# 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 1obdA 306 2.70e+00 d.143.1.1 86767 1p5dX 463 2.77e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1qcsA 211 2.81e+00 1qcsA b.52.2.3,d.31.1.1 26927,38461 3proC 166 2.92e+00 3proC d.52.1.1,d.52.1.1 38812,38813 2cnqA 306 2.97e+00 d.143.1.1 130646 1n91A 108 3.02e+00 d.206.1.1 80326 1k2yX 463 3.37e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1v5xA 203 3.50e+00 c.1.2.4 100377 1vm6A 228 3.67e+00 d.81.1.3,c.2.1.3 108877,118631 1t6sA 162 3.69e+00 a.4.5.60,a.4.5.60 112271,112272 2gu3A 136 4.14e+00 1a48 306 4.59e+00 1a48 2gu2A 312 5.49e+00 1ylxA 103 5.71e+00 d.82.5.1 123677 1zbfA 142 5.77e+00 c.55.3.1 124850 1rypK 198 7.15e+00 d.153.1.4 41879 2nr1 27 7.36e+00 1c44A 123 8.71e+00 1qndA d.106.1.1 40795 1s5jA 847 9.88e+00 c.55.3.5,e.8.1.1 112040,112041 1i1iP 681 1.01e+01 1i1iP d.92.1.5 40297 1ykdA 398 1.05e+01 1o0pA 104 1.10e+01 d.58.7.1 86535 1t95A 240 1.18e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2aq4A 434 1.31e+01 1rypD 241 1.32e+01 1rypD d.153.1.4 41935 1xr4A 509 1.32e+01 c.124.1.2,c.124.1.2 115860,115861 830cA 168 1.32e+01 1ck7A d.92.1.11 40400 1jnyA 435 1.33e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1w53A 84 1.35e+01 a.186.1.2 109175 1tr0A 108 1.37e+01 d.58.4.4 107261 1s1hC 192 1.39e+01 i.1.1.1 105156 1zxzA 197 1.42e+01 1nrlA 316 1.51e+01 a.123.1.1 92091 1kveB 77 1.54e+01 1kveB 1phk 298 1.55e+01 1cdkA 1ospO 257 1.57e+01 1ospO b.76.1.1 27971 1v7cA 351 1.57e+01 c.79.1.1 100446 1ohtA 215 1.58e+01 d.118.1.1 87036 1o8xA 146 1.64e+01 c.47.1.10 86681 1mixA 206 1.64e+01 a.11.2.1,b.55.1.5 79166,79167 2cunA 410 1.67e+01 1iuhA 198 1.78e+01 d.61.1.2 83711 1914 232 1.78e+01 1914 1lm4A 194 1.87e+01 d.167.1.1 84626 1p9qC 256 1.87e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1bif 469 2.08e+01 1bif 1s6cA 183 2.08e+01 a.39.1.5 98594 1qwrA 319 2.09e+01 b.82.1.3 96491 1j3bA 529 2.10e+01 c.91.1.1,c.109.1.1 77071,77072 1qk8A 146 2.18e+01 1ewxA c.47.1.10 33061 1hwxA 501 2.18e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1j6qA 136 2.24e+01 b.40.9.1 77091 1bywA 110 2.33e+01 1bywA d.110.3.6 40912 2ajrA 331 2.34e+01 c.72.1.1 126892 1wr2A 238 2.35e+01 2bwqA 129 2.37e+01 b.7.1.2 129380 1o70A 324 2.41e+01 b.118.1.1,b.118.1.1 81115,81116 1yduA 170 2.41e+01 b.162.1.1 123003 1xwl 580 2.45e+01 1xwl 1yewA 382 2.47e+01 1trb 320 2.65e+01 1trb 2ewrA 170 2.66e+01 d.218.1.11 132493 1ud0A 113 2.70e+01 a.8.4.1 99198 1x7yA 400 2.78e+01 c.36.1.11 114944 1vk8A 106 2.79e+01 d.58.48.1 108636 2bfdA 400 2.80e+01 2fclA 169 2.80e+01 d.218.1.11 133273 1iujA 106 2.81e+01 d.58.4.5 90701 1jovA 270 2.83e+01 b.30.5.7 84192 1r8gA 372 2.84e+01 d.128.1.3 104845 2afbA 351 2.88e+01 c.72.1.1 126674 1cs0A 1073 2.93e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 2c7hA 86 2.94e+01 2c6cA 707 2.96e+01 a.48.2.1,c.8.4.1,c.56.5.5 129989,129990,129991 2g3aA 152 3.04e+01 d.108.1.1 134557 1fcdA 401 3.14e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1dq3A 454 3.14e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1aqcA 172 3.16e+01 1x11A b.55.1.2 26983 1ifqA 138 3.17e+01 1ifqA d.110.4.1 62350 1squA 155 3.19e+01 d.252.1.1 98971 1muwA 386 3.25e+01 c.1.15.3 79495 1fit 147 3.33e+01 1fit 1mngA 203 3.34e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1h72C 296 3.35e+01 d.14.1.5,d.58.26.1 60712,60713 1yzsA 121 3.39e+01 2fwuA 157 3.46e+01 b.1.27.1 134262 1go4A 205 3.46e+01 d.135.1.1 70292 1ywqA 200 3.53e+01 d.90.1.1 124162 1q4rA 112 3.54e+01 d.58.4.4 95823 1p4fA 293 3.57e+01 d.144.1.7 104063 2bo9A 308 3.60e+01 c.56.5.1 128897 1sh8A 154 3.61e+01 d.38.1.5 105549 1ugjA 141 3.66e+01 b.41.1.3 107826 1l3sA 580 3.67e+01 c.55.3.5,e.8.1.1 84521,84522 1kwaA 88 3.67e+01 1kwaA b.36.1.1 24772 1c1lA 136 3.68e+01 1c1lA b.29.1.3 24219 1fwkA 296 3.71e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1nwzA 125 3.78e+01 d.110.3.1 86370 3pyp 125 3.78e+01 3pyp 1ii2A 524 3.81e+01 c.91.1.1,c.109.1.1 66146,66147 1iu8A 206 3.82e+01 c.56.4.1 71436 1ob8A 135 3.87e+01 c.52.1.18 111627 1nk4A 580 3.90e+01 c.55.3.5,e.8.1.1 91923,91924 1u4bA 580 3.91e+01 c.55.3.5,e.8.1.1 107664,107665 1vh5A 148 3.92e+01 d.38.1.5 100642 1s1eA 224 3.96e+01 a.39.1.5 112007 1e0cA 271 4.00e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 2b9hA 353 4.05e+01 1snzA 344 4.07e+01 b.30.5.4 98930 1mjhA 162 4.07e+01 1mjhA c.26.2.4 31639 1g8yA 279 4.09e+01 1g8yA c.37.1.11 32302 2cfuA 658 4.13e+01 1zaiA 363 4.14e+01 c.1.10.1 124828 1adoA 363 4.17e+01 1fbaA c.1.10.1 29124 2a2lA 145 4.21e+01 d.110.9.1 126035 1z5bA 469 4.21e+01 a.156.1.3,d.14.1.3,d.122.1.2 124464,124465,124466 1t9mA 214 4.22e+01 b.45.1.1 112364 1n9lA 109 4.25e+01 d.110.3.6 85468 1nlfA 279 4.25e+01 c.37.1.11 85850 1olsA 400 4.26e+01 c.36.1.11 93331 1lrwA 600 4.28e+01 b.70.1.1 91111 1mzuA 129 4.30e+01 d.110.3.1 79714 1v1rA 400 4.30e+01 c.36.1.11 108272 1zjcA 418 4.35e+01 e.60.1.1 125147 1h5wA 309 4.36e+01 e.27.1.1 65635 1vjvA 415 4.37e+01 d.3.1.9 108632 1avwB 171 4.45e+01 1wba b.42.4.1 25599 1gwyA 175 4.50e+01 b.97.1.1 83356 1u5uA 374 4.60e+01 e.5.1.2 113052 1u04A 771 4.62e+01 b.34.14.1,c.55.3.10 107539,107540 2fw2A 260 4.65e+01 c.14.1.3 134231 1d4oA 184 4.65e+01 1d4oA c.31.1.4 31748 1z2nX 324 4.67e+01 1ash 150 4.68e+01 1ash 1vggA 161 4.69e+01 d.256.1.1 113647 1psdA 409 4.70e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2es7A 142 4.70e+01 c.47.1.20 132314 1u9yA 284 4.73e+01 c.61.1.2,c.61.1.2 119655,119656 1r2jA 366 4.74e+01 a.29.3.1,e.6.1.1 96869,96870 1j5vA 351 4.75e+01 2bgkA 278 4.90e+01 c.2.1.2 128480 1q7sA 117 4.92e+01 c.131.1.1 96055 1mu5A 471 4.96e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1tvoA 368 5.02e+01 1zceA 155 5.12e+01 b.122.1.8 124907 1vpkA 378 5.17e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1a0p 290 5.18e+01 1a0p 1inlA 296 5.18e+01 c.66.1.17 66220 1iazA 179 5.23e+01 1iazA b.97.1.1 62131 2essA 248 5.39e+01 d.38.1.8,d.38.1.8 132346,132347 1oz9A 150 5.47e+01 d.92.1.15 93808 1k8tA 510 5.50e+01 e.41.1.1 68316 1xw4X 110 5.53e+01 1dkuA 317 5.53e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2cblA 305 5.54e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1bk7A 190 5.69e+01 1bk7A d.124.1.1 41121 1xovA 326 5.79e+01 b.34.11.4,c.56.5.6 122206,122207 1xv2A 237 5.80e+01 d.290.1.1 116076 1zwyA 185 5.82e+01 c.51.4.3 125753 1vclA 432 5.84e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1yvhA 329 5.86e+01 a.39.1.7,a.48.1.1,d.93.1.1 124096,124097,124098 1ukkA 142 5.87e+01 d.227.1.1 99491 1wq3A 322 5.90e+01 1u84A 90 5.95e+01 a.230.1.1 113114 1mmsA 140 6.07e+01 1mmsA a.4.7.1,d.47.1.1 16247,38766 1jidA 128 6.14e+01 d.201.1.1 66735 1fc6A 388 6.16e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 2igd 61 6.30e+01 2igd 1r7mA 235 6.30e+01 d.95.2.1,d.95.2.1 111713,111714 1xw3A 110 6.34e+01 5nul 138 6.38e+01 5nul 2fhi 147 6.45e+01 1fit 1ebfA 358 6.49e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 2g0wA 296 6.52e+01 c.1.15.4 134503 3erk 364 6.55e+01 1hcl 1yarA 233 6.73e+01 d.153.1.4 122837 1iybA 208 6.73e+01 d.124.1.1 90720 5csmA 256 6.75e+01 5csmA a.130.1.2 19494 1u96A 69 6.87e+01 a.17.1.2 113232 1iktA 120 6.88e+01 d.106.1.1 66188 1ehiA 377 6.93e+01 1iow c.30.1.2,d.142.1.1 31716,41484 2g7uA 257 7.01e+01 1mzbA 136 7.05e+01 a.4.5.42 91497 1pvgA 418 7.13e+01 d.14.1.3,d.122.1.2 95161,95162 1ijgA 309 7.19e+01 1fouA e.27.1.1 62493 2gqrA 237 7.23e+01 1e4fT 419 7.24e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1i27A 73 7.25e+01 1i27A a.4.5.30 61555 2b9wA 424 7.28e+01 1jksA 294 7.28e+01 d.144.1.7 71710 1sc6A 404 7.31e+01 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1ucdA 190 7.34e+01 d.124.1.1 107767 1hbkA 94 7.41e+01 1aca a.11.1.1 60887 1oivA 191 7.41e+01 c.37.1.8 93076 1nscA 390 7.42e+01 2qwc b.68.1.1 27591 1o26A 232 7.48e+01 d.207.1.1 86566 1nqkA 381 7.52e+01 c.1.16.4 92050 1rwiA 270 7.57e+01 b.68.9.1 97987 1ucaA 190 7.61e+01 d.124.1.1 88462 1su4A 994 7.62e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1wvqA 167 7.63e+01 1crzA 403 7.65e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1g0uG 252 7.69e+01 d.153.1.4 41952 2f9lA 199 7.74e+01 c.37.1.8 133166 1ogoX 574 7.77e+01 b.133.1.1,b.80.1.10 92925,92926 1z9vA 121 7.77e+01 1yb2A 275 7.78e+01 c.66.1.13 122868 1jvbA 347 7.80e+01 b.35.1.2,c.2.1.1 77181,77182 1pguA 615 7.81e+01 b.69.4.1,b.69.4.1 88069,88070 1vkkA 154 7.91e+01 d.109.1.2 108669 1e2kA 331 7.94e+01 1qhiA c.37.1.1 31854 1rxwA 336 7.98e+01 a.60.7.1,c.120.1.2 98059,98060 1f1xA 322 8.03e+01 d.32.1.3,d.32.1.3 83208,83209 2gk9A 426 8.06e+01 2bp1A 360 8.19e+01 1dqtA 117 8.25e+01 1ah1 b.1.1.1 20653 2fb0A 94 8.27e+01 1zatA 250 8.34e+01 b.160.1.1,d.335.1.1 124845,124846 1gxrA 337 8.37e+01 b.69.4.1 70722 1k0hA 117 8.39e+01 b.106.1.2 71975 1kinA 366 8.47e+01 1l1zA 274 8.48e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1x3mA 415 8.53e+01 c.55.1.2,c.55.1.2 121664,121665 1ykhB 132 8.71e+01 a.252.1.1 123519 1plq 258 8.76e+01 1plq 1ex1A 605 8.78e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1p0yA 444 8.84e+01 a.166.1.1,b.85.7.3 87654,87655 1xn5A 146 8.86e+01 d.129.3.5 115574 1y6zA 263 8.90e+01 1cyj 90 8.93e+01 1ctj 1a9xA 1058 8.95e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1qhiA 366 8.98e+01 1qhiA c.37.1.1 31860