325 1.21e+01 1pot c.94.1.1 35807 1tuoA 464 1.24e+01 1l1qA 186 1.31e+01 c.61.1.1 77653 1kyfA 247 1.33e+01 b.1.10.1,d.105.1.1 73220,73221 1mxgA 435 1.35e+01 b.71.1.1,c.1.8.1 85193,85194 1qtsA 247 1.35e+01 1qtsA b.1.10.1,d.105.1.1 22313,40789 1r6xA 395 1.37e+01 b.122.1.3,c.26.1.5 97167,97168 1ha1 184 1.44e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1rypC 244 1.44e+01 1rypC d.153.1.4 41934 1lh0A 213 1.45e+01 c.61.1.1 73896 1p97A 114 1.48e+01 d.110.3.7 94382 1h1yA 228 1.49e+01 c.1.2.2 76506 1m3uA 264 1.49e+01 c.1.12.8 84784 1kllA 130 1.51e+01 d.32.1.2 72720 1vr6A 350 1.53e+01 1mpgA 282 1.64e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1hynP 379 1.67e+01 1hynP d.112.1.2 61408 2gwdA 449 1.67e+01 2f57A 317 1.68e+01 1shbA 104 1.70e+01 1fmk d.93.1.1 40425 1aa6 715 1.71e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2atzA 180 1.73e+01 2acaA 189 1.73e+01 1bu8A 452 1.74e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1vmaA 306 1.75e+01 a.24.13.1,c.37.1.10 108887,108888 1z2lA 423 1.75e+01 1edzA 320 1.77e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 2g19A 244 1.78e+01 1dik 874 1.81e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1vl8A 267 1.89e+01 c.2.1.2 108733 2bcqA 335 1.91e+01 1m4tA 392 1.92e+01 c.95.1.1,c.95.1.1 78617,78618 1r1hA 696 1.94e+01 d.92.1.4 104756 1qflA 389 1.95e+01 1afwA c.95.1.1,c.95.1.1 35908,35909 1vicA 262 1.96e+01 c.68.1.13 100756 1kpeA 126 1.97e+01 1kpf d.13.1.1 37508 2f46A 156 2.02e+01 1m3kA 392 2.02e+01 c.95.1.1,c.95.1.1 78565,78566 1gnxA 479 2.02e+01 c.1.8.4 76241 1oroA 213 2.07e+01 1opr c.61.1.1 34093 1zmaA 118 2.17e+01 1dgaA 375 2.22e+01 1yagA 1k8kD 300 2.30e+01 d.198.2.1,d.198.2.1 68309,68310 2bleA 367 2.30e+01 1j8fA 323 2.33e+01 1j8fA c.31.1.5 62738 1h1nA 305 2.41e+01 c.1.8.3 70855 2fyxA 143 2.42e+01 1svdM 110 2.44e+01 2h1nA 567 2.45e+01 2gw2A 198 2.46e+01 1uehA 253 2.49e+01 c.101.1.1 99259 1w2xA 758 2.51e+01 c.14.1.4,c.14.1.4 109134,109135 1i9zA 347 2.52e+01 1i9yA d.151.1.2 62102 2hbtA 247 2.53e+01 1e79D 482 2.53e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1qz5A 375 2.54e+01 c.55.1.1,c.55.1.1 96614,96615 1zcoA 262 2.59e+01 1nxuA 333 2.63e+01 c.122.1.1 86389 1vr3A 191 2.64e+01 1plq 258 2.66e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1cr1A 296 2.69e+01 1cr1A c.37.1.11 32286 2btfA 375 2.72e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1s57A 153 2.72e+01 1vdnA 162 2.72e+01 1j7lA 264 2.73e+01 d.144.1.6 62697 1vjqA 79 2.74e+01 k.43.1.1 100830 1j6zA 376 2.74e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1to6A 371 2.77e+01 c.141.1.1 107170 1uyrA 737 2.77e+01 c.14.1.4,c.14.1.4 100188,100189 2btoA 473 2.79e+01 1v9nA 360 2.86e+01 2fxuA 375 2.89e+01 2cxaA 256 2.89e+01 2c9wA 169 2.92e+01 1g8fA 511 2.94e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 2f5gA 133 2.98e+01 2b18A 164 3.01e+01 2bj7A 138 3.07e+01 1o4rA 108 3.09e+01 d.93.1.1 92469 2bylA 439 3.12e+01 2a1rA 430 3.12e+01 1oj5A 132 3.12e+01 d.110.3.8 93087 1vc4A 254 3.14e+01 c.1.2.4 100557 1hfoA 113 3.15e+01 d.80.1.3 61006 1zy9A 564 3.17e+01 1okjA 251 3.21e+01 c.55.1.9,c.55.1.9 103998,103999 1xkfA 133 3.28e+01 2byjA 439 3.37e+01 2h21A 440 3.37e+01 2bhvA 246 3.49e+01 1v84A 253 3.52e+01 c.68.1.7 108419 1s2oA 244 3.54e+01 1vpqA 273 3.56e+01 1u0mA 382 3.57e+01 c.95.1.2,c.95.1.2 107557,107558 2iv2X 715 3.58e+01 2cfeA 162 3.59e+01 1stfI 98 3.73e+01 1stfI d.17.1.2 38006 1wuaA 375 3.75e+01 1l3iA 192 3.83e+01 c.66.1.22 77676 1h75A 81 3.84e+01 1h75A c.47.1.1 60716 1rxyA 253 3.84e+01 c.56.2.1 98065 1j08A 226 3.85e+01 c.47.1.2,c.47.1.2 83855,83856 2b81A 323 3.87e+01 1rkuA 206 3.88e+01 c.108.1.11 97627 1eg7A 557 3.93e+01 1eg7A c.37.1.10 32241 1ykdA 398 3.98e+01 4pfk 319 3.98e+01 3pfk c.89.1.1 35582 1hh1A 143 4.02e+01 1gefA c.52.1.18 61036 1r9dA 787 4.03e+01 c.7.1.1 104865 1zo0A 126 4.05e+01 1ve1A 304 4.05e+01 1y5hA 133 4.05e+01 1zkkA 167 4.08e+01 2cpl 165 4.08e+01 2cpl b.62.1.1 27420 1o0wA 252 4.09e+01 a.149.1.1,d.50.1.1 80751,80752 1d4xA 375 4.11e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 8abp 306 4.13e+01 8abp c.93.1.1 35647 1ofuA 320 4.16e+01 c.32.1.1,d.79.2.1 86972,86973 2d93A 134 4.21e+01 1kyhA 276 4.21e+01 c.72.1.4 73222 1h2rL 534 4.22e+01 1h2rL e.18.1.1 43298 1lkkA 105 4.22e+01 1lckA d.93.1.1 40412 1w96A 554 4.23e+01 1uf3A 228 4.23e+01 d.159.1.6 99317 1awqA 164 4.24e+01 2cpl b.62.1.1 27461 1b34B 118 4.25e+01 1b34B b.38.1.1 24797 2ariA 39 4.25e+01 1rztA 331 4.28e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1ne6A 283 4.31e+01 b.82.3.2,b.82.3.2 91831,91832 1awsA 164 4.34e+01 2cpl b.62.1.1 27431 1czaN 917 4.34e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1yqgA 263 4.36e+01 2aq4A 434 4.38e+01 1yndA 165 4.38e+01 1ubkL 534 4.39e+01 e.18.1.1 88422 1igs 248 4.43e+01 1a53 c.1.2.4 28565 1a53 247 4.44e+01 1a53 c.1.2.4 28564 1fxlA 167 4.45e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 2bhmA 164 4.46e+01 1g4wR 383 4.52e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1m1nA 491 4.53e+01 c.92.2.3 78417 1jatA 155 4.55e+01 1u9aA d.20.1.1 62818 1d5tA 433 4.57e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1zxxA 319 4.62e+01 2b8eA 273 4.64e+01 1gteA 1025 4.72e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1eulA 994 4.74e+01 1eulA 1h8eD 482 4.76e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1wuiL 534 4.76e+01 1h7wA 1025 4.77e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1xe7A 203 4.77e+01 2erfA 209 4.82e+01 1im5A 180 4.82e+01 c.33.1.3 66211 1qgxA 357 4.88e+01 1qgxA e.7.1.1 42973 1kblA 873 5.04e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1pj5A 830 5.04e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1eexA 554 5.07e+01 1dioA c.1.19.3 29650 1q7zA 566 5.10e+01 c.1.21.2,c.1.26.1 96090,96091 1u7eB 154 5.10e+01 1nrfA 262 5.15e+01 e.3.1.1 92086 1qq4A 198 5.23e+01 1qq4A b.47.1.1 25768 1jflA 228 5.27e+01 c.78.2.1,c.78.2.1 71656,71657 1yphE 97 5.30e+01 1ucnA 152 5.45e+01 d.58.6.1 99183 1fl2A 310 5.45e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1fmtA 314 5.46e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1z94A 147 5.49e+01 1flcB 175 5.50e+01 1flcB h.3.1.1 45716 1wmmA 145 5.54e+01 1npk 154 5.56e+01 1npk d.58.6.1 39099 1gsa 316 5.57e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1qhxA 178 5.58e+01 1qhsA c.37.1.3 31936 1wz3A 96 5.59e+01 1q7bA 244 5.62e+01 c.2.1.2 96026 1qcsA 211 5.64e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1flcA 432 5.65e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1ka1A 357 5.71e+01 e.7.1.1 68369 1jq5A 370 5.72e+01 e.22.1.2 67084 1dceA 567 5.76e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1g9gA 629 5.83e+01 a.102.1.2 83279 1cx4A 305 5.83e+01 b.82.3.2,b.82.3.2 59099,59100 1su4A 994 5.90e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1lx7A 253 5.94e+01 c.56.2.1 74329 1faeA 629 5.98e+01 1fce a.102.1.2 18837 2gptA 523 5.99e+01 2ck3D 482 6.03e+01 1ssxA 198 6.05e+01 b.47.1.1 98978 1ds1A 324 6.08e+01 1drtA b.82.2.2 28127 1wyzA 242 6.10e+01 1wlfA 179 6.17e+01 b.52.2.3,d.31.1.1 109396,109397 1uf5A 303 6.19e+01 d.160.1.2 107808 1erzA 303 6.24e+01 1erzA d.160.1.2 59498 1ujnA 348 6.25e+01 e.22.1.1 99460 1hqsA 423 6.25e+01 1iso c.77.1.1 61154 1i0vA 104 6.32e+01 9rnt d.1.1.4 36054 1cvrA 435 6.36e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1pu6A 218 6.38e+01 a.96.1.5 95123 1v33A 366 6.44e+01 d.264.1.1 100278 1wk2A 121 6.45e+01 1st9A 143 6.47e+01 c.47.1.10 98987 1xewY 172 6.48e+01 1gg6C 97 6.48e+01 5ptp 1zu4A 320 6.52e+01 1jcfA 344 6.56e+01 c.55.1.1,c.55.1.1 62878,62879 1gq6A 313 6.64e+01 c.42.1.1 70341 1px5A 349 6.64e+01 a.160.1.2,d.218.1.6 95277,95278 1puiA 210 6.66e+01 c.37.1.8 88292 1yw5A 177 6.76e+01 1wpgA 994 6.90e+01 1t0yA 122 6.91e+01 d.15.1.1 99066 1ecfA 504 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