# List of top-scoring protein chains for t2k-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.soe.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 2bngA 149 4.47e-17 2geyA 158 7.32e-15 1buqA 125 8.01e-14 1opy d.17.4.3 38111 1ocvA 125 1.60e-13 d.17.4.3 86810 1nwwA 149 2.19e-13 d.17.4.8 86306 1ohpA 125 2.38e-13 d.17.4.3 118702 1opy 131 2.31e-12 1opy 1ea2A 131 2.73e-12 d.17.4.3 64860 1oh0A 131 2.85e-12 d.17.4.3 87004 1dmmA 131 7.98e-12 1opy d.17.4.3 38114 1tuhA 156 9.95e-12 d.17.4.11 107345 2a15A 139 2.54e-08 d.17.4.3 125973 2gxfA 142 5.81e-08 3b7cA 122 1.76e-07 1sjwA 144 2.85e-07 d.17.4.9 98899 1s5aA 150 5.16e-07 d.17.4.10 98525 2imjA 166 1.95e-05 3cu3A 172 3.51e-05 2ux0A 143 2.93e-04 1hkxA 147 3.00e-04 d.17.4.7 83567 1m98A 317 1.44e-03 a.175.1.1,d.17.4.6 78866,78867 1tp6A 128 3.01e-03 d.17.4.12 107184 2r4iA 123 2.31e-02 3blzA 128 3.36e-02 3cnxA 170 5.52e-02 2owpA 129 8.15e-02 2rgqA 144 8.33e-02 2nlvA 112 8.43e-02 d.326.1.1 138362 2chcA 170 1.18e-01 1z4eA 153 1.44e-01 d.108.1.1 124431 1x2gA 337 1.82e-01 3bb9A 148 3.16e-01 2gojA 197 6.93e-01 2fxtA 192 8.01e-01 2rfrA 155 1.04e+00 2retB 175 1.51e+00 2cw8A 537 1.86e+00 1a9xA 1058 2.08e+00 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 1m1hA 248 2.26e+00 b.114.1.1,d.58.42.1 78415,78416 1vhtA 218 2.34e+00 c.37.1.1 100700 1c3oA 1073 2.34e+00 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 2ckwA 515 2.57e+00 1cs0A 1073 2.64e+00 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 1xu1A 138 4.09e+00 b.22.1.1 116033 1n3bA 216 4.23e+00 c.37.1.1 79959 1elwA 118 4.33e+00 1a17 a.118.8.1 19207 2awpA 198 4.50e+00 1no1A 126 4.53e+00 a.179.1.1 85913 2ywrA 216 4.73e+00 1zhhB 242 4.80e+00 2o3bB 136 5.13e+00 d.221.1.1 138902 3cloA 258 5.22e+00 1zo2A 129 5.46e+00 1wy7A 207 5.59e+00 c.66.1.32 121433 1ucdA 190 5.92e+00 d.124.1.1 107767 2hd9A 145 5.96e+00 1wmmA 145 6.61e+00 b.122.1.8 121049 1qo8A 566 6.75e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 2retA 103 6.97e+00 1a2vA 655 7.27e+00 1a2vA b.30.2.1,d.17.2.1,d.17.2.1 24416,38059,38060 2oqeA 660 7.44e+00 b.30.2.1,d.17.2.1,d.17.2.1 139222,139223,139224 1zd7A 159 8.60e+00 1jb2A 127 8.70e+00 d.17.4.2 71624 2eq6A 464 8.87e+00 2jaeA 489 9.14e+00 1on3A 523 9.65e+00 c.14.1.4,c.14.1.4 87107,87108 1iscA 192 9.75e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1vplA 256 1.01e+01 c.37.1.12 113966 2v9kA 530 1.02e+01 1v6fA 151 1.02e+01 d.109.1.2 108395 1w6nA 134 1.10e+01 b.29.1.3 114275 2h4aA 325 1.15e+01 3ckmA 327 1.17e+01 2awfA 172 1.21e+01 d.20.1.1 127432 2hjeA 221 1.21e+01 2ifsA 169 1.21e+01 2nybA 192 1.23e+01 a.2.11.1,d.44.1.1 138804,138805 1vjkA 98 1.25e+01 d.15.3.1 108631 1gy6A 127 1.27e+01 d.17.4.2 70736 1si6X 282 1.31e+01 d.151.1.2 118968 2r78A 117 1.34e+01 2imqX 282 1.36e+01 1ar0A 127 1.41e+01 1ounA d.17.4.2 38092 1utyA 187 1.46e+01 b.147.1.1 108036 2zaiA 497 1.47e+01 1x8gA 227 1.50e+01 d.157.1.1 114960 1ounA 127 1.51e+01 1ounA d.17.4.2 38090 2atvA 196 1.51e+01 c.37.1.8 127308 1x8hA 228 1.51e+01 d.157.1.1 114961 1ym5A 300 1.54e+01 1ygyA 529 1.55e+01 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2e57A 637 1.55e+01 2b9uA 176 1.61e+01 1vhsA 175 1.63e+01 d.108.1.1 100698 2h36X 112 1.63e+01 2q3xA 171 1.67e+01 1mkeA 152 1.68e+01 b.55.1.4 79231 1dcqA 278 1.69e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 2nwbA 400 1.71e+01 2ifuA 307 1.81e+01 1pz4A 116 1.85e+01 d.106.1.1 95400 3c5cA 187 1.88e+01 1lcyA 325 1.89e+01 b.36.1.4,b.47.1.1 73834,73835 1ixlA 131 1.90e+01 d.38.1.5 90717 1j57A 143 1.92e+01 d.221.1.1 77079 1zeeA 403 1.98e+01 a.266.1.2 124981 2r55A 231 2.00e+01 1jj2L 194 2.02e+01 1ffkI d.12.1.2 63097 1htwA 158 2.05e+01 c.37.1.18 71083 1x3sA 195 2.15e+01 c.37.1.8 121670 1avmA 201 2.16e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1bsmA 201 2.17e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 2z10A 194 2.18e+01 1r71A 178 2.23e+01 a.4.14.1 104823 1knyA 253 2.31e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 3cg5A 265 2.34e+01 1x3zA 335 2.34e+01 d.3.1.4 121673 1gk8I 140 2.36e+01 d.73.1.1 65242 2gdnA 267 2.41e+01 4kbpA 432 2.47e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1vbkA 307 2.52e+01 c.26.2.6,d.308.1.1 119957,119958 1askA 127 2.59e+01 1ounA d.17.4.2 38094 2ek8A 421 2.60e+01 1e85A 127 2.63e+01 1bbhA a.24.3.2 16549 2nwvA 114 2.69e+01 d.326.1.1 138720 1q60A 99 2.71e+01 d.288.1.1 111654 1v7rA 186 2.72e+01 c.51.4.1 100482 1t7vA 278 2.75e+01 b.1.1.2,d.19.1.1 112302,112303 1ebdA 455 2.78e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1z08A 170 2.82e+01 c.37.1.8 124303 2cb4A 291 2.89e+01 1unfX 238 2.93e+01 a.2.11.1,d.44.1.1 113314,113315 1r2qA 170 2.98e+01 c.37.1.8 96874 1hg5A 289 2.98e+01 1hg5A a.7.8.2,a.118.9.3 90360,90361 2fp3A 316 3.00e+01 2jbwA 386 3.00e+01 1uzxA 169 3.02e+01 d.20.1.2 100238 2f86B 143 3.04e+01 1bo1A 416 3.07e+01 1bo1A d.143.1.2 41591 1uj8A 77 3.12e+01 a.159.5.1 119683 2jwyA 168 3.14e+01 2vptA 215 3.28e+01 1gzwA 134 3.30e+01 b.29.1.3 90535 1qynA 153 3.32e+01 d.33.1.1 96597 2o28A 184 3.38e+01 1k8kG 151 3.46e+01 a.118.13.1 68313 1rypC 244 3.47e+01 1rypC d.153.1.4 41934 2gj3A 120 3.50e+01 1ir21 140 3.51e+01 3bs4A 260 3.52e+01 1wmhB 86 3.56e+01 d.15.2.2 114745 2a13A 166 3.58e+01 b.60.1.8 125971 2q4nA 166 3.58e+01 b.60.1.8 139871 1e6cA 173 3.59e+01 1shkA c.37.1.2 59296 2b0rA 202 3.60e+01 2uy1A 493 3.66e+01 1wt7A 41 3.71e+01 g.3.7.2 114873 1kbpA 432 3.76e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 2novA 496 3.79e+01 1zkoA 136 3.84e+01 2pd8A 149 3.85e+01 1shkA 173 3.91e+01 1shkA c.37.1.2 31932 1ln1A 214 4.00e+01 d.129.3.2 74038 1d7yA 408 4.08e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1h70A 255 4.13e+01 1h70A d.126.1.3 60711 1q7lA 198 4.17e+01 c.56.5.4 96044 1vqoM 195 4.17e+01 d.12.1.2 120374 1jb0D 138 4.23e+01 1jb0D d.187.1.1 62823 2h0uA 217 4.24e+01 2ghsA 326 4.25e+01 b.68.6.1 135209 1jtdB 273 4.29e+01 b.69.5.2 67265 2i9sA 97 4.31e+01 2ffjA 300 4.33e+01 e.50.1.1 133387 1byuA 216 4.43e+01 1byuA c.37.1.8 32032 2a2jA 246 4.47e+01 b.45.1.1 126033 3b2nA 133 4.52e+01 1zd9A 188 4.57e+01 c.37.1.8 124938 4xiaA 393 4.63e+01 4xis c.1.15.3 29439 1h6qA 168 4.66e+01 1h6qA b.88.1.2 60692 2nv4A 147 4.66e+01 2e55A 208 4.72e+01 1wurA 220 4.77e+01 d.96.1.1 121309 1z90A 469 4.77e+01 b.81.1.4,c.68.1.5 124732,124733 1m26A 133 4.77e+01 1j3aA 142 4.88e+01 c.21.1.1 77070 2yweA 600 4.91e+01 1ugxA 133 4.97e+01 1mwsA 646 5.05e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 2ew1A 201 5.06e+01 c.37.1.8 132446 2qwc 388 5.08e+01 2qwc 2culA 232 5.09e+01 c.3.1.7 130813 1f8eA 388 5.09e+01 2qwc b.68.1.1 59694 1ifrA 121 5.11e+01 b.1.16.1 71203 1qtnA 164 5.15e+01 1pauA c.17.1.1 30999 2dwwA 114 5.23e+01 1whzA 70 5.24e+01 d.50.3.2 114656 1ysrA 150 5.25e+01 d.122.1.3 123981 2pdrA 149 5.38e+01 2c2hA 192 5.40e+01 c.37.1.8 129668 1bkjA 240 5.46e+01 1bkjA d.90.1.1 40243 2icyA 469 5.47e+01 b.81.1.4,c.68.1.5 137257,137258 2iacA 142 5.49e+01 3bedA 142 5.49e+01 1tfuA 157 5.54e+01 c.26.1.3 106859 2madH 373 5.61e+01 2bbkH b.69.2.1 27639 2ywwA 149 5.63e+01 2ri7A 174 5.66e+01 2r85A 334 5.68e+01 1xrtA 467 5.77e+01 b.92.1.3,c.1.9.6 122258,122259 2fsaA 174 5.78e+01 2qnlA 162 5.85e+01 1qnxA 209 5.86e+01 1qnxA d.111.1.1 40914 1iqzA 81 5.88e+01 d.58.1.4 66281 1jotA 133 5.96e+01 1jotA 1dwkA 156 5.98e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1hf8A 289 6.04e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1u5xA 140 6.12e+01 b.22.1.1 113055 1vqqA 646 6.16e+01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1lgyA 269 6.17e+01 3tgl c.69.1.17 34758 1idsA 207 6.25e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1m2oA 768 6.30e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1jxhA 288 6.30e+01 c.72.1.2 67415 1pguA 615 6.32e+01 b.69.4.1,b.69.4.1 88069,88070 2fgsA 179 6.34e+01 2qecA 204 6.37e+01 2bi0A 337 6.46e+01 d.38.1.4,d.38.1.4 128565,128566 2bmeA 186 6.47e+01 c.37.1.8 128790 2qruA 274 6.52e+01 1chuA 540 6.58e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1n8mA 38 6.67e+01 g.3.7.2 91705 2e58A 308 6.71e+01 1fl9A 161 6.86e+01 c.37.1.18 70137 1a1aA 107 6.89e+01 1fmk d.93.1.1 40449 2avkA 136 6.89e+01 1qf5A 431 6.96e+01 1adeA c.37.1.10 32212 2p58C 116 7.01e+01 2nvmA 126 7.07e+01 d.326.1.1 138631 1a0gA 282 7.09e+01 1daaA e.17.1.1 43276 1sjyA 159 7.10e+01 d.113.1.1 98900 1nnsA 326 7.21e+01 c.88.1.1 85910 2gqwA 408 7.23e+01 1huqA 164 7.30e+01 1byuA c.37.1.8 32020 1a6sA 87 7.41e+01 a.61.1.4 18134 1w0uA 55 7.47e+01 a.4.1.4 114072 1a3gA 308 7.49e+01 1daaA e.17.1.1 43286 2qdsA 227 7.55e+01 1jqgA 433 7.62e+01 c.56.5.1,d.58.3.1 71791,71792 1n9lA 109 7.62e+01 d.110.3.6 85468 2gtiA 370 7.62e+01 c.66.1.48,d.294.1.2 135652,135653 2c1cA 312 7.63e+01 c.56.5.1 129630 2z16A 165 7.70e+01 1kr4A 125 7.71e+01 d.58.5.2 72889 1gy7A 125 7.77e+01 d.17.4.2 70738 2vi7A 177 7.85e+01 2gu3A 136 7.93e+01